diff --git a/Using-git-and-github/README.md b/Using-git-and-github/README.md index d1da7f0..2980b02 100644 --- a/Using-git-and-github/README.md +++ b/Using-git-and-github/README.md @@ -3,3 +3,9 @@ [Link to wiki](https://github.com/gladstone-institutes/Bioinformatics-Workshops/wiki/Using-Git-and-GitHub) ### Description of files + +* [basics.md](https://github.com/gladstone-institutes/Bioinformatics-Workshops/blob/master/Using-git-and-github/basics.md) +Introduction to what git is and to the commands you'll use most often. + +* [workflows.md](https://github.com/gladstone-institutes/Bioinformatics-Workshops/blob/master/Using-git-and-github/workflows.md) +Higher-level tips and strategies for more effective usage of git. diff --git a/Using-git-and-github/basics.md b/Using-git-and-github/basics.md new file mode 100644 index 0000000..02ce7c5 --- /dev/null +++ b/Using-git-and-github/basics.md @@ -0,0 +1,99 @@ +# git basics ([cheatsheet](https://services.github.com/on-demand/downloads/github-git-cheat-sheet.pdf), [docs](https://git-scm.com/docs)) +Git is a technology that allows you to efficiently save and manage multiple versions of the code for a project. The collection of different versions is called a repository, and multiple users can each have their own repository for the same project. Each repository can serve as a source from which other repositories can pull and a destination to which other repositories can push -- it's distributed. Many sites host git repositories and add a web-based interface, such as GitHub, Bitbucket and GitLab. This primer is focused on using git from the command line, but some people use a GUI, such as [GH Desktop](https://desktop.github.com/) or [EGit](http://www.eclipse.org/egit/). + +## Get Started (First Time)1 + +```bash +git config --global user.name "Jay Doe" +git config --global user.email jdoe@example.org +``` + +## Clone a Repo (GitHub) +Sign into your GitHub account and visit the desired repository, e.g., [git-primer](https://github.com/gladstone-institutes/git-primer). Click the "Fork" button in the upper right, and when your fork is created, click the green "Clone or download" button to copy the URL, e.g., `https://github.com/gladstone-institutes/git-primer.git`, to your clipboard. Then open your terminal to create a local version of the repository from the command line (your copied URL should have your GitHub username instead of `gladstone-institutes`): + +```bash +git clone https://github.com/gladstone-institutes/git-primer.git +cd git-primer +``` + +## Work with Git + +Check status. +```bash +git status +``` + +Create a new branch named `my-feature` and push it to GitHub. It's a good idea to keep your active development in a separate branch from master so that master is always in the last known good state. For more information, see [our git workflows document](https://github.com/gladstone-institutes/git-primer/blob/master/workflows.md). +```bash +git checkout -b my-feature +git push origin my-feature +``` + +Make some changes. +```bash +mkdir my-dir +touch my-dir/my-file.txt +``` + +Commit your work (do this often). +```bash +git add ./my-dir/my-file.txt +git commit ./my-dir/my-file.txt -m "create my file" +``` + +Sync with GitHub (remote). +```bash +git pull origin my-feature +``` + +If someone else was working on the branch, you may need to merge their work with yours. Git gives you [many different options](https://git-scm.com/docs/merge-strategies) for doing this, but most often, you can just use this procedure: + +```bash +git mergetool +``` + +Select your preferred tool and complete the merge. If you select Opendiff, just use the GUI and save your merge. If you select Vim, follow these instructions: + +>``` +> ---------------------------------------- +> | | | | +> | LOCAL | BASE | REMOTE | +> | | | | +> ---------------------------------------- +> | | +> | MERGED | +> | | +> ---------------------------------------- +>``` +> +> Use `]c` to jump to the next difference. Then get version from one of the three options above: +> * `:diffget LO` +> * `:diffget BA` +> * `:diffget RE` +> +> When complete, save and exit with `:wqa`. + +Commit your merge (if you needed to merge) and push to GitHub: + +```bash +git push origin my-feature +``` + +When your changes are production ready, merge your work into your local master branch. +```bash +git checkout master +git diff my-feature # optional +git merge my-feature +``` + +Push to GitHub (remote). +```bash +git pull origin master +git push origin master +``` + +Delete feature branch both locally and at GitHub. +```bash +git branch -d my-feature +git push origin -d my-feature +``` diff --git a/Using-git-and-github/workflows.md b/Using-git-and-github/workflows.md new file mode 100644 index 0000000..a54345d --- /dev/null +++ b/Using-git-and-github/workflows.md @@ -0,0 +1,32 @@ +# git workflows +Higher-level tips and strategies for more effective usage of git. + +## Workflow Models +The appropriate workflow model depends on the size of your team and the type of your project. You have many options, e.g., [Atlassian](https://www.atlassian.com/blog/archives/simple-git-workflow-simple), [Driessen](http://nvie.com/posts/a-successful-git-branching-model/), [GitHub](https://guides.github.com/introduction/flow/) and [GitLab](https://docs.gitlab.com/ee/workflow/gitlab_flow.html), but they tend to be designed for projects like websites that are continuously running and supported by large teams, making them more complex than is needed for a one-off bioinformatics project created by a single individual or a small team. For these types of projects, the GitLab workflow is a good starting point, but you should feel free to customize it to suit your specific needs. + +`tldr` +* Use feature branches, e.g., `add-cleaning-step` for changes +* When code in feature branch is solid, merge it into `master` branch +* Always keep your `master` branch in "last known good" state (working, production-ready, deployable) + +## What to Commit +Don't commit everything: be deliberate. Never commit files with passwords or API keys. Avoid committing build artifacts, temporary and meta files like `*.swp`, `*.DS_Store`, `*.jar` and `*.pyc` files. Be judicious when deciding whether to commit source data. If you can reference the source and have your scripts download the data if it's not already present, you can reduce the size of your git repo. + +To tell git to ignore certain types of files, you can add a `.gitignore_global` file to your home directory and a `.gitignore` file to your project directory. Reference [these templates](https://github.com/github/gitignore) for examples. + +`tldr` +Be sure your home directory has a `.gitignore_global` file like one of these: [Linux](https://github.com/github/gitignore/blob/master/Global/Linux.gitignore), [macOS](https://github.com/github/gitignore/blob/master/Global/macOS.gitignore) or [Windows](https://github.com/github/gitignore/blob/master/Global/Windows.gitignore) + +## [Tags](https://git-scm.com/book/en/v2/Git-Basics-Tagging) +Whenever you deploy code or run a publishable job, tag your code using [semantic versioning](http://semver.org/). + +## [Rebase](https://git-scm.com/book/en/v2/Git-Branching-Rebasing) + +To update a feature branch so the changes it contains are applied on top of the latest from `origin/master`: + +``` +git fetch +git checkout my-new-feat +git rebase origin/master +``` +See [this post](https://blog.algolia.com/master-git-rebase/). diff --git a/hypothesis-testing/HypothesisTesting.pptx b/hypothesis-testing/HypothesisTesting.pptx new file mode 100644 index 0000000..5a87403 Binary files /dev/null and b/hypothesis-testing/HypothesisTesting.pptx differ diff --git a/hypothesis-testing/HypothesisTesting_GladstoneBIonformaticsCore_September2019.Rmd b/hypothesis-testing/HypothesisTesting_GladstoneBIonformaticsCore_September2019.Rmd new file mode 100644 index 0000000..c6ab378 --- /dev/null +++ b/hypothesis-testing/HypothesisTesting_GladstoneBIonformaticsCore_September2019.Rmd @@ -0,0 +1,354 @@ +--- +title: "Hypothesis Testing" +author: "Reuben Thomas" +date: "9/25/2019" +output: html_document +--- + +```{r setup, include=FALSE} +knitr::opts_chunk$set(echo = TRUE) +``` +##Load the data +An experiment was conducted to measure and compare the effectiveness of various feed supplements on the growth rate of chicken +```{r chickwts} +##read help page +?chickwts +##load the data.frame +chickwts <- data.frame(chickwts) +##Numerical summary of the chickwts data +summary(chickwts) + + +``` + +Let us look at the data a bit more closely +```{r} +##look at the first few rows +head(chickwts) + +##let us look at the kind of variables in the chickwts data.frame - a numerical variable, weight and a factor variable, feed with 6 levels +str(chickwts) + +``` + +After looking numerically at the data, let us look at it visually. We will plot the relationship between the weight of the chickens and the diet/feed they were on + +##Visualize the data +```{r} +## load the library to be used for plotting +suppressMessages(library(ggplot2)) +ggplot(chickwts, aes(x=feed, y=weight)) + geom_boxplot() +``` + +##One-sided, one sample t-test +Let us now say that we are interested in the linseed feed. And we are interested in a feed that keeps the mean chick weight below 200 units. Does the linseed feed do this? + +We would like to make any resulting claims generalizable to the entire chick population. This despite, we have only chosen (randomly and independently) 12 chicks to be fed with linseed. *All statistical tests* have underlying them something called a _Test statistic_, a number that typically capture what we are interested in testing. In our case, we are interested in the mean chick weight fed with linseed. We will end up the mean weight scale by the observed standard deviation of weights. _All Test statistics_ have something called a _sampling distribution_ - the reflects the distribution of the observed statistic over repeated experiments like we just performed. We have just performed one experiment now, sampled 12 chicks and fed them with linseed. The exact mathematical distribution is defined under certain assumptions - this _assumptions_ are important. For our question, a _t-statistic_ has been shown to be a good choice. The sampling distribution of the _t-statistic_ is called a _t distribution_. + +Our _null (uninteresting, skeptical) hypothesis_ is that the mean chick weight after being fed with linseed is less than 200 units. The _alternative_ (when the mean weight is greater than 200) is interesting for us. + +Therfore, we will use a one-sample, one-sided t-test to answer this question. +```{r} +##load the library to filter the data +suppressMessages(library(dplyr)) +##First we need to get the weights of the chicks fed linseed +LinSeedWeights <- filter(chickwts, feed =="linseed")$weight + +##let us again visualize this +boxplot(LinSeedWeights) +``` + +Now, we will run the one-sample, one-sided t-test. Note we are using the typically used two-sided test. +```{r} +t.test(LinSeedWeights, mu=200, alternative = "greater") +``` +Based on the p-value and a typical statistical threshold of 0.05, we are unable to reject the hypothesis linseed keeps the mean chick weights below 200 units + + +##Two-sided, two sample t-test +Now, let us move on and say we are interested in testing the differences between linseed and soybean on chick weight. As before, we will create a subset of the original data with the feeds of interest. + +```{r} +SubChickWts <- filter(chickwts, feed=="linseed" | feed=="soybean") + +##let us check the variables in SubChickWts +str(SubChickWts) + +##notice feed still appears to have 6 levels +##drop unused factor levels of feed +SubChickWts$feed <- droplevels(SubChickWts$feed) + +##now check again +str(SubChickWts) + +##let us plot this again +ggplot(SubChickWts, aes(x=feed, y=weight)) + geom_boxplot() +``` + +The distribution of chick weights fed soybean appears to have slightly higher than those fed with linseed. We will compute the mean weights of the checks fed with each kind of feed. +```{r} +##mean of wight with linseed feed +print(mean(SubChickWts$weight[SubChickWts$feed == "linseed"])) +##mean of wight with soybean feed +print(mean(SubChickWts$weight[SubChickWts$feed == "soybean"])) +``` + +Can we more formally test this? + +Specifically, can we test how likely it is to observe the given difference in the mean weights of chicks fed the two diets when in fact they do not differ. Given the observed the variance of weights across the chicks on a given feed, may be it is quite likely that we would observe this big of a difference if we were to repeat this experiment over and over again. The two-sample t-test gives us a formal way to test for this difference. The _Test statistic_ is again the _t-statistic_ and the sampling distribution is the _t distribution_ under certain assumptions (see below). + + +```{r} +t.test(weight ~ feed, data=SubChickWts, var.equal=TRUE) +``` +The above estimated p-value suggests that we cannot the reject the hypothesis that the mean weights of the two feeds are the same. + +All statistical hypothesis tests come with a bunch lot of assumptions. The version of the t-test we used above assumed that the variances of the chick weights is the same for the two feeds. The t-test has a different version if the variances of the weights are unlikely to be equal called the Welch t-test. + +We will test equality of variances using the Brown-Forsythe test for equality of variances. +```{r} +##First we need to load the required library with this test +suppressMessages(library(onewaytests)) +bf.test(weight ~ feed, SubChickWts) +``` + +You will see that the p-value from this test is not significant, so we can assume variances are equal. Otherwise we would need to run, + +```{r} +t.test(weight ~ feed, data=SubChickWts, var.equal=F) +``` +The t-test also requires the assumption of normality. This is not essential. It has been shown to be quite robust to deviations from normality. In any case, we will test for normality using the Shapiro-Wilk test. +```{r} +shapiro.test(SubChickWts$weight[SubChickWts$feed == "linseed"]) +shapiro.test(SubChickWts$weight[SubChickWts$feed == "soybean"]) +``` +In both the cases, we are unable to reject the hypothesis that the data is normal. + +If however, we ended up rejecting the normality assumption, it may be better to use a non-paramteric test that does not require the normality assumption + +```{r} +##Wilcox test is a non-parametric test that can be used as an alternative to the t-test. Wilcox test does not need the assumption of normality +wilcox.test(weight ~ feed, data=SubChickWts) +``` + + +##Statistical power estimates or Sample Size calculations +We were unable to reject the hypothesis that linseed and soybean feed kept the mean weights of the chicks the same. Let us visualize these data again, +```{r} +ggplot(SubChickWts, aes(x=feed, y=weight)) + geom_boxplot() +``` +It however appears that the soybean feed does increase the mean weight over the linseed feed. +If the increase is true then we need more samples to conclude that the soybean feed does increase the mean chick weight in a statistically significant manner. + + +How many more samples would we need? + +To do that we can perform something called a statistical power analyses. We will use a library in R called _pwr_ that will help us with these analyses. Before doing any power analyses, you need to know a bunch of things. + +1. The sampling distribution of the test statistic (t-statistic) + +2. The effect size that you want to have the statistical power to estimate + +3. At what Type I error will you be making claims of statistical significance. This is a number between 0 and 1 (typically 0.05) and represents the fraction of times (when you repeat the same experiment over and over again) when you will claim significance when in fact your null hypothesis is true (there is no differernce in the mean weights). + +4. What is the desired statistical power? This is a number between 0 and 1 and represents the fraction of times (when you repeat the same experiment over and over) you want to claim significance at the chosen Type I error. + +```{r} +suppressMessages(library(pwr)) +##Let us first compute the increase in mean chick weight from linseed to soybean feed +(mean(SubChickWts$weight[SubChickWts$feed == "soybean"])) - (mean(SubChickWts$weight[SubChickWts$feed == "linseed"])) +##We will now define the effect size,d as the above difference scaled by the standard deviation of the chick weights +d <- ((mean(SubChickWts$weight[SubChickWts$feed == "soybean"])) - (mean(SubChickWts$weight[SubChickWts$feed == "linseed"])))/sd(SubChickWts$weight) +##load the library +##Our test statistic is the t-statistic and the relevant function is pwr.t.test +pwr.t.test(d=d, power = 0.8, sig.level = 0.05) +``` +The results says we need to have at least 60 chicks in each feed group to have a 80% chance to making a claim of differences in mean chick weights from linseed to soybean with a significance of 0.05 + + +##One-way ANOVA +We will now go back to looking at the distribution of the weights of chicks fed all the diet and not just the above two one. Our null hypothesis is that the mean chick weights is same for all the 6 feeds. Let us visualize the data again, + +```{r} +ggplot(chickwts, aes(x=feed, y=weight)) + geom_boxplot() +``` + +The appropriate test statistic to use here is called the F-statistic, its sampling distribution is called the F-distribution. While the t-distribution captures the sampling distribution of the scaled sample mean or scaled difference of sample means, the F-distribution captures the proportion of variance between all observations within a feed group due to variance in the mean chick weights between feed groups, i.e., + +$$F = \frac{between\ feed\ group\ weight\ variance}{within\ feed\ group\ weight\ variance}$$ +So, intuitively when the mean chick weights are not different between the different feed groups, the variance between these mean weights should be similar to variances of weights within a feed group. That is, under the null hypothesis F will hover around 1. Note, when we say, "within a feed group", we don't specify which particular feed group. This should suggest to you the requirement of the assumption that within feed groups variances are same across all groups. + +We will now run the ANOVA analyses as follows: +```{r} +AmodelFit <- aov(weight ~ feed, data=chickwts) +summary(AmodelFit) +``` + +The significance above suggests that there are feeds resulting in differing mean chick weights. +We don't get information on which pairs are really different from each other. To get this information, we will perform multiple pairwise tests using Tukey's posthoc tests. + +###Multiple testing +```{r} +TukeyHSD(AmodelFit,ordered = TRUE) +##we can visualize the confidence intervals of the differences in mean chick weights +plot(TukeyHSD(AmodelFit,ordered = TRUE)) +``` + + Not the adjusted p-value for the soybean-linseed comparison is different (0.793 vs 0.199) from what we obtained using the two-sample, two-sided t-test. The resulting confidence interval of this difference is also wider. + + +```{r} +t.test(weight ~ feed, data=SubChickWts, var.equal=TRUE) +``` +Why did we have to correct for multiple testing, the fact we are interested in 15 comparisons? One way to try and justify it for yourself is to run through the following thought experiment. + +1. Suppose we set the significance threshold, Type I error at 0.05 as before. + +2. We will assume that of the 15 comparisons there are 8 comparisons that indicate actual difference in mean weights. + +3. We will also assume that the statistical power to detect true differences is 0.8. + +4. Then of the 8 true differences in feeds, we would expect to detect $8\times0.8\approx6$ of these findings. + +5. Of the 15 comparisons we would expect to see $15\times0.05\approx 1$ false-positive. + +6. Therefore the expected false discovery rate is $\frac{1}{1+6}=\frac{1}{7}=14\%$, higher than what we would have typically expected. + +7. This situation is further exacerbated if the number of true differences in the 15 comparisons is smaller. For example, if the number of true differences is 4. Then the expected number of these detected would be $4\times0.8\approx3$. The false discovery rate would then be $\frac{1}{1+3}=\frac{1}{4}=25\%$. Again, something which is generally considered unacceptable. + +8. Intuitively in this situation, one way to reduce the false discovery rate is to reduce Type I error, make it smaller than 0.05. This is what some of mulitple testing methods are implicitly doing. + +The ANOVA tests have two important assumptions that we will need to check. +1. Normality of the responses +2. Equality of variances of chick weights in each of the feed groups. + +We will now check these assumptions + +```{r} +##NORMALITY +shapiro.test(chickwts$weight[chickwts$feed == "casein"]) +shapiro.test(chickwts$weight[chickwts$feed == "horsebean"]) +shapiro.test(chickwts$weight[chickwts$feed == "linseed"]) +shapiro.test(chickwts$weight[chickwts$feed == "meatmeal"]) +shapiro.test(chickwts$weight[chickwts$feed == "soybean"]) +shapiro.test(chickwts$weight[chickwts$feed == "sunflower"]) +``` + +The normality assumptions does not seem to be violated. Now, we will test for equality of variances, +```{r} +##EQUALITY OF VARIANCES +bf.test(weight ~ feed, chickwts) +``` +The variances are significantly different from zero. So one of the assumptions of one-way ANOVA is violated. So we need to do something different. Some of you may think we would need to take recourse to a non-parametric test. The Kruskall-Wallis test is the non-parametric version of one-way ANOVA. + +```{r} +kruskal.test(weight ~ feed, chickwts) +``` + + +Unfortunately, we cannot use this test because it requires the assumption that the variances of chick weights to be same for the different feeds - this assumption is violated. So the next alternative would be to perform a bunch of pair-wise Welch t-tests + +```{r} +##We will also store the resulting p-values from the resulting pair-wise tests. Just for this workshop we compare the mean chick weights of all other feeds to the casein feed estimate +pValueFeedComparisons <- vector(mode = "numeric") +pValueFeedComparisons[1] <- t.test(chickwts$weight[chickwts$feed=="casein"], chickwts$weight[chickwts$feed=="horsebean"])$p.value +pValueFeedComparisons[2] <- t.test(chickwts$weight[chickwts$feed=="casein"], chickwts$weight[chickwts$feed=="linseed"])$p.value +pValueFeedComparisons[3] <- t.test(chickwts$weight[chickwts$feed=="casein"], chickwts$weight[chickwts$feed=="meatmeal"])$p.value +pValueFeedComparisons[4] <- t.test(chickwts$weight[chickwts$feed=="casein"], chickwts$weight[chickwts$feed=="soybean"])$p.value +pValueFeedComparisons[5] <- t.test(chickwts$weight[chickwts$feed=="casein"], chickwts$weight[chickwts$feed=="sunflower"])$p.value +names(pValueFeedComparisons) <- c("horsebean", "linseed", "meatmeal", "soybean", "sunflower") + +print(pValueFeedComparisons) +``` + + +We have performed several tests and would need correct for multiple tests. We have seen that the Tukey post hoc tests provide one way for correcting for multiple testing. There are multiple ways for correcting for multiple testing. Each has a set of assumptions and also a particular criteria it is controlling for. Here we will use two ways of correcting for multiple testing: the _Holm-Sidak_ method and the _Benjamini-Hochberg_ method. The _Holm-Sidak_ method controls for something called a family-wise error rate (similar to what the _Tukey_ method was controlling for) , or the probability on repeating these experiments over and over that you will observe at least one false positive. The _BH_ or _Benjamini-Hochberg_ method controls for False-Discovery Rate, or the expected (over repeated experiments) fraction of false positives among the rejected hypothesis. The _Holm-Sidak_ method is more conservative while the _BH_ method has more tolerance for false-positives + +```{r} +##load the require library +suppressMessages(library(multtest)) +MCor <- mt.rawp2adjp(pValueFeedComparisons, proc = c("SidakSD", "BH")) +MCorResults <- cbind(pValueFeedComparisons[MCor$index], MCor$adjp) +head(MCorResults) +``` +You will the results in the SidakSD and BH columns as adjusted p-values + +##Linear modeling +Linear modeling provides a really flexible approach to statistical hypothesis testing. Simple Linear Regression is a special case of linear models. In fact, the above one-way ANOVA tests could as well be performed using linear models. Let us start with an example for Simple Linear Regression. + +```{r} +?cars +summary(cars) +ggplot(cars, aes(x=speed, y=dist)) + geom_point() + geom_smooth(method = "lm", se=F) +``` +Now, we will estimate the slope and intercept of the best fit line to these data. + +```{r} +lmFit <- lm(dist ~ speed, cars) +summary(lmFit) +``` + +There are always assumptions to check for. We will visually attempt to test the assumptions of the linear regression fit. The assumptions tested visually (in order) are: + +1. Suitability of a linear (as opposed to some non-linear) model for these data. + +2. Normality of residuals (differences between observations and their predictions using the linear model). + +3. Homogenity of variances across the fitted/predicted values of distance + +4. Influence of outliers on slope estimates + +```{r} +plot(lmFit) +``` + + +###One-way ANOVA +We will now perform a linear model version of the one-way ANOVA test we ran above, + +```{r} +ggplot(chickwts, aes(x=feed, y=weight)) + geom_boxplot() +lmFit <- lm(weight ~ feed, chickwts) +summary(lmFit) +``` + + +###Two-way ANOVA +We will use linear models to test hypothesis in a situation where we are assessing the association of a continuous response variable with two categorical/factor variables. + +```{r} +?ToothGrowth +##numerically summarize look at the Toothgrowth data set +summary(ToothGrowth) +str(ToothGrowth) +##we change dose to a factor variable +ToothGrowth$dose <- as.factor(ToothGrowth$dose) +str(ToothGrowth) +``` + + +Let us visualize the data now, + +```{r} + +ggplot(ToothGrowth, aes(x=dose, y=len, color=supp)) + geom_boxplot() +``` + +We will formulate a linear model to estimate the effects of _dose_ and _supp_. + +```{r} +lmFit <- lm(len ~ dose + supp + dose:supp, ToothGrowth) +summary(lmFit) + +``` +We will go over the interpretation of the estimates from this linear model fit. Note, we have estimated both the main effects and also interaction effects. + + +##Clustered data +###Paired t-test + +##2x2 tables + + + + diff --git a/hypothesis-testing/HypothesisTesting_GladstoneBIonformaticsCore_September2019.html b/hypothesis-testing/HypothesisTesting_GladstoneBIonformaticsCore_September2019.html new file mode 100644 index 0000000..639cbb8 --- /dev/null +++ b/hypothesis-testing/HypothesisTesting_GladstoneBIonformaticsCore_September2019.html @@ -0,0 +1,734 @@ + + + + + + + + + + + + + + +Hypothesis Testing + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + + + + + + +
+

Load the data

+

An experiment was conducted to measure and compare the effectiveness of various feed supplements on the growth rate of chicken

+
##read help page
+?chickwts
+##load the data.frame
+chickwts <- data.frame(chickwts)
+##Numerical summary of the chickwts data
+summary(chickwts)
+
##      weight             feed   
+##  Min.   :108.0   casein   :12  
+##  1st Qu.:204.5   horsebean:10  
+##  Median :258.0   linseed  :12  
+##  Mean   :261.3   meatmeal :11  
+##  3rd Qu.:323.5   soybean  :14  
+##  Max.   :423.0   sunflower:12
+

Let us look at the data a bit more closely

+
##look at the first few rows
+head(chickwts)
+
##   weight      feed
+## 1    179 horsebean
+## 2    160 horsebean
+## 3    136 horsebean
+## 4    227 horsebean
+## 5    217 horsebean
+## 6    168 horsebean
+
##let us look at the kind of variables in the chickwts data.frame - a numerical variable, weight and a factor variable, feed with 6 levels
+str(chickwts)
+
## 'data.frame':    71 obs. of  2 variables:
+##  $ weight: num  179 160 136 227 217 168 108 124 143 140 ...
+##  $ feed  : Factor w/ 6 levels "casein","horsebean",..: 2 2 2 2 2 2 2 2 2 2 ...
+

After looking numerically at the data, let us look at it visually. We will plot the relationship between the weight of the chickens and the diet/feed they were on

+
+
+

Visualize the data

+
## load the library to be used for plotting
+suppressMessages(library(ggplot2))
+
## Warning: package 'ggplot2' was built under R version 3.5.2
+
ggplot(chickwts, aes(x=feed, y=weight)) + geom_boxplot()
+

+
+
+

One-sided, one sample t-test

+

Let us now say that we are interested in the linseed feed. And we are interested in a feed that keeps the mean chick weight below 200 units. Does the linseed feed do this?

+

We would like to make any resulting claims generalizable to the entire chick population. This despite, we have only chosen (randomly and independently) 12 chicks to be fed with linseed. All statistical tests have underlying them something called a Test statistic, a number that typically capture what we are interested in testing. In our case, we are interested in the mean chick weight fed with linseed. We will end up the mean weight scale by the observed standard deviation of weights. All Test statistics have something called a sampling distribution - the reflects the distribution of the observed statistic over repeated experiments like we just performed. We have just performed one experiment now, sampled 12 chicks and fed them with linseed. The exact mathematical distribution is defined under certain assumptions - this assumptions are important. For our question, a t-statistic has been shown to be a good choice. The sampling distribution of the t-statistic is called a t distribution.

+

Our null (uninteresting, skeptical) hypothesis is that the mean chick weight after being fed with linseed is less than 200 units. The alternative (when the mean weight is greater than 200) is interesting for us.

+

Therfore, we will use a one-sample, one-sided t-test to answer this question.

+
##load the library to filter the data
+suppressMessages(library(dplyr))
+
## Warning: package 'dplyr' was built under R version 3.5.2
+
##First we need to get the weights of the chicks fed linseed
+LinSeedWeights <- filter(chickwts, feed =="linseed")$weight
+
+##let us again visualize this
+boxplot(LinSeedWeights)
+

+

Now, we will run the one-sample, one-sided t-test. Note we are using the typically used two-sided test.

+
t.test(LinSeedWeights, mu=200, alternative = "greater")
+
## 
+##  One Sample t-test
+## 
+## data:  LinSeedWeights
+## t = 1.2434, df = 11, p-value = 0.1198
+## alternative hypothesis: true mean is greater than 200
+## 95 percent confidence interval:
+##  191.6696      Inf
+## sample estimates:
+## mean of x 
+##    218.75
+

Based on the p-value and a typical statistical threshold of 0.05, we are unable to reject the hypothesis linseed keeps the mean chick weights below 200 units

+
+
+

Two-sided, two sample t-test

+

Now, let us move on and say we are interested in testing the differences between linseed and soybean on chick weight. As before, we will create a subset of the original data with the feeds of interest.

+
SubChickWts <- filter(chickwts, feed=="linseed" | feed=="soybean")
+
+##let us check the variables in SubChickWts
+str(SubChickWts)
+
## 'data.frame':    26 obs. of  2 variables:
+##  $ weight: num  309 229 181 141 260 203 148 169 213 257 ...
+##  $ feed  : Factor w/ 6 levels "casein","horsebean",..: 3 3 3 3 3 3 3 3 3 3 ...
+
##notice feed still appears to have 6 levels
+##drop unused factor levels of feed
+SubChickWts$feed <- droplevels(SubChickWts$feed)
+
+##now check again
+str(SubChickWts)
+
## 'data.frame':    26 obs. of  2 variables:
+##  $ weight: num  309 229 181 141 260 203 148 169 213 257 ...
+##  $ feed  : Factor w/ 2 levels "linseed","soybean": 1 1 1 1 1 1 1 1 1 1 ...
+
##let us plot this again
+ggplot(SubChickWts, aes(x=feed, y=weight)) + geom_boxplot()
+

+

The distribution of chick weights fed soybean appears to have slightly higher than those fed with linseed. We will compute the mean weights of the checks fed with each kind of feed.

+
##mean of wight with linseed feed
+print(mean(SubChickWts$weight[SubChickWts$feed == "linseed"]))
+
## [1] 218.75
+
##mean of wight with soybean feed
+print(mean(SubChickWts$weight[SubChickWts$feed == "soybean"]))
+
## [1] 246.4286
+

Can we more formally test this?

+

Specifically, can we test how likely it is to observe the given difference in the mean weights of chicks fed the two diets when in fact they do not differ. Given the observed the variance of weights across the chicks on a given feed, may be it is quite likely that we would observe this big of a difference if we were to repeat this experiment over and over again. The two-sample t-test gives us a formal way to test for this difference. The Test statistic is again the t-statistic and the sampling distribution is the t distribution under certain assumptions (see below).

+
t.test(weight ~ feed, data=SubChickWts, var.equal=TRUE)
+
## 
+##  Two Sample t-test
+## 
+## data:  weight by feed
+## t = -1.3208, df = 24, p-value = 0.199
+## alternative hypothesis: true difference in means is not equal to 0
+## 95 percent confidence interval:
+##  -70.92996  15.57282
+## sample estimates:
+## mean in group linseed mean in group soybean 
+##              218.7500              246.4286
+

The above estimated p-value suggests that we cannot the reject the hypothesis that the mean weights of the two feeds are the same.

+

All statistical hypothesis tests come with a bunch lot of assumptions. The version of the t-test we used above assumed that the variances of the chick weights is the same for the two feeds. The t-test has a different version if the variances of the weights are unlikely to be equal called the Welch t-test.

+

We will test equality of variances using the Brown-Forsythe test for equality of variances.

+
##First we need to load the required library with this test
+suppressMessages(library(onewaytests))
+
## Warning: package 'onewaytests' was built under R version 3.5.2
+
bf.test(weight ~ feed, SubChickWts)
+
## 
+##   Brown-Forsythe Test 
+## --------------------------------------------------------- 
+##   data : weight and feed 
+## 
+##   statistic  : 1.754449 
+##   num df     : 1 
+##   denom df   : 23.62952 
+##   p.value    : 0.1979871 
+## 
+##   Result     : Difference is not statistically significant. 
+## ---------------------------------------------------------
+

You will see that the p-value from this test is not significant, so we can assume variances are equal. Otherwise we would need to run,

+
t.test(weight ~ feed, data=SubChickWts, var.equal=F)
+
## 
+##  Welch Two Sample t-test
+## 
+## data:  weight by feed
+## t = -1.3246, df = 23.63, p-value = 0.198
+## alternative hypothesis: true difference in means is not equal to 0
+## 95 percent confidence interval:
+##  -70.84262  15.48547
+## sample estimates:
+## mean in group linseed mean in group soybean 
+##              218.7500              246.4286
+

The t-test also requires the assumption of normality. This is not essential. It has been shown to be quite robust to deviations from normality. In any case, we will test for normality using the Shapiro-Wilk test.

+
shapiro.test(SubChickWts$weight[SubChickWts$feed == "linseed"])
+
## 
+##  Shapiro-Wilk normality test
+## 
+## data:  SubChickWts$weight[SubChickWts$feed == "linseed"]
+## W = 0.96931, p-value = 0.9035
+
shapiro.test(SubChickWts$weight[SubChickWts$feed == "soybean"])
+
## 
+##  Shapiro-Wilk normality test
+## 
+## data:  SubChickWts$weight[SubChickWts$feed == "soybean"]
+## W = 0.9464, p-value = 0.5064
+

In both the cases, we are unable to reject the hypothesis that the data is normal.

+

If however, we ended up rejecting the normality assumption, it may be better to use a non-paramteric test that does not require the normality assumption

+
##Wilcox test is a non-parametric test that can be used as an alternative to the t-test. Wilcox test does not need the assumption of normality
+wilcox.test(weight ~ feed, data=SubChickWts)
+
## Warning in wilcox.test.default(x = c(309, 229, 181, 141, 260, 203, 148, :
+## cannot compute exact p-value with ties
+
## 
+##  Wilcoxon rank sum test with continuity correction
+## 
+## data:  weight by feed
+## W = 60.5, p-value = 0.2367
+## alternative hypothesis: true location shift is not equal to 0
+
+
+

Statistical power estimates or Sample Size calculations

+

We were unable to reject the hypothesis that linseed and soybean feed kept the mean weights of the chicks the same. Let us visualize these data again,

+
ggplot(SubChickWts, aes(x=feed, y=weight)) + geom_boxplot()
+

It however appears that the soybean feed does increase the mean weight over the linseed feed. If the increase is true then we need more samples to conclude that the soybean feed does increase the mean chick weight in a statistically significant manner.

+

How many more samples would we need?

+

To do that we can perform something called a statistical power analyses. We will use a library in R called pwr that will help us with these analyses. Before doing any power analyses, you need to know a bunch of things.

+
    +

  1. The sampling distribution of the test statistic (t-statistic)

    2. +

  2. The effect size that you want to have the statistical power to estimate

    3. +

  3. At what Type I error will you be making claims of statistical significance. This is a number between 0 and 1 (typically 0.05) and represents the fraction of times (when you repeat the same experiment over and over again) when you will claim significance when in fact your null hypothesis is true (there is no differernce in the mean weights).

    4. +

  4. What is the desired statistical power? This is a number between 0 and 1 and represents the fraction of times (when you repeat the same experiment over and over) you want to claim significance at the chosen Type I error.

    5. +
+
suppressMessages(library(pwr))
+##Let us first compute the increase in mean chick weight from linseed to soybean feed
+(mean(SubChickWts$weight[SubChickWts$feed == "soybean"])) - (mean(SubChickWts$weight[SubChickWts$feed == "linseed"]))
+
## [1] 27.67857
+
##We will now define the effect size,d as the above difference scaled by the standard deviation of the chick weights
+d <- ((mean(SubChickWts$weight[SubChickWts$feed == "soybean"])) - (mean(SubChickWts$weight[SubChickWts$feed == "linseed"])))/sd(SubChickWts$weight)
+##load the library
+##Our test statistic is the t-statistic and the relevant function is pwr.t.test
+pwr.t.test(d=d, power = 0.8, sig.level = 0.05)
+
## 
+##      Two-sample t test power calculation 
+## 
+##               n = 60.85139
+##               d = 0.512026
+##       sig.level = 0.05
+##           power = 0.8
+##     alternative = two.sided
+## 
+## NOTE: n is number in *each* group
+

The results says we need to have at least 60 chicks in each feed group to have a 80% chance to making a claim of differences in mean chick weights from linseed to soybean with a significance of 0.05

+
+
+

One-way ANOVA

+

We will now go back to looking at the distribution of the weights of chicks fed all the diet and not just the above two one. Our null hypothesis is that the mean chick weights is same for all the 6 feeds. Let us visualize the data again,

+
ggplot(chickwts, aes(x=feed, y=weight)) + geom_boxplot()
+

+

The appropriate test statistic to use here is called the F-statistic, its sampling distribution is called the F-distribution. While the t-distribution captures the sampling distribution of the scaled sample mean or scaled difference of sample means, the F-distribution captures the proportion of variance between all observations within a feed group due to variance in the mean chick weights between feed groups, i.e.,

+

\[F = \frac{between\ feed\ group\ weight\ variance}{within\ feed\ group\ weight\ variance}\] So, intuitively when the mean chick weights are not different between the different feed groups, the variance between these mean weights should be similar to variances of weights within a feed group. That is, under the null hypothesis F will hover around 1. Note, when we say, “within a feed group”, we don’t specify which particular feed group. This should suggest to you the requirement of the assumption that within feed groups variances are same across all groups.

+

We will now run the ANOVA analyses as follows:

+
AmodelFit <- aov(weight ~ feed, data=chickwts) 
+summary(AmodelFit)
+
##             Df Sum Sq Mean Sq F value   Pr(>F)    
+## feed         5 231129   46226   15.37 5.94e-10 ***
+## Residuals   65 195556    3009                     
+## ---
+## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
+

The significance above suggests that there are feeds resulting in differing mean chick weights. We don’t get information on which pairs are really different from each other. To get this information, we will perform multiple pairwise tests using Tukey’s posthoc tests.

+
+

Multiple testing

+
TukeyHSD(AmodelFit,ordered = TRUE)
+
##   Tukey multiple comparisons of means
+##     95% family-wise confidence level
+##     factor levels have been ordered
+## 
+## Fit: aov(formula = weight ~ feed, data = chickwts)
+## 
+## $feed
+##                           diff        lwr       upr     p adj
+## linseed-horsebean    58.550000 -10.413543 127.51354 0.1413329
+## soybean-horsebean    86.228571  19.541684 152.91546 0.0042167
+## meatmeal-horsebean  116.709091  46.335105 187.08308 0.0001062
+## casein-horsebean    163.383333  94.419790 232.34688 0.0000000
+## sunflower-horsebean 168.716667  99.753124 237.68021 0.0000000
+## soybean-linseed      27.678571 -35.683721  91.04086 0.7932853
+## meatmeal-linseed     58.159091  -9.072873 125.39106 0.1276965
+## casein-linseed      104.833333  39.079175 170.58749 0.0002100
+## sunflower-linseed   110.166667  44.412509 175.92082 0.0000884
+## meatmeal-soybean     30.480519 -34.414070  95.37511 0.7391356
+## casein-soybean       77.154762  13.792470 140.51705 0.0083653
+## sunflower-soybean    82.488095  19.125803 145.85039 0.0038845
+## casein-meatmeal      46.674242 -20.557722 113.90621 0.3324584
+## sunflower-meatmeal   52.007576 -15.224388 119.23954 0.2206962
+## sunflower-casein      5.333333 -60.420825  71.08749 0.9998902
+
##we can visualize the confidence intervals of the differences in mean chick weights
+plot(TukeyHSD(AmodelFit,ordered = TRUE))
+

+

Not the adjusted p-value for the soybean-linseed comparison is different (0.793 vs 0.199) from what we obtained using the two-sample, two-sided t-test. The resulting confidence interval of this difference is also wider.

+
t.test(weight ~ feed, data=SubChickWts, var.equal=TRUE)
+
## 
+##  Two Sample t-test
+## 
+## data:  weight by feed
+## t = -1.3208, df = 24, p-value = 0.199
+## alternative hypothesis: true difference in means is not equal to 0
+## 95 percent confidence interval:
+##  -70.92996  15.57282
+## sample estimates:
+## mean in group linseed mean in group soybean 
+##              218.7500              246.4286
+

Why did we have to correct for multiple testing, the fact we are interested in 15 comparisons? One way to try and justify it for yourself is to run through the following thought experiment.

+
    +

  1. Suppose we set the significance threshold, Type I error at 0.05 as before.

    2. +

  2. We will assume that of the 15 comparisons there are 8 comparisons that indicate actual difference in mean weights.

    3. +

  3. We will also assume that the statistical power to detect true differences is 0.8.

    4. +

  4. Then of the 8 true differences in feeds, we would expect to detect \(8\times0.8\approx6\) of these findings.

    5. +

  5. Of the 15 comparisons we would expect to see \(15\times0.05\approx 1\) false-positive.

    6. +

  6. Therefore the expected false discovery rate is \(\frac{1}{1+6}=\frac{1}{7}=14\%\), higher than what we would have typically expected.

    7. +

  7. This situation is further exacerbated if the number of true differences in the 15 comparisons is smaller. For example, if the number of true differences is 4. Then the expected number of these detected would be \(4\times0.8\approx3\). The false discovery rate would then be \(\frac{1}{1+3}=\frac{1}{4}=25\%\). Again, something which is generally considered unacceptable.

    8. +

  8. Intuitively in this situation, one way to reduce the false discovery rate is to reduce Type I error, make it smaller than 0.05. This is what some of mulitple testing methods are implicitly doing.

    9. +
+

The ANOVA tests have two important assumptions that we will need to check. 1. Normality of the responses 2. Equality of variances of chick weights in each of the feed groups.

+

We will now check these assumptions

+
##NORMALITY
+shapiro.test(chickwts$weight[chickwts$feed == "casein"])
+
## 
+##  Shapiro-Wilk normality test
+## 
+## data:  chickwts$weight[chickwts$feed == "casein"]
+## W = 0.91663, p-value = 0.2592
+
shapiro.test(chickwts$weight[chickwts$feed == "horsebean"])
+
## 
+##  Shapiro-Wilk normality test
+## 
+## data:  chickwts$weight[chickwts$feed == "horsebean"]
+## W = 0.93758, p-value = 0.5264
+
shapiro.test(chickwts$weight[chickwts$feed == "linseed"])
+
## 
+##  Shapiro-Wilk normality test
+## 
+## data:  chickwts$weight[chickwts$feed == "linseed"]
+## W = 0.96931, p-value = 0.9035
+
shapiro.test(chickwts$weight[chickwts$feed == "meatmeal"])
+
## 
+##  Shapiro-Wilk normality test
+## 
+## data:  chickwts$weight[chickwts$feed == "meatmeal"]
+## W = 0.97914, p-value = 0.9612
+
shapiro.test(chickwts$weight[chickwts$feed == "soybean"])
+
## 
+##  Shapiro-Wilk normality test
+## 
+## data:  chickwts$weight[chickwts$feed == "soybean"]
+## W = 0.9464, p-value = 0.5064
+
shapiro.test(chickwts$weight[chickwts$feed == "sunflower"])
+
## 
+##  Shapiro-Wilk normality test
+## 
+## data:  chickwts$weight[chickwts$feed == "sunflower"]
+## W = 0.92809, p-value = 0.3603
+

The normality assumptions does not seem to be violated. Now, we will test for equality of variances,

+
##EQUALITY OF VARIANCES
+bf.test(weight ~ feed, chickwts)
+
## 
+##   Brown-Forsythe Test 
+## --------------------------------------------------------- 
+##   data : weight and feed 
+## 
+##   statistic  : 15.51945 
+##   num df     : 5 
+##   denom df   : 58.65021 
+##   p.value    : 1.044886e-09 
+## 
+##   Result     : Difference is statistically significant. 
+## ---------------------------------------------------------
+

The variances are significantly different from zero. So one of the assumptions of one-way ANOVA is violated. So we need to do something different. Some of you may think we would need to take recourse to a non-parametric test. The Kruskall-Wallis test is the non-parametric version of one-way ANOVA.

+
kruskal.test(weight ~ feed, chickwts)
+
## 
+##  Kruskal-Wallis rank sum test
+## 
+## data:  weight by feed
+## Kruskal-Wallis chi-squared = 37.343, df = 5, p-value = 5.113e-07
+

Unfortunately, we cannot use this test because it requires the assumption that the variances of chick weights to be same for the different feeds - this assumption is violated. So the next alternative would be to perform a bunch of pair-wise Welch t-tests

+
##We will also store the resulting p-values from the resulting pair-wise tests. Just for this workshop we compare the mean chick weights of all other feeds to the casein feed estimate 
+pValueFeedComparisons <- vector(mode = "numeric")
+pValueFeedComparisons[1] <- t.test(chickwts$weight[chickwts$feed=="casein"], chickwts$weight[chickwts$feed=="horsebean"])$p.value
+pValueFeedComparisons[2] <- t.test(chickwts$weight[chickwts$feed=="casein"], chickwts$weight[chickwts$feed=="linseed"])$p.value
+pValueFeedComparisons[3] <- t.test(chickwts$weight[chickwts$feed=="casein"], chickwts$weight[chickwts$feed=="meatmeal"])$p.value
+pValueFeedComparisons[4] <- t.test(chickwts$weight[chickwts$feed=="casein"], chickwts$weight[chickwts$feed=="soybean"])$p.value
+pValueFeedComparisons[5] <- t.test(chickwts$weight[chickwts$feed=="casein"], chickwts$weight[chickwts$feed=="sunflower"])$p.value
+names(pValueFeedComparisons) <- c("horsebean", "linseed", "meatmeal", "soybean", "sunflower")
+
+print(pValueFeedComparisons)
+
##    horsebean      linseed     meatmeal      soybean    sunflower 
+## 7.210250e-07 2.606217e-04 9.866222e-02 3.521263e-03 8.215118e-01
+

We have performed several tests and would need correct for multiple tests. We have seen that the Tukey post hoc tests provide one way for correcting for multiple testing. There are multiple ways for correcting for multiple testing. Each has a set of assumptions and also a particular criteria it is controlling for. Here we will use two ways of correcting for multiple testing: the Holm-Sidak method and the Benjamini-Hochberg method. The Holm-Sidak method controls for something called a family-wise error rate (similar to what the Tukey method was controlling for) , or the probability on repeating these experiments over and over that you will observe at least one false positive. The BH or Benjamini-Hochberg method controls for False-Discovery Rate, or the expected (over repeated experiments) fraction of false positives among the rejected hypothesis. The Holm-Sidak method is more conservative while the BH method has more tolerance for false-positives

+
##load the require library
+suppressMessages(library(multtest))
+
## Warning: package 'multtest' was built under R version 3.5.1
+
## Warning: package 'BiocGenerics' was built under R version 3.5.1
+
## Warning: package 'Biobase' was built under R version 3.5.1
+
MCor <- mt.rawp2adjp(pValueFeedComparisons, proc = c("SidakSD", "BH"))
+MCorResults <- cbind(pValueFeedComparisons[MCor$index], MCor$adjp)
+head(MCorResults)
+
##                                rawp      SidakSD           BH
+## horsebean 7.210250e-07 7.210250e-07 3.605120e-06 3.605125e-06
+## linseed   2.606217e-04 2.606217e-04 1.042079e-03 6.515541e-04
+## soybean   3.521263e-03 3.521263e-03 1.052664e-02 5.868772e-03
+## meatmeal  9.866222e-02 9.866222e-02 1.875902e-01 1.233278e-01
+## sunflower 8.215118e-01 8.215118e-01 8.215118e-01 8.215118e-01
+

You will the results in the SidakSD and BH columns as adjusted p-values

+
+
+
+

Linear modeling

+

Linear modeling provides a really flexible approach to statistical hypothesis testing. Simple Linear Regression is a special case of linear models. In fact, the above one-way ANOVA tests could as well be performed using linear models. Let us start with an example for Simple Linear Regression.

+
?cars
+summary(cars)
+
##      speed           dist       
+##  Min.   : 4.0   Min.   :  2.00  
+##  1st Qu.:12.0   1st Qu.: 26.00  
+##  Median :15.0   Median : 36.00  
+##  Mean   :15.4   Mean   : 42.98  
+##  3rd Qu.:19.0   3rd Qu.: 56.00  
+##  Max.   :25.0   Max.   :120.00
+
ggplot(cars, aes(x=speed, y=dist)) + geom_point() + geom_smooth(method = "lm", se=F)
+

Now, we will estimate the slope and intercept of the best fit line to these data.

+
lmFit <- lm(dist ~ speed, cars)
+summary(lmFit)
+
## 
+## Call:
+## lm(formula = dist ~ speed, data = cars)
+## 
+## Residuals:
+##     Min      1Q  Median      3Q     Max 
+## -29.069  -9.525  -2.272   9.215  43.201 
+## 
+## Coefficients:
+##             Estimate Std. Error t value Pr(>|t|)    
+## (Intercept) -17.5791     6.7584  -2.601   0.0123 *  
+## speed         3.9324     0.4155   9.464 1.49e-12 ***
+## ---
+## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
+## 
+## Residual standard error: 15.38 on 48 degrees of freedom
+## Multiple R-squared:  0.6511, Adjusted R-squared:  0.6438 
+## F-statistic: 89.57 on 1 and 48 DF,  p-value: 1.49e-12
+

There are always assumptions to check for. We will visually attempt to test the assumptions of the linear regression fit. The assumptions tested visually (in order) are:

+
    +

  1. Suitability of a linear (as opposed to some non-linear) model for these data.

    2. +

  2. Normality of residuals (differences between observations and their predictions using the linear model).

    3. +

  3. Homogenity of variances across the fitted/predicted values of distance

    4. +

  4. Influence of outliers on slope estimates

    5. +
+
plot(lmFit)
+

+
+

One-way ANOVA

+

We will now perform a linear model version of the one-way ANOVA test we ran above,

+
ggplot(chickwts, aes(x=feed, y=weight)) + geom_boxplot()
+

+
lmFit <- lm(weight ~ feed, chickwts)
+summary(lmFit)
+
## 
+## Call:
+## lm(formula = weight ~ feed, data = chickwts)
+## 
+## Residuals:
+##      Min       1Q   Median       3Q      Max 
+## -123.909  -34.413    1.571   38.170  103.091 
+## 
+## Coefficients:
+##               Estimate Std. Error t value Pr(>|t|)    
+## (Intercept)    323.583     15.834  20.436  < 2e-16 ***
+## feedhorsebean -163.383     23.485  -6.957 2.07e-09 ***
+## feedlinseed   -104.833     22.393  -4.682 1.49e-05 ***
+## feedmeatmeal   -46.674     22.896  -2.039 0.045567 *  
+## feedsoybean    -77.155     21.578  -3.576 0.000665 ***
+## feedsunflower    5.333     22.393   0.238 0.812495    
+## ---
+## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
+## 
+## Residual standard error: 54.85 on 65 degrees of freedom
+## Multiple R-squared:  0.5417, Adjusted R-squared:  0.5064 
+## F-statistic: 15.36 on 5 and 65 DF,  p-value: 5.936e-10
+
+
+

Two-way ANOVA

+

We will use linear models to test hypothesis in a situation where we are assessing the association of a continuous response variable with two categorical/factor variables.

+
?ToothGrowth
+##numerically summarize look at the Toothgrowth data set
+summary(ToothGrowth)
+
##       len        supp         dose      
+##  Min.   : 4.20   OJ:30   Min.   :0.500  
+##  1st Qu.:13.07   VC:30   1st Qu.:0.500  
+##  Median :19.25           Median :1.000  
+##  Mean   :18.81           Mean   :1.167  
+##  3rd Qu.:25.27           3rd Qu.:2.000  
+##  Max.   :33.90           Max.   :2.000
+
str(ToothGrowth)
+
## 'data.frame':    60 obs. of  3 variables:
+##  $ len : num  4.2 11.5 7.3 5.8 6.4 10 11.2 11.2 5.2 7 ...
+##  $ supp: Factor w/ 2 levels "OJ","VC": 2 2 2 2 2 2 2 2 2 2 ...
+##  $ dose: num  0.5 0.5 0.5 0.5 0.5 0.5 0.5 0.5 0.5 0.5 ...
+
##we change dose to a factor variable
+ToothGrowth$dose <- as.factor(ToothGrowth$dose)
+str(ToothGrowth)
+
## 'data.frame':    60 obs. of  3 variables:
+##  $ len : num  4.2 11.5 7.3 5.8 6.4 10 11.2 11.2 5.2 7 ...
+##  $ supp: Factor w/ 2 levels "OJ","VC": 2 2 2 2 2 2 2 2 2 2 ...
+##  $ dose: Factor w/ 3 levels "0.5","1","2": 1 1 1 1 1 1 1 1 1 1 ...
+

Let us visualize the data now,

+
ggplot(ToothGrowth, aes(x=dose, y=len, color=supp)) + geom_boxplot()
+

+

We will formulate a linear model to estimate the effects of dose and supp.

+
lmFit <- lm(len ~ dose + supp + dose:supp, ToothGrowth)
+summary(lmFit)
+
## 
+## Call:
+## lm(formula = len ~ dose + supp + dose:supp, data = ToothGrowth)
+## 
+## Residuals:
+##    Min     1Q Median     3Q    Max 
+##  -8.20  -2.72  -0.27   2.65   8.27 
+## 
+## Coefficients:
+##              Estimate Std. Error t value Pr(>|t|)    
+## (Intercept)    13.230      1.148  11.521 3.60e-16 ***
+## dose1           9.470      1.624   5.831 3.18e-07 ***
+## dose2          12.830      1.624   7.900 1.43e-10 ***
+## suppVC         -5.250      1.624  -3.233  0.00209 ** 
+## dose1:suppVC   -0.680      2.297  -0.296  0.76831    
+## dose2:suppVC    5.330      2.297   2.321  0.02411 *  
+## ---
+## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
+## 
+## Residual standard error: 3.631 on 54 degrees of freedom
+## Multiple R-squared:  0.7937, Adjusted R-squared:  0.7746 
+## F-statistic: 41.56 on 5 and 54 DF,  p-value: < 2.2e-16
+

We will go over the interpretation of the estimates from this linear model fit. Note, we have estimated both the main effects and also interaction effects.

+
+
+
+

Clustered data

+
+

Paired t-test

+
+
+
+

2x2 tables

+
+ + + + +
+ + + + + + + + diff --git a/hypothesis-testing/MuckeLabStatisticsPrimer_2019.docx b/hypothesis-testing/MuckeLabStatisticsPrimer_2019.docx new file mode 100644 index 0000000..6474c94 Binary files /dev/null and b/hypothesis-testing/MuckeLabStatisticsPrimer_2019.docx differ diff --git a/images/Unix_Mac_terminal.png b/images/Unix_Mac_terminal.png new file mode 100644 index 0000000..ced835a Binary files /dev/null and b/images/Unix_Mac_terminal.png differ diff --git a/intro-unix-command-line/2019-11-05-Unix_command-line_tools_-_Gladstone_part1.pdf b/intro-unix-command-line/2019-11-05-Unix_command-line_tools_-_Gladstone_part1.pdf new file mode 100644 index 0000000..5f4144b Binary files /dev/null and b/intro-unix-command-line/2019-11-05-Unix_command-line_tools_-_Gladstone_part1.pdf differ diff --git a/intro-unix-command-line/2019-11-05-Unix_command-line_tools_-_Gladstone_part2.pdf b/intro-unix-command-line/2019-11-05-Unix_command-line_tools_-_Gladstone_part2.pdf new file mode 100644 index 0000000..029b768 Binary files /dev/null and b/intro-unix-command-line/2019-11-05-Unix_command-line_tools_-_Gladstone_part2.pdf differ diff --git a/intro-unix-command-line/DATA.xcnv b/intro-unix-command-line/DATA.xcnv new file mode 100644 index 0000000..dd5f279 --- /dev/null +++ b/intro-unix-command-line/DATA.xcnv @@ -0,0 +1,3145 @@ +SAMPLE CNV INTERVAL KB CHR MID_BP TARGETS NUM_TARG Q_EXACT Q_SOME Q_NON_DIPLOID Q_START Q_STOP MEAN_RD MEAN_ORIG_RD +Sample_1013F DEL chr1:14970-70008 55.04 chr1 42489 2..5 4 28 39 39 8 32 -3.87 44.12 +Sample_1013F DEL chr1:12851546-12888664 37.12 chr1 12870105 1602..1608 7 34 99 99 33 6 -3.89 61.68 +Sample_1013F DUP chr1:12916941-12920126 3.19 chr1 12918533 1613..1615 3 14 54 54 4 21 5.11 108.38 +Sample_1013F DEL chr1:16918342-17046652 128.31 chr1 16982497 1955..1977 23 8 71 99 4 14 -4.32 108.26 +Sample_1013F DEL chr1:17271957-17273486 1.53 chr1 17272721 2001..2003 3 24 48 48 8 4 -4.92 156.91 +Sample_1013F DUP chr1:145301720-145368682 66.96 chr1 145335201 8404..8413 10 3 99 99 9 4 3.81 74.32 +Sample_1013F DEL chr3:195390495-195475935 85.44 chr3 195433215 32789..32802 14 47 98 99 29 11 -5.81 36.10 +Sample_1013F DEL chr5:21495207-21497349 2.14 chr5 21496278 37853..37854 2 19 45 45 17 5 -6.51 35.18 +Sample_1013F DEL chr7:143955790-144070377 114.59 chr7 144013083 54231..54236 6 30 99 99 6 18 -4.19 19.63 +Sample_1013F DUP chr8:11979496-12044342 64.85 chr8 12011919 55311..55317 7 12 95 99 34 5 5.98 101.97 +Sample_1013F DUP chr9:15909-17166 1.26 chr9 16537 59397..59398 2 80 94 95 91 53 8.25 101.03 +Sample_1013F DUP chr9:90747881-90748584 0.70 chr9 90748232 61296..61297 2 34 59 59 4 3 6.97 134.36 +Sample_1013F DEL chr9:117072829-117087432 14.60 chr9 117080130 62578..62583 6 2 58 58 2 5 -3.34 41.92 +Sample_1013F DUP chr10:27225666-27230930 5.26 chr10 27228298 66314..66315 2 76 97 99 29 34 8.47 211.24 +Sample_1013F DUP chr10:135267432-135439108 171.68 chr10 135353270 70960..70988 29 6 99 99 8 3 3.29 89.11 +Sample_1013F DUP chr11:18955361-18956549 1.19 chr11 18955955 72915..72915 1 31 31 31 6 27 10.00 163.46 +Sample_1013F DEL chr12:9447028-9447570 0.54 chr12 9447299 81112..81113 2 22 31 31 5 18 -5.98 103.53 +Sample_1013F DUP chr12:9572789-9578716 5.93 chr12 9575752 81135..81142 8 3 99 99 2 13 4.00 96.32 +Sample_1013F DUP chr12:9589543-9590085 0.54 chr12 9589814 81149..81150 2 65 88 88 47 29 8.19 109.46 +Sample_1013F DUP chr12:31249275-31249924 0.65 chr12 31249599 81840..81842 3 31 31 31 4 31 4.52 173.45 +Sample_1013F DUP chr15:20743914-22414393 1670.48 chr15 21579153 94345..94366 22 11 79 99 31 38 4.37 70.87 +Sample_1013F DUP chr15:23261763-23300167 38.41 chr15 23280965 94422..94426 5 4 99 99 4 21 5.03 137.75 +Sample_1013F DUP chr15:23444007-23444098 0.09 chr15 23444052 94438..94438 1 31 31 31 19 31 10.00 182.11 +Sample_1013F DUP chr15:30395935-30659730 263.80 chr15 30527832 94686..94688 3 7 32 32 30 7 4.96 88.01 +Sample_1013F DEL chr15:72954593-72958469 3.88 chr15 72956531 97496..97500 5 36 99 99 18 25 -4.77 30.38 +Sample_1013F DEL chr15:78207740-78208271 0.53 chr15 78208005 98003..98005 3 99 99 99 5 31 -10.00 138.74 +Sample_1013F DUP chr15:83013569-83015609 2.04 chr15 83014589 98300..98301 2 48 72 72 26 38 7.36 70.06 +Sample_1013F DUP chr15:102513423-102514309 0.89 chr15 102513866 99267..99268 2 83 99 99 32 17 8.96 96.63 +Sample_1013F DEL chr16:1275207-1280185 4.98 chr16 1277696 99709..99713 5 4 99 99 4 27 -4.80 41.07 +Sample_1013F DUP chr16:1291154-1306688 15.54 chr16 1298921 99715..99719 5 5 78 78 27 5 4.08 152.59 +Sample_1013F DEL chr16:70162862-70195184 32.32 chr16 70179023 104883..104895 13 18 63 63 5 1 -2.45 34.68 +Sample_1013F DEL chr16:74394531-74444530 50.00 chr16 74419530 105289..105294 6 8 99 99 8 11 -5.07 59.59 +Sample_1013F DEL chr17:14139175-14139747 0.57 chr17 14139461 108886..108887 2 80 87 87 8 27 -8.20 95.27 +Sample_1013F DUP chr17:16703265-16736147 32.88 chr17 16719706 109045..109050 6 8 98 99 8 43 4.68 114.58 +Sample_1013F DEL chr17:39388715-39395255 6.54 chr17 39391985 111327..111329 3 57 99 99 31 8 -8.17 81.31 +Sample_1013F DEL chr17:60344494-60345600 1.11 chr17 60345047 113674..113676 3 11 42 42 19 10 -4.83 92.65 +Sample_1013F DUP chr19:49519804-49526457 6.65 chr19 49523130 126638..126640 3 5 96 98 5 5 6.20 153.08 +Sample_1013F DEL chr19:54724025-54726002 1.98 chr19 54725013 127861..127864 4 21 51 51 24 12 -4.21 19.58 +Sample_1013F DUP chr19:54745452-54756412 10.96 chr19 54750932 127866..127873 8 3 89 89 12 3 3.23 85.36 +Sample_1013F DEL chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 39 99 99 6 19 -6.84 57.46 +Sample_1013F DEL chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 33 99 99 30 12 -4.61 18.43 +Sample_1013F DEL chr22:24347142-24384284 37.14 chr22 24365713 135355..135361 7 7 52 52 4 11 -3.06 33.35 +Sample_1013F DEL chr22:25713888-25777544 63.66 chr22 25745716 135561..135569 9 48 99 99 27 28 -5.39 28.36 +Sample_1013M DEL chr1:16913545-17275421 361.88 chr1 17094483 1952..2005 54 25 99 99 3 14 -4.58 77.64 +Sample_1013M DUP chr1:25611064-25629950 18.89 chr1 25620507 3041..3045 5 40 41 41 14 7 3.52 61.93 +Sample_1013M DEL chr1:161575849-161601158 25.31 chr1 161588503 11056..11060 5 20 49 49 4 20 -3.55 24.37 +Sample_1013M DEL chr3:48618881-48621213 2.33 chr3 48620047 27194..27205 12 7 34 34 19 8 -2.33 95.00 +Sample_1013M DUP chr5:140165876-140596993 431.12 chr5 140381434 40578..40607 30 8 99 99 12 2 2.50 90.50 +Sample_1013M DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 22 99 99 8 17 -4.65 61.06 +Sample_1013M DEL chr7:72418838-72420500 1.66 chr7 72419669 50664..50668 5 33 99 99 15 3 -5.32 55.60 +Sample_1013M DUP chr7:74191613-74306731 115.12 chr7 74249172 50908..50916 9 5 62 62 4 5 2.86 79.07 +Sample_1013M DUP chr7:74578702-75048725 470.02 chr7 74813713 50926..50935 10 6 99 99 7 6 3.75 83.63 +Sample_1013M DEL chr7:143883677-144070377 186.70 chr7 143977027 54230..54236 7 4 49 49 3 25 -3.14 16.90 +Sample_1013M DUP chr8:7305276-7320381 15.11 chr8 7312828 55179..55182 4 5 32 32 6 12 3.68 49.02 +Sample_1013M DUP chr8:11979496-12044342 64.85 chr8 12011919 55311..55317 7 10 99 99 23 10 3.95 75.84 +Sample_1013M DEL chr10:46963840-47088319 124.48 chr10 47026079 66733..66741 9 5 70 70 5 13 -2.90 78.86 +Sample_1013M DUP chr11:55029658-55038594 8.94 chr11 55034126 74017..74021 5 3 37 37 3 15 3.32 56.75 +Sample_1013M DUP chr12:9572085-9600768 28.68 chr12 9586426 81133..81151 19 4 99 99 2 21 2.85 66.31 +Sample_1013M DUP chr12:11506008-11546911 40.90 chr12 11526459 81255..81259 5 21 99 99 11 9 4.93 80.19 +Sample_1013M DUP chr15:23282265-23300167 17.90 chr15 23291216 94424..94426 3 22 99 99 3 33 7.71 170.95 +Sample_1013M DUP chr15:30395935-30396211 0.28 chr15 30396073 94686..94686 1 30 30 30 30 30 10.00 108.41 +Sample_1013M DUP chr15:41859558-41865665 6.11 chr15 41862611 95375..95385 11 12 38 38 2 6 2.40 67.43 +Sample_1013M DEL chr15:72958123-72958469 0.35 chr15 72958296 97499..97500 2 55 81 81 3 17 -7.89 42.19 +Sample_1013M DEL chr15:75580599-75581824 1.23 chr15 75581211 97824..97825 2 47 74 74 2 10 -7.55 0.00 +Sample_1013M DUP chr15:83013569-83015609 2.04 chr15 83014589 98300..98301 2 50 73 73 16 43 7.43 59.59 +Sample_1013M DUP chr16:1280163-1292554 12.39 chr16 1286358 99713..99717 5 4 75 75 32 4 3.99 106.72 +Sample_1013M DEL chr16:28616918-28621357 4.44 chr16 28619137 102277..102282 6 12 53 53 12 22 -3.32 48.63 +Sample_1013M DUP chr16:69996879-69997887 1.01 chr16 69997383 104859..104860 2 15 35 35 4 6 5.99 92.78 +Sample_1013M DUP chr16:70207928-70220796 12.87 chr16 70214362 104896..104898 3 52 63 63 4 35 5.20 67.55 +Sample_1013M DEL chr16:70714697-70714928 0.23 chr16 70714812 105025..105026 2 44 44 44 28 18 -6.53 54.85 +Sample_1013M DUP chr17:18292171-18430160 137.99 chr17 18361165 109353..109365 13 12 98 99 12 12 4.67 68.88 +Sample_1013M DEL chr17:20355108-20358711 3.60 chr17 20356909 109567..109569 3 47 61 61 5 26 -5.28 8.53 +Sample_1013M DUP chr17:20404829-20407811 2.98 chr17 20406320 109572..109577 6 10 84 84 10 5 3.62 83.96 +Sample_1013M DEL chr17:39388715-39395255 6.54 chr17 39391985 111327..111329 3 62 99 99 36 0 -8.44 65.71 +Sample_1013M DUP chr17:39405939-39411837 5.90 chr17 39408888 111330..111331 2 10 36 36 0 3 6.30 191.63 +Sample_1013M DEL chr17:60344494-60351477 6.98 chr17 60347985 113674..113682 9 5 89 89 5 19 -3.05 50.58 +Sample_1013M DUP chr19:55247287-55290114 42.83 chr19 55268700 128016..128023 8 7 99 99 13 5 4.20 43.39 +Sample_1013M DUP chr21:45959068-46067564 108.50 chr21 46013316 134150..134162 13 18 99 99 33 4 3.50 257.66 +Sample_1013M DEL chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 61 99 99 23 23 -8.00 24.26 +Sample_1013M DEL chr22:24347142-24394849 47.71 chr22 24370995 135355..135362 8 12 99 99 20 8 -5.34 0.16 +Sample_1013M DUP chr22:25044121-25049017 4.90 chr22 25046569 135495..135499 5 6 31 31 26 5 3.35 162.13 +Sample_1013M DUP chrX:55101504-55117043 15.54 chrX 55109273 139929..139932 4 5 55 55 5 9 4.14 76.01 +Sample_1013P DEL chr1:12851546-12891264 39.72 chr1 12871405 1602..1609 8 22 99 99 22 34 -3.48 46.64 +Sample_1013P DUP chr1:12918840-12920126 1.29 chr1 12919483 1614..1615 2 50 62 62 34 10 7.26 116.79 +Sample_1013P DEL chr1:16921087-16975287 54.20 chr1 16948187 1958..1967 10 24 99 99 9 2 -3.81 142.23 +Sample_1013P DUP chr1:17090909-17275019 184.11 chr1 17182964 1986..2004 19 5 99 99 5 11 4.49 139.51 +Sample_1013P DUP chr1:45293968-45294984 1.02 chr1 45294476 5387..5390 4 21 41 41 33 21 4.01 150.64 +Sample_1013P DUP chr1:45797838-45798631 0.79 chr1 45798234 5459..5463 5 5 41 41 18 5 3.49 196.41 +Sample_1013P DUP chr1:161520321-161578341 58.02 chr1 161549331 11052..11056 5 17 67 67 6 6 3.90 72.51 +Sample_1013P DEL chr2:114341230-114353780 12.55 chr2 114347505 19699..19704 6 30 99 99 29 7 -4.49 77.17 +Sample_1013P DEL chr2:233244896-233246077 1.18 chr2 233245486 23901..23904 4 21 31 31 25 14 -3.83 74.20 +Sample_1013P DUP chr2:233271996-233274158 2.16 chr2 233273077 23909..23915 7 26 91 91 5 16 3.49 113.53 +Sample_1013P DEL chr3:195392937-195410736 17.80 chr3 195401836 32791..32796 6 3 45 45 10 3 -3.15 37.94 +Sample_1013P DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 28 99 99 15 18 5.27 108.12 +Sample_1013P DEL chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 37 99 99 32 35 -6.86 11.33 +Sample_1013P DUP chr8:11979496-12044342 64.85 chr8 12011919 55311..55317 7 7 80 99 35 0 6.55 90.56 +Sample_1013P DEL chr8:12245467-12250923 5.46 chr8 12248195 55318..55320 3 44 99 99 1 5 -6.82 0.15 +Sample_1013P DUP chr10:27225666-27230930 5.26 chr10 27228298 66314..66315 2 82 99 99 26 25 8.70 183.83 +Sample_1013P DEL chr10:124340382-124353114 12.73 chr10 124346748 70419..70426 8 26 99 99 26 25 -5.91 40.24 +Sample_1013P DUP chr10:135267432-135440299 172.87 chr10 135353865 70960..70989 30 7 99 99 12 8 3.39 77.56 +Sample_1013P DEL chr11:5798891-5810046 11.16 chr11 5804468 71961..71962 2 12 37 37 22 12 -6.16 25.28 +Sample_1013P DUP chr12:9436253-9451458 15.21 chr12 9443855 81110..81115 6 28 47 47 20 20 3.29 75.20 +Sample_1013P DEL chr12:11034816-11035297 0.48 chr12 11035056 81234..81235 2 45 68 68 13 15 -7.49 59.58 +Sample_1013P DUP chr12:11506008-11508524 2.52 chr12 11507266 81255..81258 4 11 99 99 21 4 5.66 68.73 +Sample_1013P DUP chr15:20771427-20776177 4.75 chr15 20773802 94346..94349 4 46 85 85 45 53 4.86 64.41 +Sample_1013P DEL chr15:23299681-23443575 143.90 chr15 23371628 94425..94437 13 74 99 99 10 35 -4.78 19.01 +Sample_1013P DUP chr15:75557463-75580705 23.24 chr15 75569084 97820..97824 5 42 61 61 16 23 3.84 53.09 +Sample_1013P DUP chr15:102513423-102516807 3.38 chr15 102515115 99267..99269 3 68 99 99 20 68 7.97 98.58 +Sample_1013P DEL chr16:1279191-1292554 13.36 chr16 1285872 99711..99717 7 43 99 99 43 0 -4.31 68.04 +Sample_1013P DUP chr16:1306273-1308494 2.22 chr16 1307383 99718..99722 5 9 69 69 0 8 3.90 132.41 +Sample_1013P DEL chr17:14139175-14140150 0.98 chr17 14139662 108886..108888 3 20 86 86 25 19 -5.84 72.24 +Sample_1013P DUP chr17:39273436-39395255 121.82 chr17 39334345 111318..111329 12 20 98 99 14 23 2.82 134.40 +Sample_1013P DEL chr17:60345056-60349349 4.29 chr17 60347202 113675..113680 6 24 74 74 35 14 -3.61 25.18 +Sample_1013P DUP chr19:6896409-7081466 185.06 chr19 6988937 119888..119924 37 3 79 99 3 26 2.41 42.37 +Sample_1013P DUP chr19:49536164-49558997 22.83 chr19 49547580 126645..126655 11 13 46 46 9 13 2.48 101.45 +Sample_1013P DUP chr19:50473069-50484270 11.20 chr19 50478669 127082..127086 5 8 48 48 4 7 3.57 72.95 +Sample_1013P DUP chr21:14982498-14983070 0.57 chr21 14982784 132983..132983 1 31 31 31 31 31 10.00 106.83 +Sample_1013P DUP chr21:45948335-46032871 84.54 chr21 45990603 134146..134159 14 4 99 99 5 4 3.18 246.63 +Sample_1013P DUP chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 24 49 49 29 19 4.88 115.45 +Sample_1013P DUP chr22:20386517-20398336 11.82 chr22 20392426 134921..134925 5 5 37 37 3 14 3.33 48.85 +Sample_1013P DEL chr22:22975944-22988991 13.05 chr22 22982467 135215..135219 5 29 66 66 19 29 -3.92 97.54 +Sample_1013P DUP chr22:24347142-24384284 37.14 chr22 24365713 135355..135361 7 11 37 37 11 19 2.91 60.67 +Sample_1013P DUP chr22:25041133-25045989 4.86 chr22 25043561 135493..135498 6 9 76 76 9 31 3.62 180.19 +Sample_1013P DEL chr22:25713888-25777544 63.66 chr22 25745716 135561..135569 9 18 99 99 25 11 -4.48 28.00 +Sample_1084F DEL chr1:1387426-1431581 44.16 chr1 1409503 291..316 26 31 99 99 6 28 -3.87 19.06 +Sample_1084F DUP chr1:16919936-17090975 171.04 chr1 17005455 1957..1986 30 13 99 99 12 13 4.07 97.68 +Sample_1084F DEL chr1:17249158-17257892 8.73 chr1 17253525 1988..1994 7 4 61 61 4 12 -3.15 66.39 +Sample_1084F DEL chr1:45797695-45798506 0.81 chr1 45798100 5458..5462 5 17 96 96 13 12 -4.37 78.63 +Sample_1084F DEL chr2:114346127-114356605 10.48 chr2 114351366 19700..19707 8 17 98 99 39 11 -3.38 35.30 +Sample_1084F DEL chr3:48618881-48621048 2.17 chr3 48619964 27194..27204 11 11 46 46 4 25 -2.47 71.73 +Sample_1084F DEL chr3:49724582-49724911 0.33 chr3 49724746 27609..27610 2 37 60 60 19 36 -7.20 156.19 +Sample_1084F DEL chr3:75470705-75484266 13.56 chr3 75477485 29262..29269 8 41 99 99 71 30 -7.45 35.25 +Sample_1084F DEL chr3:195390495-195475935 85.44 chr3 195433215 32789..32802 14 19 98 99 14 14 -3.58 24.31 +Sample_1084F DUP chr4:190903679-190906024 2.35 chr4 190904851 37228..37231 4 29 43 43 13 43 3.90 73.48 +Sample_1084F DUP chr5:177466388-177469226 2.84 chr5 177467807 42444..42446 3 25 31 31 16 7 4.53 64.50 +Sample_1084F DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 34 62 62 18 26 -3.82 45.84 +Sample_1084F DUP chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 24 42 42 14 22 3.91 50.54 +Sample_1084F DEL chr8:7215499-7320381 104.88 chr8 7267940 55174..55182 9 3 95 99 48 3 -3.44 9.40 +Sample_1084F DEL chr8:12039614-12250923 211.31 chr8 12145268 55315..55320 6 11 77 99 8 8 -4.37 24.10 +Sample_1084F DEL chr8:145619098-145619770 0.67 chr8 145619434 59189..59192 4 6 48 48 27 6 -4.13 57.39 +Sample_1084F DEL chr10:135368855-135369551 0.70 chr10 135369203 70976..70978 3 10 39 39 10 35 -4.77 76.60 +Sample_1084F DUP chr12:87984-149412 61.43 chr12 118698 79925..79932 8 38 99 99 39 32 3.36 47.43 +Sample_1084F DUP chr15:20776102-21134625 358.52 chr15 20955363 94349..94354 6 15 47 47 20 15 3.45 36.41 +Sample_1084F DUP chr15:22332388-22414393 82.01 chr15 22373390 94360..94366 7 34 99 99 54 34 3.72 51.15 +Sample_1084F DEL chr15:23299681-23311838 12.16 chr15 23305759 94425..94429 5 22 31 31 7 2 -3.30 34.77 +Sample_1084F DUP chr15:43900061-43903182 3.12 chr15 43901621 95844..95846 3 10 56 56 11 11 5.16 47.20 +Sample_1084F DEL chr15:102462345-102516807 54.46 chr15 102489576 99266..99269 4 7 49 49 7 36 -4.07 15.15 +Sample_1084F DEL chr16:731881-733909 2.03 chr16 732895 99535..99544 10 3 32 32 3 12 -2.45 60.69 +Sample_1084F DEL chr16:3076680-3077074 0.40 chr16 3076877 100446..100448 3 7 55 55 8 7 -5.14 117.17 +Sample_1084F DEL chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 16 63 63 12 16 -2.57 27.40 +Sample_1084F DUP chr17:18380099-18398258 18.16 chr17 18389178 109355..109362 8 12 56 56 48 4 2.88 48.34 +Sample_1084F DUP chr17:20354794-20405283 50.49 chr17 20380038 109566..109573 8 3 98 99 2 49 3.88 41.98 +Sample_1084F DEL chr19:10084432-10087287 2.86 chr19 10085859 120562..120566 5 11 46 46 14 11 -3.59 46.76 +Sample_1084F DUP chr19:54745452-54746724 1.27 chr19 54746088 127866..127869 4 5 70 70 5 31 4.50 44.79 +Sample_1084F DEL chr19:54784119-54785033 0.92 chr19 54784576 127892..127894 3 24 32 32 24 14 -4.52 70.33 +Sample_1084F DEL chr21:45953568-46067564 114.00 chr21 46010566 134149..134162 14 8 99 99 8 22 -4.40 126.46 +Sample_1084F DEL chr22:21330940-21332065 1.13 chr22 21331502 135043..135046 4 19 68 68 8 21 -4.52 65.70 +Sample_1084F DUP chr22:24347142-24384284 37.14 chr22 24365713 135355..135361 7 23 99 99 6 7 3.66 39.65 +Sample_1084F DEL chr22:42899205-42911274 12.07 chr22 42905239 137452..137458 7 12 42 42 4 13 -2.94 22.51 +Sample_1084F DEL chr22:50017826-50020695 2.87 chr22 50019260 137887..137890 4 4 30 30 30 4 -3.67 101.07 +Sample_1084M DEL chr1:17090909-17275421 184.51 chr1 17183165 1986..2005 20 6 99 99 20 6 -3.65 21.79 +Sample_1084M DEL chr3:49849303-49850816 1.51 chr3 49850059 27701..27706 6 22 34 34 22 24 -3.11 42.75 +Sample_1084M DEL chr3:75470705-75480065 9.36 chr3 75475385 29262..29267 6 41 99 99 56 16 -6.25 24.62 +Sample_1084M DEL chr3:195390495-195475935 85.44 chr3 195433215 32789..32802 14 7 81 81 7 10 -2.50 11.93 +Sample_1084M DUP chr4:190903679-190906024 2.35 chr4 190904851 37228..37231 4 40 49 49 17 44 4.02 40.76 +Sample_1084M DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 17 86 86 7 17 -4.18 23.61 +Sample_1084M DUP chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 3 57 57 13 3 4.14 33.30 +Sample_1084M DEL chr8:11985367-12245528 260.16 chr8 12115447 55312..55318 7 7 99 99 26 3 -4.91 11.18 +Sample_1084M DUP chr16:14968893-14972691 3.80 chr16 14970792 101188..101191 4 47 70 70 23 11 4.56 36.91 +Sample_1084M DUP chr17:18380099-18398258 18.16 chr17 18389178 109355..109362 8 6 57 57 54 3 2.89 24.69 +Sample_1084M DUP chr22:24342269-24394849 52.58 chr22 24368559 135354..135362 9 2 99 99 3 4 3.36 18.58 +Sample_1084M DUP chr22:42908124-42952594 44.47 chr22 42930359 137455..137461 7 42 99 99 9 24 4.16 31.80 +Sample_1084P DEL chr1:1387426-1431581 44.16 chr1 1409503 291..316 26 15 99 99 9 12 -3.83 20.46 +Sample_1084P DUP chr1:16918654-16946533 27.88 chr1 16932593 1956..1963 8 76 99 99 10 19 4.30 116.13 +Sample_1084P DUP chr1:17017713-17046652 28.94 chr1 17032182 1969..1977 9 11 79 99 1 9 3.78 66.58 +Sample_1084P DEL chr1:17084437-17090975 6.54 chr1 17087706 1979..1986 8 39 99 99 14 0 -4.13 79.90 +Sample_1084P DUP chr1:17248445-17275421 26.98 chr1 17261933 1987..2005 19 19 99 99 0 20 7.05 105.03 +Sample_1084P DUP chr1:25611064-25633220 22.16 chr1 25622142 3041..3046 6 3 55 55 28 3 3.30 47.80 +Sample_1084P DUP chr2:233272977-233274158 1.18 chr2 233273567 23912..23915 4 25 42 42 11 8 4.01 39.45 +Sample_1084P DEL chr3:48619911-48621213 1.30 chr3 48620562 27199..27205 7 15 54 54 37 15 -3.10 61.82 +Sample_1084P DUP chr6:168344621-168479839 135.22 chr6 168412230 48221..48247 27 11 99 99 9 32 3.56 48.58 +Sample_1084P DUP chr7:142459625-142482397 22.77 chr7 142471011 54058..54064 7 17 99 99 3 21 3.80 53.39 +Sample_1084P DUP chr8:11979496-12044342 64.85 chr8 12011919 55311..55317 7 7 80 99 5 5 4.20 60.26 +Sample_1084P DUP chr12:9436253-9447570 11.32 chr12 9441911 81110..81113 4 51 86 87 16 11 4.88 72.25 +Sample_1084P DUP chr15:30395935-30665348 269.41 chr15 30530641 94686..94691 6 24 99 99 48 24 4.71 48.32 +Sample_1084P DUP chr16:1280163-1291700 11.54 chr16 1285931 99713..99716 4 57 99 99 6 39 5.44 84.93 +Sample_1084P DUP chr16:74394531-74452196 57.67 chr16 74423363 105289..105298 10 29 99 99 18 27 3.43 74.46 +Sample_1084P DUP chr17:14139175-14140150 0.98 chr17 14139662 108886..108888 3 9 79 79 16 9 5.62 89.30 +Sample_1084P DEL chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 10 98 99 8 31 -3.91 22.29 +Sample_1084P DUP chr17:18380099-18430160 50.06 chr17 18405129 109355..109365 11 5 92 93 10 3 2.77 45.79 +Sample_1084P DEL chr17:43584112-44159908 575.80 chr17 43872010 112454..112481 28 28 99 99 8 28 -3.64 0.16 +Sample_1084P DUP chr19:40389652-40398510 8.86 chr19 40394081 124714..124718 5 31 99 99 13 20 6.59 71.30 +Sample_1084P DUP chr19:54726815-54746724 19.91 chr19 54736769 127865..127869 5 42 99 99 15 27 5.63 56.11 +Sample_1084P DUP chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 4 53 53 4 33 3.63 65.68 +Sample_1084P DEL chr19:55247287-55290114 42.83 chr19 55268700 128016..128023 8 6 99 99 14 6 -3.74 2.52 +Sample_1084P DEL chr21:45970318-46032871 62.55 chr21 46001594 134151..134159 9 10 73 73 4 10 -2.91 151.78 +Sample_1084P DEL chr22:50900988-50901367 0.38 chr22 50901177 138169..138170 2 43 46 46 20 7 -6.61 90.69 +Sample_1090F DEL chr1:14363-70008 55.65 chr1 42185 1..5 5 9 99 99 0 9 -5.60 16.08 +Sample_1090F DEL chr1:12851546-12921764 70.22 chr1 12886655 1602..1616 15 42 99 99 8 6 -3.86 39.16 +Sample_1090F DUP chr1:16914220-17090975 176.76 chr1 17002597 1953..1986 34 33 99 99 34 6 3.96 129.78 +Sample_1090F DEL chr1:17250820-17272900 22.08 chr1 17261860 1989..2002 14 13 99 99 3 3 -3.06 90.65 +Sample_1090F DEL chr2:130897464-130897669 0.21 chr2 130897566 20150..20151 2 81 86 86 20 5 -8.13 44.53 +Sample_1090F DUP chr2:132290437-132290642 0.21 chr2 132290539 20265..20266 2 52 52 52 12 10 6.87 138.40 +Sample_1090F DUP chr2:233272555-233274158 1.60 chr2 233273356 23911..23915 5 10 31 31 10 11 3.35 84.46 +Sample_1090F DEL chr3:195410623-195477983 67.36 chr3 195444303 32796..32803 8 6 99 99 9 7 -3.62 44.69 +Sample_1090F DUP chr5:140180783-140627799 447.02 chr5 140404291 40580..40611 32 8 98 99 6 11 2.41 85.60 +Sample_1090F DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 99 99 99 37 17 8.31 122.64 +Sample_1090F DEL chr7:74306509-74312628 6.12 chr7 74309568 50916..50919 4 3 96 98 4 3 -4.87 32.57 +Sample_1090F DEL chr8:11979496-11986804 7.31 chr8 11983150 55311..55312 2 30 39 39 18 6 -6.25 22.12 +Sample_1090F DUP chr9:117085943-117087432 1.49 chr9 117086687 62580..62583 4 51 72 72 4 50 4.56 71.61 +Sample_1090F DUP chr10:124344787-124353114 8.33 chr10 124348950 70420..70426 7 4 99 99 4 20 4.96 89.98 +Sample_1090F DUP chr10:135267432-135381779 114.35 chr10 135324605 70960..70987 28 32 99 99 26 14 2.98 67.40 +Sample_1090F DUP chr12:87984-149412 61.43 chr12 118698 79925..79932 8 73 99 99 87 21 5.68 75.35 +Sample_1090F DUP chr12:9447028-9453842 6.82 chr12 9450435 81112..81117 6 21 99 99 6 18 4.12 80.98 +Sample_1090F DEL chr12:11506008-11508524 2.52 chr12 11507266 81255..81258 4 14 61 61 50 14 -4.30 16.57 +Sample_1090F DUP chr14:20215587-20404761 189.18 chr14 20310174 90042..90047 6 44 99 99 52 27 7.32 73.84 +Sample_1090F DEL chr15:23299681-23443575 143.90 chr15 23371628 94425..94437 13 56 99 99 21 59 -5.04 15.28 +Sample_1090F DEL chr15:78207740-78212153 4.41 chr15 78209946 98003..98010 8 6 47 47 5 7 -2.82 110.25 +Sample_1090F DEL chr15:102462345-102516807 54.46 chr15 102489576 99266..99269 4 16 99 99 15 94 -6.27 11.99 +Sample_1090F DUP chr16:1280163-1291700 11.54 chr16 1285931 99713..99716 4 50 62 62 7 46 4.41 110.19 +Sample_1090F DEL chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 37 98 99 10 30 -4.71 28.74 +Sample_1090F DUP chr17:18291533-18430160 138.63 chr17 18360846 109352..109365 14 4 98 99 6 6 3.47 58.13 +Sample_1090F DUP chr17:39182281-39406904 224.62 chr17 39294592 111309..111330 22 4 97 99 3 20 2.55 111.29 +Sample_1090F DEL chr19:40373945-40382826 8.88 chr19 40378385 124708..124712 5 9 50 50 17 9 -3.65 13.60 +Sample_1090F DUP chr19:40389652-40406060 16.41 chr19 40397856 124714..124720 7 34 99 99 21 31 3.94 75.45 +Sample_1090F DEL chr19:41355723-41386533 30.81 chr19 41371128 124962..124970 9 14 60 60 10 5 -2.81 19.95 +Sample_1090F DEL chr19:49557532-49558997 1.47 chr19 49558264 126653..126655 3 34 97 99 33 13 -6.30 57.46 +Sample_1090F DEL chr19:50473069-50473627 0.56 chr19 50473348 127082..127083 2 36 36 36 27 19 -6.23 48.29 +Sample_1090F DUP chr19:55344174-55361964 17.79 chr19 55353069 128030..128034 5 23 46 46 9 23 3.56 48.40 +Sample_1090F DUP chr21:14982498-14983070 0.57 chr21 14982784 132983..132983 1 31 31 31 31 27 10.00 92.49 +Sample_1090F DUP chr21:45949681-46020655 70.97 chr21 45985168 134147..134157 11 3 99 99 3 4 2.93 206.61 +Sample_1090F DUP chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 35 99 99 32 34 7.83 126.43 +Sample_1090F DUP chr22:24373117-24384284 11.17 chr22 24378700 135356..135361 6 30 33 33 6 13 3.06 54.09 +Sample_1090F DEL chr22:39378405-39388154 9.75 chr22 39383279 136949..136955 7 20 42 42 24 18 -2.94 18.18 +Sample_1090M DEL chr1:14363-17742 3.38 chr1 16052 1..4 4 31 99 99 0 26 -5.41 29.83 +Sample_1090M DEL chr1:12851546-12976507 124.96 chr1 12914026 1602..1624 23 5 99 99 46 4 -6.61 16.51 +Sample_1090M DUP chr1:16913545-16972173 58.63 chr1 16942859 1952..1966 15 29 99 99 18 30 3.37 147.54 +Sample_1090M DEL chr1:17085561-17256842 171.28 chr1 17171201 1981..1992 12 23 99 99 5 13 -2.98 109.43 +Sample_1090M DUP chr1:144863318-144916749 53.43 chr1 144890033 8350..8374 25 12 99 99 28 5 2.73 67.33 +Sample_1090M DUP chr1:145293371-145326124 32.75 chr1 145309747 8398..8409 12 8 99 99 7 21 4.58 74.60 +Sample_1090M DUP chr1:145365287-145827103 461.82 chr1 145596195 8412..8544 133 19 99 99 21 19 3.31 59.23 +Sample_1090M DUP chr1:161575849-161643019 67.17 chr1 161609434 11056..11062 7 21 99 99 9 18 4.33 67.08 +Sample_1090M DUP chr2:233272977-233274158 1.18 chr2 233273567 23912..23915 4 14 30 30 14 16 3.80 54.74 +Sample_1090M DUP chr7:72469994-72476455 6.46 chr7 72473224 50673..50674 2 73 81 81 16 41 7.73 131.57 +Sample_1090M DEL chr7:102114808-102257205 142.40 chr7 102186006 52449..52456 8 10 99 99 10 11 -3.85 21.76 +Sample_1090M DUP chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 20 73 73 29 20 4.52 85.61 +Sample_1090M DUP chr8:7170368-7752292 581.92 chr8 7461330 55173..55185 13 8 95 99 8 25 3.43 53.49 +Sample_1090M DUP chr8:12039614-12291623 252.01 chr8 12165618 55315..55323 9 11 99 99 6 11 4.33 85.22 +Sample_1090M DEL chr10:46965715-47088319 122.61 chr10 47027017 66734..66741 8 2 36 36 2 4 -2.70 95.25 +Sample_1090M DUP chr10:124340382-124353114 12.73 chr10 124346748 70419..70426 8 27 99 99 3 12 5.85 105.13 +Sample_1090M DUP chr10:135269741-135381779 112.04 chr10 135325760 70961..70987 27 4 99 99 4 0 4.98 94.83 +Sample_1090M DUP chr12:87984-149412 61.43 chr12 118698 79925..79932 8 78 99 99 74 27 4.39 80.39 +Sample_1090M DEL chr12:8376612-8385203 8.59 chr12 8380907 80973..80976 4 24 81 81 3 40 -4.71 62.70 +Sample_1090M DUP chr14:20215587-20404761 189.18 chr14 20310174 90042..90047 6 48 99 99 34 29 7.35 85.62 +Sample_1090M DEL chr15:23299681-23443575 143.90 chr15 23371628 94425..94437 13 18 69 69 10 6 -2.52 28.21 +Sample_1090M DEL chr15:30395935-30665348 269.41 chr15 30530641 94686..94691 6 11 65 65 11 25 -3.61 13.58 +Sample_1090M DEL chr15:75580599-75588146 7.55 chr15 75584372 97824..97829 6 7 88 88 9 6 -3.72 6.16 +Sample_1090M DEL chr15:78207740-78208271 0.53 chr15 78208005 98003..98005 3 34 48 48 11 44 -4.99 163.08 +Sample_1090M DEL chr15:102462345-102516807 54.46 chr15 102489576 99266..99269 4 16 98 99 16 78 -5.09 19.06 +Sample_1090M DEL chr16:109247-111694 2.45 chr16 110470 99280..99287 8 40 71 71 3 23 -3.05 89.06 +Sample_1090M DUP chr16:32888797-32896463 7.67 chr16 32892630 103097..103104 8 3 99 99 4 7 3.62 78.98 +Sample_1090M DUP chr16:55844429-55860207 15.78 chr16 55852318 103455..103463 9 4 46 46 4 5 2.67 57.00 +Sample_1090M DUP chr16:74442531-74447574 5.04 chr16 74445052 105291..105297 7 27 52 52 19 30 3.07 108.46 +Sample_1090M DUP chr17:15635591-15640837 5.25 chr17 15638214 108932..108935 4 23 88 89 19 34 4.93 104.66 +Sample_1090M DEL chr17:16733797-16736147 2.35 chr17 16734972 109047..109050 4 3 36 36 23 3 -3.72 62.74 +Sample_1090M DUP chr17:20355108-20405283 50.18 chr17 20380195 109567..109573 7 8 81 81 13 8 3.42 64.46 +Sample_1090M DUP chr17:60342069-60345600 3.53 chr17 60343834 113673..113676 4 6 33 33 6 13 3.84 108.47 +Sample_1090M DEL chr19:41355723-41386533 30.81 chr19 41371128 124962..124970 9 22 99 99 19 14 -3.21 21.41 +Sample_1090M DEL chr19:55247287-55361964 114.68 chr19 55304625 128016..128034 19 18 99 99 4 22 -2.89 11.33 +Sample_1090M DEL chr21:45970318-46067564 97.25 chr21 46018941 134151..134162 12 7 99 99 28 7 -2.82 249.88 +Sample_1090M DUP chr22:18769652-18778742 9.09 chr22 18774197 134659..134660 2 75 96 97 17 29 8.36 124.30 +Sample_1090M DUP chr22:24342269-24394849 52.58 chr22 24368559 135354..135362 9 5 99 99 4 24 3.90 52.13 +Sample_1090M DUP chrX:149009941-149014609 4.67 chrX 149012275 141607..141609 3 34 76 76 32 34 5.56 103.24 +Sample_1090P DEL chr1:14363-70008 55.65 chr1 42185 1..5 5 5 36 36 0 6 -3.35 13.64 +Sample_1090P DUP chr1:17046459-17086181 39.72 chr1 17066320 1977..1982 6 4 80 80 5 12 3.70 80.59 +Sample_1090P DUP chr1:17256619-17273486 16.87 chr1 17265052 1991..2003 13 13 99 99 13 10 2.98 76.99 +Sample_1090P DUP chr1:25611064-25629950 18.89 chr1 25620507 3041..3045 5 22 46 46 32 20 3.61 43.15 +Sample_1090P DUP chr2:131103591-131117219 13.63 chr2 131110405 20190..20196 7 14 31 31 21 14 2.84 54.02 +Sample_1090P DUP chr3:195690171-195712660 22.49 chr3 195701415 32841..32851 11 11 52 52 14 7 2.52 38.66 +Sample_1090P DEL chr7:74306509-74306965 0.46 chr7 74306737 50916..50917 2 22 30 30 4 5 -5.87 43.31 +Sample_1090P DEL chr9:15909-179075 163.17 chr9 97492 59397..59399 3 6 42 42 41 6 -4.96 0.53 +Sample_1090P DUP chr12:87984-90655 2.67 chr12 89319 79925..79930 6 98 99 99 90 39 6.00 47.47 +Sample_1090P DUP chr12:9447028-9447570 0.54 chr12 9447299 81112..81113 2 24 32 32 26 12 6.10 90.06 +Sample_1090P DUP chr12:11034816-11035297 0.48 chr12 11035056 81234..81235 2 78 98 99 32 25 8.78 105.46 +Sample_1090P DUP chr15:23438825-23444098 5.27 chr15 23441461 94435..94438 4 10 99 99 10 35 5.42 54.59 +Sample_1090P DEL chr15:78207740-78208271 0.53 chr15 78208005 98003..98005 3 9 37 37 3 31 -4.63 87.66 +Sample_1090P DUP chr16:1280163-1291700 11.54 chr16 1285931 99713..99716 4 31 33 33 28 20 3.88 66.00 +Sample_1090P DUP chr16:74401963-74452196 50.23 chr16 74427079 105290..105298 9 11 99 99 8 11 4.86 68.68 +Sample_1090P DUP chr17:18542488-18544666 2.18 chr17 18543577 109373..109374 2 6 30 30 21 5 5.98 101.45 +Sample_1090P DEL chr17:20355108-20358711 3.60 chr17 20356909 109567..109569 3 36 50 50 14 9 -5.03 0.53 +Sample_1090P DUP chr17:39535208-39538636 3.43 chr17 39536922 111348..111353 6 29 99 99 18 33 4.62 53.04 +Sample_1090P DEL chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 22 99 99 13 30 -4.44 24.95 +Sample_1090P DUP chr21:45959068-46012386 53.32 chr21 45985727 134150..134156 7 47 99 99 12 7 5.23 170.24 +Sample_1090P DUP chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 66 99 99 40 35 6.19 72.97 +Sample_1090P DUP chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 81 99 99 23 8 8.04 62.38 +Sample_1090P DEL chr22:21832286-21842312 10.03 chr22 21837299 135114..135119 6 4 90 90 2 18 -3.70 18.53 +Sample_1090P DUP chr22:24347142-24394849 47.71 chr22 24370995 135355..135362 8 3 89 89 14 3 3.23 32.42 +Sample_1090P DUP chr22:24653965-24658575 4.61 chr22 24656270 135428..135430 3 29 42 42 15 4 4.81 116.60 +Sample_1090P DUP chr22:25041713-25045989 4.28 chr22 25043851 135494..135498 5 5 56 56 5 9 3.71 111.94 +Sample_1090P DEL chr22:39378405-39388154 9.75 chr22 39383279 136949..136955 7 66 99 99 36 51 -5.17 0.24 +Sample_1090P DUP chrX:7810303-7811346 1.04 chrX 7810824 138383..138384 2 17 47 47 17 5 6.42 61.01 +Sample_1273F DUP chr1:16385989-16388687 2.70 chr1 16387338 1859..1861 3 43 74 74 15 34 5.67 69.08 +Sample_1273F DUP chr1:16913545-17046652 133.11 chr1 16980098 1952..1977 26 23 99 99 4 22 7.24 150.73 +Sample_1273F DEL chr1:17087450-17263368 175.92 chr1 17175409 1985..1995 11 9 99 99 12 5 -3.22 96.57 +Sample_1273F DUP chr1:161520321-161601158 80.84 chr1 161560739 11052..11060 9 3 99 99 3 22 3.34 53.16 +Sample_1273F DUP chr2:96689057-96690085 1.03 chr2 96689571 18718..18720 3 12 57 57 13 5 5.20 101.92 +Sample_1273F DUP chr2:114341230-114353780 12.55 chr2 114347505 19699..19704 6 35 40 40 33 22 3.19 94.67 +Sample_1273F DEL chr3:48607708-48610489 2.78 chr3 48609098 27148..27160 13 8 44 44 5 6 -2.31 78.41 +Sample_1273F DUP chr3:195706615-195717150 10.54 chr3 195711882 32847..32852 6 5 30 30 8 5 2.96 67.14 +Sample_1273F DEL chr4:190903679-190906024 2.35 chr4 190904851 37228..37231 4 54 98 99 20 54 -6.03 51.81 +Sample_1273F DUP chr5:795720-833922 38.20 chr5 814821 37326..37331 6 8 98 99 37 8 6.70 76.96 +Sample_1273F DEL chr5:140220907-140238166 17.26 chr5 140229536 40585..40587 3 98 99 99 5 10 -9.05 8.97 +Sample_1273F DUP chr7:102180462-102257205 76.74 chr7 102218833 52451..52456 6 13 95 96 22 13 3.87 51.45 +Sample_1273F DEL chr8:7154584-7220490 65.91 chr8 7187537 55172..55178 7 10 46 46 7 10 -2.97 20.15 +Sample_1273F DUP chr10:46963840-47088319 124.48 chr10 47026079 66733..66741 9 6 72 72 2 10 2.89 102.04 +Sample_1273F DUP chr10:124340382-124352111 11.73 chr10 124346246 70419..70425 7 11 99 99 10 26 5.26 92.89 +Sample_1273F DEL chr11:60970984-60978907 7.92 chr11 60974945 74466..74468 3 25 99 99 57 8 -6.59 7.37 +Sample_1273F DEL chr12:147946-149412 1.47 chr12 148679 79931..79932 2 31 60 60 11 48 -6.96 34.04 +Sample_1273F DEL chr12:9436253-9447570 11.32 chr12 9441911 81110..81113 4 25 96 98 25 8 -5.09 39.40 +Sample_1273F DUP chr12:9586691-9600768 14.08 chr12 9593729 81148..81151 4 5 53 53 4 13 4.08 79.86 +Sample_1273F DEL chr12:57345218-57351418 6.20 chr12 57348318 84118..84121 4 26 37 37 5 36 -3.81 23.48 +Sample_1273F DEL chr15:102462345-102516807 54.46 chr15 102489576 99266..99269 4 10 99 99 10 80 -5.40 16.85 +Sample_1273F DEL chr16:1279191-1292554 13.36 chr16 1285872 99711..99717 7 13 74 75 17 1 -3.34 49.59 +Sample_1273F DEL chr16:15122735-15123913 1.18 chr16 15123324 101212..101213 2 43 44 44 10 17 -6.55 77.61 +Sample_1273F DUP chr16:32888797-32896463 7.67 chr16 32892630 103097..103104 8 4 99 99 20 4 4.21 70.80 +Sample_1273F DEL chr16:55806281-55808824 2.54 chr16 55807552 103453..103454 2 45 72 72 3 5 -7.37 0.47 +Sample_1273F DUP chr16:55844839-55867075 22.24 chr16 55855957 103456..103465 10 13 99 99 5 13 4.81 66.02 +Sample_1273F DUP chr16:74385938-74447574 61.64 chr16 74416756 105286..105297 12 43 99 99 33 33 3.37 84.72 +Sample_1273F DEL chr17:39388715-39395255 6.54 chr17 39391985 111327..111329 3 82 99 99 23 8 -8.91 58.45 +Sample_1273F DEL chr19:40368303-40396396 28.09 chr19 40382349 124706..124717 12 4 99 99 21 4 -2.93 33.08 +Sample_1273F DEL chr19:46627143-46627931 0.79 chr19 46627537 126007..126009 3 13 34 34 13 28 -4.56 0.22 +Sample_1273F DEL chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 47 99 99 23 8 -4.73 14.35 +Sample_1273F DUP chr22:42905034-42952594 47.56 chr22 42928814 137453..137461 9 10 99 99 9 13 4.38 71.04 +Sample_1273M DEL chr1:1634915-1639684 4.77 chr1 1637299 370..377 8 5 78 78 5 8 -3.08 19.03 +Sample_1273M DUP chr1:17085561-17086767 1.21 chr1 17086164 1981..1984 4 31 35 35 10 26 3.90 109.38 +Sample_1273M DUP chr1:150522298-150531942 9.64 chr1 150527120 8760..8773 14 7 33 33 8 2 2.19 57.30 +Sample_1273M DEL chr1:248524883-248637608 112.73 chr1 248581245 15083..15087 5 40 65 65 6 15 -3.89 54.89 +Sample_1273M DUP chr2:96689057-96689748 0.69 chr2 96689402 18718..18719 2 32 33 33 6 29 6.10 112.97 +Sample_1273M DEL chr2:233243681-233272727 29.05 chr2 233258204 23897..23911 15 22 47 47 9 19 -2.25 77.02 +Sample_1273M DEL chr2:233321609-233345185 23.58 chr2 233333397 23920..23929 10 2 96 99 5 2 -2.95 85.37 +Sample_1273M DUP chr3:48602216-48609604 7.39 chr3 48605910 27129..27155 27 18 58 58 13 20 1.97 84.94 +Sample_1273M DUP chr3:49712616-49719400 6.79 chr3 49716008 27576..27590 15 5 53 53 4 3 2.25 87.79 +Sample_1273M DUP chr3:49724380-49726196 1.82 chr3 49725288 27608..27613 6 5 77 77 11 2 3.61 171.79 +Sample_1273M DUP chr3:195690171-195717150 26.98 chr3 195703660 32841..32852 12 4 39 39 6 6 2.32 52.75 +Sample_1273M DEL chr4:190903679-190906024 2.35 chr4 190904851 37228..37231 4 41 68 68 10 41 -4.38 56.26 +Sample_1273M DUP chr5:139942248-139943500 1.25 chr5 139942874 40490..40492 3 20 79 79 3 2 5.61 124.34 +Sample_1273M DEL chr5:140165876-140627799 461.92 chr5 140396837 40578..40611 34 2 99 99 4 4 -2.47 56.22 +Sample_1273M DUP chr5:176729129-176730078 0.95 chr5 176729603 42271..42275 5 13 57 57 12 2 3.72 76.82 +Sample_1273M DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 52 99 99 23 32 4.80 104.37 +Sample_1273M DUP chr7:102119255-102257205 137.95 chr7 102188230 52450..52456 7 6 68 68 5 23 3.26 53.51 +Sample_1273M DUP chr7:128035185-128049538 14.35 chr7 128042361 53115..53124 10 13 53 53 11 19 2.60 68.19 +Sample_1273M DEL chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 25 99 99 5 21 -6.36 10.69 +Sample_1273M DEL chr8:11979496-12008698 29.20 chr8 11994097 55311..55314 4 13 56 56 18 14 -4.25 17.16 +Sample_1273M DUP chr8:144635557-144663324 27.77 chr8 144649440 58819..58856 38 5 99 99 5 4 2.49 70.65 +Sample_1273M DUP chr8:145540996-145542583 1.59 chr8 145541789 59141..59150 10 4 41 41 2 12 2.51 127.55 +Sample_1273M DUP chr10:99123611-99153517 29.91 chr10 99138564 68811..68837 27 13 99 99 16 5 2.16 71.23 +Sample_1273M DUP chr10:135080856-135094940 14.09 chr10 135087898 70878..70898 21 3 76 76 16 2 2.14 68.59 +Sample_1273M DEL chr10:135368855-135439108 70.25 chr10 135403981 70976..70988 13 22 72 73 19 6 -2.52 59.02 +Sample_1273M DUP chr11:64010923-64024236 13.31 chr11 64017579 75183..75198 16 10 56 56 5 7 2.24 69.71 +Sample_1273M DUP chr11:64557361-64569955 12.60 chr11 64563658 75382..75408 27 6 99 99 3 6 2.17 95.68 +Sample_1273M DUP chr11:65338357-65392052 53.70 chr11 65365204 75742..75786 45 2 99 99 4 2 2.41 70.13 +Sample_1273M DUP chr11:65629682-65635527 5.85 chr11 65632604 75872..75884 13 5 64 64 2 12 2.43 86.78 +Sample_1273M DUP chr11:67044743-67068869 24.13 chr11 67056806 76300..76330 31 6 99 99 13 2 2.39 70.21 +Sample_1273M DUP chr14:24606194-24630547 24.35 chr14 24618370 90800..90847 48 7 99 99 20 6 1.90 61.42 +Sample_1273M DUP chr16:2012335-2027427 15.09 chr16 2019881 100001..100031 31 12 82 82 9 12 1.98 75.82 +Sample_1273M DUP chr16:3072626-3077074 4.45 chr16 3074850 100435..100448 14 8 99 99 6 15 2.70 110.30 +Sample_1273M DEL chr16:28607104-28619709 12.61 chr16 28613406 102275..102280 6 47 72 72 3 9 -3.55 46.17 +Sample_1273M DEL chr16:70207928-70220796 12.87 chr16 70214362 104896..104898 3 22 42 42 0 18 -4.80 11.51 +Sample_1273M DUP chr16:74442531-74452196 9.67 chr16 74447363 105291..105298 8 31 99 99 10 26 3.90 92.02 +Sample_1273M DUP chr17:4618308-4623594 5.29 chr17 4620951 107149..107159 11 16 39 39 12 9 2.44 56.70 +Sample_1273M DUP chr17:7734979-7754712 19.73 chr17 7744845 108065..108084 20 2 76 76 5 3 2.17 64.91 +Sample_1273M DUP chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 41 99 99 6 40 3.56 67.40 +Sample_1273M DEL chr17:18380099-18430160 50.06 chr17 18405129 109355..109365 11 29 99 99 29 20 -5.04 12.50 +Sample_1273M DEL chr17:39155446-39412615 257.17 chr17 39284030 111307..111332 26 3 99 99 2 20 -4.41 67.46 +Sample_1273M DUP chr17:76121239-76134269 13.03 chr17 76127754 115331..115346 16 4 98 99 7 2 2.45 86.77 +Sample_1273M DUP chr17:79988195-79994639 6.45 chr17 79991417 116101..116111 11 5 99 99 5 13 2.94 85.16 +Sample_1273M DUP chr19:1073505-1079839 6.33 chr19 1076672 118425..118432 8 6 48 48 7 3 2.82 92.36 +Sample_1273M DUP chr19:1105657-1106458 0.80 chr19 1106057 118454..118456 3 10 56 56 4 7 5.15 83.26 +Sample_1273M DUP chr19:2097928-2099028 1.10 chr19 2098478 118741..118746 6 18 79 79 6 10 3.65 121.19 +Sample_1273M DUP chr19:6732998-6736722 3.73 chr19 6734860 119828..119835 8 21 47 47 11 3 2.82 68.37 +Sample_1273M DUP chr19:11460330-11470396 10.07 chr19 11465363 121086..121097 12 8 99 99 7 4 2.85 68.54 +Sample_1273M DUP chr19:13947101-13985622 38.52 chr19 13966361 121625..121628 4 7 99 99 5 6 5.30 138.15 +Sample_1273M DUP chr19:36230152-36237424 7.27 chr19 36233788 123763..123776 14 3 69 69 8 4 2.40 63.93 +Sample_1273M DEL chr19:40363864-40382826 18.96 chr19 40373345 124704..124712 9 2 99 99 2 6 -3.37 28.24 +Sample_1273M DUP chr19:43528843-43708403 179.56 chr19 43618623 125395..125407 13 31 99 99 13 3 3.23 59.16 +Sample_1273M DUP chr19:50364706-50387002 22.30 chr19 50375854 127018..127048 31 4 82 82 6 15 1.97 60.66 +Sample_1273M DEL chr19:55247287-55266508 19.22 chr19 55256897 128016..128021 6 11 96 97 11 6 -3.91 2.44 +Sample_1273M DUP chr19:59058743-59081894 23.15 chr19 59070318 128700..128731 32 17 90 91 5 4 1.98 69.01 +Sample_1273M DEL chr20:23966304-23969416 3.11 chr20 23967860 129830..129835 6 3 40 40 11 3 -3.05 111.82 +Sample_1273M DEL chr21:45959068-46117959 158.89 chr21 46038513 134150..134167 18 38 99 99 16 4 -4.01 175.71 +Sample_1273M DEL chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 15 49 49 14 26 -4.87 36.90 +Sample_1273M DEL chr22:25041133-25055114 13.98 chr22 25048123 135493..135500 8 7 99 99 6 19 -5.50 71.01 +Sample_1273M DUP chr22:50956006-50969724 13.72 chr22 50962865 138213..138241 29 32 99 99 13 16 2.51 79.34 +Sample_1273M DUP chrX:140786599-140786655 0.06 chrX 140786627 141532..141532 1 30 30 30 30 29 10.00 127.53 +Sample_1273P DUP chr1:16918342-17046652 128.31 chr1 16982497 1955..1977 23 5 94 99 8 8 3.23 49.04 +Sample_1273P DEL chr1:17086647-17090975 4.33 chr1 17088811 1984..1986 3 26 34 34 25 12 -4.47 35.16 +Sample_1273P DUP chr1:17256341-17256842 0.50 chr1 17256591 1990..1992 3 18 37 37 5 5 4.65 59.65 +Sample_1273P DUP chr1:155184845-155197325 12.48 chr1 155191085 9807..9817 11 52 99 99 6 12 7.30 48.46 +Sample_1273P DEL chr3:48613833-48614204 0.37 chr3 48614018 27175..27177 3 15 30 30 18 4 -4.49 28.77 +Sample_1273P DUP chr5:795720-825366 29.65 chr5 810543 37326..37330 5 22 42 42 22 13 3.54 30.06 +Sample_1273P DUP chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 7 30 30 11 7 3.67 28.66 +Sample_1273P DEL chr8:7154584-7220490 65.91 chr8 7187537 55172..55178 7 15 99 99 6 5 -4.33 2.48 +Sample_1273P DEL chr11:64564281-64565006 0.73 chr11 64564643 75391..75395 5 13 40 40 11 13 -3.51 36.96 +Sample_1273P DUP chr12:8376612-8391345 14.73 chr12 8383978 80973..80977 5 30 71 71 13 9 3.96 42.00 +Sample_1273P DUP chr14:74009754-74040294 30.54 chr14 74025024 92463..92466 4 7 81 81 21 5 4.78 25.39 +Sample_1273P DEL chr15:23299915-23444098 144.18 chr15 23372006 94426..94438 13 2 89 89 2 48 -2.59 9.61 +Sample_1273P DUP chr17:18380099-18398258 18.16 chr17 18389178 109355..109362 8 25 98 99 15 5 3.39 24.93 +Sample_1273P DEL chr17:39196811-39395255 198.44 chr17 39296033 111311..111329 19 17 99 99 15 15 -3.24 25.59 +Sample_1273P DEL chr21:46020671-46067564 46.89 chr21 46044117 134158..134162 5 21 54 54 3 18 -3.69 56.82 +Sample_1273P DEL chr22:24347142-24394849 47.71 chr22 24370995 135355..135362 8 3 50 50 5 3 -2.85 0.10 +Sample_1273P DEL chr22:42522502-42526883 4.38 chr22 42524692 137422..137430 9 9 99 99 16 9 -4.66 12.90 +Sample_1273P DEL chr22:50017826-50018329 0.50 chr22 50018077 137887..137888 2 23 42 42 42 6 -6.47 73.97 +Sample_1273P DUP chrX:152481522-152486116 4.59 chrX 152483819 141748..141750 3 38 51 51 34 31 4.93 27.31 +Sample_1295F DEL chr1:17249158-17264978 15.82 chr1 17257068 1988..1997 10 4 99 99 9 6 -3.45 67.90 +Sample_1295F DUP chr1:152184558-152196669 12.11 chr1 152190613 9162..9164 3 25 38 38 22 20 4.58 68.89 +Sample_1295F DEL chr2:114346127-114356605 10.48 chr2 114351366 19700..19707 8 15 99 99 54 4 -3.69 41.30 +Sample_1295F DUP chr3:2942369-3221390 279.02 chr3 3081879 24769..24788 20 5 39 39 3 7 2.07 28.03 +Sample_1295F DEL chr3:48613833-48619192 5.36 chr3 48616512 27175..27196 22 26 99 99 8 3 -2.44 62.25 +Sample_1295F DEL chr3:195451098-195475935 24.84 chr3 195463516 32798..32802 5 15 70 70 15 13 -3.98 34.15 +Sample_1295F DUP chr5:140552243-140560019 7.78 chr5 140556131 40600..40601 2 73 87 88 29 26 8.25 114.37 +Sample_1295F DEL chr8:12245467-12250923 5.46 chr8 12248195 55318..55320 3 29 33 33 7 0 -4.51 20.76 +Sample_1295F DUP chr8:12286142-12287960 1.82 chr8 12287051 55321..55322 2 33 33 33 0 6 6.12 78.85 +Sample_1295F DUP chr10:27225666-27230930 5.26 chr10 27228298 66314..66315 2 99 99 99 24 20 10.00 172.03 +Sample_1295F DUP chr10:46965715-47000567 34.85 chr10 46983141 66734..66739 6 4 65 65 3 3 3.38 103.80 +Sample_1295F DUP chr10:47667455-47756732 89.28 chr10 47712093 66750..66767 18 3 99 99 2 34 2.79 54.79 +Sample_1295F DUP chr10:135267432-135439108 171.68 chr10 135353270 70960..70988 29 5 99 99 23 5 3.28 59.22 +Sample_1295F DEL chr11:64564106-64564852 0.75 chr11 64564479 75390..75394 5 31 64 64 7 19 -3.86 87.49 +Sample_1295F DEL chr12:11506008-11508524 2.52 chr12 11507266 81255..81258 4 5 94 95 4 5 -4.88 8.49 +Sample_1295F DUP chr15:21932514-22414393 481.88 chr15 22173453 94355..94366 12 22 99 99 31 20 3.52 53.37 +Sample_1295F DEL chr15:78206559-78212648 6.09 chr15 78209603 98002..98012 11 6 99 99 6 5 -3.23 79.14 +Sample_1295F DEL chr15:102513423-102516807 3.38 chr15 102515115 99267..99269 3 42 58 58 38 44 -5.08 21.16 +Sample_1295F DUP chr16:18532087-18604038 71.95 chr16 18568062 101380..101392 13 22 77 77 22 32 2.51 45.45 +Sample_1295F DUP chr16:69988237-69996970 8.73 chr16 69992603 104858..104859 2 13 37 37 10 9 6.28 79.73 +Sample_1295F DEL chr19:50473069-50473627 0.56 chr19 50473348 127082..127083 2 57 80 80 28 32 -7.93 25.38 +Sample_1295F DEL chr19:54724398-54726002 1.60 chr19 54725200 127862..127864 3 13 48 48 48 13 -5.01 3.33 +Sample_1295F DUP chr22:24347142-24384284 37.14 chr22 24365713 135355..135361 7 35 99 99 18 7 3.82 45.62 +Sample_1295F DEL chr22:25044300-25055114 10.81 chr22 25049707 135496..135500 5 4 99 99 53 4 -5.14 73.01 +Sample_1295F DEL chr22:39378405-39388154 9.75 chr22 39383279 136949..136955 7 21 47 47 24 16 -3.00 13.97 +Sample_1295F DEL chr22:42538480-42538881 0.40 chr22 42538680 137436..137437 2 37 38 38 14 36 -6.34 90.52 +Sample_1295M DEL chr1:12907236-12946025 38.79 chr1 12926630 1610..1620 11 51 99 99 21 20 -5.29 34.24 +Sample_1295M DUP chr1:16952270-17090975 138.71 chr1 17021622 1964..1986 23 30 99 99 22 0 3.59 125.55 +Sample_1295M DEL chr1:17248445-17275421 26.98 chr1 17261933 1987..2005 19 21 99 99 0 17 -4.95 55.23 +Sample_1295M DUP chr2:233271552-233274158 2.61 chr2 233272855 23907..23915 9 18 45 45 11 17 2.69 82.89 +Sample_1295M DEL chr3:48607567-48609971 2.40 chr3 48608769 27147..27157 11 29 91 92 7 28 -2.81 84.37 +Sample_1295M DEL chr3:195390957-195475935 84.98 chr3 195433446 32790..32802 13 3 98 99 3 9 -4.00 34.91 +Sample_1295M DEL chr5:140213969-140223351 9.38 chr5 140218660 40584..40585 2 44 44 44 33 23 -6.57 54.45 +Sample_1295M DEL chr7:74306509-74312628 6.12 chr7 74309568 50916..50919 4 5 99 99 10 5 -5.46 39.78 +Sample_1295M DEL chr7:143955790-144070377 114.59 chr7 144013083 54231..54236 6 9 38 38 15 8 -3.21 26.21 +Sample_1295M DUP chr8:12245467-12286407 40.94 chr8 12265937 55318..55321 4 21 47 47 15 14 4.17 78.01 +Sample_1295M DUP chr11:18955361-18956549 1.19 chr11 18955955 72915..72915 1 30 30 30 22 26 10.00 114.41 +Sample_1295M DUP chr12:87984-149412 61.43 chr12 118698 79925..79932 8 28 99 99 28 32 4.21 68.37 +Sample_1295M DUP chr15:21134198-21134625 0.43 chr15 21134411 94353..94354 2 75 99 99 6 15 8.59 77.02 +Sample_1295M DEL chr15:78206559-78208271 1.71 chr15 78207415 98002..98005 4 6 98 99 6 14 -5.18 112.97 +Sample_1295M DUP chr15:83013569-83015609 2.04 chr15 83014589 98300..98301 2 34 37 37 21 34 6.03 47.84 +Sample_1295M DEL chr16:1280163-1292554 12.39 chr16 1286358 99713..99717 5 12 57 57 15 12 -3.73 56.92 +Sample_1295M DEL chr16:21529232-21823932 294.70 chr16 21676582 101748..101776 29 2 99 99 12 3 -3.02 22.03 +Sample_1295M DUP chr16:28616918-28621357 4.44 chr16 28619137 102277..102282 6 18 99 99 7 10 5.70 93.54 +Sample_1295M DEL chr16:70182367-70220796 38.43 chr16 70201581 104893..104898 6 4 69 69 4 28 -3.48 26.24 +Sample_1295M DEL chr16:74443448-74447574 4.13 chr16 74445511 105292..105297 6 5 98 99 3 8 -4.04 65.81 +Sample_1295M DEL chr17:27902648-27903149 0.50 chr17 27902898 110084..110086 3 29 34 34 11 6 -4.62 87.96 +Sample_1295M DUP chr19:40373945-40382826 8.88 chr19 40378385 124708..124712 5 34 99 99 29 24 6.55 70.83 +Sample_1295M DEL chr19:40389652-40398510 8.86 chr19 40394081 124714..124718 5 31 99 99 24 31 -5.20 18.59 +Sample_1295M DUP chr21:10910307-10990920 80.61 chr21 10950613 132955..132974 20 3 99 99 7 3 2.83 53.58 +Sample_1295M DEL chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 23 73 73 18 12 -5.47 39.20 +Sample_1295M DEL chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 28 81 81 10 16 -3.34 17.35 +Sample_1295M DUP chr22:42537544-42538881 1.34 chr22 42538212 137434..137437 4 30 99 99 5 5 5.80 138.62 +Sample_1295P DUP chr1:12853352-12907262 53.91 chr1 12880307 1603..1610 8 5 38 38 5 6 2.75 73.70 +Sample_1295P DUP chr1:16907915-17085663 177.75 chr1 16996789 1950..1981 32 14 99 99 10 22 3.71 103.22 +Sample_1295P DEL chr2:114346127-114356605 10.48 chr2 114351366 19700..19707 8 6 99 99 0 5 -3.62 40.18 +Sample_1295P DUP chr3:2942369-3221390 279.02 chr3 3081879 24769..24788 20 12 86 86 4 36 2.25 29.86 +Sample_1295P DEL chr3:48610749-48612298 1.55 chr3 48611523 27162..27169 8 14 37 37 4 9 -2.72 90.94 +Sample_1295P DEL chr3:195451098-195475935 24.84 chr3 195463516 32798..32802 5 8 86 87 8 21 -4.23 33.65 +Sample_1295P DUP chr5:70307102-70388897 81.80 chr5 70347999 38767..38769 3 23 43 43 23 42 4.81 38.27 +Sample_1295P DUP chr5:140552243-140596993 44.75 chr5 140574618 40600..40607 8 4 93 95 4 2 3.24 72.08 +Sample_1295P DUP chr6:292101-348841 56.74 chr6 320471 42798..42804 7 13 52 52 17 4 3.09 58.88 +Sample_1295P DUP chr6:35748831-35765102 16.27 chr6 35756966 44051..44056 6 5 99 99 5 24 5.28 86.21 +Sample_1295P DEL chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 26 99 99 25 24 -5.35 11.88 +Sample_1295P DUP chr10:27225666-27230930 5.26 chr10 27228298 66314..66315 2 36 60 60 10 24 6.93 131.03 +Sample_1295P DUP chr10:46965715-47747132 781.42 chr10 47356423 66734..66765 32 3 99 99 3 20 2.53 61.23 +Sample_1295P DUP chr10:135267432-135439108 171.68 chr10 135353270 70960..70988 29 35 99 99 19 10 3.25 58.67 +Sample_1295P DUP chr11:71502785-71512276 9.49 chr11 71507530 76832..76835 4 22 99 99 31 23 5.09 123.03 +Sample_1295P DUP chr12:8376612-8385203 8.59 chr12 8380907 80973..80976 4 12 83 83 10 26 4.79 80.92 +Sample_1295P DEL chr15:20743914-20776177 32.26 chr15 20760045 94345..94349 5 37 47 47 37 45 -3.64 10.05 +Sample_1295P DUP chr15:23299681-23300167 0.49 chr15 23299924 94425..94426 2 21 30 30 26 19 5.97 124.12 +Sample_1295P DUP chr15:75557658-75581824 24.17 chr15 75569741 97821..97825 5 9 73 73 6 23 4.00 44.45 +Sample_1295P DEL chr15:78207740-78208271 0.53 chr15 78208005 98003..98005 3 39 75 75 23 39 -5.69 107.83 +Sample_1295P DEL chr15:78212562-78213784 1.22 chr15 78213173 98012..98013 2 16 35 35 35 10 -6.23 51.34 +Sample_1295P DEL chr16:1278337-1291700 13.36 chr16 1285018 99710..99716 7 20 98 99 18 29 -3.68 33.82 +Sample_1295P DUP chr16:18532087-18604038 71.95 chr16 18568062 101380..101392 13 21 99 99 57 21 2.96 48.60 +Sample_1295P DUP chr16:28608318-28621357 13.04 chr16 28614837 102276..102282 7 5 59 59 7 9 3.12 61.84 +Sample_1295P DUP chr16:32162610-32890852 728.24 chr16 32526731 103095..103100 6 6 52 52 6 7 3.89 67.00 +Sample_1295P DUP chr16:69984810-69997887 13.08 chr16 69991348 104856..104860 5 23 42 42 22 17 3.51 57.88 +Sample_1295P DUP chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 54 98 99 20 36 5.31 69.04 +Sample_1295P DEL chr17:18380099-18430160 50.06 chr17 18405129 109355..109365 11 34 98 99 6 26 -5.12 11.81 +Sample_1295P DUP chr17:18528417-18544666 16.25 chr17 18536541 109368..109374 7 2 37 37 5 4 2.88 75.54 +Sample_1295P DEL chr19:54724398-54725251 0.85 chr19 54724824 127862..127863 2 29 52 52 51 4 -6.83 0.41 +Sample_1295P DUP chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 17 43 43 10 30 3.51 67.78 +Sample_1295P DUP chr19:55247287-55315381 68.09 chr19 55281334 128016..128025 10 3 70 70 4 19 2.76 33.79 +Sample_1295P DUP chr21:45953568-46022083 68.52 chr21 45987825 134149..134158 10 3 99 99 3 4 3.29 179.86 +Sample_1295P DEL chr22:20385726-20398336 12.61 chr22 20392031 134920..134925 6 18 99 99 12 10 -4.10 11.95 +Sample_1295P DUP chr22:22981593-22989508 7.92 chr22 22985550 135217..135221 5 10 71 71 32 7 3.97 103.05 +Sample_1295P DUP chr22:23651611-23654023 2.41 chr22 23652817 135259..135261 3 7 30 30 7 19 4.53 125.64 +Sample_1295P DUP chr22:24347142-24384284 37.14 chr22 24365713 135355..135361 7 8 99 99 8 3 3.63 43.42 +Sample_1295P DUP chr22:24656876-24658575 1.70 chr22 24657725 135429..135430 2 40 40 40 29 14 6.43 172.54 +Sample_1326F DEL chr1:17084437-17086181 1.75 chr1 17085309 1979..1982 4 10 31 31 19 8 -3.81 56.62 +Sample_1326F DEL chr1:17250820-17275421 24.60 chr1 17263120 1989..2005 17 6 99 99 6 9 -2.66 39.83 +Sample_1326F DEL chr1:148930405-148933368 2.96 chr1 148931886 8608..8610 3 26 50 50 18 19 -4.88 46.58 +Sample_1326F DUP chr1:155184845-155206260 21.42 chr1 155195552 9807..9821 15 2 99 99 3 3 2.99 49.85 +Sample_1326F DUP chr2:220072978-220073208 0.23 chr2 220073093 23181..23182 2 33 56 56 14 3 6.95 99.19 +Sample_1326F DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 19 64 64 23 15 -3.86 29.60 +Sample_1326F DUP chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 5 65 65 44 5 4.33 37.37 +Sample_1326F DUP chr8:144894987-144895896 0.91 chr8 144895441 58934..58938 5 13 99 99 7 13 5.29 83.98 +Sample_1326F DUP chr16:28607104-28608391 1.29 chr16 28607747 102275..102276 2 31 32 32 18 21 6.06 60.36 +Sample_1326F DUP chr16:55853447-55857595 4.15 chr16 55855521 103459..103462 4 12 40 40 5 10 3.96 42.15 +Sample_1326F DUP chr17:18392255-18398258 6.00 chr17 18395256 109358..109362 5 5 70 70 18 2 3.85 36.37 +Sample_1326F DUP chr17:48266738-48273560 6.82 chr17 48270149 112932..112956 25 3 52 52 4 6 1.98 54.58 +Sample_1326F DUP chr17:76128422-76129623 1.20 chr17 76129022 115337..115340 4 19 66 66 16 18 4.49 83.53 +Sample_1326F DUP chr19:13220364-13223825 3.46 chr19 13222094 121528..121533 6 13 48 48 7 4 3.25 49.27 +Sample_1326F DUP chr19:39911391-39911753 0.36 chr19 39911572 124597..124599 3 6 33 33 6 29 4.60 90.23 +Sample_1326F DEL chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 34 43 43 42 12 -4.71 22.67 +Sample_1326F DEL chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 22 87 87 20 15 -3.41 6.92 +Sample_1326F DEL chr22:25041133-25045989 4.86 chr22 25043561 135493..135498 6 8 99 99 5 34 -4.66 47.71 +Sample_1326F DUP chr22:50960170-50960998 0.83 chr22 50960584 138221..138225 5 20 49 49 5 6 3.60 76.51 +Sample_1327M DEL chr1:16939833-17264232 324.40 chr1 17102032 1961..1996 36 4 99 99 4 6 -2.92 39.37 +Sample_1327M DEL chr1:25611064-25633220 22.16 chr1 25622142 3041..3046 6 28 99 99 10 11 -5.08 0.38 +Sample_1327M DUP chr1:36773371-36773564 0.19 chr1 36773467 4352..4353 2 33 39 39 34 29 6.38 112.65 +Sample_1327M DEL chr2:114346127-114358421 12.29 chr2 114352274 19700..19708 9 17 99 99 3 14 -3.73 23.77 +Sample_1327M DUP chr3:49849303-49849639 0.34 chr3 49849471 27701..27702 2 10 34 34 17 10 6.17 106.16 +Sample_1327M DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 36 68 68 16 7 -3.91 29.84 +Sample_1327M DUP chr9:117085943-117087432 1.49 chr9 117086687 62580..62583 4 7 60 60 3 11 4.29 35.72 +Sample_1327M DUP chr12:9447028-9458719 11.69 chr12 9452873 81112..81123 12 18 99 99 4 3 3.15 32.02 +Sample_1327M DUP chr14:24526376-24528398 2.02 chr14 24527387 90728..90734 7 5 34 34 17 5 2.87 65.17 +Sample_1327M DEL chr15:23308564-23444098 135.53 chr15 23376331 94427..94438 12 4 58 58 4 25 -2.47 4.16 +Sample_1327M DUP chr15:72957937-72958469 0.53 chr15 72958203 97498..97500 3 10 63 63 8 21 5.38 58.14 +Sample_1327M DUP chr16:3076680-3077074 0.40 chr16 3076877 100446..100448 3 15 32 32 4 23 4.54 119.17 +Sample_1327M DUP chr16:28616918-28621357 4.44 chr16 28619137 102277..102282 6 7 81 81 6 19 3.66 43.26 +Sample_1327M DUP chr16:72097125-72111144 14.02 chr16 72104134 105210..105213 4 55 99 99 18 16 7.89 41.23 +Sample_1327M DEL chr16:74442531-74443539 1.01 chr16 74443035 105291..105292 2 40 42 42 4 15 -6.43 27.15 +Sample_1327M DEL chr17:14139175-14140150 0.98 chr17 14139662 108886..108888 3 20 81 81 13 19 -5.69 26.98 +Sample_1327M DUP chr17:39240459-39324424 83.97 chr17 39282441 111315..111322 8 18 77 77 25 16 3.15 72.54 +Sample_1327M DUP chr19:40373945-40382826 8.88 chr19 40378385 124708..124712 5 27 93 94 32 20 4.35 31.05 +Sample_1327M DEL chr19:40389652-40406060 16.41 chr19 40397856 124714..124720 7 16 99 99 18 6 -4.05 9.31 +Sample_1327M DEL chr22:24340596-24394849 54.25 chr22 24367722 135353..135362 10 3 99 99 6 4 -3.39 2.12 +Sample_1327M DUP chr22:25044300-25045989 1.69 chr22 25045144 135496..135498 3 7 63 63 7 27 5.36 97.06 +Sample_1327M DUP chr22:40805254-40805529 0.28 chr22 40805391 137136..137137 2 36 40 40 33 28 6.44 90.37 +Sample_1327M DEL chr22:42522853-42538640 15.79 chr22 42530746 137423..137436 14 3 45 45 3 11 -2.27 31.73 +Sample_1327P DEL chr1:14363-17742 3.38 chr1 16052 1..4 4 12 38 38 0 12 -3.85 10.97 +Sample_1327P DUP chr1:1289228-1289612 0.39 chr1 1289420 259..261 3 20 33 33 26 18 4.62 54.17 +Sample_1327P DEL chr1:17017713-17046652 28.94 chr1 17032182 1969..1977 9 26 99 99 2 16 -4.29 16.20 +Sample_1327P DUP chr1:17084437-17087597 3.16 chr1 17086017 1979..1985 7 37 99 99 16 23 3.71 70.08 +Sample_1327P DEL chr1:17256341-17273486 17.15 chr1 17264913 1990..2003 14 10 99 99 13 2 -2.73 39.76 +Sample_1327P DUP chr1:45798063-45798631 0.57 chr1 45798347 5460..5463 4 11 70 70 11 25 4.56 81.17 +Sample_1327P DUP chr3:48610454-48612154 1.70 chr3 48611304 27160..27168 9 11 99 99 5 9 3.40 73.23 +Sample_1327P DUP chr3:48619756-48620604 0.85 chr3 48620180 27198..27202 5 15 63 63 11 13 3.85 69.81 +Sample_1327P DUP chr7:127251999-127254611 2.61 chr7 127253305 53056..53060 5 15 31 31 15 30 3.38 45.05 +Sample_1327P DEL chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 21 99 99 20 21 -5.56 2.99 +Sample_1327P DUP chr8:12245467-12286407 40.94 chr8 12265937 55318..55321 4 30 91 92 6 17 5.03 34.69 +Sample_1327P DUP chr9:116152685-116153903 1.22 chr9 116153294 62434..62437 4 11 43 43 12 4 4.00 57.13 +Sample_1327P DUP chr10:124345576-124353114 7.54 chr10 124349345 70421..70426 6 38 99 99 7 30 3.97 43.86 +Sample_1327P DEL chr15:22145703-22414393 268.69 chr15 22280048 94359..94366 8 5 34 34 17 5 -2.79 13.81 +Sample_1327P DEL chr16:2201570-2203046 1.48 chr16 2202308 100155..100159 5 14 31 31 14 13 -3.36 37.20 +Sample_1327P DUP chr16:28608318-28621357 13.04 chr16 28614837 102276..102282 7 4 85 99 6 7 4.02 39.03 +Sample_1327P DEL chr16:70162687-70177561 14.88 chr16 70170124 104882..104891 10 3 37 37 3 5 -2.48 9.74 +Sample_1327P DUP chr16:70714697-70714928 0.23 chr16 70714812 105025..105026 2 33 34 34 25 24 6.13 55.06 +Sample_1327P DEL chr16:74394531-74447574 53.04 chr16 74421052 105289..105297 9 13 99 99 13 10 -3.47 25.02 +Sample_1327P DEL chr17:16703265-16736147 32.88 chr17 16719706 109045..109050 6 10 98 99 8 40 -4.67 12.42 +Sample_1327P DUP chr17:18380099-18398258 18.16 chr17 18389178 109355..109362 8 13 79 79 13 2 3.09 30.99 +Sample_1327P DUP chr17:39315908-39395255 79.35 chr17 39355581 111321..111329 9 13 97 99 4 3 3.14 57.17 +Sample_1327P DUP chr19:39098504-39100314 1.81 chr19 39099409 124344..124347 4 17 38 38 16 26 3.95 51.54 +Sample_1327P DEL chr19:50462617-50464192 1.58 chr19 50463404 127078..127080 3 3 73 73 3 6 -5.54 12.03 +Sample_1327P DUP chr19:50473069-50473627 0.56 chr19 50473348 127082..127083 2 99 99 99 6 18 10.00 79.75 +Sample_1327P DUP chr22:25045692-25045989 0.30 chr22 25045840 135497..135498 2 30 30 30 7 7 5.94 87.63 +Sample_1327P DUP chr22:42537544-42539582 2.04 chr22 42538563 137434..137438 5 8 91 99 1 11 5.62 56.80 +Sample_1350F DUP chr1:14363-70008 55.65 chr1 42185 1..5 5 20 60 60 0 31 3.74 61.44 +Sample_1350F DEL chr1:12851546-12917002 65.46 chr1 12884274 1602..1613 12 17 99 99 43 16 -3.30 40.65 +Sample_1350F DUP chr1:16921087-16976914 55.83 chr1 16949000 1958..1968 11 11 99 99 6 37 3.62 155.19 +Sample_1350F DUP chr1:17085298-17090975 5.68 chr1 17088136 1980..1986 7 34 99 99 14 43 3.95 148.34 +Sample_1350F DEL chr1:25598981-25633220 34.24 chr1 25616100 3040..3046 7 8 99 99 7 16 -5.73 1.77 +Sample_1350F DUP chr2:233244474-233246077 1.60 chr2 233245275 23900..23904 5 17 99 99 16 9 4.50 128.74 +Sample_1350F DEL chr2:233272977-233321783 48.81 chr2 233297380 23912..23920 9 3 66 66 6 3 -2.86 37.62 +Sample_1350F DEL chr3:195390495-195475935 85.44 chr3 195433215 32789..32802 14 12 98 99 12 22 -2.72 39.37 +Sample_1350F DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 17 56 56 15 8 -3.72 59.48 +Sample_1350F DEL chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 27 99 99 18 27 -5.99 12.07 +Sample_1350F DUP chr7:143883677-144070377 186.70 chr7 143977027 54230..54236 7 23 99 99 19 31 5.67 70.11 +Sample_1350F DEL chr8:7320229-8090396 770.17 chr8 7705312 55182..55187 6 8 99 99 7 5 -4.84 29.80 +Sample_1350F DEL chr8:11979496-12287960 308.46 chr8 12133728 55311..55322 12 13 99 99 13 17 -4.50 26.52 +Sample_1350F DUP chr10:124344787-124353114 8.33 chr10 124348950 70420..70426 7 7 99 99 9 11 4.11 86.02 +Sample_1350F DEL chr12:87984-90655 2.67 chr12 89319 79925..79930 6 41 72 72 43 3 -3.48 19.59 +Sample_1350F DUP chr16:1279191-1290729 11.54 chr16 1284960 99711..99714 4 5 42 42 23 5 4.02 73.09 +Sample_1350F DUP chr17:39382900-39389705 6.81 chr17 39386302 111326..111328 3 18 42 42 18 2 4.74 130.64 +Sample_1350F DUP chr19:40373945-40382826 8.88 chr19 40378385 124708..124712 5 12 75 75 12 22 4.05 52.17 +Sample_1350F DEL chr19:40389652-40398510 8.86 chr19 40394081 124714..124718 5 20 37 37 20 17 -3.46 43.77 +Sample_1350F DEL chr19:41355723-41387656 31.93 chr19 41371689 124962..124971 10 5 99 99 15 6 -3.55 16.80 +Sample_1350F DUP chr19:50462617-50464192 1.58 chr19 50463404 127078..127080 3 7 45 45 7 23 4.92 95.56 +Sample_1350F DUP chr19:55247287-55267601 20.32 chr19 55257444 128016..128022 7 14 99 99 16 3 3.77 42.89 +Sample_1350F DUP chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 42 99 99 16 17 5.77 68.36 +Sample_1350F DEL chr22:21828886-21842312 13.43 chr22 21835599 135112..135119 8 48 99 99 23 34 -3.93 28.84 +Sample_1350F DUP chr22:42905034-42914153 9.12 chr22 42909593 137453..137459 7 34 99 99 8 9 5.26 73.67 +Sample_1350F DEL chr22:42956192-42972615 16.42 chr22 42964403 137462..137469 8 4 59 99 4 30 -4.25 24.36 +Sample_1350M DUP chr1:14363-70008 55.65 chr1 42185 1..5 5 3 34 34 0 4 3.29 72.83 +Sample_1350M DUP chr1:16918342-16976914 58.57 chr1 16947628 1955..1968 14 8 99 99 3 8 4.52 219.93 +Sample_1350M DUP chr1:17085298-17085663 0.37 chr1 17085480 1980..1981 2 22 34 34 34 13 6.18 263.55 +Sample_1350M DUP chr1:17086647-17275421 188.78 chr1 17181034 1984..2005 22 18 99 99 13 17 6.01 165.50 +Sample_1350M DEL chr1:25611064-25633220 22.16 chr1 25622142 3041..3046 6 63 99 99 9 17 -6.88 0.23 +Sample_1350M DEL chr1:32155968-32156827 0.86 chr1 32156397 3778..3780 3 23 34 34 4 9 -4.59 90.50 +Sample_1350M DUP chr1:104112026-104122147 10.12 chr1 104117086 7334..7341 8 29 99 99 9 5 3.59 72.15 +Sample_1350M DEL chr1:145293371-145299939 6.57 chr1 145296655 8398..8403 6 9 99 99 15 3 -4.40 36.30 +Sample_1350M DUP chr1:145325952-145365459 39.51 chr1 145345705 8409..8412 4 14 65 65 10 14 4.50 54.58 +Sample_1350M DUP chr2:130807389-130897669 90.28 chr2 130852529 20145..20151 7 14 99 99 28 3 4.28 126.93 +Sample_1350M DEL chr3:195390495-195475935 85.44 chr3 195433215 32789..32802 14 20 98 99 18 4 -3.88 50.44 +Sample_1350M DEL chr5:140220907-140238166 17.26 chr5 140229536 40585..40587 3 49 84 84 25 38 -5.90 60.19 +Sample_1350M DEL chr7:102119255-102180538 61.28 chr7 102149896 52450..52451 2 38 38 38 37 26 -6.48 35.33 +Sample_1350M DEL chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 42 99 99 28 27 -7.62 17.76 +Sample_1350M DUP chr7:143883677-144075959 192.28 chr7 143979818 54230..54237 8 4 99 99 3 6 4.30 82.61 +Sample_1350M DEL chr8:7308087-8090396 782.31 chr8 7699241 55180..55187 8 8 53 53 24 4 -3.34 52.19 +Sample_1350M DEL chr8:12039614-12287960 248.35 chr8 12163787 55315..55322 8 34 99 99 6 3 -5.70 54.48 +Sample_1350M DEL chr10:27225666-27230930 5.26 chr10 27228298 66314..66315 2 49 73 73 13 39 -7.43 101.81 +Sample_1350M DUP chr10:135267432-135381779 114.35 chr10 135324605 70960..70987 28 26 99 99 11 37 3.77 94.26 +Sample_1350M DEL chr12:87984-149412 61.43 chr12 118698 79925..79932 8 7 99 99 86 7 -4.07 42.89 +Sample_1350M DEL chr12:9578067-9580461 2.40 chr12 9579264 81140..81144 5 5 38 38 6 8 -3.45 66.24 +Sample_1350M DUP chr15:20771427-21134625 363.20 chr15 20953026 94346..94354 9 10 99 99 14 9 3.56 61.93 +Sample_1350M DEL chr15:25472256-25477557 5.30 chr15 25474906 94486..94489 4 5 59 59 5 13 -4.31 31.37 +Sample_1350M DEL chr16:1290678-1291700 1.02 chr16 1291189 99714..99716 3 33 45 45 14 4 -4.87 107.77 +Sample_1350M DEL chr16:28607104-28621357 14.25 chr16 28614230 102275..102282 8 10 99 99 22 10 -3.64 70.94 +Sample_1350M DEL chr16:32163770-32896463 732.69 chr16 32530116 103096..103104 9 14 99 99 12 14 -3.53 56.40 +Sample_1350M DEL chr16:69996879-70211383 214.50 chr16 70104131 104859..104897 39 4 99 99 13 4 -3.00 31.28 +Sample_1350M DUP chr16:70714697-70714928 0.23 chr16 70714812 105025..105026 2 50 52 52 8 22 6.82 156.66 +Sample_1350M DUP chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 18 40 40 11 18 2.41 87.29 +Sample_1350M DEL chr17:18380099-18419084 38.99 chr17 18399591 109355..109364 10 11 98 99 12 4 -4.92 35.45 +Sample_1350M DUP chr17:39240459-39412615 172.16 chr17 39326537 111315..111332 18 8 90 90 25 8 2.33 164.93 +Sample_1350M DUP chr19:17443739-17450408 6.67 chr19 17447073 122450..122460 11 24 99 99 13 16 6.98 137.28 +Sample_1350M DUP chr19:40373945-40382826 8.88 chr19 40378385 124708..124712 5 56 99 99 34 23 7.79 96.67 +Sample_1350M DEL chr19:40389652-40398510 8.86 chr19 40394081 124714..124718 5 53 99 99 23 23 -6.20 29.09 +Sample_1350M DUP chr19:55247287-55250044 2.76 chr19 55248665 128016..128018 3 34 48 48 34 29 4.96 63.76 +Sample_1350M DUP chr19:55327893-55361964 34.07 chr19 55344928 128026..128034 9 30 99 99 4 23 3.15 51.21 +Sample_1350M DEL chr22:21828886-21842312 13.43 chr22 21835599 135112..135119 8 41 99 99 16 24 -4.74 33.41 +Sample_1350M DEL chr22:24342269-24394849 52.58 chr22 24368559 135354..135362 9 7 99 99 4 16 -5.47 2.69 +Sample_1350M DUP chr22:42536566-42538881 2.32 chr22 42537723 137432..137437 6 5 52 52 15 5 3.31 155.01 +Sample_1350P DUP chr1:14363-17368 3.01 chr1 15865 1..3 3 26 58 58 0 3 5.19 74.00 +Sample_1350P DEL chr1:12851546-12891264 39.72 chr1 12871405 1602..1609 8 16 99 99 44 10 -3.87 45.31 +Sample_1350P DUP chr1:16913545-16972173 58.63 chr1 16942859 1952..1966 15 10 99 99 10 27 6.97 145.64 +Sample_1350P DEL chr1:17085971-17257892 171.92 chr1 17171931 1982..1994 13 3 79 84 10 3 -2.59 85.26 +Sample_1350P DEL chr1:25611064-25633220 22.16 chr1 25622142 3041..3046 6 48 99 99 22 21 -5.55 6.81 +Sample_1350P DUP chr1:25712202-25735360 23.16 chr1 25723781 3052..3057 6 14 99 99 42 14 4.17 64.50 +Sample_1350P DUP chr1:148930405-148933368 2.96 chr1 148931886 8608..8610 3 13 31 31 13 30 4.38 138.38 +Sample_1350P DEL chr3:195410623-195475935 65.31 chr3 195443279 32796..32802 7 12 98 99 12 11 -4.13 41.09 +Sample_1350P DUP chr3:195701268-195717150 15.88 chr3 195709209 32844..32852 9 16 82 82 4 16 2.94 59.78 +Sample_1350P DUP chr5:177466388-177474656 8.27 chr5 177470522 42444..42447 4 16 40 40 26 16 3.88 78.09 +Sample_1350P DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 34 99 99 30 23 -4.53 52.50 +Sample_1350P DEL chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 31 99 99 44 29 -6.12 9.88 +Sample_1350P DEL chr8:7305276-7752292 447.02 chr8 7528784 55179..55185 7 11 74 74 10 12 -3.54 16.06 +Sample_1350P DEL chr8:11979496-12044342 64.85 chr8 12011919 55311..55317 7 15 99 99 50 15 -7.11 8.14 +Sample_1350P DUP chr9:43624504-43630730 6.23 chr9 43627617 60802..60804 3 35 48 48 35 47 4.82 50.04 +Sample_1350P DUP chr10:124340382-124353114 12.73 chr10 124346748 70419..70426 8 6 99 99 5 25 7.22 107.84 +Sample_1350P DEL chr12:11463269-11506936 43.67 chr12 11485102 81254..81256 3 14 31 31 5 7 -4.58 29.22 +Sample_1350P DEL chr15:20743914-20776700 32.79 chr15 20760307 94345..94350 6 14 80 80 44 4 -3.61 9.29 +Sample_1350P DUP chr15:102462345-102516807 54.46 chr15 102489576 99266..99269 4 34 99 99 33 78 7.86 84.33 +Sample_1350P DUP chr19:40373945-40382826 8.88 chr19 40378385 124708..124712 5 13 47 47 14 15 3.62 47.78 +Sample_1350P DEL chr19:41355723-41386533 30.81 chr19 41371128 124962..124970 9 16 99 99 12 16 -3.35 15.66 +Sample_1350P DUP chr19:54868537-54875937 7.40 chr19 54872237 127921..127924 4 2 33 33 4 6 3.80 83.39 +Sample_1350P DUP chr21:46020497-46022083 1.59 chr21 46021290 134157..134158 2 8 34 34 8 8 6.05 208.42 +Sample_1350P DUP chr22:24342269-24394849 52.58 chr22 24368559 135354..135362 9 5 81 81 5 13 2.99 42.15 +Sample_1350P DUP chr22:42898755-42950048 51.29 chr22 42924401 137451..137460 10 26 99 99 11 7 5.94 73.47 +Sample_1350P DEL chr22:42956192-42972615 16.42 chr22 42964403 137462..137469 8 9 68 99 6 49 -4.44 19.87 +Sample_1372F DUP chr1:14363-17742 3.38 chr1 16052 1..4 4 8 39 39 0 38 3.85 52.54 +Sample_1372F DUP chr1:16918342-16955145 36.80 chr1 16936743 1955..1965 11 7 84 99 7 9 4.20 104.03 +Sample_1372F DUP chr1:17017713-17034222 16.51 chr1 17025967 1969..1975 7 13 57 57 27 9 3.14 62.16 +Sample_1372F DEL chr1:17084437-17090975 6.54 chr1 17087706 1979..1986 8 15 99 99 14 0 -4.47 80.55 +Sample_1372F DUP chr1:17248445-17275421 26.98 chr1 17261933 1987..2005 19 6 99 99 0 6 3.22 77.52 +Sample_1372F DEL chr1:22328149-22336350 8.20 chr1 22332249 2731..2737 7 6 99 99 16 6 -4.19 15.35 +Sample_1372F DUP chr1:36773118-36773810 0.69 chr1 36773464 4351..4354 4 10 65 65 4 10 4.43 116.53 +Sample_1372F DUP chr1:155184845-155197325 12.48 chr1 155191085 9807..9817 11 60 99 99 4 27 8.61 97.42 +Sample_1372F DEL chr2:132236881-132240504 3.62 chr2 132238692 20241..20243 3 8 43 43 3 18 -4.81 33.99 +Sample_1372F DEL chr4:190903679-190906024 2.35 chr4 190904851 37228..37231 4 27 35 35 25 27 -3.75 51.77 +Sample_1372F DEL chr5:840610-843839 3.23 chr5 842224 37333..37334 2 25 33 33 4 28 -6.04 40.84 +Sample_1372F DUP chr8:7308087-7752292 444.21 chr8 7530189 55180..55185 6 4 99 99 4 13 5.39 48.24 +Sample_1372F DUP chr8:11979496-12291623 312.13 chr8 12135559 55311..55323 13 14 99 99 15 20 4.59 55.64 +Sample_1372F DEL chr10:46963840-47133836 170.00 chr10 47048838 66733..66742 10 16 99 99 4 13 -3.69 44.18 +Sample_1372F DUP chr10:124344787-124353114 8.33 chr10 124348950 70420..70426 7 11 99 99 12 14 4.38 59.58 +Sample_1372F DEL chr10:135369284-135439108 69.83 chr10 135404196 70977..70988 12 22 97 98 18 8 -2.77 44.75 +Sample_1372F DEL chr12:87984-149412 61.43 chr12 118698 79925..79932 8 35 78 78 48 24 -3.13 22.78 +Sample_1372F DEL chr12:9436253-9458353 22.10 chr12 9447303 81110..81122 13 8 99 99 6 13 -2.92 13.40 +Sample_1372F DUP chr12:11034816-11035297 0.48 chr12 11035056 81234..81235 2 65 73 73 33 25 7.71 101.46 +Sample_1372F DUP chr14:65216372-65246649 30.28 chr14 65231510 91966..91980 15 5 95 99 5 25 3.53 51.40 +Sample_1372F DUP chr15:22145375-22414393 269.02 chr15 22279884 94358..94366 9 40 99 99 3 39 5.43 53.51 +Sample_1372F DUP chr15:23443500-23444098 0.60 chr15 23443799 94437..94438 2 9 39 39 9 38 6.09 67.31 +Sample_1372F DEL chr15:72954593-72958469 3.88 chr15 72956531 97496..97500 5 20 32 32 20 4 -3.35 21.92 +Sample_1372F DUP chr16:1279191-1280185 0.99 chr16 1279688 99711..99713 3 47 72 72 14 0 5.64 54.94 +Sample_1372F DEL chr16:28604573-28607255 2.68 chr16 28605914 102271..102275 5 7 45 45 5 6 -3.53 44.78 +Sample_1372F DEL chr16:74446671-74447574 0.90 chr16 74447122 105296..105297 2 70 88 88 2 7 -8.05 44.84 +Sample_1372F DEL chr17:18380099-18395859 15.76 chr17 18387979 109355..109360 6 3 56 56 11 3 -3.36 24.71 +Sample_1372F DEL chr17:39388715-39395255 6.54 chr17 39391985 111327..111329 3 76 99 99 15 20 -7.82 42.05 +Sample_1372F DEL chr19:49557532-49558997 1.47 chr19 49558264 126653..126655 3 9 99 99 8 21 -6.76 34.95 +Sample_1372F DEL chr19:55105662-55105941 0.28 chr19 55105801 127980..127981 2 53 76 76 18 2 -7.66 54.68 +Sample_1372F DUP chr19:55247438-55361964 114.53 chr19 55304701 128017..128034 18 4 95 96 2 8 2.33 26.57 +Sample_1372F DEL chr21:45959068-46067564 108.50 chr21 46013316 134150..134162 13 14 99 99 4 7 -3.19 173.34 +Sample_1372F DEL chr22:23653884-23655208 1.32 chr22 23654546 135261..135262 2 66 74 74 10 11 -7.71 147.14 +Sample_1372F DUP chr22:42537544-42538881 1.34 chr22 42538212 137434..137437 4 71 99 99 26 6 7.19 107.47 +Sample_1372F DUP chr22:42898755-42952594 53.84 chr22 42925674 137451..137461 11 7 99 99 8 12 3.49 40.36 +Sample_1372F DUP chrX:47426038-47426831 0.79 chrX 47426434 139149..139152 4 8 39 39 22 5 3.95 74.29 +Sample_1372F DUP chrX:49103957-49105385 1.43 chrX 49104671 139532..139537 6 9 72 72 3 30 3.55 78.63 +Sample_1372M DUP chr1:14363-70008 55.65 chr1 42185 1..5 5 6 41 41 0 6 3.44 23.42 +Sample_1372M DEL chr1:17086647-17090975 4.33 chr1 17088811 1984..1986 3 28 99 99 10 1 -6.59 35.65 +Sample_1372M DUP chr1:17248445-17272900 24.46 chr1 17260672 1987..2002 16 9 81 99 0 23 2.95 41.48 +Sample_1372M DEL chr1:45798063-45798842 0.78 chr1 45798452 5460..5464 5 7 50 50 4 22 -3.63 39.81 +Sample_1372M DEL chr1:148930405-148933368 2.96 chr1 148931886 8608..8610 3 18 73 73 36 18 -5.47 30.02 +Sample_1372M DUP chr1:155184845-155197325 12.48 chr1 155191085 9807..9817 11 32 99 99 9 8 7.14 47.20 +Sample_1372M DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 32 99 99 25 11 4.71 42.31 +Sample_1372M DUP chr8:7320229-7721318 401.09 chr8 7520773 55182..55184 3 14 33 33 8 32 5.14 29.00 +Sample_1372M DUP chr8:11979496-12287960 308.46 chr8 12133728 55311..55322 12 27 99 99 24 3 3.97 29.17 +Sample_1372M DEL chr8:144894436-144896066 1.63 chr8 144895251 58933..58939 7 4 86 86 4 13 -3.44 31.01 +Sample_1372M DEL chr10:46965715-47088319 122.61 chr10 47027017 66734..66741 8 9 53 53 23 3 -2.89 22.37 +Sample_1372M DUP chr10:124344787-124353114 8.33 chr10 124348950 70420..70426 7 7 80 81 8 14 3.38 29.04 +Sample_1372M DUP chr10:135368855-135381779 12.93 chr10 135375317 70976..70987 12 11 86 99 18 10 2.90 32.05 +Sample_1372M DEL chr11:1013899-1021277 7.38 chr11 1017588 71372..71377 6 6 31 31 20 6 -3.05 26.69 +Sample_1372M DEL chr11:3422989-3430378 7.39 chr11 3426683 71781..71788 8 4 47 47 4 38 -2.76 9.85 +Sample_1372M DUP chr15:23299681-23443575 143.90 chr15 23371628 94425..94437 13 31 99 99 13 32 3.32 19.83 +Sample_1372M DEL chr16:732768-733441 0.67 chr16 733104 99538..99541 4 34 57 57 12 3 -4.26 27.05 +Sample_1372M DUP chr16:74443448-74443776 0.33 chr16 74443612 105292..105293 2 10 36 36 3 9 6.12 46.42 +Sample_1372M DUP chr16:84215198-84218505 3.31 chr16 84216851 105732..105740 9 6 41 41 5 6 2.62 38.86 +Sample_1372M DEL chr17:39388715-39395255 6.54 chr17 39391985 111327..111329 3 49 77 78 36 24 -5.72 24.24 +Sample_1372M DEL chr19:49558098-49558997 0.90 chr19 49558547 126654..126655 2 48 73 73 7 21 -7.61 18.50 +Sample_1372M DEL chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 36 99 99 9 19 -4.44 15.69 +Sample_1372M DEL chr19:55098477-55105743 7.27 chr19 55102110 127977..127980 4 13 58 58 13 10 -4.33 13.70 +Sample_1372M DEL chr21:45959068-46117959 158.89 chr21 46038513 134150..134167 18 3 99 99 22 3 -2.83 74.42 +Sample_1372M DEL chr22:24347142-24384284 37.14 chr22 24365713 135355..135361 7 10 99 99 8 4 -3.76 0.00 +Sample_1372M DEL chr22:24652721-24657004 4.28 chr22 24654862 135427..135429 3 61 87 87 19 59 -6.02 28.08 +Sample_1372M DEL chr22:25024048-25045989 21.94 chr22 25035018 135488..135498 11 5 75 75 5 18 -2.68 28.35 +Sample_1372M DUP chr22:31484685-31484955 0.27 chr22 31484820 136091..136092 2 30 30 30 25 24 6.04 96.11 +Sample_1372M DEL chr22:50900376-50901367 0.99 chr22 50900871 138167..138170 4 27 55 55 3 12 -4.22 43.47 +Sample_1372M DEL chr22:50959972-50961595 1.62 chr22 50960783 138220..138228 9 2 41 41 4 5 -2.62 36.69 +Sample_1372M DUP chrX:153033704-153036097 2.39 chrX 153034900 141849..141855 7 19 42 42 13 19 2.97 29.18 +Sample_1372P DEL chr1:16946340-16976914 30.57 chr1 16961627 1963..1968 6 7 61 61 8 6 -3.40 75.26 +Sample_1372P DEL chr1:248153569-248738058 584.49 chr1 248445813 15069..15089 21 8 99 99 6 9 -2.87 19.99 +Sample_1372P DUP chr3:48607567-48607767 0.20 chr3 48607667 27147..27148 2 43 43 43 24 42 6.55 91.47 +Sample_1372P DEL chr4:190903679-190906024 2.35 chr4 190904851 37228..37231 4 44 98 99 5 44 -6.96 23.05 +Sample_1372P DEL chr5:140165876-140537989 372.11 chr5 140351932 40578..40599 22 17 98 99 24 18 -3.33 30.08 +Sample_1372P DEL chr9:97062097-97088216 26.12 chr9 97075156 61593..61599 7 6 99 99 5 11 -3.84 31.23 +Sample_1372P DEL chr10:38736743-38741080 4.34 chr10 38738911 66571..66571 1 30 30 30 19 30 -9.96 114.75 +Sample_1372P DEL chr10:135368855-135381779 12.93 chr10 135375317 70976..70987 12 4 99 99 4 19 -2.78 30.27 +Sample_1372P DEL chr11:123847403-123909708 62.31 chr11 123878555 79304..79308 5 15 99 99 4 42 -4.39 29.02 +Sample_1372P DEL chr12:11420109-11546911 126.80 chr12 11483510 81249..81259 11 14 70 70 18 13 -2.71 16.74 +Sample_1372P DUP chr14:65234381-65246649 12.27 chr14 65240515 91971..91980 10 31 99 99 3 7 3.86 40.29 +Sample_1372P DUP chr15:41859558-41871526 11.97 chr15 41865542 95375..95387 13 6 99 99 9 6 2.64 36.75 +Sample_1372P DUP chr16:732953-733598 0.65 chr16 733275 99539..99542 4 9 43 43 9 17 4.05 79.87 +Sample_1372P DEL chr17:39240459-39316983 76.53 chr17 39278721 111315..111321 7 10 98 99 7 5 -3.72 57.36 +Sample_1372P DUP chr17:39535208-39538636 3.43 chr17 39536922 111348..111353 6 9 40 40 8 8 3.14 41.06 +Sample_1372P DEL chr19:43680022-43709790 29.77 chr19 43694906 125402..125408 7 23 62 62 8 20 -3.14 12.42 +Sample_1372P DEL chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 14 99 99 13 31 -5.04 24.64 +Sample_1372P DEL chr19:55085257-55147060 61.80 chr19 55116158 127971..128000 30 5 99 99 8 4 -2.07 33.54 +Sample_1372P DEL chr21:31720717-31986223 265.51 chr21 31853470 133151..133166 16 7 99 99 14 6 -2.67 17.51 +Sample_1372P DEL chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 42 42 42 10 5 -4.66 23.55 +Sample_1372P DUP chr22:42537544-42538881 1.34 chr22 42538212 137434..137437 4 31 99 99 21 12 7.35 87.11 +Sample_1372P DUP chr22:42899205-42950048 50.84 chr22 42924626 137452..137460 9 8 99 99 6 3 3.54 35.27 +Sample_1628F DUP chr1:16913545-16972173 58.63 chr1 16942859 1952..1966 15 29 99 99 12 29 3.52 123.48 +Sample_1628F DEL chr1:155183617-155197325 13.71 chr1 155190471 9806..9817 12 13 99 99 21 14 -3.44 36.13 +Sample_1628F DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 20 50 50 13 18 3.64 91.35 +Sample_1628F DEL chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 21 75 75 12 20 -4.55 21.76 +Sample_1628F DEL chr8:11979496-12044342 64.85 chr8 12011919 55311..55317 7 13 99 99 35 13 -5.25 24.42 +Sample_1628F DEL chr9:15909-17166 1.26 chr9 16537 59397..59398 2 25 31 31 25 14 -5.80 10.29 +Sample_1628F DUP chr9:117085303-117087432 2.13 chr9 117086367 62579..62583 5 3 99 99 3 4 7.76 88.10 +Sample_1628F DEL chr12:87984-208380 120.40 chr12 148182 79925..79933 9 15 70 70 51 15 -2.92 29.43 +Sample_1628F DUP chr15:23311642-23444098 132.46 chr15 23377870 94429..94438 10 37 99 99 4 36 3.27 46.47 +Sample_1628F DUP chr15:78207740-78208271 0.53 chr15 78208005 98003..98005 3 6 30 30 6 4 4.45 178.94 +Sample_1628F DUP chr15:102462345-102516807 54.46 chr15 102489576 99266..99269 4 4 81 81 4 81 4.65 62.58 +Sample_1628F DUP chr19:40392316-40398510 6.20 chr19 40395413 124716..124718 3 23 34 34 6 23 4.60 80.86 +Sample_1628F DUP chr19:54722230-54746186 23.96 chr19 54734208 127858..127867 10 3 83 99 3 12 3.02 64.87 +Sample_1628F DUP chr19:55247438-55361964 114.53 chr19 55304701 128017..128034 18 20 99 99 5 21 2.92 40.08 +Sample_1628F DUP chr22:25044121-25045989 1.87 chr22 25045055 135495..135498 4 29 44 44 10 29 4.06 179.50 +Sample_1628M DUP chr1:14970-17368 2.40 chr1 16169 2..3 2 34 34 34 15 11 6.20 43.42 +Sample_1628M DEL chr1:12851546-12958094 106.55 chr1 12904820 1602..1623 22 19 99 99 28 12 -3.90 13.72 +Sample_1628M DUP chr1:161560934-161578341 17.41 chr1 161569637 11054..11056 3 39 44 44 12 6 4.82 35.91 +Sample_1628M DEL chr11:55032376-55038594 6.22 chr11 55035485 74018..74021 4 66 99 99 4 38 -6.18 0.28 +Sample_1628M DEL chr12:87984-90655 2.67 chr12 89319 79925..79930 6 33 85 85 50 33 -3.68 4.18 +Sample_1628M DUP chr17:18380099-18395859 15.76 chr17 18387979 109355..109360 6 24 71 71 17 5 3.57 30.64 +Sample_1628M DUP chr17:20354794-20407811 53.02 chr17 20381302 109566..109577 12 3 33 33 3 17 2.28 24.82 +Sample_1628M DUP chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 5 54 54 5 12 3.03 18.76 +Sample_1628M DUP chr22:25041713-25049017 7.30 chr22 25045365 135494..135499 6 14 39 39 12 5 3.15 58.78 +Sample_1628M DEL chr22:50751875-50757432 5.56 chr22 50754653 138110..138124 15 4 57 57 3 5 -2.24 23.59 +Sample_1628P DUP chr1:12851546-12946025 94.48 chr1 12898785 1602..1620 19 3 75 75 4 14 2.22 57.97 +Sample_1628P DUP chr1:16935003-16975287 40.28 chr1 16955145 1960..1967 8 4 99 99 2 14 4.09 174.98 +Sample_1628P DUP chr1:17084437-17275019 190.58 chr1 17179728 1979..2004 26 36 99 99 14 3 5.04 141.21 +Sample_1628P DEL chr1:25611064-25633220 22.16 chr1 25622142 3041..3046 6 4 42 42 2 14 -3.12 28.44 +Sample_1628P DEL chr1:155183617-155206260 22.64 chr1 155194938 9806..9821 16 9 96 97 11 6 -2.44 61.38 +Sample_1628P DUP chr3:195395390-195475935 80.55 chr3 195435662 32792..32802 11 33 99 99 5 16 3.56 77.67 +Sample_1628P DEL chr4:190903679-190906024 2.35 chr4 190904851 37228..37231 4 39 98 99 17 39 -5.73 66.31 +Sample_1628P DEL chr5:837480-843839 6.36 chr5 840659 37332..37334 3 33 76 76 3 39 -5.64 43.99 +Sample_1628P DEL chr7:143955790-144070377 114.59 chr7 144013083 54231..54236 6 28 53 53 22 29 -3.42 16.45 +Sample_1628P DEL chr8:11985367-12044342 58.98 chr8 12014854 55312..55317 6 8 57 57 22 8 -3.34 38.61 +Sample_1628P DEL chr9:15909-17166 1.26 chr9 16537 59397..59398 2 81 99 99 81 28 -8.90 3.43 +Sample_1628P DEL chr9:43624504-43630730 6.23 chr9 43627617 60802..60804 3 35 36 36 35 36 -4.52 1.04 +Sample_1628P DUP chr9:117085303-117088757 3.46 chr9 117087030 62579..62584 6 13 99 99 13 6 7.58 97.54 +Sample_1628P DEL chr10:135368348-135370660 2.31 chr10 135369504 70975..70980 6 5 99 99 5 26 -4.08 82.52 +Sample_1628P DEL chr15:23299681-23300167 0.49 chr15 23299924 94425..94426 2 73 75 75 19 0 -7.84 100.06 +Sample_1628P DEL chr15:72954593-72958469 3.88 chr15 72956531 97496..97500 5 24 99 99 19 4 -4.80 19.33 +Sample_1628P DUP chr15:75580599-75581824 1.23 chr15 75581211 97824..97825 2 50 74 74 8 5 7.61 93.64 +Sample_1628P DEL chr16:1279191-1280185 0.99 chr16 1279688 99711..99713 3 31 64 64 30 29 -5.38 23.87 +Sample_1628P DEL chr16:28606871-28621357 14.49 chr16 28614114 102274..102282 9 16 58 58 16 20 -2.79 54.18 +Sample_1628P DUP chr16:74394531-74444932 50.40 chr16 74419731 105289..105295 7 2 60 60 3 4 3.14 79.11 +Sample_1628P DEL chr17:20355108-20358711 3.60 chr17 20356909 109567..109569 3 35 97 99 23 9 -6.43 3.63 +Sample_1628P DEL chr17:43552466-44159908 607.44 chr17 43856187 112453..112481 29 6 99 99 3 19 -2.26 13.48 +Sample_1628P DUP chr19:14675878-14676475 0.60 chr19 14676176 121840..121842 3 34 35 35 35 7 4.66 126.93 +Sample_1628P DEL chr19:43586658-43709790 123.13 chr19 43648224 125400..125408 9 4 99 99 4 4 -4.30 26.11 +Sample_1628P DEL chr19:49557532-49558997 1.47 chr19 49558264 126653..126655 3 12 44 44 12 23 -4.87 77.66 +Sample_1628P DUP chr19:55247438-55361964 114.53 chr19 55304701 128017..128034 18 7 99 99 3 28 2.69 39.11 +Sample_1628P DUP chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 42 92 92 13 27 5.97 104.67 +Sample_1628P DUP chr22:22975944-22988991 13.05 chr22 22982467 135215..135219 5 15 89 89 11 4 4.23 124.32 +Sample_1628P DEL chr22:24347142-24394849 47.71 chr22 24370995 135355..135362 8 7 77 77 10 6 -3.13 22.30 +Sample_1628P DEL chr22:24656876-24658575 1.70 chr22 24657725 135429..135430 2 29 54 54 5 4 -6.80 150.51 +Sample_1628P DEL chr22:39378405-39388154 9.75 chr22 39383279 136949..136955 7 26 52 52 34 8 -3.04 17.19 +Sample_1659F DEL chr1:14970-17742 2.77 chr1 16356 2..4 3 38 42 42 31 29 -4.73 10.46 +Sample_1659F DUP chr1:16952270-17090975 138.71 chr1 17021622 1964..1986 23 4 99 99 4 34 3.95 63.93 +Sample_1659F DEL chr1:17256619-17275421 18.80 chr1 17266020 1991..2005 15 5 99 99 6 5 -2.86 38.24 +Sample_1659F DEL chr2:130897464-130897944 0.48 chr2 130897704 20150..20152 3 6 31 31 25 6 -4.54 14.24 +Sample_1659F DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 12 34 34 27 12 -3.39 30.83 +Sample_1659F DEL chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 24 99 99 17 24 -5.41 4.74 +Sample_1659F DUP chr8:7215499-7220490 4.99 chr8 7217994 55174..55178 5 19 81 81 5 19 4.02 27.98 +Sample_1659F DUP chr8:11985367-12044342 58.98 chr8 12014854 55312..55317 6 6 99 99 28 6 4.89 46.63 +Sample_1659F DUP chr9:43624504-43630730 6.23 chr9 43627617 60802..60804 3 17 41 41 17 41 4.65 27.78 +Sample_1659F DEL chr10:124344787-124353114 8.33 chr10 124348950 70420..70426 7 5 99 99 5 13 -4.54 15.53 +Sample_1659F DUP chr12:8376045-8385203 9.16 chr12 8380624 80972..80976 5 8 99 99 8 29 7.00 53.50 +Sample_1659F DEL chr15:102462345-102516807 54.46 chr15 102489576 99266..99269 4 5 99 99 5 97 -5.40 2.85 +Sample_1659F DEL chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 5 69 69 5 23 -3.89 20.30 +Sample_1659F DUP chr21:45959068-46067564 108.50 chr21 46013316 134150..134162 13 39 99 99 11 27 3.48 125.03 +Sample_1659F DUP chr22:39425368-39440427 15.06 chr22 39432897 136964..136969 6 11 50 50 10 3 3.28 28.72 +Sample_1659M DEL chr1:16914220-16976914 62.70 chr1 16945567 1953..1968 16 3 80 82 3 14 -2.35 47.07 +Sample_1659M DEL chr1:17085298-17086181 0.88 chr1 17085739 1980..1982 3 27 33 33 8 7 -4.58 36.95 +Sample_1659M DUP chr1:17087450-17275019 187.57 chr1 17181234 1985..2004 20 7 99 99 7 4 3.00 55.09 +Sample_1659M DEL chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 23 99 99 15 23 -5.69 5.72 +Sample_1659M DUP chr8:12039614-12287960 248.35 chr8 12163787 55315..55322 8 5 99 99 6 6 3.75 38.66 +Sample_1659M DUP chr9:117085303-117088757 3.46 chr9 117087030 62579..62584 6 22 99 99 26 5 7.70 43.63 +Sample_1659M DEL chr10:124344787-124353114 8.33 chr10 124348950 70420..70426 7 19 99 99 11 23 -4.70 11.97 +Sample_1659M DUP chr10:135267432-135381779 114.35 chr10 135324605 70960..70987 28 28 99 99 21 10 2.85 30.35 +Sample_1659M DEL chr12:87984-149412 61.43 chr12 118698 79925..79932 8 30 85 85 49 16 -3.19 12.30 +Sample_1659M DEL chr16:28607104-28621357 14.25 chr16 28614230 102275..102282 8 18 99 99 9 19 -4.60 15.67 +Sample_1659M DUP chr16:55844839-55860207 15.37 chr16 55852523 103456..103463 8 6 86 86 6 7 3.20 27.31 +Sample_1659M DUP chr16:74401963-74452196 50.23 chr16 74427079 105290..105298 9 9 99 99 4 14 4.06 42.93 +Sample_1659M DUP chr19:17443739-17450408 6.67 chr19 17447073 122450..122460 11 40 99 99 14 5 4.10 40.76 +Sample_1659M DEL chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 15 99 99 15 13 -5.09 18.76 +Sample_1659M DEL chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 36 81 81 14 33 -5.70 13.22 +Sample_1659M DEL chr22:22975944-22988991 13.05 chr22 22982467 135215..135219 5 8 46 46 7 17 -3.59 34.53 +Sample_1659M DEL chr22:25713888-25777544 63.66 chr22 25745716 135561..135569 9 12 49 49 25 12 -2.69 11.31 +Sample_1659M DUP chr22:31483951-31486166 2.22 chr22 31485058 136089..136094 6 9 99 99 18 8 4.10 66.77 +Sample_1659M DUP chrX:47424651-47426530 1.88 chrX 47425590 139148..139151 4 7 43 43 7 9 4.04 48.80 +Sample_1659M DUP chrX:153697006-153697558 0.55 chrX 153697282 142180..142182 3 7 40 40 3 7 4.68 46.65 +Sample_1659P DUP chr1:16918342-17090975 172.63 chr1 17004658 1955..1986 32 11 99 99 9 7 3.62 48.50 +Sample_1659P DEL chr1:17249158-17272900 23.74 chr1 17261029 1988..2002 15 12 99 99 6 10 -2.95 27.53 +Sample_1659P DEL chr2:114346127-114356605 10.48 chr2 114351366 19700..19707 8 7 35 35 7 4 -2.71 16.68 +Sample_1659P DEL chr3:195395390-195475935 80.55 chr3 195435662 32792..32802 11 25 77 77 4 18 -2.72 12.87 +Sample_1659P DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 28 92 93 42 22 -4.30 20.43 +Sample_1659P DEL chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 16 91 91 31 16 -4.86 3.15 +Sample_1659P DUP chr10:47658234-47756092 97.86 chr10 47707163 66745..66766 22 5 99 99 4 6 2.79 23.52 +Sample_1659P DUP chr12:87984-90655 2.67 chr12 89319 79925..79930 6 19 41 41 32 12 3.12 22.19 +Sample_1659P DEL chr13:24465429-24468340 2.91 chr13 24466884 88167..88170 4 28 38 38 26 16 -3.94 2.95 +Sample_1659P DUP chr15:22014420-22145802 131.38 chr15 22080111 94356..94359 4 28 34 34 7 34 3.86 27.47 +Sample_1659P DEL chr15:102513423-102516807 3.38 chr15 102515115 99267..99269 3 35 72 72 3 72 -5.38 3.20 +Sample_1659P DUP chr19:49557532-49558997 1.47 chr19 49558264 126653..126655 3 4 60 60 4 18 5.22 41.81 +Sample_1659P DUP chr19:50473069-50473627 0.56 chr19 50473348 127082..127083 2 32 32 32 2 25 6.16 42.64 +Sample_1659P DUP chr21:45959068-46067564 108.50 chr21 46013316 134150..134162 13 34 99 99 27 10 2.75 87.45 +Sample_1659P DEL chr22:24347142-24384284 37.14 chr22 24365713 135355..135361 7 10 99 99 3 3 -3.66 0.14 +Sample_1659P DUP chr22:42522502-42526883 4.38 chr22 42524692 137422..137430 9 19 99 99 28 13 4.81 43.90 +Sample_1732F DUP chr1:12907236-12946025 38.79 chr1 12926630 1610..1620 11 20 90 90 3 17 2.78 66.02 +Sample_1732F DUP chr1:16976569-17046652 70.08 chr1 17011610 1968..1977 10 3 82 99 3 14 3.92 88.71 +Sample_1732F DEL chr1:17086647-17090975 4.33 chr1 17088811 1984..1986 3 14 79 91 35 2 -5.93 120.67 +Sample_1732F DUP chr1:17248445-17275421 26.98 chr1 17261933 1987..2005 19 5 79 99 0 25 2.93 108.19 +Sample_1732F DEL chr1:248756132-248802559 46.43 chr1 248779345 15090..15092 3 5 70 70 12 5 -5.55 1.99 +Sample_1732F DUP chr2:130807389-130897669 90.28 chr2 130852529 20145..20151 7 35 66 66 15 3 3.26 88.20 +Sample_1732F DUP chr3:12632297-12800808 168.51 chr3 12716552 25308..25325 18 16 99 99 15 18 3.63 56.94 +Sample_1732F DUP chr5:833888-843839 9.95 chr5 838863 37331..37334 4 10 78 78 10 12 4.70 86.35 +Sample_1732F DEL chr5:180375355-180429785 54.43 chr5 180402570 42756..42761 6 20 99 99 26 18 -5.26 0.13 +Sample_1732F DUP chr7:143955790-144070377 114.59 chr7 144013083 54231..54236 6 81 99 99 10 8 5.98 77.51 +Sample_1732F DEL chr8:11979496-12008698 29.20 chr8 11994097 55311..55314 4 27 69 69 12 19 -4.49 21.27 +Sample_1732F DEL chr10:124340382-124353114 12.73 chr10 124346748 70419..70426 8 43 99 99 4 19 -6.54 34.08 +Sample_1732F DUP chr12:87984-88392 0.41 chr12 88188 79925..79926 2 36 60 60 36 6 7.16 85.40 +Sample_1732F DEL chr15:20743914-21134625 390.71 chr15 20939269 94345..94354 10 4 44 44 32 3 -2.67 15.61 +Sample_1732F DUP chr15:23299681-23311838 12.16 chr15 23305759 94425..94429 5 27 61 61 21 26 3.83 88.67 +Sample_1732F DEL chr15:23438825-23444098 5.27 chr15 23441461 94435..94438 4 6 63 63 6 36 -4.27 20.46 +Sample_1732F DEL chr15:74362198-74364650 2.45 chr15 74363424 97607..97609 3 9 39 39 9 12 -4.75 14.20 +Sample_1732F DUP chr15:78207982-78209434 1.45 chr15 78208708 98004..98007 4 4 97 99 30 3 5.08 171.17 +Sample_1732F DEL chr15:102462345-102514309 51.97 chr15 102488327 99266..99268 3 19 49 49 18 46 -5.10 0.88 +Sample_1732F DEL chr16:14989371-15123913 134.54 chr16 15056642 101198..101213 16 27 55 55 11 12 -2.28 40.62 +Sample_1732F DUP chr16:28618272-28621357 3.09 chr16 28619814 102279..102282 4 17 40 40 9 5 3.92 91.49 +Sample_1732F DUP chr17:15638662-15640837 2.18 chr17 15639749 108934..108935 2 14 37 37 3 18 6.20 106.70 +Sample_1732F DEL chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 33 98 99 12 32 -2.90 39.21 +Sample_1732F DEL chr17:18541934-18547740 5.81 chr17 18544837 109372..109377 6 3 71 71 3 21 -3.51 54.08 +Sample_1732F DEL chr17:20404829-20407811 2.98 chr17 20406320 109572..109577 6 16 98 99 22 17 -4.10 41.68 +Sample_1732F DUP chr17:39382900-39411837 28.94 chr17 39397368 111326..111331 6 8 84 84 8 4 3.73 137.26 +Sample_1732F DEL chr19:14876336-14876616 0.28 chr19 14876476 121892..121893 2 66 68 68 10 13 -7.47 49.31 +Sample_1732F DEL chr19:18707702-18710656 2.96 chr19 18709179 122823..122826 4 23 82 82 24 23 -4.75 27.45 +Sample_1732F DEL chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 38 99 99 22 31 -5.43 39.24 +Sample_1732F DUP chr21:45970318-46074576 104.26 chr21 46022447 134151..134163 13 8 99 99 6 9 4.13 228.77 +Sample_1732F DEL chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 31 99 99 22 47 -7.02 34.50 +Sample_1732F DUP chr22:24656876-24658575 1.70 chr22 24657725 135429..135430 2 9 32 32 31 8 6.08 209.01 +Sample_1732F DUP chr22:25044121-25045989 1.87 chr22 25045055 135495..135498 4 32 67 67 23 13 4.50 187.98 +Sample_1732F DUP chr22:50900376-50901367 0.99 chr22 50900871 138167..138170 4 40 61 61 4 3 4.30 161.08 +Sample_1732F DUP chrX:149009941-149014609 4.67 chrX 149012275 141607..141609 3 49 66 66 34 36 5.31 59.31 +Sample_1732M DUP chr1:16914220-17046652 132.43 chr1 16980436 1953..1977 25 14 99 99 4 5 7.38 151.02 +Sample_1732M DEL chr1:17086647-17090975 4.33 chr1 17088811 1984..1986 3 42 72 72 35 0 -5.45 143.03 +Sample_1732M DUP chr1:17248445-17275421 26.98 chr1 17261933 1987..2005 19 15 95 99 0 32 4.22 114.06 +Sample_1732M DEL chr1:145295423-145311154 15.73 chr1 145303288 8399..8407 9 11 87 87 6 8 -3.03 27.74 +Sample_1732M DUP chr3:195390495-195477983 87.49 chr3 195434239 32789..32803 15 6 98 99 35 5 5.59 81.00 +Sample_1732M DEL chr5:795720-825366 29.65 chr5 810543 37326..37330 5 35 98 99 19 35 -4.61 23.30 +Sample_1732M DUP chr7:102114808-102119381 4.57 chr7 102117094 52449..52450 2 11 30 30 27 11 5.82 84.20 +Sample_1732M DUP chr7:143955790-144070377 114.59 chr7 144013083 54231..54236 6 43 66 66 12 47 3.58 49.44 +Sample_1732M DEL chr8:7153153-7170425 17.27 chr8 7161789 55171..55173 3 3 50 50 21 3 -4.89 1.12 +Sample_1732M DEL chr8:11979496-12008698 29.20 chr8 11994097 55311..55314 4 23 99 99 12 21 -5.93 13.67 +Sample_1732M DUP chr8:12245467-12250923 5.46 chr8 12248195 55318..55320 3 20 59 59 14 20 5.16 67.70 +Sample_1732M DUP chr9:139612029-139658965 46.94 chr9 139635497 64897..64929 33 49 99 99 26 34 4.41 76.79 +Sample_1732M DEL chr10:124340382-124353114 12.73 chr10 124346748 70419..70426 8 41 99 99 17 25 -7.79 5.98 +Sample_1732M DUP chr12:87984-149412 61.43 chr12 118698 79925..79932 8 16 99 99 95 16 3.84 72.26 +Sample_1732M DUP chr12:9447028-9447570 0.54 chr12 9447299 81112..81113 2 7 30 30 19 7 5.99 142.04 +Sample_1732M DUP chr15:20771427-22414393 1642.97 chr15 21592910 94346..94366 21 47 99 99 4 42 5.31 64.82 +Sample_1732M DEL chr15:23438825-23444098 5.27 chr15 23441461 94435..94438 4 4 49 49 3 46 -3.97 17.00 +Sample_1732M DUP chr15:32450613-32455536 4.92 chr15 32453074 94747..94748 2 28 35 35 16 18 6.19 56.60 +Sample_1732M DEL chr15:102513423-102516807 3.38 chr15 102515115 99267..99269 3 17 36 36 9 17 -4.50 27.82 +Sample_1732M DUP chr16:1279191-1280185 0.99 chr16 1279688 99711..99713 3 42 76 76 17 14 5.67 76.74 +Sample_1732M DEL chr16:28618272-28621357 3.09 chr16 28619814 102279..102282 4 27 82 82 4 14 -4.72 58.74 +Sample_1732M DEL chr16:70207928-70220796 12.87 chr16 70214362 104896..104898 3 61 85 86 42 34 -5.84 14.23 +Sample_1732M DEL chr16:70714697-70714928 0.23 chr16 70714812 105025..105026 2 56 58 58 29 13 -7.06 56.80 +Sample_1732M DUP chr16:74442531-74444932 2.40 chr16 74443731 105291..105295 5 4 99 99 25 4 5.85 98.72 +Sample_1732M DEL chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 25 95 98 15 43 -2.82 36.68 +Sample_1732M DUP chr17:18380099-18430160 50.06 chr17 18405129 109355..109365 11 5 33 33 18 5 2.36 56.19 +Sample_1732M DEL chr17:20404829-20407811 2.98 chr17 20406320 109572..109577 6 12 99 99 41 12 -6.35 37.48 +Sample_1732M DUP chr17:39382900-39411837 28.94 chr17 39397368 111326..111331 6 3 87 87 3 18 3.77 145.11 +Sample_1732M DEL chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 75 99 99 7 26 -7.77 43.30 +Sample_1732M DUP chr21:14982498-14983070 0.57 chr21 14982784 132983..132983 1 31 31 31 31 29 10.00 101.48 +Sample_1732M DUP chr21:45959068-46067564 108.50 chr21 46013316 134150..134162 13 27 99 99 25 37 3.46 285.06 +Sample_1732M DEL chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 54 99 99 31 17 -7.01 31.74 +Sample_1732M DUP chr22:20383731-20394648 10.92 chr22 20389189 134919..134924 6 5 71 71 21 5 3.56 48.46 +Sample_1732M DUP chr22:24347142-24384284 37.14 chr22 24365713 135355..135361 7 6 99 99 5 8 3.88 53.16 +Sample_1732M DUP chr22:24656876-24661490 4.62 chr22 24659183 135429..135431 3 7 41 41 8 5 4.71 185.69 +Sample_1732M DUP chr22:25041713-25045989 4.28 chr22 25043851 135494..135498 5 42 99 99 6 5 5.00 193.39 +Sample_1732M DUP chrX:49178516-49355920 177.41 chrX 49267218 139561..139563 3 10 40 40 10 35 4.90 54.92 +Sample_1732M DUP chrX:149009941-149014609 4.67 chrX 149012275 141607..141609 3 31 43 43 31 10 4.71 90.70 +Sample_1732P DUP chr1:14363-70008 55.65 chr1 42185 1..5 5 24 58 58 0 46 3.72 54.31 +Sample_1732P DEL chr1:783034-812182 29.15 chr1 797608 9..15 7 17 43 43 18 21 -2.94 15.07 +Sample_1732P DUP chr1:12853352-12943231 89.88 chr1 12898291 1603..1619 17 14 99 99 19 11 2.98 66.62 +Sample_1732P DEL chr1:16952270-16972173 19.90 chr1 16962221 1964..1966 3 30 62 62 48 6 -5.35 124.21 +Sample_1732P DUP chr1:17084437-17275421 190.99 chr1 17179929 1979..2005 27 13 99 99 10 25 4.26 118.00 +Sample_1732P DEL chr1:36773371-36774076 0.71 chr1 36773723 4352..4355 4 7 63 63 29 7 -4.41 93.10 +Sample_1732P DUP chr1:155183617-155197325 13.71 chr1 155190471 9806..9817 12 36 99 99 36 18 8.07 109.03 +Sample_1732P DEL chr1:161565343-161601158 35.82 chr1 161583250 11055..11060 6 9 38 38 7 13 -3.10 17.99 +Sample_1732P DUP chr3:12775392-12800808 25.42 chr3 12788100 25315..25325 11 11 99 99 5 13 3.47 56.48 +Sample_1732P DEL chr3:48611695-48612298 0.60 chr3 48611996 27166..27169 4 35 52 52 7 15 -4.20 92.20 +Sample_1732P DEL chr3:195390495-195475935 85.44 chr3 195433215 32789..32802 14 3 90 91 3 30 -2.54 34.41 +Sample_1732P DUP chr5:819640-843839 24.20 chr5 831739 37329..37334 6 50 98 99 3 4 5.00 82.88 +Sample_1732P DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 36 37 37 6 14 3.42 86.63 +Sample_1732P DEL chr7:74193428-74310372 116.94 chr7 74251900 50909..50918 10 3 85 85 3 6 -2.90 41.69 +Sample_1732P DUP chr7:74573672-74988678 415.01 chr7 74781175 50925..50928 4 8 84 84 7 23 5.21 85.42 +Sample_1732P DUP chr7:102114808-102180538 65.73 chr7 102147673 52449..52451 3 48 51 51 14 25 5.17 67.09 +Sample_1732P DUP chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 19 84 84 28 19 4.72 58.38 +Sample_1732P DEL chr8:11979496-12291623 312.13 chr8 12135559 55311..55323 13 5 99 99 15 5 -3.02 29.53 +Sample_1732P DEL chr9:15909-17166 1.26 chr9 16537 59397..59398 2 77 99 99 77 31 -8.56 2.07 +Sample_1732P DEL chr9:90744221-90747941 3.72 chr9 90746081 61295..61296 2 16 39 39 16 18 -6.39 41.72 +Sample_1732P DEL chr15:20743914-22414393 1670.48 chr15 21579153 94345..94366 22 17 99 99 49 24 -3.52 14.48 +Sample_1732P DUP chr15:23299681-23330373 30.69 chr15 23315027 94425..94434 10 25 99 99 15 14 3.13 56.09 +Sample_1732P DEL chr15:102513423-102516807 3.38 chr15 102515115 99267..99269 3 19 41 41 6 19 -4.62 26.08 +Sample_1732P DUP chr16:1279567-1307063 27.50 chr16 1293315 99712..99720 9 9 99 99 10 12 3.45 91.48 +Sample_1732P DEL chr16:3075925-3077281 1.36 chr16 3076603 100441..100449 9 3 97 99 3 15 -3.14 97.22 +Sample_1732P DEL chr16:14988855-15123913 135.06 chr16 15056384 101197..101213 17 5 33 33 4 11 -2.12 32.61 +Sample_1732P DEL chr16:22480344-22492453 12.11 chr16 22486398 101864..101866 3 20 88 89 20 24 -5.93 10.24 +Sample_1732P DUP chr16:28607104-28621357 14.25 chr16 28614230 102275..102282 8 41 99 99 12 21 3.48 72.97 +Sample_1732P DUP chr17:15602891-15642144 39.25 chr17 15622517 108928..108938 11 3 45 45 7 4 2.47 61.50 +Sample_1732P DEL chr17:16703265-16736147 32.88 chr17 16719706 109045..109050 6 10 71 71 4 10 -3.49 44.09 +Sample_1732P DUP chr17:39202798-39411837 209.04 chr17 39307317 111312..111331 20 11 99 99 2 22 2.50 105.49 +Sample_1732P DEL chr19:18707702-18710656 2.96 chr19 18709179 122823..122826 4 4 52 52 22 4 -4.14 26.40 +Sample_1732P DEL chr19:49519074-49520347 1.27 chr19 49519710 126636..126639 4 31 35 35 27 19 -3.88 70.99 +Sample_1732P DEL chr19:54784816-54803978 19.16 chr19 54794397 127894..127900 7 26 99 99 10 22 -5.06 32.30 +Sample_1732P DUP chr21:45959068-46067564 108.50 chr21 46013316 134150..134162 13 20 99 99 19 18 3.54 224.36 +Sample_1732P DEL chr22:18769652-18778742 9.09 chr22 18774197 134659..134660 2 39 69 69 13 21 -7.29 36.93 +Sample_1732P DEL chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 53 99 99 34 10 -5.02 12.80 +Sample_1732P DUP chr22:42905034-42910310 5.28 chr22 42907672 137453..137457 5 32 99 99 32 8 5.48 74.00 +Sample_1732P DUP chr22:42914011-42952594 38.58 chr22 42933302 137459..137461 3 6 40 40 4 27 4.79 65.47 +Sample_1750F DUP chr1:14363-70008 55.65 chr1 42185 1..5 5 23 85 85 0 23 4.14 34.39 +Sample_1750F DEL chr1:16918342-17086181 167.84 chr1 17002261 1955..1982 28 29 99 99 5 7 -4.16 36.27 +Sample_1750F DEL chr1:17090909-17275421 184.51 chr1 17183165 1986..2005 20 6 99 99 3 3 -4.77 25.52 +Sample_1750F DEL chr1:32126667-32127305 0.64 chr1 32126986 3739..3741 3 43 47 47 8 22 -4.96 18.31 +Sample_1750F DEL chr1:155183617-155185578 1.96 chr1 155184597 9806..9809 4 26 59 59 21 7 -4.34 30.33 +Sample_1750F DEL chr3:195390495-195475935 85.44 chr3 195433215 32789..32802 14 22 99 99 24 11 -3.14 14.05 +Sample_1750F DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 6 69 69 18 6 -3.91 29.66 +Sample_1750F DEL chr8:12043861-12250923 207.06 chr8 12147392 55316..55320 5 17 43 43 6 17 -3.65 17.80 +Sample_1750F DEL chr12:11034816-11035297 0.48 chr12 11035056 81234..81235 2 24 46 46 24 20 -6.67 22.74 +Sample_1750F DUP chr15:41853325-41871526 18.20 chr15 41862425 95370..95387 18 8 99 99 18 8 3.08 34.97 +Sample_1750F DEL chr16:1290678-1292554 1.88 chr16 1291616 99714..99717 4 49 88 88 23 20 -4.87 25.92 +Sample_1750F DUP chr16:32888797-32896463 7.67 chr16 32892630 103097..103104 8 18 84 84 12 18 3.12 33.75 +Sample_1750F DUP chr16:88688605-88706881 18.28 chr16 88697743 105982..105994 13 15 99 99 5 16 2.77 28.08 +Sample_1750F DUP chr17:15638244-15646830 8.59 chr17 15642537 108933..108944 12 35 98 99 13 6 4.60 42.73 +Sample_1750F DEL chr17:16703265-16736147 32.88 chr17 16719706 109045..109050 6 7 98 99 4 31 -4.14 13.66 +Sample_1750F DEL chr22:25041713-25045989 4.28 chr22 25043851 135494..135498 5 10 55 55 8 40 -3.71 56.27 +Sample_1750F DEL chr22:42538480-42538881 0.40 chr22 42538680 137436..137437 2 32 32 32 7 13 -6.08 47.43 +Sample_1750F DEL chrX:47930432-47986684 56.25 chrX 47958558 139204..139210 7 4 53 53 2 4 -2.99 14.11 +Sample_1750M DUP chr1:17084437-17087597 3.16 chr1 17086017 1979..1985 7 41 99 99 20 57 3.60 37.82 +Sample_1750M DUP chr5:140552243-140560019 7.78 chr5 140556131 40600..40601 2 57 80 80 18 28 7.95 41.47 +Sample_1750M DEL chr10:46965715-47000567 34.85 chr10 46983141 66734..66739 6 17 70 70 9 14 -3.50 17.61 +Sample_1750M DEL chr10:124340382-124353114 12.73 chr10 124346748 70419..70426 8 3 99 99 5 4 -3.68 7.62 +Sample_1750M DEL chr12:87984-90655 2.67 chr12 89319 79925..79930 6 25 51 51 29 22 -3.26 2.61 +Sample_1750M DEL chr12:8376045-8385203 9.16 chr12 8380624 80972..80976 5 8 48 48 8 21 -3.61 9.56 +Sample_1750M DEL chr12:11034816-11035297 0.48 chr12 11035056 81234..81235 2 23 34 34 21 19 -6.20 12.95 +Sample_1750M DUP chr15:23438825-23444098 5.27 chr15 23441461 94435..94438 4 3 99 99 3 47 5.38 27.48 +Sample_1750M DEL chr15:72958123-72958469 0.35 chr15 72958296 97499..97500 2 40 64 64 7 6 -7.27 8.50 +Sample_1750M DEL chr16:3073848-3077074 3.23 chr16 3075461 100438..100448 11 7 68 68 7 9 -2.64 25.81 +Sample_1750M DEL chr16:74442531-74447574 5.04 chr16 74445052 105291..105297 7 31 99 99 7 17 -4.11 11.29 +Sample_1750M DUP chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 36 98 99 23 37 3.15 18.45 +Sample_1750M DEL chr17:79994260-79994889 0.63 chr17 79994574 116109..116112 4 14 39 39 14 8 -3.95 24.35 +Sample_1750M DEL chr22:42969268-42972615 3.35 chr22 42970941 137466..137469 4 50 58 58 16 35 -4.35 4.96 +Sample_1750P DEL chr1:16907915-17085530 177.62 chr1 16996722 1950..1980 31 4 99 99 10 2 -3.73 26.99 +Sample_1750P DEL chr1:17087450-17273486 186.04 chr1 17180468 1985..2003 19 9 99 99 19 8 -3.44 30.89 +Sample_1750P DUP chr2:240981231-240985489 4.26 chr2 240983360 24411..24412 2 20 31 31 15 20 5.83 62.29 +Sample_1750P DUP chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 12 53 53 14 14 4.12 30.76 +Sample_1750P DEL chr12:87984-90655 2.67 chr12 89319 79925..79930 6 44 57 57 51 12 -3.33 4.75 +Sample_1750P DEL chr15:21932514-22414393 481.88 chr15 22173453 94355..94366 12 5 83 83 7 9 -2.77 10.33 +Sample_1750P DUP chr15:72958123-72958469 0.35 chr15 72958296 97499..97500 2 20 43 43 9 14 6.53 57.96 +Sample_1750P DEL chr15:78207740-78209434 1.70 chr15 78208587 98003..98007 5 6 49 49 7 11 -3.62 43.18 +Sample_1750P DUP chr16:70712155-70714928 2.77 chr16 70713541 105021..105026 6 7 48 48 6 17 3.25 32.99 +Sample_1750P DEL chr17:16705573-16736147 30.57 chr17 16720860 109046..109050 5 4 41 41 3 35 -3.39 12.22 +Sample_1750P DEL chr17:43502930-44159908 656.98 chr17 43831419 112451..112481 31 2 99 99 2 10 -2.39 0.05 +Sample_1750P DUP chr19:6730998-6731945 0.95 chr19 6731471 119821..119824 4 10 47 47 10 26 4.13 43.82 +Sample_1750P DEL chr22:24342269-24394849 52.58 chr22 24368559 135354..135362 9 4 99 99 8 5 -3.64 0.22 +Sample_178F DUP chr1:887792-898297 10.51 chr1 893044 39..53 15 8 94 94 12 6 2.48 57.15 +Sample_178F DUP chr1:1225857-1226074 0.22 chr1 1225965 186..187 2 35 36 36 11 8 6.23 114.14 +Sample_178F DUP chr1:1289228-1289889 0.66 chr1 1289558 259..262 4 8 66 66 6 8 4.45 76.67 +Sample_178F DUP chr1:17017713-17086502 68.79 chr1 17052107 1969..1983 15 14 80 80 29 9 2.43 71.71 +Sample_178F DUP chr2:128391751-128407650 15.90 chr2 128399700 20043..20060 18 5 52 52 5 2 2.13 56.88 +Sample_178F DUP chr2:220356516-220364737 8.22 chr2 220360626 23359..23362 4 9 38 38 3 6 3.89 72.03 +Sample_178F DUP chr3:47033965-47043778 9.81 chr3 47038871 26813..26834 22 5 62 62 15 5 2.08 62.01 +Sample_178F DUP chr3:47047228-47048840 1.61 chr3 47048034 26845..26850 6 4 86 86 17 2 3.72 84.49 +Sample_178F DUP chr3:48602542-48623408 20.87 chr3 48612975 27130..27216 87 3 86 99 4 2 2.80 79.05 +Sample_178F DUP chr3:49713811-49720579 6.77 chr3 49717195 27580..27594 15 5 73 73 5 8 2.37 73.21 +Sample_178F DUP chr3:49849303-49850171 0.87 chr3 49849737 27701..27704 4 33 96 99 6 21 5.10 134.33 +Sample_178F DUP chr3:50251582-50253068 1.49 chr3 50252325 27821..27825 5 23 50 50 22 31 3.67 73.19 +Sample_178F DUP chr3:52536022-52539952 3.93 chr3 52537987 28381..28393 13 26 99 99 12 9 2.88 73.29 +Sample_178F DUP chr3:52550372-52557772 7.40 chr3 52554072 28416..28443 28 5 50 50 8 10 1.93 66.83 +Sample_178F DEL chr4:190903679-190906024 2.35 chr4 190904851 37228..37231 4 42 56 56 16 42 -4.15 37.65 +Sample_178F DUP chr5:795720-865696 69.98 chr5 830708 37326..37338 13 11 98 99 17 2 4.70 67.90 +Sample_178F DEL chr5:140165876-140627799 461.92 chr5 140396837 40578..40611 34 15 99 99 12 16 -2.67 37.62 +Sample_178F DUP chr7:100175287-100180082 4.80 chr7 100177684 52079..52086 8 4 33 33 32 4 2.68 65.09 +Sample_178F DUP chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 5 99 99 25 5 5.11 57.36 +Sample_178F DUP chr8:7308087-7308721 0.64 chr8 7308404 55180..55181 2 29 48 48 29 4 6.57 58.09 +Sample_178F DUP chr8:7721023-8092106 371.08 chr8 7906564 55184..55188 5 8 34 34 8 7 3.74 63.88 +Sample_178F DUP chr8:11979496-12044126 64.63 chr8 12011811 55311..55316 6 58 99 99 29 9 6.29 75.32 +Sample_178F DUP chr8:144894987-144899315 4.33 chr8 144897151 58934..58942 9 4 99 99 14 3 3.72 87.81 +Sample_178F DUP chr8:145540516-145542025 1.51 chr8 145541270 59138..59147 10 17 99 99 8 17 4.20 109.97 +Sample_178F DUP chr8:145649424-145657843 8.42 chr8 145653633 59236..59246 11 5 33 33 18 5 2.38 70.19 +Sample_178F DUP chr9:130565508-130569967 4.46 chr9 130567737 63360..63367 8 7 32 32 7 21 2.70 77.55 +Sample_178F DUP chr9:139840381-139849948 9.57 chr9 139845164 65021..65031 11 3 56 56 17 3 2.51 64.81 +Sample_178F DUP chr10:47667255-47756732 89.48 chr10 47711993 66749..66767 19 10 99 99 5 14 2.66 48.04 +Sample_178F DEL chr10:135368855-135439108 70.25 chr10 135403981 70976..70988 13 9 72 72 10 4 -2.51 42.39 +Sample_178F DUP chr11:1099764-1104417 4.65 chr11 1102090 71441..71450 10 20 76 76 8 5 2.74 69.08 +Sample_178F DUP chr11:1278470-1281958 3.49 chr11 1280214 71488..71496 9 13 42 42 14 12 2.66 69.12 +Sample_178F DUP chr11:1905510-1955238 49.73 chr11 1930374 71576..71594 19 6 55 55 8 8 2.14 57.99 +Sample_178F DEL chr11:55032376-55038594 6.22 chr11 55035485 74018..74021 4 36 49 49 17 21 -4.06 12.84 +Sample_178F DUP chr11:64022220-64023088 0.87 chr11 64022654 75191..75195 5 8 63 63 14 7 3.85 85.94 +Sample_178F DUP chr11:64563745-64570125 6.38 chr11 64566935 75388..75409 22 3 32 32 10 3 1.96 78.01 +Sample_178F DUP chr12:87984-90655 2.67 chr12 89319 79925..79930 6 82 99 99 93 34 6.56 62.10 +Sample_178F DUP chr14:24525508-24530881 5.37 chr14 24528194 90725..90741 17 10 62 62 15 11 2.23 80.30 +Sample_178F DEL chr15:23299681-23300167 0.49 chr15 23299924 94425..94426 2 37 37 37 10 4 -6.15 53.77 +Sample_178F DUP chr15:25429453-25457180 27.73 chr15 25443316 94472..94479 8 5 31 31 5 19 2.68 46.69 +Sample_178F DUP chr15:40628961-40645468 16.51 chr15 40637214 95118..95127 10 7 44 44 6 7 2.55 61.59 +Sample_178F DUP chr16:708896-721781 12.89 chr16 715338 99491..99517 27 4 78 78 19 1 2.02 56.83 +Sample_178F DUP chr16:731438-776085 44.65 chr16 753761 99533..99577 45 6 99 99 4 18 2.34 60.28 +Sample_178F DUP chr16:2256359-2260052 3.69 chr16 2258205 100201..100210 10 9 65 65 13 3 2.71 74.30 +Sample_178F DUP chr16:3071556-3077281 5.73 chr16 3074418 100433..100449 17 29 99 99 16 4 3.06 87.21 +Sample_178F DEL chr16:18532087-18604038 71.95 chr16 18568062 101380..101392 13 8 99 99 9 16 -2.91 12.36 +Sample_178F DEL chr16:70162687-70195184 32.50 chr16 70178935 104882..104895 14 8 38 38 10 12 -2.24 17.77 +Sample_178F DUP chr16:72097125-72111144 14.02 chr16 72104134 105210..105213 4 55 99 99 23 20 6.61 52.54 +Sample_178F DEL chr16:74394531-74452196 57.67 chr16 74423363 105289..105298 10 6 48 48 5 6 -2.57 40.91 +Sample_178F DUP chr17:1374365-1375318 0.95 chr17 1374841 106498..106500 3 8 62 62 17 3 5.27 107.19 +Sample_178F DUP chr17:4442734-4446036 3.30 chr17 4444385 107083..107088 6 13 48 48 2 7 3.23 79.39 +Sample_178F DEL chr17:14139175-14140150 0.98 chr17 14139662 108886..108888 3 8 33 33 24 8 -4.45 37.69 +Sample_178F DEL chr17:18390961-18395859 4.90 chr17 18393410 109357..109360 4 10 57 57 12 13 -4.31 17.44 +Sample_178F DUP chr17:20355108-20358711 3.60 chr17 20356909 109567..109569 3 23 97 99 12 9 6.42 58.01 +Sample_178F DEL chr17:20798990-20799453 0.46 chr17 20799221 109578..109578 1 30 30 30 26 29 -10.00 37.75 +Sample_178F DEL chr17:39155446-39526047 370.60 chr17 39340746 111307..111346 40 13 98 99 2 2 -2.96 41.71 +Sample_178F DUP chr17:39533923-39538636 4.71 chr17 39536279 111347..111353 7 4 64 99 0 32 4.50 58.58 +Sample_178F DUP chr17:48266103-48274031 7.93 chr17 48270067 112929..112959 31 10 99 99 13 14 2.29 78.46 +Sample_178F DUP chr17:56397892-56403782 5.89 chr17 56400837 113386..113394 9 8 45 45 5 9 2.67 62.69 +Sample_178F DUP chr17:73488555-73494404 5.85 chr17 73491479 114705..114718 14 17 99 99 12 2 2.63 64.27 +Sample_178F DUP chr17:76122358-76131090 8.73 chr17 76126724 115333..115343 11 18 54 54 19 12 2.54 75.63 +Sample_178F DUP chr17:79982154-79988114 5.96 chr17 79985134 116087..116100 14 13 99 99 14 7 2.66 65.23 +Sample_178F DUP chr17:80045561-80047260 1.70 chr17 80046410 116169..116175 7 4 40 40 8 4 2.92 74.37 +Sample_178F DEL chr19:15838834-15918936 80.10 chr19 15878885 122110..122113 4 42 47 47 18 26 -4.14 64.21 +Sample_178F DUP chr19:36219675-36228644 8.97 chr19 36224159 123745..123759 15 2 99 99 10 2 2.66 69.11 +Sample_178F DUP chr20:17596571-17608027 11.46 chr20 17602299 129555..129566 12 6 31 31 5 19 2.31 56.03 +Sample_178F DUP chr20:60962667-60971648 8.98 chr20 60967157 132486..132498 13 22 99 99 5 18 2.66 60.69 +Sample_178F DUP chr20:62192148-62193337 1.19 chr20 62192742 132741..132745 5 45 50 50 16 12 3.65 75.58 +Sample_178F DUP chr20:62318991-62319739 0.75 chr20 62319365 132785..132788 4 9 99 99 7 32 5.71 115.04 +Sample_178F DUP chr20:62697829-62703294 5.47 chr20 62700561 132908..132915 8 6 36 36 8 5 2.72 68.45 +Sample_178F DEL chr21:45959068-46131495 172.43 chr21 46045281 134150..134168 19 10 99 99 38 9 -5.07 115.98 +Sample_178F DUP chr21:47406440-47414143 7.70 chr21 47410291 134294..134310 17 6 40 40 4 9 2.12 63.21 +Sample_178F DUP chr21:47535923-47542072 6.15 chr21 47538997 134330..134341 12 3 85 85 22 3 2.64 69.15 +Sample_178F DEL chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 10 52 52 25 10 -3.02 11.26 +Sample_178F DUP chr22:50716864-50719618 2.75 chr22 50718241 138077..138084 8 26 38 38 7 4 2.73 67.62 +Sample_178F DUP chr22:50752636-50757432 4.80 chr22 50755034 138113..138124 12 10 70 70 10 26 2.52 76.07 +Sample_178F DUP chr22:50898963-50905139 6.18 chr22 50902051 138163..138181 19 8 99 99 6 11 2.49 76.67 +Sample_178M DUP chr1:17256619-17273486 16.87 chr1 17265052 1991..2003 13 42 89 88 3 26 2.58 43.05 +Sample_178M DEL chr2:130806641-130897669 91.03 chr2 130852155 20144..20151 8 4 58 58 4 2 -2.94 18.07 +Sample_178M DUP chr3:195392937-195475935 83.00 chr3 195434436 32791..32802 12 5 99 99 9 7 2.95 28.75 +Sample_178M DEL chr5:795720-837595 41.88 chr5 816657 37326..37332 7 12 84 84 18 12 -3.46 6.30 +Sample_178M DUP chr7:76140974-76179178 38.20 chr7 76160076 51081..51085 5 4 33 33 2 6 3.28 26.19 +Sample_178M DUP chr8:11979496-12008698 29.20 chr8 11994097 55311..55314 4 32 99 99 57 24 6.27 35.30 +Sample_178M DEL chr8:12245467-12250923 5.46 chr8 12248195 55318..55320 3 19 45 45 34 19 -4.81 6.20 +Sample_178M DEL chr8:145540850-145542731 1.88 chr8 145541790 59140..59151 12 11 88 88 7 11 -2.67 33.18 +Sample_178M DUP chr10:46965715-47088319 122.61 chr10 47027017 66734..66741 8 5 46 46 5 6 2.83 42.54 +Sample_178M DEL chr15:78206559-78208927 2.37 chr15 78207743 98002..98006 5 4 41 41 17 4 -3.49 38.42 +Sample_178M DEL chr16:57789257-57789978 0.72 chr16 57789617 103833..103835 3 4 51 51 4 26 -5.02 38.71 +Sample_178M DUP chr16:72097125-72111144 14.02 chr16 72104134 105210..105213 4 35 99 99 24 22 6.34 27.77 +Sample_178M DEL chr17:14139175-14140150 0.98 chr17 14139662 108886..108888 3 6 38 38 22 6 -4.57 20.30 +Sample_178M DEL chr17:39506672-39526047 19.38 chr17 39516359 111339..111346 8 54 99 99 41 5 -5.31 3.61 +Sample_178M DUP chr17:39535208-39538636 3.43 chr17 39536922 111348..111353 6 43 99 99 5 15 4.96 35.61 +Sample_178M DEL chr19:55105662-55107400 1.74 chr19 55106531 127980..127984 5 19 68 68 4 6 -3.89 23.81 +Sample_178M DEL chr19:55247287-55361964 114.68 chr19 55304625 128016..128034 19 4 99 99 4 23 -2.94 0.02 +Sample_178M DUP chr22:24373117-24394849 21.73 chr22 24383983 135356..135362 7 4 38 38 14 4 2.91 17.60 +Sample_178M DUP chrX:49099352-49099928 0.58 chrX 49099640 139528..139530 3 14 45 45 6 10 4.86 46.77 +Sample_178P DUP chr1:17084437-17256842 172.41 chr1 17170639 1979..1992 14 5 99 99 5 14 3.07 34.96 +Sample_178P DEL chr1:32155968-32158243 2.28 chr1 32157105 3778..3785 8 5 36 36 6 11 -2.73 16.03 +Sample_178P DUP chr1:45798063-45798506 0.44 chr1 45798284 5460..5462 3 20 50 50 18 20 5.05 47.11 +Sample_178P DEL chr3:48608676-48609854 1.18 chr3 48609265 27153..27156 4 9 79 79 6 25 -4.71 14.87 +Sample_178P DEL chr3:195390495-195447954 57.46 chr3 195419224 32789..32797 9 13 85 86 12 12 -3.05 3.24 +Sample_178P DUP chr5:795720-843839 48.12 chr5 819779 37326..37334 9 71 98 99 16 3 5.67 31.53 +Sample_178P DUP chr10:46965715-47088319 122.61 chr10 47027017 66734..66741 8 7 56 56 6 6 2.93 27.70 +Sample_178P DEL chr15:78207982-78208271 0.29 chr15 78208126 98004..98005 2 50 51 51 11 22 -6.83 37.58 +Sample_178P DEL chr16:3076680-3077074 0.40 chr16 3076877 100446..100448 3 7 36 36 3 7 -4.61 47.72 +Sample_178P DEL chr19:2098286-2098449 0.16 chr19 2098367 118743..118744 2 19 40 40 10 19 -6.40 19.41 +Sample_178P DEL chr22:31484499-31484955 0.46 chr22 31484727 136090..136092 3 24 48 48 4 26 -4.95 35.21 +Sample_1802F DEL chr1:16918342-16976914 58.57 chr1 16947628 1955..1968 14 21 99 99 24 23 -4.27 48.83 +Sample_1802F DEL chr1:17084437-17090975 6.54 chr1 17087706 1979..1986 8 45 99 99 12 29 -5.05 46.72 +Sample_1802F DUP chr1:17250820-17257089 6.27 chr1 17253954 1989..1993 5 23 34 34 16 3 3.38 73.24 +Sample_1802F DEL chr7:102119255-102257205 137.95 chr7 102188230 52450..52456 7 3 56 56 4 7 -3.11 6.31 +Sample_1802F DEL chr9:117085943-117087432 1.49 chr9 117086687 62580..62583 4 38 53 53 11 13 -4.23 12.55 +Sample_1802F DEL chr11:55032376-55038594 6.22 chr11 55035485 74018..74021 4 64 99 99 33 13 -5.82 0.44 +Sample_1802F DEL chr12:9447413-9458719 11.31 chr12 9453066 81113..81123 11 4 39 39 4 39 -2.43 11.03 +Sample_1802F DUP chr16:1279567-1291700 12.13 chr16 1285633 99712..99716 5 17 40 40 17 40 3.52 52.41 +Sample_1802F DEL chr16:69984810-69997887 13.08 chr16 69991348 104856..104860 5 6 42 42 17 6 -3.50 19.12 +Sample_1802F DUP chr16:74394531-74447574 53.04 chr16 74421052 105289..105297 9 2 99 99 4 4 4.10 50.81 +Sample_1802F DUP chr17:18390961-18398258 7.30 chr17 18394609 109357..109362 6 3 55 55 5 3 3.28 32.94 +Sample_1802F DEL chr17:20355108-20358711 3.60 chr17 20356909 109567..109569 3 29 37 37 5 8 -4.67 1.69 +Sample_1802F DUP chr17:39535208-39538636 3.43 chr17 39536922 111348..111353 6 12 99 99 7 19 4.09 40.15 +Sample_1802F DEL chr19:43349168-43530631 181.46 chr19 43439899 125377..125396 20 32 99 99 4 23 -3.48 9.51 +Sample_1802F DEL chr19:55239077-55266508 27.43 chr19 55252792 128015..128021 7 4 75 75 4 8 -3.32 1.38 +Sample_1802F DUP chr20:44577809-44578708 0.90 chr20 44578258 131591..131595 5 7 75 75 5 29 4.02 72.76 +Sample_1802F DUP chr21:37572629-37618975 46.35 chr21 37595802 133442..133455 14 19 60 60 10 17 2.38 24.23 +Sample_1802F DUP chr21:46031996-46086844 54.85 chr21 46059420 134159..134165 7 3 99 99 10 3 3.66 109.47 +Sample_1802M DUP chr1:17250820-17264978 14.16 chr1 17257899 1989..1997 9 8 47 47 10 6 2.69 41.47 +Sample_1802M DEL chr2:114346127-114355215 9.09 chr2 114350671 19700..19705 6 33 57 57 31 6 -3.40 11.87 +Sample_1802M DEL chr2:241631491-241657585 26.09 chr2 241644538 24473..24475 3 5 30 30 23 5 -4.55 10.98 +Sample_1802M DUP chr3:48610607-48610990 0.38 chr3 48610798 27161..27163 3 56 97 99 3 15 6.25 60.67 +Sample_1802M DUP chr7:141759272-141765268 6.00 chr7 141762270 54004..54010 7 48 99 99 6 19 3.81 20.79 +Sample_1802M DUP chr8:8090316-8096446 6.13 chr8 8093381 55187..55192 6 41 99 99 22 38 6.18 54.01 +Sample_1802M DEL chr8:145541447-145542583 1.14 chr8 145542015 59144..59150 7 5 49 49 5 6 -3.02 31.64 +Sample_1802M DEL chr12:8376612-8391345 14.73 chr12 8383978 80973..80977 5 6 78 78 5 27 -4.07 17.75 +Sample_1802M DEL chr15:78207740-78208271 0.53 chr15 78208005 98003..98005 3 9 43 43 4 21 -4.82 47.39 +Sample_1802M DEL chr16:69984810-69997887 13.08 chr16 69991348 104856..104860 5 7 61 61 8 13 -3.79 9.50 +Sample_1802M DUP chr16:74387675-74447574 59.90 chr16 74417624 105288..105297 10 3 93 94 3 12 2.95 29.27 +Sample_1802M DUP chr17:18380099-18398258 18.16 chr17 18389178 109355..109362 8 7 98 99 16 5 3.86 23.77 +Sample_1802M DUP chr17:39525655-39551320 25.67 chr17 39538487 111346..111355 10 3 99 99 3 11 3.15 26.08 +Sample_1802M DUP chr19:36053337-36104802 51.47 chr19 36079069 123673..123679 7 5 34 34 5 23 2.90 30.87 +Sample_1802M DUP chr19:59081711-59081894 0.18 chr19 59081802 128730..128731 2 56 56 56 30 29 7.06 74.79 +Sample_1802M DUP chr22:18769652-18778742 9.09 chr22 18774197 134659..134660 2 19 39 39 19 14 6.12 38.69 +Sample_1802P DEL chr1:16913545-16976914 63.37 chr1 16945229 1952..1968 17 15 99 99 11 15 -4.28 27.02 +Sample_1802P DEL chr1:17084437-17090975 6.54 chr1 17087706 1979..1986 8 22 99 99 3 59 -5.41 23.68 +Sample_1802P DUP chr9:117085303-117087432 2.13 chr9 117086367 62579..62583 5 22 99 99 22 3 8.11 40.14 +Sample_1802P DUP chr10:89120238-89124960 4.72 chr10 89122599 68298..68299 2 24 45 45 43 11 6.59 22.91 +Sample_1802P DUP chr10:135368855-135381779 12.93 chr10 135375317 70976..70987 12 20 99 99 7 28 3.18 30.95 +Sample_1802P DUP chr12:87984-149412 61.43 chr12 118698 79925..79932 8 50 99 99 54 8 3.58 24.14 +Sample_1802P DEL chr15:22145703-22414393 268.69 chr15 22280048 94359..94366 8 4 81 81 16 4 -3.23 7.50 +Sample_1802P DEL chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 9 35 35 8 25 -3.37 13.48 +Sample_1802P DEL chr19:58965063-58969199 4.14 chr19 58967131 128671..128673 3 28 32 32 3 8 -4.47 12.35 +Sample_1802P DUP chr21:45970318-46012386 42.07 chr21 45991352 134151..134156 6 20 38 38 14 24 3.16 84.77 +Sample_1802P DUP chr22:21828886-21834291 5.41 chr22 21831588 135112..135116 5 14 36 36 13 13 3.44 26.18 +Sample_1802P DEL chr22:24347142-24384284 37.14 chr22 24365713 135355..135361 7 12 99 99 7 2 -3.86 0.00 +Sample_1802P DEL chr22:25041133-25045989 4.86 chr22 25043561 135493..135498 6 3 37 37 3 25 -3.10 32.84 +Sample_1848F DUP chr1:14970-17742 2.77 chr1 16356 2..4 3 70 99 99 40 57 6.94 108.05 +Sample_1848F DUP chr1:1635478-1677431 41.95 chr1 1656454 372..382 11 6 84 84 5 27 2.75 61.90 +Sample_1848F DUP chr1:16895568-16976914 81.35 chr1 16936241 1945..1968 24 18 99 99 8 15 4.20 157.81 +Sample_1848F DEL chr1:17085561-17086502 0.94 chr1 17086031 1981..1983 3 5 48 48 26 5 -4.97 90.28 +Sample_1848F DEL chr1:148930405-149399229 468.82 chr1 149164817 8608..8613 6 4 39 39 4 38 -3.41 96.02 +Sample_1848F DUP chr1:161559352-161601158 41.81 chr1 161580255 11053..11060 8 18 99 99 5 31 4.53 72.67 +Sample_1848F DEL chr2:96697781-96698167 0.39 chr2 96697974 18726..18727 2 28 51 51 11 25 -6.61 0.00 +Sample_1848F DUP chr3:49723746-49724235 0.49 chr3 49723990 27606..27607 2 23 46 46 9 16 6.64 225.57 +Sample_1848F DEL chr5:825279-843839 18.56 chr5 834559 37330..37334 5 2 98 99 2 5 -4.46 57.24 +Sample_1848F DUP chr5:180375355-180430876 55.52 chr5 180403115 42756..42762 7 6 62 62 20 6 3.22 50.78 +Sample_1848F DUP chr6:304628-348841 44.21 chr6 326734 42799..42804 6 6 78 78 6 13 3.68 102.63 +Sample_1848F DUP chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 16 99 99 25 16 5.25 98.00 +Sample_1848F DEL chr8:11979496-12044126 64.63 chr8 12011811 55311..55316 6 21 99 99 20 5 -4.75 52.82 +Sample_1848F DUP chr8:12245467-12250923 5.46 chr8 12248195 55318..55320 3 10 64 64 5 0 5.32 113.09 +Sample_1848F DEL chr8:12286142-12287960 1.82 chr8 12287051 55321..55322 2 62 75 75 0 11 -7.78 37.75 +Sample_1848F DEL chr10:47680349-47756092 75.74 chr10 47718220 66759..66766 8 42 62 62 8 46 -3.03 73.55 +Sample_1848F DEL chr11:55032376-55038594 6.22 chr11 55035485 74018..74021 4 99 99 99 26 24 -8.72 0.79 +Sample_1848F DEL chr11:60970984-60971741 0.76 chr11 60971362 74466..74467 2 65 88 88 4 4 -8.06 23.65 +Sample_1848F DUP chr12:8376045-8385203 9.16 chr12 8380624 80972..80976 5 26 95 96 13 36 4.35 123.32 +Sample_1848F DUP chr14:19558991-20404761 845.77 chr14 19981876 90040..90047 8 21 99 99 20 17 4.40 69.52 +Sample_1848F DUP chr15:23311307-23444098 132.79 chr15 23377702 94428..94438 11 20 99 99 4 41 3.71 63.84 +Sample_1848F DUP chr15:41853325-41871526 18.20 chr15 41862425 95370..95387 18 10 96 98 16 11 2.32 80.71 +Sample_1848F DUP chr15:74364559-74368131 3.57 chr15 74366345 97609..97610 2 21 47 47 5 19 6.43 109.23 +Sample_1848F DEL chr15:78206559-78208271 1.71 chr15 78207415 98002..98005 4 14 99 99 13 28 -5.28 155.46 +Sample_1848F DEL chr16:28616918-28621357 4.44 chr16 28619137 102277..102282 6 4 76 76 4 15 -3.59 65.34 +Sample_1848F DEL chr16:69984810-69997887 13.08 chr16 69991348 104856..104860 5 30 99 99 30 18 -5.24 31.38 +Sample_1848F DEL chr16:70207928-70220796 12.87 chr16 70214362 104896..104898 3 57 77 77 34 21 -5.61 18.28 +Sample_1848F DUP chr16:74442531-74444932 2.40 chr16 74443731 105291..105295 5 8 97 99 22 8 4.45 122.43 +Sample_1848F DUP chr17:15635591-15640837 5.25 chr17 15638214 108932..108935 4 15 38 38 12 17 3.96 106.07 +Sample_1848F DEL chr17:48268744-48271987 3.24 chr17 48270365 112939..112949 11 7 35 35 16 5 -2.40 123.32 +Sample_1848F DEL chr19:40373945-40382826 8.88 chr19 40378385 124708..124712 5 27 99 99 28 16 -5.11 21.93 +Sample_1848F DUP chr19:40389652-40398510 8.86 chr19 40394081 124714..124718 5 7 75 99 6 22 4.89 92.72 +Sample_1848F DUP chr21:14982498-14983070 0.57 chr21 14982784 132983..132983 1 31 31 31 31 31 10.00 116.88 +Sample_1848F DEL chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 25 99 99 23 17 -4.22 21.84 +Sample_1848F DEL chr22:42536216-42537349 1.13 chr22 42536782 137431..137433 3 17 31 31 14 20 -4.58 73.70 +Sample_1848M DUP chr1:16895568-16976914 81.35 chr1 16936241 1945..1968 24 12 90 99 27 20 3.55 68.88 +Sample_1848M DUP chr1:17084437-17090975 6.54 chr1 17087706 1979..1986 8 21 99 99 20 51 5.22 95.12 +Sample_1848M DEL chr1:161520321-161601158 80.84 chr1 161560739 11052..11060 9 19 59 59 27 18 -2.80 9.67 +Sample_1848M DUP chr2:114341230-114358421 17.19 chr2 114349825 19699..19708 10 35 95 96 29 17 2.94 57.22 +Sample_1848M DUP chr3:75470705-75480065 9.36 chr3 75475385 29262..29267 6 8 52 52 8 19 3.32 79.69 +Sample_1848M DEL chr3:195392937-195475935 83.00 chr3 195434436 32791..32802 12 10 98 99 8 14 -2.85 21.76 +Sample_1848M DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 11 95 97 5 13 4.34 68.61 +Sample_1848M DUP chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 25 99 99 17 19 5.10 50.29 +Sample_1848M DEL chr8:11979496-12008698 29.20 chr8 11994097 55311..55314 4 21 41 41 32 8 -3.98 10.99 +Sample_1848M DUP chr8:12043861-12250923 207.06 chr8 12147392 55316..55320 5 15 64 64 7 24 3.99 51.54 +Sample_1848M DUP chr12:87984-90655 2.67 chr12 89319 79925..79930 6 4 43 43 36 4 3.12 35.17 +Sample_1848M DUP chr12:8378432-8391345 12.91 chr12 8384888 80975..80977 3 9 47 47 14 9 4.96 81.11 +Sample_1848M DUP chr12:9573111-9578420 5.31 chr12 9575765 81136..81141 6 9 65 65 4 15 3.47 49.16 +Sample_1848M DUP chr14:20215587-20404761 189.18 chr14 20310174 90042..90047 6 34 99 99 34 14 4.74 39.84 +Sample_1848M DUP chr16:14989371-15045930 56.56 chr16 15017650 101198..101199 2 26 39 39 10 23 6.30 78.94 +Sample_1848M DEL chr16:69984810-69997887 13.08 chr16 69991348 104856..104860 5 16 77 77 16 15 -4.05 14.77 +Sample_1848M DEL chr16:70207928-70220796 12.87 chr16 70214362 104896..104898 3 30 31 31 27 28 -4.44 6.17 +Sample_1848M DUP chr16:74442531-74444932 2.40 chr16 74443731 105291..105295 5 5 82 82 9 5 4.11 56.13 +Sample_1848M DUP chr17:39261641-39411837 150.20 chr17 39336739 111317..111331 15 15 68 68 15 20 2.39 76.00 +Sample_1848M DUP chr17:60342069-60351477 9.41 chr17 60346773 113673..113682 10 21 47 47 22 20 2.59 44.89 +Sample_1848M DEL chr19:3816672-3823401 6.73 chr19 3820036 119148..119153 6 22 46 46 24 5 -3.23 10.41 +Sample_1848M DEL chr19:52133552-52149893 16.34 chr19 52141722 127512..127516 5 12 68 68 23 12 -3.94 0.94 +Sample_1848M DUP chr19:55247287-55290114 42.83 chr19 55268700 128016..128023 8 2 99 99 3 5 3.45 26.12 +Sample_1848M DUP chr21:14982498-14983070 0.57 chr21 14982784 132983..132983 1 31 31 31 31 8 10.00 61.02 +Sample_1848M DUP chr21:45959068-46067564 108.50 chr21 46013316 134150..134162 13 51 99 99 19 19 4.69 151.06 +Sample_1848M DUP chr22:24347142-24394849 47.71 chr22 24370995 135355..135362 8 4 99 99 15 4 4.40 30.66 +Sample_1848P DEL chr1:12851546-12943231 91.69 chr1 12897388 1602..1619 18 18 99 99 18 3 -3.23 39.02 +Sample_1848P DUP chr1:16895568-16976914 81.35 chr1 16936241 1945..1968 24 17 86 99 43 0 3.73 108.71 +Sample_1848P DEL chr1:17017713-17046652 28.94 chr1 17032182 1969..1977 9 29 99 99 0 10 -5.82 27.83 +Sample_1848P DEL chr1:17090909-17281372 190.46 chr1 17186140 1986..2009 24 3 99 99 31 3 -5.61 53.02 +Sample_1848P DUP chr1:25611064-25633220 22.16 chr1 25622142 3041..3046 6 4 89 89 31 4 3.75 59.89 +Sample_1848P DUP chr1:161520321-161601158 80.84 chr1 161560739 11052..11060 9 18 80 80 14 20 2.98 49.59 +Sample_1848P DEL chr2:96697781-96698167 0.39 chr2 96697974 18726..18727 2 21 44 44 8 20 -6.33 0.75 +Sample_1848P DUP chr3:49722171-49724235 2.06 chr3 49723203 27599..27607 9 3 35 35 2 8 2.56 112.28 +Sample_1848P DUP chr3:195451098-195475935 24.84 chr3 195463516 32798..32802 5 8 41 41 9 8 3.51 79.05 +Sample_1848P DUP chr5:140165876-140264247 98.37 chr5 140215061 40578..40590 13 2 32 32 2 8 2.23 95.48 +Sample_1848P DUP chr6:304628-348841 44.21 chr6 326734 42799..42804 6 17 99 99 41 6 4.27 73.94 +Sample_1848P DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 30 57 57 15 29 -3.75 58.10 +Sample_1848P DUP chr7:142457319-142482397 25.08 chr7 142469858 54056..54064 9 4 99 99 4 24 3.23 59.86 +Sample_1848P DUP chr8:7154584-7218758 64.17 chr8 7186671 55172..55177 6 15 44 44 5 4 3.22 52.67 +Sample_1848P DUP chr9:135939791-135958013 18.22 chr9 135948902 64283..64293 11 18 99 99 8 13 3.50 55.62 +Sample_1848P DEL chr10:46963840-47416976 453.14 chr10 47190408 66733..66744 12 3 99 99 5 3 -3.74 51.59 +Sample_1848P DEL chr11:55032376-55038594 6.22 chr11 55035485 74018..74021 4 97 99 99 39 30 -8.04 0.57 +Sample_1848P DUP chr11:64564454-64565006 0.55 chr11 64564730 75392..75395 4 12 34 34 33 9 3.86 152.29 +Sample_1848P DEL chr12:87984-90655 2.67 chr12 89319 79925..79930 6 36 85 85 82 36 -3.69 16.96 +Sample_1848P DUP chr12:8376612-8385203 8.59 chr12 8380907 80973..80976 4 20 99 99 14 29 5.53 89.91 +Sample_1848P DUP chr12:31247524-31257725 10.20 chr12 31252624 81838..81852 15 4 90 93 18 4 2.43 78.91 +Sample_1848P DUP chr14:20215587-20404761 189.18 chr14 20310174 90042..90047 6 8 79 79 4 8 3.73 53.68 +Sample_1848P DUP chr15:41864641-41871526 6.89 chr15 41868083 95383..95387 5 23 99 99 18 22 4.60 68.00 +Sample_1848P DEL chr15:72954593-72958469 3.88 chr15 72956531 97496..97500 5 13 37 37 13 18 -3.46 28.78 +Sample_1848P DUP chr15:78207740-78214113 6.37 chr15 78210926 98003..98015 13 5 98 99 4 23 2.69 118.76 +Sample_1848P DUP chr16:101558-148299 46.74 chr16 124928 99271..99305 35 2 99 99 4 3 4.45 78.64 +Sample_1848P DEL chr16:70148724-70195184 46.46 chr16 70171954 104879..104895 17 5 95 97 5 12 -2.38 25.85 +Sample_1848P DEL chr16:74394531-74447574 53.04 chr16 74421052 105289..105297 9 12 99 99 11 21 -3.32 58.33 +Sample_1848P DUP chr17:39279347-39406904 127.56 chr17 39343125 111319..111330 12 10 72 72 8 10 2.61 110.42 +Sample_1848P DUP chr19:54724025-54725251 1.23 chr19 54724638 127861..127863 3 9 32 32 9 18 4.59 66.71 +Sample_1848P DUP chr19:54745902-54746724 0.82 chr19 54746313 127867..127869 3 47 93 93 10 15 6.12 70.17 +Sample_1848P DEL chr19:55247287-55327989 80.70 chr19 55287638 128016..128026 11 10 95 99 19 10 -4.06 3.26 +Sample_1848P DUP chr21:14982498-14983070 0.57 chr21 14982784 132983..132983 1 31 31 31 31 29 10.00 91.42 +Sample_1848P DUP chr21:45959068-46117959 158.89 chr21 46038513 134150..134167 18 43 99 99 24 24 3.78 212.47 +Sample_1848P DUP chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 44 49 49 28 40 4.89 94.54 +Sample_1848P DEL chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 35 99 99 42 20 -4.41 11.74 +Sample_1848P DUP chr22:24652721-24661490 8.77 chr22 24657105 135427..135431 5 31 99 99 10 18 4.80 152.93 +Sample_1848P DUP chr22:25041713-25055114 13.40 chr22 25048413 135494..135500 7 19 99 99 4 18 4.63 142.83 +Sample_1858F DUP chr1:32148795-32158755 9.96 chr1 32153775 3764..3787 24 16 99 99 15 16 2.21 50.74 +Sample_1858F DUP chr1:104108057-104166606 58.55 chr1 104137331 7333..7345 13 12 99 99 23 12 4.44 36.46 +Sample_1858F DUP chr3:48616802-48623289 6.49 chr3 48620045 27184..27215 32 7 97 99 20 10 2.13 61.84 +Sample_1858F DUP chr3:195410623-195475935 65.31 chr3 195443279 32796..32802 7 7 98 99 7 7 3.89 52.65 +Sample_1858F DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 46 99 99 31 23 -4.57 32.57 +Sample_1858F DEL chr7:74197282-74306965 109.68 chr7 74252123 50910..50917 8 17 48 48 12 24 -2.91 29.42 +Sample_1858F DUP chr8:12008506-12250923 242.42 chr8 12129714 55314..55320 7 14 87 87 3 24 3.55 48.88 +Sample_1858F DEL chr9:90747881-90748584 0.70 chr9 90748232 61296..61297 2 48 49 49 8 11 -6.71 17.12 +Sample_1858F DUP chr10:135351255-135381779 30.52 chr10 135366517 70973..70987 15 3 99 99 3 25 3.11 46.31 +Sample_1858F DUP chr12:147946-149412 1.47 chr12 148679 79931..79932 2 12 41 41 7 41 6.21 61.42 +Sample_1858F DUP chr15:22332388-22414393 82.01 chr15 22373390 94360..94366 7 6 99 99 36 6 3.77 43.03 +Sample_1858F DUP chr16:732077-733909 1.83 chr16 732993 99536..99544 9 4 46 46 3 5 2.65 64.88 +Sample_1858F DUP chr16:2213884-2220731 6.85 chr16 2217307 100163..100166 4 4 30 30 5 4 3.74 60.54 +Sample_1858F DEL chr16:14989371-15123913 134.54 chr16 15056642 101198..101213 16 63 99 99 6 16 -3.38 18.52 +Sample_1858F DUP chr17:16667279-16736147 68.87 chr17 16701713 109038..109050 13 16 98 99 16 30 4.33 43.54 +Sample_1858F DEL chr17:18380099-18430160 50.06 chr17 18405129 109355..109365 11 27 98 99 15 24 -3.04 10.23 +Sample_1858F DUP chr19:17443739-17450408 6.67 chr19 17447073 122450..122460 11 27 99 99 35 27 3.84 51.45 +Sample_1858F DEL chr19:43349168-43530631 181.46 chr19 43439899 125377..125396 20 6 99 99 7 6 -2.80 11.78 +Sample_1858F DEL chr19:55239077-55290114 51.04 chr19 55264595 128015..128023 9 5 84 84 7 4 -3.00 2.16 +Sample_1858F DEL chr22:20385726-20398336 12.61 chr22 20392031 134920..134925 6 32 99 99 32 17 -4.23 6.61 +Sample_1858F DUP chr22:24347142-24394849 47.71 chr22 24370995 135355..135362 8 12 99 99 13 11 4.20 30.44 +Sample_1858F DEL chr22:25041713-25045989 4.28 chr22 25043851 135494..135498 5 12 47 47 13 19 -3.60 58.12 +Sample_1858F DEL chr22:42905034-42914153 9.12 chr22 42909593 137453..137459 7 7 82 82 7 6 -3.34 16.62 +Sample_1858M DUP chr1:17086647-17275019 188.37 chr1 17180833 1984..2004 21 10 99 99 3 6 2.45 49.78 +Sample_1858M DEL chr4:190903679-190906024 2.35 chr4 190904851 37228..37231 4 23 35 35 11 23 -3.75 24.51 +Sample_1858M DUP chr5:795720-837595 41.88 chr5 816657 37326..37332 7 21 37 37 25 4 2.91 27.30 +Sample_1858M DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 31 72 72 18 26 -3.97 25.96 +Sample_1858M DUP chr7:72643601-72649368 5.77 chr7 72646484 50675..50677 3 20 72 72 37 12 5.61 32.50 +Sample_1858M DUP chr7:76610139-76631638 21.50 chr7 76620888 51094..51097 4 37 99 99 40 9 5.81 42.36 +Sample_1858M DUP chr8:144894987-144895544 0.56 chr8 144895265 58934..58936 3 35 45 45 12 42 4.93 75.41 +Sample_1858M DUP chr10:135368855-135381779 12.93 chr10 135375317 70976..70987 12 6 99 99 5 6 4.23 43.47 +Sample_1858M DEL chr12:11034816-11035297 0.48 chr12 11035056 81234..81235 2 37 60 60 28 24 -7.21 18.48 +Sample_1858M DUP chr15:72954593-72958469 3.88 chr15 72956531 97496..97500 5 16 63 63 12 18 3.85 35.20 +Sample_1858M DUP chr15:83013569-83015609 2.04 chr15 83014589 98300..98301 2 34 34 34 22 34 5.92 26.70 +Sample_1858M DUP chr15:102462345-102516807 54.46 chr15 102489576 99266..99269 4 10 95 97 10 27 5.00 33.31 +Sample_1858M DEL chr16:1279191-1292554 13.36 chr16 1285872 99711..99717 7 5 84 84 3 17 -3.38 18.49 +Sample_1858M DUP chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 11 98 99 3 33 3.42 30.15 +Sample_1858M DEL chr17:18292171-18430160 137.99 chr17 18361165 109353..109365 13 4 98 99 4 20 -3.38 6.06 +Sample_1858M DUP chr19:17443739-17450408 6.67 chr19 17447073 122450..122460 11 40 99 99 20 28 4.32 39.69 +Sample_1858M DEL chr19:43348511-43441330 92.82 chr19 43394920 125376..125392 17 6 99 99 6 13 -2.67 9.53 +Sample_1858M DUP chr19:55315346-55341435 26.09 chr19 55328390 128025..128028 4 9 35 35 8 4 3.88 19.71 +Sample_1858M DUP chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 3 79 79 3 18 3.30 20.23 +Sample_1858M DUP chr22:42522502-42525187 2.69 chr22 42523844 137422..137428 7 7 99 99 7 14 4.40 56.44 +Sample_1858P DEL chr1:12908238-12946025 37.79 chr1 12927131 1611..1620 10 7 99 99 6 7 -3.41 7.51 +Sample_1858P DUP chr1:16374999-16380267 5.27 chr1 16377633 1844..1853 10 3 41 41 10 3 2.51 13.82 +Sample_1858P DEL chr1:16913545-17034573 121.03 chr1 16974059 1952..1976 25 10 99 99 5 6 -2.66 16.28 +Sample_1858P DEL chr1:17250820-17272900 22.08 chr1 17261860 1989..2002 14 4 99 99 3 4 -3.35 14.67 +Sample_1858P DUP chr1:104112026-104166606 54.58 chr1 104139316 7334..7345 12 16 99 99 9 16 3.51 13.88 +Sample_1858P DEL chr3:49848706-49850171 1.47 chr3 49849438 27700..27704 5 14 47 47 14 21 -3.62 28.38 +Sample_1858P DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 47 99 99 15 26 -5.18 11.41 +Sample_1858P DUP chr15:22332388-22414393 82.01 chr15 22373390 94360..94366 7 9 99 99 19 9 3.65 20.13 +Sample_1858P DUP chr15:78208169-78215352 7.18 chr15 78211760 98005..98017 13 3 96 98 39 3 2.63 26.20 +Sample_1858P DUP chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 40 98 99 16 33 4.22 18.65 +Sample_1924F DUP chr1:12853352-12943231 89.88 chr1 12898291 1603..1619 17 5 59 59 5 15 2.23 86.24 +Sample_1924F DEL chr1:16382917-16388687 5.77 chr1 16385802 1856..1861 6 5 63 63 9 8 -3.47 51.56 +Sample_1924F DEL chr1:16895568-16955145 59.58 chr1 16925356 1945..1965 21 23 99 99 8 23 -4.50 84.97 +Sample_1924F DEL chr1:17017713-17275421 257.71 chr1 17146567 1969..2005 37 30 99 99 13 17 -5.49 84.97 +Sample_1924F DEL chr1:25598981-25633220 34.24 chr1 25616100 3040..3046 7 4 39 39 5 9 -2.89 34.91 +Sample_1924F DEL chr2:220072978-220073361 0.38 chr2 220073169 23181..23183 3 9 54 54 25 8 -5.14 109.84 +Sample_1924F DUP chr3:195456519-195475935 19.42 chr3 195466227 32800..32802 3 64 66 66 10 11 5.48 120.49 +Sample_1924F DUP chr4:1741429-1741729 0.30 chr4 1741579 33264..33265 2 54 60 60 30 23 7.19 157.46 +Sample_1924F DUP chr5:140552243-140560019 7.78 chr5 140556131 40600..40601 2 54 75 75 38 35 7.77 158.06 +Sample_1924F DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 11 52 52 19 10 -3.67 80.04 +Sample_1924F DUP chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 23 99 99 17 23 5.57 89.61 +Sample_1924F DUP chr8:7154584-7220490 65.91 chr8 7187537 55172..55178 7 4 60 60 3 11 3.11 65.13 +Sample_1924F DUP chr8:11979496-12044342 64.85 chr8 12011919 55311..55317 7 5 77 99 14 0 4.08 88.89 +Sample_1924F DEL chr8:12245467-12287960 42.49 chr8 12266713 55318..55322 5 6 99 99 1 6 -4.56 37.03 +Sample_1924F DUP chr9:117085303-117088757 3.46 chr9 117087030 62579..62584 6 5 89 90 6 5 3.77 73.65 +Sample_1924F DEL chr10:135368348-135370660 2.31 chr10 135369504 70975..70980 6 5 41 41 8 7 -3.17 109.13 +Sample_1924F DEL chr12:11034816-11035297 0.48 chr12 11035056 81234..81235 2 17 36 36 17 6 -6.23 62.31 +Sample_1924F DEL chr15:23299681-23300167 0.49 chr15 23299924 94425..94426 2 32 33 33 4 5 -5.94 130.83 +Sample_1924F DUP chr16:34614340-34714967 100.63 chr16 34664653 103107..103111 5 10 42 42 3 30 3.47 62.65 +Sample_1924F DUP chr16:70162687-70195184 32.50 chr16 70178935 104882..104895 14 20 99 99 11 36 4.17 77.74 +Sample_1924F DUP chr16:74394531-74452196 57.67 chr16 74423363 105289..105298 10 24 99 99 22 25 7.13 143.12 +Sample_1924F DUP chr17:14139175-14139747 0.57 chr17 14139461 108886..108887 2 58 67 67 23 14 7.48 179.43 +Sample_1924F DUP chr17:20355108-20358711 3.60 chr17 20356909 109567..109569 3 29 51 51 12 10 5.05 68.35 +Sample_1924F DEL chr17:39240459-39334460 94.00 chr17 39287459 111315..111323 9 9 73 73 9 33 -2.95 133.81 +Sample_1924F DUP chr19:14508470-14512375 3.91 chr19 14510422 121773..121776 4 7 61 61 25 5 4.37 64.93 +Sample_1924F DEL chr19:14876336-14876616 0.28 chr19 14876476 121892..121893 2 58 81 81 8 17 -7.98 64.92 +Sample_1924F DEL chr19:40389652-40398510 8.86 chr19 40394081 124714..124718 5 24 95 97 20 9 -4.36 50.43 +Sample_1924F DEL chr19:54724398-54725251 0.85 chr19 54724824 127862..127863 2 33 41 41 40 3 -6.36 15.38 +Sample_1924F DEL chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 41 99 99 15 21 -6.15 53.06 +Sample_1924F DEL chr19:55331168-55361964 30.80 chr19 55346566 128027..128034 8 5 48 48 2 25 -2.80 17.29 +Sample_1924F DEL chr21:45959068-46067564 108.50 chr21 46013316 134150..134162 13 18 99 99 17 18 -5.09 258.86 +Sample_1924F DEL chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 3 99 99 3 9 -4.52 22.42 +Sample_1924F DEL chr22:23652511-23656901 4.39 chr22 23654706 135260..135264 5 3 48 48 3 3 -3.55 178.27 +Sample_1924F DEL chr22:24347142-24394849 47.71 chr22 24370995 135355..135362 8 23 99 99 4 13 -6.63 0.29 +Sample_1924M DEL chr1:14363-70008 55.65 chr1 42185 1..5 5 10 36 36 0 10 -3.37 39.59 +Sample_1924M DEL chr1:1634915-1677431 42.52 chr1 1656173 370..382 13 4 99 99 2 15 -3.30 30.20 +Sample_1924M DEL chr1:16914220-17085530 171.31 chr1 16999875 1953..1980 28 11 99 99 14 14 -5.08 134.15 +Sample_1924M DUP chr1:25611064-25633220 22.16 chr1 25622142 3041..3046 6 10 40 40 8 10 3.13 83.57 +Sample_1924M DEL chr1:144994591-145297691 303.10 chr1 145146141 8385..8401 17 10 85 85 17 1 -2.39 83.97 +Sample_1924M DEL chr1:148003643-148017665 14.02 chr1 148010654 8604..8606 3 24 51 51 44 14 -4.91 9.68 +Sample_1924M DEL chr1:161559352-161601158 41.81 chr1 161580255 11053..11060 8 18 99 99 14 19 -4.03 23.73 +Sample_1924M DEL chr2:114341230-114356605 15.38 chr2 114348917 19699..19707 9 41 99 99 20 19 -3.84 106.48 +Sample_1924M DUP chr3:48610607-48614460 3.85 chr3 48612533 27161..27179 19 8 49 49 8 5 2.10 174.66 +Sample_1924M DEL chr3:75470705-75484266 13.56 chr3 75477485 29262..29269 8 67 99 99 76 43 -8.32 78.99 +Sample_1924M DUP chr3:195390957-195475935 84.98 chr3 195433446 32790..32802 13 11 99 99 9 6 4.50 114.67 +Sample_1924M DEL chr5:140165876-140627799 461.92 chr5 140396837 40578..40611 34 16 99 99 10 17 -2.68 97.91 +Sample_1924M DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 48 99 99 13 3 -4.81 96.32 +Sample_1924M DEL chr7:102114808-102257205 142.40 chr7 102186006 52449..52456 8 10 99 99 19 10 -3.65 40.37 +Sample_1924M DUP chr8:7308087-7320381 12.29 chr8 7314234 55180..55182 3 33 98 99 14 26 6.16 98.63 +Sample_1924M DUP chr8:11979496-12291623 312.13 chr8 12135559 55311..55323 13 5 99 99 35 5 4.68 113.20 +Sample_1924M DEL chr8:114388967-114389382 0.42 chr8 114389174 57950..57951 2 12 32 32 29 12 -5.88 83.10 +Sample_1924M DEL chr9:141069815-141071884 2.07 chr9 141070849 65438..65440 3 42 84 84 24 16 -5.81 126.23 +Sample_1924M DUP chr10:27225666-27230930 5.26 chr10 27228298 66314..66315 2 99 99 99 28 41 9.66 270.16 +Sample_1924M DEL chr10:135368855-135381779 12.93 chr10 135375317 70976..70987 12 15 68 68 14 12 -2.52 103.48 +Sample_1924M DEL chr11:123886282-123909708 23.43 chr11 123897995 79305..79308 4 45 80 80 17 12 -4.65 93.24 +Sample_1924M DEL chr12:8376045-8395542 19.50 chr12 8385793 80972..80978 7 17 99 99 15 29 -3.63 100.00 +Sample_1924M DUP chr12:9447028-9466684 19.66 chr12 9456856 81112..81129 18 33 99 99 14 0 3.55 107.68 +Sample_1924M DEL chr12:9570288-9600768 30.48 chr12 9585528 81130..81151 22 28 99 99 0 29 -3.58 52.28 +Sample_1924M DEL chr13:24465429-24465751 0.32 chr13 24465590 88167..88168 2 38 46 46 24 11 -6.64 31.12 +Sample_1924M DEL chr14:20215587-20404761 189.18 chr14 20310174 90042..90047 6 5 32 32 28 4 -3.14 35.45 +Sample_1924M DEL chr15:23262275-23300167 37.89 chr15 23281221 94423..94426 4 7 99 99 2 4 -5.82 80.51 +Sample_1924M DUP chr15:23443500-23444098 0.60 chr15 23443799 94437..94438 2 42 62 62 12 55 6.99 152.12 +Sample_1924M DEL chr15:102513423-102516807 3.38 chr15 102515115 99267..99269 3 41 64 64 17 1 -5.22 45.28 +Sample_1924M DUP chr16:97000-148299 51.30 chr16 122649 99270..99305 36 9 99 99 0 15 5.54 134.05 +Sample_1924M DEL chr16:14988855-15123913 135.06 chr16 15056384 101197..101213 17 22 99 99 12 25 -2.53 62.46 +Sample_1924M DEL chr16:21469092-21513552 44.46 chr16 21491322 101743..101747 5 17 86 87 5 8 -4.19 33.90 +Sample_1924M DEL chr16:28616918-28621357 4.44 chr16 28619137 102277..102282 6 21 99 99 7 4 -3.97 73.64 +Sample_1924M DEL chr16:74394531-74452196 57.67 chr16 74423363 105289..105298 10 13 99 99 11 13 -6.18 66.34 +Sample_1924M DUP chr17:16733797-16736147 2.35 chr17 16734972 109047..109050 4 24 98 99 3 23 6.25 158.19 +Sample_1924M DEL chr17:39164774-39412615 247.84 chr17 39288694 111308..111332 25 2 98 99 3 11 -2.65 135.98 +Sample_1924M DEL chr19:40373945-40382826 8.88 chr19 40378385 124708..124712 5 19 55 55 21 12 -3.73 33.67 +Sample_1924M DUP chr19:40389652-40398510 8.86 chr19 40394081 124714..124718 5 30 54 54 12 11 3.72 106.80 +Sample_1924M DEL chr19:43708038-43763287 55.25 chr19 43735662 125407..125410 4 31 79 79 26 13 -4.80 36.31 +Sample_1924M DEL chr19:50462617-50464192 1.58 chr19 50463404 127078..127080 3 22 49 49 10 28 -5.06 74.86 +Sample_1924M DUP chr19:50473069-50473627 0.56 chr19 50473348 127082..127083 2 47 47 47 28 11 6.63 186.55 +Sample_1924M DEL chr19:54724398-54726959 2.56 chr19 54725678 127862..127865 4 66 89 89 40 18 -4.88 30.35 +Sample_1924M DUP chr19:55239077-55264503 25.43 chr19 55251790 128015..128020 6 2 95 96 4 5 3.87 58.65 +Sample_1924M DEL chr21:45970318-46117959 147.64 chr21 46044138 134151..134167 17 29 99 99 4 18 -3.29 280.78 +Sample_1924M DUP chr22:20388507-20398336 9.83 chr22 20393421 134922..134925 4 39 54 54 12 24 4.16 68.28 +Sample_1924M DEL chr22:21057921-21067085 9.16 chr22 21062503 134968..134976 9 4 99 99 4 14 -3.99 101.70 +Sample_1924M DUP chr22:21828886-21834291 5.41 chr22 21831588 135112..135116 5 26 42 42 19 3 3.48 103.83 +Sample_1924M DEL chr22:42525740-42538881 13.14 chr22 42532310 137429..137437 9 2 70 70 2 21 -2.87 108.28 +Sample_1924P DUP chr1:16918654-16972173 53.52 chr1 16945413 1956..1966 11 13 94 99 24 14 4.29 131.99 +Sample_1924P DUP chr1:17017713-17046652 28.94 chr1 17032182 1969..1977 9 20 88 99 30 1 3.76 71.34 +Sample_1924P DEL chr1:17081402-17264978 183.58 chr1 17173190 1978..1997 20 8 78 99 0 17 -4.83 62.37 +Sample_1924P DUP chr2:70515200-70529220 14.02 chr2 70522210 17686..17690 5 6 99 99 6 23 4.54 66.31 +Sample_1924P DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 68 99 99 5 7 6.28 98.34 +Sample_1924P DEL chr8:12039614-12287960 248.35 chr8 12163787 55315..55322 8 15 71 71 3 13 -3.18 32.59 +Sample_1924P DEL chr10:135368855-135370326 1.47 chr10 135369590 70976..70979 4 18 97 99 18 16 -5.13 81.83 +Sample_1924P DUP chr11:71504426-71507212 2.79 chr11 71505819 76833..76834 2 39 61 61 5 29 7.14 133.38 +Sample_1924P DUP chr12:9447028-9456803 9.78 chr12 9451915 81112..81121 10 6 93 94 6 6 2.93 51.95 +Sample_1924P DUP chr12:11506008-11508524 2.52 chr12 11507266 81255..81258 4 3 32 32 30 3 3.70 49.77 +Sample_1924P DUP chr14:76837690-77333781 496.09 chr14 77085735 92801..92838 38 18 99 99 8 12 3.11 43.79 +Sample_1924P DUP chr15:20776609-21134625 358.02 chr15 20955617 94350..94354 5 15 58 58 15 56 4.00 39.57 +Sample_1924P DUP chr15:41859558-41871526 11.97 chr15 41865542 95375..95387 13 6 53 53 5 14 2.34 53.22 +Sample_1924P DUP chr15:102516336-102516807 0.47 chr15 102516571 99269..99269 1 31 31 31 24 31 10.00 131.64 +Sample_1924P DEL chr16:3076680-3077281 0.60 chr16 3076980 100446..100449 4 15 45 45 26 15 -4.09 131.09 +Sample_1924P DUP chr16:34612943-34714967 102.03 chr16 34663955 103106..103111 6 34 99 99 34 41 4.47 47.54 +Sample_1924P DEL chr16:74442531-74447574 5.04 chr16 74445052 105291..105297 7 32 93 94 33 26 -3.53 61.04 +Sample_1924P DEL chr21:45959068-46032871 73.80 chr21 45995969 134150..134159 10 35 99 99 10 4 -3.76 174.05 +Sample_1924P DEL chr22:18766903-18769844 2.94 chr22 18768373 134658..134659 2 11 35 35 34 11 -6.14 21.64 +Sample_1924P DEL chr22:20385726-20398336 12.61 chr22 20392031 134920..134925 6 22 89 89 4 15 -3.72 11.19 +Sample_1924P DUP chr22:24342269-24394849 52.58 chr22 24368559 135354..135362 9 2 48 48 3 4 2.69 38.47 +Sample_1924P DEL chr22:42524786-42537685 12.90 chr22 42531235 137427..137434 8 12 80 80 11 16 -3.17 55.81 +Sample_341F DEL chr1:16914220-16955145 40.93 chr1 16934682 1953..1965 13 8 99 99 9 14 -2.84 49.69 +Sample_341F DEL chr1:17250820-17273486 22.67 chr1 17262153 1989..2003 15 22 99 99 6 15 -3.93 41.20 +Sample_341F DUP chr1:36773118-36773810 0.69 chr1 36773464 4351..4354 4 4 47 47 5 6 4.07 85.13 +Sample_341F DUP chr3:127295460-127298715 3.26 chr3 127297087 30504..30507 4 3 56 56 27 3 4.24 60.91 +Sample_341F DUP chr5:176016331-176017486 1.16 chr5 176016908 42156..42160 5 4 33 33 23 4 3.37 57.57 +Sample_341F DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 26 99 99 27 24 5.46 63.81 +Sample_341F DEL chr10:124340382-124353114 12.73 chr10 124346748 70419..70426 8 18 99 99 13 16 -4.84 15.58 +Sample_341F DEL chr11:61248592-61258056 9.46 chr11 61253324 74566..74576 11 27 99 99 15 16 -3.02 10.44 +Sample_341F DUP chr15:20743914-20776177 32.26 chr15 20760045 94345..94349 5 17 99 99 17 13 4.95 32.61 +Sample_341F DUP chr15:21932514-22414393 481.88 chr15 22173453 94355..94366 12 14 99 99 9 18 3.22 33.40 +Sample_341F DEL chr15:23299915-23444098 144.18 chr15 23372006 94426..94438 13 12 47 47 11 12 -2.35 12.43 +Sample_341F DUP chr16:3076517-3077074 0.56 chr16 3076795 100445..100448 4 7 75 75 7 6 4.62 108.67 +Sample_341F DEL chr16:74443448-74452196 8.75 chr16 74447822 105292..105298 7 15 99 99 14 15 -4.64 25.72 +Sample_341F DUP chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 14 98 99 25 14 2.96 35.54 +Sample_341F DEL chr17:18380099-18430160 50.06 chr17 18405129 109355..109365 11 20 98 99 9 20 -4.95 2.89 +Sample_341F DUP chr17:48269341-48273337 4.00 chr17 48271339 112941..112955 15 7 87 87 17 7 2.45 60.05 +Sample_341F DEL chr19:40368303-40396396 28.09 chr19 40382349 124706..124717 12 10 33 33 9 7 -2.33 16.09 +Sample_341F DEL chr19:54726815-54746724 19.91 chr19 54736769 127865..127869 5 32 70 70 14 30 -3.95 7.37 +Sample_341F DEL chr22:42905034-42973104 68.07 chr22 42939069 137453..137470 18 2 83 83 3 7 -2.28 16.02 +Sample_341F DUP chr22:50017826-50018329 0.50 chr22 50018077 137887..137888 2 9 32 32 32 8 6.09 193.84 +Sample_341M DEL chr1:16952270-16976914 24.64 chr1 16964592 1964..1968 5 4 99 99 18 4 -5.01 54.52 +Sample_341M DEL chr1:17084437-17090975 6.54 chr1 17087706 1979..1986 8 12 98 98 26 12 -3.26 48.85 +Sample_341M DUP chr1:36773118-36773564 0.45 chr1 36773341 4351..4353 3 43 60 60 27 8 5.30 86.60 +Sample_341M DUP chr2:130807389-130897669 90.28 chr2 130852529 20145..20151 7 7 30 30 6 20 2.89 41.67 +Sample_341M DUP chr3:48611288-48612298 1.01 chr3 48611793 27165..27169 5 21 62 62 22 8 3.84 77.59 +Sample_341M DUP chr9:35684243-35685663 1.42 chr9 35684953 60480..60486 7 5 38 38 3 12 2.88 47.80 +Sample_341M DUP chr11:1279329-1280291 0.96 chr11 1279810 71490..71492 3 20 41 41 28 11 4.82 43.86 +Sample_341M DEL chr12:8376612-8391345 14.73 chr12 8383978 80973..80977 5 7 57 57 3 13 -3.72 25.98 +Sample_341M DUP chr12:9447413-9456803 9.39 chr12 9452108 81113..81121 9 36 39 39 10 27 2.64 22.51 +Sample_341M DEL chr12:11034816-11035297 0.48 chr12 11035056 81234..81235 2 54 77 77 23 14 -7.86 22.75 +Sample_341M DUP chr15:21134198-22414393 1280.20 chr15 21774295 94353..94366 14 3 99 99 18 3 3.00 27.98 +Sample_341M DUP chr15:75562413-75581824 19.41 chr15 75572118 97823..97825 3 3 44 44 3 14 4.83 28.06 +Sample_341M DUP chr17:48272408-48274031 1.62 chr17 48273219 112951..112959 9 18 99 99 26 13 3.39 54.76 +Sample_341M DUP chr19:55249974-55266508 16.54 chr19 55258241 128018..128021 4 33 65 65 3 3 4.38 29.28 +Sample_341M DEL chr22:42905034-42950048 45.02 chr22 42927541 137453..137460 8 12 99 99 3 6 -3.39 6.47 +Sample_341M DUP chrX:48837627-48838284 0.66 chrX 48837955 139394..139397 4 5 54 54 24 5 4.22 79.14 +Sample_341P DEL chr1:16914220-16972173 57.95 chr1 16943196 1953..1966 14 17 99 99 22 19 -2.92 47.52 +Sample_341P DEL chr1:17084437-17086181 1.75 chr1 17085309 1979..1982 4 15 48 48 11 24 -4.14 53.41 +Sample_341P DEL chr1:17256341-17275421 19.08 chr1 17265881 1990..2005 16 13 99 99 4 7 -3.26 38.42 +Sample_341P DUP chr1:144865810-144906537 40.73 chr1 144886173 8352..8369 18 4 99 99 5 8 2.43 31.48 +Sample_341P DUP chr1:145368441-145727749 359.31 chr1 145548095 8413..8535 123 8 99 99 3 5 2.46 25.23 +Sample_341P DUP chr3:48618881-48620481 1.60 chr3 48619681 27194..27201 8 8 99 99 13 8 3.67 73.51 +Sample_341P DEL chr3:48628106-48629447 1.34 chr3 48628776 27231..27234 4 5 32 32 5 6 -3.79 42.05 +Sample_341P DUP chr3:195395390-195475935 80.55 chr3 195435662 32792..32802 11 3 46 46 3 18 2.50 37.30 +Sample_341P DUP chr6:304628-351353 46.73 chr6 327990 42799..42805 7 8 88 88 36 6 3.44 34.68 +Sample_341P DUP chr6:168348973-168479839 130.87 chr6 168414406 48223..48247 25 5 99 99 2 41 3.24 31.84 +Sample_341P DUP chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 6 41 41 26 6 3.87 36.29 +Sample_341P DEL chr10:124344787-124353114 8.33 chr10 124348950 70420..70426 7 12 99 99 6 23 -4.14 15.53 +Sample_341P DUP chr11:64564454-64564664 0.21 chr11 64564559 75392..75393 2 18 32 32 23 16 6.11 107.74 +Sample_341P DUP chr12:9589543-9590085 0.54 chr12 9589814 81149..81150 2 45 47 47 15 30 6.63 46.32 +Sample_341P DUP chr13:114586610-114601845 15.24 chr13 114594227 89993..89995 3 17 33 33 14 25 4.62 75.43 +Sample_341P DUP chr15:20743914-20776177 32.26 chr15 20760045 94345..94349 5 45 99 99 80 28 4.75 31.30 +Sample_341P DUP chr15:72957937-72958469 0.53 chr15 72958203 97498..97500 3 11 65 65 11 13 5.44 57.88 +Sample_341P DUP chr16:28997034-28997209 0.18 chr16 28997121 102391..102392 2 26 30 30 29 20 6.03 75.68 +Sample_341P DEL chr16:74385938-74452196 66.26 chr16 74419067 105286..105298 13 4 98 99 4 15 -4.63 13.12 +Sample_341P DEL chr17:18380099-18398258 18.16 chr17 18389178 109355..109362 8 28 76 76 19 21 -3.11 11.98 +Sample_341P DUP chr17:39240459-39412615 172.16 chr17 39326537 111315..111332 18 9 99 99 32 9 2.93 65.59 +Sample_341P DUP chr17:76128422-76129623 1.20 chr17 76129022 115337..115340 4 9 51 51 48 9 4.20 77.69 +Sample_341P DEL chr19:54726815-54746724 19.91 chr19 54736769 127865..127869 5 34 91 91 25 22 -4.28 5.60 +Sample_341P DEL chr19:54784816-54803978 19.16 chr19 54794397 127894..127900 7 5 79 99 5 23 -4.10 18.07 +Sample_341P DUP chr19:55417508-55417692 0.18 chr19 55417600 128042..128043 2 27 31 31 21 21 6.09 99.13 +Sample_341P DUP chr21:45959068-46086844 127.78 chr21 46022956 134150..134165 16 4 99 99 25 4 3.19 120.07 +Sample_341P DUP chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 41 49 49 24 38 4.87 53.95 +Sample_341P DUP chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 15 99 99 13 23 4.41 30.63 +Sample_341P DEL chr22:21828886-21842312 13.43 chr22 21835599 135112..135119 8 37 99 99 20 24 -3.49 12.13 +Sample_381F DEL chr1:17017713-17275019 257.31 chr1 17146366 1969..2004 36 8 99 99 23 3 -4.10 16.30 +Sample_381F DEL chr1:149374998-149399229 24.23 chr1 149387113 8611..8613 3 30 31 31 3 31 -4.34 0.12 +Sample_381F DUP chr3:195395390-195447954 52.56 chr3 195421672 32792..32797 6 30 95 97 3 18 3.91 26.34 +Sample_381F DUP chr5:21495207-21497349 2.14 chr5 21496278 37853..37854 2 34 35 35 29 8 6.15 35.34 +Sample_381F DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 31 97 99 10 5 -4.41 18.40 +Sample_381F DEL chr15:23443500-23444098 0.60 chr15 23443799 94437..94438 2 30 30 30 4 30 -5.66 8.96 +Sample_381F DUP chr15:78207740-78208271 0.53 chr15 78208005 98003..98005 3 12 30 30 6 17 4.52 67.01 +Sample_381F DUP chr16:70148724-70195184 46.46 chr16 70171954 104879..104895 17 7 41 41 8 8 2.13 17.19 +Sample_381F DUP chr17:5039103-5042969 3.87 chr17 5041036 107378..107383 6 7 46 46 8 7 3.23 46.14 +Sample_381F DEL chr19:39911589-39911939 0.35 chr19 39911764 124598..124600 3 6 60 60 6 6 -5.24 31.26 +Sample_381F DEL chr19:43585033-43763287 178.25 chr19 43674160 125399..125410 12 8 97 99 23 7 -2.81 5.75 +Sample_381F DUP chr19:45851199-45852860 1.66 chr19 45852029 125800..125803 4 5 40 40 5 3 3.91 28.39 +Sample_381F DUP chr22:20385726-20398336 12.61 chr22 20392031 134920..134925 6 64 99 99 8 19 5.54 19.23 +Sample_381F DEL chr22:21061981-21066899 4.92 chr22 21064440 134971..134975 5 17 75 75 17 4 -4.02 21.71 +Sample_381F DEL chr22:21834048-21842312 8.27 chr22 21838180 135115..135119 5 4 73 73 8 6 -3.90 8.57 +Sample_381M DUP chr1:16894474-16920062 25.59 chr1 16907268 1944..1957 14 23 78 78 25 29 2.47 21.97 +Sample_381M DUP chr1:16952270-16976914 24.64 chr1 16964592 1964..1968 5 22 92 99 49 0 4.75 38.68 +Sample_381M DUP chr1:17084437-17090975 6.54 chr1 17087706 1979..1986 8 27 86 86 15 1 3.16 29.51 +Sample_381M DEL chr1:17248445-17275421 26.98 chr1 17261933 1987..2005 19 5 85 99 0 7 -3.55 10.13 +Sample_381M DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 53 99 99 24 23 -5.75 11.00 +Sample_381M DEL chr8:11853703-12044126 190.42 chr8 11948914 55310..55316 7 2 50 50 2 11 -3.14 8.92 +Sample_381M DUP chr8:12245467-12250923 5.46 chr8 12248195 55318..55320 3 28 65 65 11 26 5.34 27.23 +Sample_381M DUP chr10:27225666-27230930 5.26 chr10 27228298 66314..66315 2 99 99 99 15 26 10.00 58.29 +Sample_381M DEL chr15:72958123-72958469 0.35 chr15 72958296 97499..97500 2 12 35 35 13 11 -6.22 12.31 +Sample_381M DUP chr16:74442531-74447574 5.04 chr16 74445052 105291..105297 7 26 98 99 13 11 3.92 28.58 +Sample_381M DUP chr17:18380099-18430160 50.06 chr17 18405129 109355..109365 11 4 87 87 15 4 2.74 13.73 +Sample_381M DUP chr19:43358101-43441330 83.23 chr19 43399715 125378..125392 15 4 31 31 3 19 2.14 11.77 +Sample_381M DUP chr21:10921934-10934997 13.06 chr21 10928465 132958..132961 4 3 59 59 2 4 4.23 21.78 +Sample_381M DUP chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 6 99 99 18 5 3.61 12.29 +Sample_381P DUP chr1:12851546-12921764 70.22 chr1 12886655 1602..1616 15 3 78 80 2 4 2.39 23.93 +Sample_381P DEL chr1:16907915-16955145 47.23 chr1 16931530 1950..1965 16 31 99 99 16 8 -3.79 20.07 +Sample_381P DEL chr1:17017713-17275421 257.71 chr1 17146567 1969..2005 37 19 99 99 8 16 -3.88 16.50 +Sample_381P DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 11 90 91 11 10 -4.25 16.27 +Sample_381P DEL chr7:101957651-101989117 31.47 chr7 101973384 52419..52421 3 26 34 34 10 21 -4.68 15.65 +Sample_381P DEL chr8:11979496-12044126 64.63 chr8 12011811 55311..55316 6 14 30 30 14 5 -3.08 12.52 +Sample_381P DUP chr15:20743914-20776177 32.26 chr15 20760045 94345..94349 5 34 40 40 40 9 3.53 15.44 +Sample_381P DUP chr15:78206559-78213962 7.40 chr15 78210260 98002..98014 13 4 99 99 11 4 2.97 38.63 +Sample_381P DUP chr16:1279191-1280185 0.99 chr16 1279688 99711..99713 3 20 43 43 42 20 4.82 22.30 +Sample_381P DUP chr19:10738398-10745931 7.53 chr19 10742164 120854..120864 11 19 37 37 19 15 2.43 25.31 +Sample_381P DEL chr19:40389652-40408135 18.48 chr19 40398893 124714..124721 8 3 32 32 3 13 -2.68 10.23 +Sample_381P DUP chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 26 99 99 24 20 5.43 21.14 +Sample_543F DUP chr1:14363-70008 55.65 chr1 42185 1..5 5 3 35 35 0 3 3.32 73.65 +Sample_543F DEL chr1:12907236-12921764 14.53 chr1 12914500 1610..1616 7 3 58 81 2 7 -3.34 38.39 +Sample_543F DEL chr1:16946340-16972173 25.83 chr1 16959256 1963..1966 4 23 37 37 27 0 -4.08 160.88 +Sample_543F DUP chr1:16975251-17033914 58.66 chr1 17004582 1967..1974 8 22 61 61 0 23 3.08 122.43 +Sample_543F DUP chr1:17248445-17275421 26.98 chr1 17261933 1987..2005 19 4 99 99 23 4 3.22 125.81 +Sample_543F DEL chr1:148932786-149399229 466.44 chr1 149166007 8609..8613 5 37 70 70 10 39 -4.28 67.57 +Sample_543F DEL chr2:114346127-114356605 10.48 chr2 114351366 19700..19707 8 55 99 99 34 23 -5.12 55.02 +Sample_543F DUP chr2:130807389-130897669 90.28 chr2 130852529 20145..20151 7 5 99 99 20 2 4.77 107.16 +Sample_543F DUP chr2:130949321-130956034 6.71 chr2 130952677 20175..20179 5 31 59 59 35 28 3.70 79.41 +Sample_543F DUP chr2:233243681-233246077 2.40 chr2 233244879 23897..23904 8 8 99 99 8 28 3.42 132.07 +Sample_543F DUP chr3:195392937-195475935 83.00 chr3 195434436 32791..32802 12 7 99 99 6 11 3.45 86.43 +Sample_543F DUP chr4:190903679-190906024 2.35 chr4 190904851 37228..37231 4 5 72 72 22 5 4.43 125.34 +Sample_543F DUP chr5:814876-825366 10.49 chr5 820121 37328..37330 3 4 50 50 4 7 4.95 78.94 +Sample_543F DEL chr6:292101-351353 59.25 chr6 321727 42798..42805 8 3 99 99 3 10 -4.62 26.21 +Sample_543F DUP chr6:168344082-168479839 135.76 chr6 168411960 48220..48247 28 13 99 99 4 33 3.44 66.11 +Sample_543F DUP chr7:72643601-72649368 5.77 chr7 72646484 50675..50677 3 16 34 34 32 11 4.66 73.77 +Sample_543F DUP chr7:76610139-76631638 21.50 chr7 76620888 51094..51097 4 62 99 99 42 13 6.18 103.42 +Sample_543F DUP chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 22 99 99 16 15 5.16 80.94 +Sample_543F DEL chr7:143955790-144070377 114.59 chr7 144013083 54231..54236 6 8 35 35 8 35 -3.19 22.69 +Sample_543F DEL chr8:7305276-7308721 3.45 chr8 7306998 55179..55181 3 21 37 37 21 12 -4.66 1.93 +Sample_543F DEL chr11:55032376-55038594 6.22 chr11 55035485 74018..74021 4 34 40 40 29 27 -3.87 28.02 +Sample_543F DUP chr11:71502785-71512276 9.49 chr11 71507530 76832..76835 4 12 74 74 19 13 4.52 163.48 +Sample_543F DUP chr12:11034816-11035297 0.48 chr12 11035056 81234..81235 2 87 99 99 26 9 9.13 148.80 +Sample_543F DUP chr14:19377594-20404761 1027.17 chr14 19891177 90039..90047 9 17 99 99 17 17 6.71 74.83 +Sample_543F DEL chr15:22145703-22145802 0.10 chr15 22145752 94359..94359 1 33 33 33 4 33 -10.00 36.17 +Sample_543F DEL chr15:23299681-23444098 144.42 chr15 23371889 94425..94438 14 5 95 97 15 42 -2.56 36.93 +Sample_543F DEL chr15:75562173-75585505 23.33 chr15 75573839 97822..97826 5 9 99 99 12 9 -4.57 1.90 +Sample_543F DUP chr15:83013569-83015609 2.04 chr15 83014589 98300..98301 2 53 54 54 54 38 6.68 59.91 +Sample_543F DUP chr16:55850836-55857595 6.76 chr16 55854215 103458..103462 5 11 67 67 2 13 3.85 74.75 +Sample_543F DUP chr17:14139175-14139747 0.57 chr17 14139461 108886..108887 2 56 82 82 5 4 7.88 165.14 +Sample_543F DEL chr17:16703265-16736147 32.88 chr17 16719706 109045..109050 6 16 59 59 15 17 -3.36 58.38 +Sample_543F DUP chr17:20355108-20799453 444.35 chr17 20577280 109567..109578 12 9 98 99 8 10 3.11 82.46 +Sample_543F DUP chr17:60344494-60345600 1.11 chr17 60345047 113674..113676 3 45 48 48 25 12 4.99 129.94 +Sample_543F DEL chr19:10665961-10668736 2.78 chr19 10667348 120826..120829 4 22 34 34 5 11 -3.85 75.26 +Sample_543F DUP chr19:40373945-40382826 8.88 chr19 40378385 124708..124712 5 4 81 84 22 4 4.15 58.92 +Sample_543F DEL chr19:40389652-40398510 8.86 chr19 40394081 124714..124718 5 11 41 41 13 3 -3.47 52.46 +Sample_543F DUP chr19:55239077-55294990 55.91 chr19 55267033 128015..128024 10 2 99 99 3 7 3.80 46.17 +Sample_543F DUP chr22:16256332-16279301 22.97 chr22 16267816 134510..134512 3 24 48 48 24 27 4.85 70.25 +Sample_543F DUP chr22:24342269-24384284 42.02 chr22 24363276 135354..135361 8 9 61 61 7 13 2.97 56.06 +Sample_543F DUP chr22:24647589-24658575 10.99 chr22 24653082 135426..135430 5 4 40 40 3 30 3.48 182.50 +Sample_543F DEL chr22:25024048-25049017 24.97 chr22 25036532 135488..135499 12 5 99 99 5 13 -3.05 103.81 +Sample_543F DUP chr22:25713888-25777544 63.66 chr22 25745716 135561..135569 9 31 99 99 19 24 5.75 81.93 +Sample_543F DUP chr22:39427699-39441547 13.85 chr22 39434623 136965..136971 7 67 99 99 22 24 4.11 66.14 +Sample_543F DEL chr22:50960170-50960680 0.51 chr22 50960425 138221..138223 3 17 96 97 12 10 -6.24 135.28 +Sample_543M DUP chr1:12851546-12887689 36.14 chr1 12869617 1602..1607 6 6 45 45 20 6 3.26 100.65 +Sample_543M DUP chr1:12918840-12955703 36.86 chr1 12937271 1614..1622 9 10 99 99 10 7 3.35 74.31 +Sample_543M DUP chr1:16383364-16390131 6.77 chr1 16386747 1857..1863 7 3 71 71 3 3 3.16 86.42 +Sample_543M DUP chr1:16900982-17034573 133.59 chr1 16967777 1946..1976 31 8 99 99 8 5 4.06 129.59 +Sample_543M DUP chr1:104108057-104122147 14.09 chr1 104115102 7333..7341 9 20 99 99 18 3 5.34 70.51 +Sample_543M DEL chr1:148932786-149399229 466.44 chr1 149166007 8609..8613 5 50 99 99 13 43 -4.78 76.98 +Sample_543M DEL chr1:155185354-155185578 0.23 chr1 155185466 9808..9809 2 50 50 50 21 18 -6.82 120.25 +Sample_543M DUP chr1:155581007-155583557 2.55 chr1 155582282 9930..9939 10 7 99 99 8 7 3.64 78.73 +Sample_543M DEL chr1:155716587-155719422 2.84 chr1 155718004 9961..9969 9 4 99 99 9 4 -3.20 37.21 +Sample_543M DEL chr2:97749324-97784254 34.93 chr2 97766789 18961..18971 11 45 99 99 19 11 -4.83 33.20 +Sample_543M DUP chr2:130807389-130897669 90.28 chr2 130852529 20145..20151 7 47 99 99 18 17 4.50 116.16 +Sample_543M DUP chr2:130949321-130956034 6.71 chr2 130952677 20175..20179 5 13 34 34 28 13 3.30 81.86 +Sample_543M DUP chr3:195451098-195456610 5.51 chr3 195453854 32798..32800 3 31 92 94 13 10 6.09 116.43 +Sample_543M DUP chr5:819640-825366 5.73 chr5 822503 37329..37330 2 41 42 42 8 5 6.34 111.08 +Sample_543M DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 22 72 72 37 17 -3.98 78.88 +Sample_543M DUP chr6:168344621-168479839 135.22 chr6 168412230 48221..48247 27 7 99 99 6 45 3.60 74.25 +Sample_543M DUP chr7:76140974-76619686 478.71 chr7 76380330 51081..51095 15 20 98 99 16 9 3.08 66.28 +Sample_543M DUP chr7:102180462-102257205 76.74 chr7 102218833 52451..52456 6 19 99 99 37 19 4.21 65.80 +Sample_543M DUP chr7:142458406-142482397 23.99 chr7 142470401 54057..54064 8 4 99 99 5 10 3.36 84.44 +Sample_543M DEL chr8:12245467-12286407 40.94 chr8 12265937 55318..55321 4 12 66 66 35 12 -4.53 25.03 +Sample_543M DUP chr12:8376045-8385203 9.16 chr12 8380624 80972..80976 5 5 99 99 4 18 6.97 123.42 +Sample_543M DEL chr12:9450377-9459910 9.53 chr12 9455143 81114..81125 12 15 99 99 15 20 -3.90 24.55 +Sample_543M DUP chr12:9577124-9586736 9.61 chr12 9581930 81139..81148 10 57 99 99 16 48 5.37 101.17 +Sample_543M DUP chr14:19377594-20404761 1027.17 chr14 19891177 90039..90047 9 7 98 99 15 8 3.65 61.37 +Sample_543M DEL chr15:20743914-20776177 32.26 chr15 20760045 94345..94349 5 91 99 99 89 26 -5.56 16.74 +Sample_543M DEL chr15:23299681-23444098 144.42 chr15 23371889 94425..94438 14 76 99 99 14 39 -4.73 19.21 +Sample_543M DUP chr15:78207740-78214113 6.37 chr15 78210926 98003..98015 13 5 96 99 15 3 2.88 156.17 +Sample_543M DUP chr15:83013569-83015609 2.04 chr15 83014589 98300..98301 2 58 60 60 59 43 6.93 60.94 +Sample_543M DEL chr16:28616918-28621357 4.44 chr16 28619137 102277..102282 6 4 77 77 7 5 -3.60 62.35 +Sample_543M DUP chr16:55846815-55862883 16.07 chr16 55854849 103457..103464 8 13 99 99 16 13 3.46 68.76 +Sample_543M DUP chr16:74446671-74452196 5.53 chr16 74449433 105296..105298 3 5 98 99 17 5 6.33 135.04 +Sample_543M DUP chr17:14139175-14140150 0.98 chr17 14139662 108886..108888 3 29 65 65 14 26 5.30 152.84 +Sample_543M DEL chr17:18380099-18398258 18.16 chr17 18389178 109355..109362 8 36 99 99 21 5 -5.51 37.31 +Sample_543M DUP chr19:40373945-40382826 8.88 chr19 40378385 124708..124712 5 25 99 99 25 20 5.86 76.72 +Sample_543M DEL chr19:40389652-40398510 8.86 chr19 40394081 124714..124718 5 34 99 99 20 24 -6.25 33.44 +Sample_543M DEL chr19:50462617-50464429 1.81 chr19 50463523 127078..127081 4 15 42 42 14 0 -4.07 56.16 +Sample_543M DUP chr19:50473069-50473627 0.56 chr19 50473348 127082..127083 2 51 56 56 0 29 7.14 156.45 +Sample_543M DEL chr19:54724025-54725251 1.23 chr19 54724638 127861..127863 3 27 64 64 28 3 -5.34 25.88 +Sample_543M DUP chr19:54726815-54746724 19.91 chr19 54736769 127865..127869 5 24 99 99 3 22 6.45 97.50 +Sample_543M DUP chr19:55105662-55107400 1.74 chr19 55106531 127980..127984 5 3 68 68 36 3 3.89 143.71 +Sample_543M DEL chr19:55327893-55361964 34.07 chr19 55344928 128026..128034 9 40 91 92 3 35 -3.05 17.32 +Sample_543M DEL chr20:23966304-23967282 0.98 chr20 23966793 129830..129833 4 7 37 37 11 7 -3.91 157.50 +Sample_543M DEL chr21:45959068-46012386 53.32 chr21 45985727 134150..134156 7 53 99 99 15 44 -5.09 299.69 +Sample_543M DUP chr22:16256332-16279301 22.97 chr22 16267816 134510..134512 3 48 99 99 48 26 7.66 89.94 +Sample_543M DUP chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 10 30 30 10 24 4.39 105.70 +Sample_543M DUP chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 80 99 99 36 5 7.65 78.53 +Sample_543M DUP chr22:24342269-24394849 52.58 chr22 24368559 135354..135362 9 4 99 99 5 5 3.75 56.22 +Sample_543M DUP chr22:24656876-24658575 1.70 chr22 24657725 135429..135430 2 29 49 49 5 38 6.72 278.89 +Sample_543M DEL chr22:25041133-25045989 4.86 chr22 25043561 135493..135498 6 5 99 99 2 12 -5.69 136.14 +Sample_543M DUP chr22:25713888-25777544 63.66 chr22 25745716 135561..135569 9 51 99 99 31 40 5.21 86.32 +Sample_543M DUP chr22:39427699-39448358 20.66 chr22 39438028 136965..136973 9 3 72 72 23 3 2.87 67.91 +Sample_543M DEL chr22:42898755-42950048 51.29 chr22 42924401 137451..137460 10 33 99 99 28 8 -5.09 20.66 +Sample_543M DEL chrX:49178516-49355920 177.41 chrX 49267218 139561..139563 3 51 62 62 25 32 -5.48 8.83 +Sample_543P DEL chr1:12916941-12921764 4.82 chr1 12919352 1613..1616 4 15 56 56 8 7 -4.22 32.92 +Sample_543P DEL chr1:16952270-16972173 19.90 chr1 16962221 1964..1966 3 36 99 99 5 48 -7.21 82.24 +Sample_543P DUP chr1:17087450-17275421 187.97 chr1 17181435 1985..2005 21 4 99 99 4 4 3.28 93.80 +Sample_543P DUP chr2:233244896-233246077 1.18 chr2 233245486 23901..23904 4 23 78 78 19 22 4.72 81.95 +Sample_543P DEL chr3:48609434-48609604 0.17 chr3 48609519 27154..27155 2 35 39 39 18 6 -6.34 71.66 +Sample_543P DEL chr3:49724380-49724911 0.53 chr3 49724645 27608..27610 3 38 99 99 36 37 -7.63 153.07 +Sample_543P DEL chr5:140529839-140627799 97.96 chr5 140578819 40598..40611 14 2 39 39 4 2 -2.21 40.98 +Sample_543P DEL chr6:304628-351353 46.73 chr6 327990 42799..42805 7 6 99 99 4 6 -3.68 22.55 +Sample_543P DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 13 46 46 11 16 -3.58 48.34 +Sample_543P DUP chr7:76610139-76635092 24.95 chr7 76622615 51094..51099 6 4 79 79 52 3 3.60 56.46 +Sample_543P DEL chr8:11979496-12008698 29.20 chr8 11994097 55311..55314 4 27 99 99 22 4 -5.30 11.29 +Sample_543P DEL chr8:144894436-144895696 1.26 chr8 144895066 58933..58937 5 5 94 95 10 6 -4.32 74.88 +Sample_543P DEL chr9:117085943-117087432 1.49 chr9 117086687 62580..62583 4 28 32 32 15 14 -3.83 27.37 +Sample_543P DUP chr10:27225666-27230930 5.26 chr10 27228298 66314..66315 2 37 37 37 35 37 6.08 118.58 +Sample_543P DUP chr15:41857224-41865665 8.44 chr15 41861444 95374..95385 12 15 95 97 11 4 2.72 53.33 +Sample_543P DEL chr16:3074182-3077074 2.89 chr16 3075628 100439..100448 10 4 42 42 4 8 -2.53 84.45 +Sample_543P DEL chr17:18387189-18398258 11.07 chr17 18392723 109356..109362 7 15 69 69 14 12 -3.24 23.22 +Sample_543P DEL chr17:39190139-39411837 221.70 chr17 39300988 111310..111331 22 11 99 99 4 9 -2.94 66.94 +Sample_543P DEL chr19:13947101-13985825 38.73 chr19 13966463 121625..121629 5 8 32 32 23 3 -3.37 62.00 +Sample_543P DEL chr19:50473069-50473627 0.56 chr19 50473348 127082..127083 2 46 58 58 47 19 -7.07 35.42 +Sample_543P DUP chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 28 84 84 22 20 4.14 73.04 +Sample_543P DEL chr19:55417508-55417692 0.18 chr19 55417600 128042..128043 2 40 40 40 18 19 -6.43 87.45 +Sample_543P DEL chr21:45959068-46067564 108.50 chr21 46013316 134150..134162 13 43 99 99 15 17 -6.56 146.23 +Sample_543P DUP chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 99 99 99 44 15 8.24 102.28 +Sample_543P DEL chr22:22989453-22989760 0.31 chr22 22989606 135221..135222 2 27 50 50 29 18 -6.80 81.58 +Sample_543P DEL chr22:50900634-50901367 0.73 chr22 50901000 138168..138170 3 9 38 38 9 30 -4.74 91.73 +Sample_691F DEL chr1:12851546-12976507 124.96 chr1 12914026 1602..1624 23 15 99 99 27 15 -3.23 15.65 +Sample_691F DEL chr1:16894474-17017789 123.32 chr1 16956131 1944..1969 26 9 99 99 9 5 -4.48 34.02 +Sample_691F DEL chr1:17085298-17090975 5.68 chr1 17088136 1980..1986 7 13 99 99 29 13 -3.97 49.36 +Sample_691F DUP chr1:17256619-17257892 1.27 chr1 17257255 1991..1994 4 38 40 40 18 20 3.97 84.65 +Sample_691F DUP chr1:36773371-36774076 0.71 chr1 36773723 4352..4355 4 19 43 43 29 9 4.04 84.94 +Sample_691F DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 49 99 99 22 25 5.82 66.30 +Sample_691F DEL chr8:11985367-12008698 23.33 chr8 11997032 55312..55314 3 26 34 34 11 7 -4.55 9.60 +Sample_691F DEL chr8:12286142-12291623 5.48 chr8 12288882 55321..55323 3 13 36 36 28 13 -4.50 6.77 +Sample_691F DUP chr10:46965715-46993563 27.85 chr10 46979639 66734..66738 5 53 99 99 40 3 4.90 74.09 +Sample_691F DUP chr10:124344787-124353114 8.33 chr10 124348950 70420..70426 7 18 99 99 23 4 6.00 57.12 +Sample_691F DEL chr12:9447028-9456803 9.78 chr12 9451915 81112..81121 10 3 99 99 21 3 -3.32 9.96 +Sample_691F DUP chr12:11034816-11035297 0.48 chr12 11035056 81234..81235 2 50 73 73 23 29 7.71 75.28 +Sample_691F DEL chr12:132632178-132636189 4.01 chr12 132634183 87865..87872 8 7 38 38 14 6 -2.74 35.35 +Sample_691F DEL chr13:24465429-24468340 2.91 chr13 24466884 88167..88170 4 7 30 30 27 7 -3.77 6.90 +Sample_691F DUP chr15:102513423-102516807 3.38 chr15 102515115 99267..99269 3 31 51 51 4 31 4.85 45.26 +Sample_691F DEL chr16:1278337-1280185 1.85 chr16 1279261 99710..99713 4 26 47 47 24 35 -4.09 8.41 +Sample_691F DUP chr16:3076680-3077074 0.40 chr16 3076877 100446..100448 3 39 81 81 57 6 5.82 129.85 +Sample_691F DEL chr16:74401963-74452196 50.23 chr16 74427079 105290..105298 9 7 99 99 6 16 -4.78 22.30 +Sample_691F DEL chr17:18380099-18398258 18.16 chr17 18389178 109355..109362 8 7 69 69 8 10 -3.02 13.06 +Sample_691F DUP chr17:39202798-39411837 209.04 chr17 39307317 111312..111331 20 5 99 99 3 8 2.55 65.73 +Sample_691F DUP chr17:48269149-48271544 2.40 chr17 48270346 112940..112947 8 14 34 34 15 10 2.72 64.90 +Sample_691F DEL chr19:43679367-43709790 30.42 chr19 43694578 125401..125408 8 6 75 75 7 11 -3.07 11.22 +Sample_691F DEL chr19:54724398-54726959 2.56 chr19 54725678 127862..127865 4 45 47 47 32 30 -4.08 4.20 +Sample_691F DEL chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 26 99 99 10 25 -4.87 19.46 +Sample_691F DUP chr19:55344174-55361964 17.79 chr19 55353069 128030..128034 5 37 38 38 12 17 3.45 28.78 +Sample_691F DEL chr22:24656876-24658575 1.70 chr22 24657725 135429..135430 2 44 45 45 37 16 -6.60 74.14 +Sample_691F DEL chr22:39378405-39388154 9.75 chr22 39383279 136949..136955 7 25 37 37 20 9 -2.88 6.70 +Sample_691F DUP chr22:42538480-42564742 26.26 chr22 42551611 137436..137441 6 21 36 36 26 13 3.14 50.44 +Sample_691M DEL chr1:12851546-12976507 124.96 chr1 12914026 1602..1624 23 6 99 99 17 7 -3.31 13.86 +Sample_691M DEL chr1:16921426-17256702 335.28 chr1 17089064 1959..1991 33 2 60 60 4 5 -1.94 42.06 +Sample_691M DEL chr1:19600355-19612866 12.51 chr1 19606610 2361..2367 7 36 99 99 22 10 -3.96 12.54 +Sample_691M DEL chr12:8377306-8395542 18.24 chr12 8386424 80974..80978 5 27 31 31 5 27 -3.26 31.96 +Sample_691M DUP chr12:11034816-11035297 0.48 chr12 11035056 81234..81235 2 49 72 72 30 21 7.68 72.88 +Sample_691M DEL chr16:1279567-1291700 12.13 chr16 1285633 99712..99716 5 7 57 57 3 24 -3.73 26.10 +Sample_691M DUP chr16:3076680-3076917 0.24 chr16 3076798 100446..100447 2 51 51 51 26 29 6.86 131.09 +Sample_691M DEL chr16:28607104-28620649 13.55 chr16 28613876 102275..102281 7 12 45 45 13 3 -2.97 22.39 +Sample_691M DEL chr17:15635591-15646830 11.24 chr17 15641210 108932..108944 13 3 98 99 3 5 -3.79 12.51 +Sample_691M DUP chr19:38932989-38934901 1.91 chr19 38933945 124232..124235 4 3 60 60 8 4 4.33 55.88 +Sample_691M DEL chr19:54784816-54803978 19.16 chr19 54794397 127894..127900 7 15 99 99 15 23 -7.01 4.17 +Sample_691M DUP chr20:30457613-30458011 0.40 chr20 30457812 130032..130033 2 31 32 32 29 27 6.11 55.84 +Sample_691P DEL chr1:1451392-1460671 9.28 chr1 1456031 317..326 10 7 71 71 13 5 -2.76 25.56 +Sample_691P DEL chr1:16918654-17275421 356.77 chr1 17097037 1956..2005 50 16 99 99 4 16 -2.85 46.14 +Sample_691P DUP chr1:155183617-155185578 1.96 chr1 155184597 9806..9809 4 26 99 99 26 9 6.33 75.97 +Sample_691P DUP chr1:156785542-156813025 27.48 chr1 156799283 10298..10307 10 4 49 49 26 2 2.59 41.06 +Sample_691P DUP chr2:130807389-130878181 70.79 chr2 130842785 20145..20148 4 30 56 56 10 1 4.20 48.87 +Sample_691P DUP chr2:233243910-233246077 2.17 chr2 233244993 23898..23904 7 3 44 44 3 18 2.96 70.12 +Sample_691P DEL chr2:233271552-233274158 2.61 chr2 233272855 23907..23915 9 4 99 99 4 5 -3.29 37.02 +Sample_691P DUP chr3:48609434-48614352 4.92 chr3 48611893 27154..27178 25 13 99 99 16 16 2.28 66.38 +Sample_691P DUP chr3:48619139-48620086 0.95 chr3 48619612 27196..27200 5 29 99 99 6 31 4.81 88.46 +Sample_691P DUP chr3:49849303-49850171 0.87 chr3 49849737 27701..27704 4 24 79 79 28 3 4.68 107.57 +Sample_691P DUP chr3:50326878-50327903 1.03 chr3 50327390 27872..27876 5 29 80 80 4 4 4.06 77.26 +Sample_691P DEL chr7:100331650-100334972 3.32 chr7 100333311 52178..52181 4 41 99 99 6 6 -5.23 0.32 +Sample_691P DUP chr8:144920852-144922401 1.55 chr8 144921626 58960..58967 8 8 63 63 6 11 2.98 77.41 +Sample_691P DEL chr9:117085943-117088757 2.81 chr9 117087350 62580..62584 5 5 55 55 7 5 -3.68 13.10 +Sample_691P DUP chr10:46963840-47000567 36.73 chr10 46982203 66733..66739 7 9 99 99 9 10 3.94 61.06 +Sample_691P DUP chr10:124344787-124353114 8.33 chr10 124348950 70420..70426 7 50 99 99 41 37 6.63 55.77 +Sample_691P DUP chr11:64564281-64565136 0.86 chr11 64564708 75391..75396 6 8 99 99 26 8 3.96 84.59 +Sample_691P DEL chr12:87984-90655 2.67 chr12 89319 79925..79930 6 29 92 92 49 19 -3.78 8.48 +Sample_691P DUP chr12:6458116-6458571 0.46 chr12 6458343 80443..80445 3 18 38 38 17 3 4.65 67.05 +Sample_691P DEL chr12:9447028-9451458 4.43 chr12 9449243 81112..81115 4 21 82 82 18 4 -4.75 15.57 +Sample_691P DEL chr12:9570288-9578716 8.43 chr12 9574502 81130..81142 13 11 50 50 27 12 -2.37 19.03 +Sample_691P DUP chr14:24031171-24033065 1.90 chr14 24032118 90659..90664 6 3 52 52 3 4 3.27 69.30 +Sample_691P DEL chr15:22332388-22414393 82.01 chr15 22373390 94360..94366 7 22 41 41 7 24 -2.92 11.36 +Sample_691P DUP chr15:23308564-23444098 135.53 chr15 23376331 94427..94438 12 11 47 47 0 46 2.44 21.23 +Sample_691P DUP chr15:102513423-102516807 3.38 chr15 102515115 99267..99269 3 17 66 66 20 17 5.28 45.13 +Sample_691P DEL chr16:1278337-1280185 1.85 chr16 1279261 99710..99713 4 48 99 99 45 18 -5.87 7.46 +Sample_691P DUP chr16:3074182-3077281 3.10 chr16 3075731 100439..100449 11 19 93 95 20 14 2.83 79.32 +Sample_691P DUP chr16:29883508-29884064 0.56 chr16 29883786 102484..102486 3 8 47 47 7 29 4.96 75.38 +Sample_691P DUP chr16:88780544-88781334 0.79 chr16 88780939 106028..106031 4 25 37 37 6 25 3.92 64.71 +Sample_691P DUP chr19:39911391-39911753 0.36 chr19 39911572 124597..124599 3 18 96 98 15 21 6.30 101.46 +Sample_691P DEL chr19:40389652-40398510 8.86 chr19 40394081 124714..124718 5 20 99 99 14 20 -4.55 19.27 +Sample_691P DEL chr19:43680022-43709790 29.77 chr19 43694906 125402..125408 7 39 99 99 5 12 -3.76 10.62 +Sample_691P DUP chr19:55327893-55361964 34.07 chr19 55344928 128026..128034 9 7 58 58 4 34 2.77 25.09 +Sample_691P DEL chr21:45999564-46020655 21.09 chr21 46010109 134155..134157 3 15 31 31 3 16 -4.82 136.15 +Sample_691P DUP chr22:20385726-20398336 12.61 chr22 20392031 134920..134925 6 17 52 52 17 15 3.27 21.45 +Sample_691P DUP chr22:21380094-21383733 3.64 chr22 21381913 135091..135095 5 34 61 61 19 3 3.79 54.57 +Sample_691P DUP chr22:50900376-50903558 3.18 chr22 50901967 138167..138175 9 14 82 82 13 10 3.00 70.04 +Sample_698F DEL chr1:14363-70008 55.65 chr1 42185 1..5 5 13 99 99 0 13 -4.58 15.66 +Sample_698F DEL chr1:12851546-12891264 39.72 chr1 12871405 1602..1609 8 33 99 99 39 30 -3.81 34.32 +Sample_698F DEL chr1:16918654-17090975 172.32 chr1 17004814 1956..1986 31 3 99 99 2 0 -3.91 71.10 +Sample_698F DUP chr1:17248445-17275421 26.98 chr1 17261933 1987..2005 19 5 85 99 0 7 4.07 94.40 +Sample_698F DUP chr2:114341230-114356605 15.38 chr2 114348917 19699..19707 9 24 86 86 21 16 3.04 81.19 +Sample_698F DEL chr2:233347128-233347318 0.19 chr2 233347223 23934..23935 2 37 37 37 15 5 -6.23 92.90 +Sample_698F DEL chr3:48607313-48609971 2.66 chr3 48608642 27146..27157 12 9 43 43 9 11 -2.39 65.23 +Sample_698F DUP chr3:195410623-195447954 37.33 chr3 195429288 32796..32797 2 21 34 34 16 29 6.24 83.32 +Sample_698F DUP chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 36 97 99 5 34 4.99 56.82 +Sample_698F DUP chr8:11985367-12008698 23.33 chr8 11997032 55312..55314 3 30 33 33 3 17 4.47 57.37 +Sample_698F DEL chr10:135369284-135370660 1.38 chr10 135369972 70977..70980 4 7 85 85 28 5 -4.82 78.03 +Sample_698F DUP chr12:90587-149412 58.83 chr12 119999 79930..79932 3 46 47 47 11 44 4.93 69.24 +Sample_698F DUP chr12:9436253-9571525 135.27 chr12 9503889 81110..81131 22 6 99 99 38 6 3.40 53.58 +Sample_698F DEL chr15:20743914-20776177 32.26 chr15 20760045 94345..94349 5 34 48 48 36 38 -3.66 9.69 +Sample_698F DEL chr15:21932514-22414393 481.88 chr15 22173453 94355..94366 12 8 99 99 25 8 -3.11 19.71 +Sample_698F DUP chr15:83013569-83015609 2.04 chr15 83014589 98300..98301 2 96 99 99 49 55 9.33 59.13 +Sample_698F DEL chr16:3076680-3077074 0.40 chr16 3076877 100446..100448 3 24 51 51 25 6 -5.06 136.67 +Sample_698F DUP chr17:14139175-14139747 0.57 chr17 14139461 108886..108887 2 45 62 62 21 6 7.22 117.94 +Sample_698F DUP chr17:39240459-39262738 22.28 chr17 39251598 111315..111317 3 22 71 71 13 12 5.57 116.02 +Sample_698F DUP chr17:39382900-39389705 6.81 chr17 39386302 111326..111328 3 21 53 53 10 4 5.06 109.11 +Sample_698F DEL chr19:55315346-55377877 62.53 chr19 55346611 128025..128035 11 3 63 63 4 3 -2.60 10.31 +Sample_698F DEL chr22:20385726-20398336 12.61 chr22 20392031 134920..134925 6 18 99 99 4 18 -3.92 8.47 +Sample_698F DEL chr22:24653965-24661490 7.53 chr22 24657727 135428..135431 4 3 42 42 10 4 -3.94 91.22 +Sample_698M DEL chr1:16895568-16902976 7.41 chr1 16899272 1945..1948 4 26 32 32 26 7 -3.83 16.77 +Sample_698M DEL chr1:16952270-16976914 24.64 chr1 16964592 1964..1968 5 68 99 99 5 42 -8.76 88.13 +Sample_698M DEL chr1:17084437-17090975 6.54 chr1 17087706 1979..1986 8 18 99 99 11 0 -5.44 87.99 +Sample_698M DUP chr1:17248445-17275421 26.98 chr1 17261933 1987..2005 19 33 99 99 0 15 7.94 115.94 +Sample_698M DUP chr1:148560990-148932920 371.93 chr1 148746955 8607..8609 3 11 33 33 11 33 5.21 134.07 +Sample_698M DUP chr2:114346127-114356605 10.48 chr2 114351366 19700..19707 8 7 76 76 7 5 3.10 75.06 +Sample_698M DEL chr3:195690171-195717150 26.98 chr3 195703660 32841..32852 12 3 99 99 3 7 -3.21 19.97 +Sample_698M DUP chr5:177466388-177474656 8.27 chr5 177470522 42444..42447 4 79 99 99 27 28 5.24 74.58 +Sample_698M DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 39 99 99 27 27 -4.66 48.07 +Sample_698M DUP chr7:74197282-74203048 5.77 chr7 74200165 50910..50912 3 4 37 37 6 7 4.51 88.66 +Sample_698M DUP chr7:143955790-144070377 114.59 chr7 144013083 54231..54236 6 48 52 52 36 23 3.41 44.07 +Sample_698M DEL chr8:12043861-12250923 207.06 chr8 12147392 55316..55320 5 21 76 76 13 0 -4.20 30.31 +Sample_698M DEL chr13:24465429-24468340 2.91 chr13 24466884 88167..88170 4 30 33 33 15 29 -3.84 16.36 +Sample_698M DEL chr15:20743914-22414393 1670.48 chr15 21579153 94345..94366 22 8 99 99 77 8 -3.95 13.56 +Sample_698M DEL chr15:23444007-23444098 0.09 chr15 23444052 94438..94438 1 31 31 31 31 31 -10.00 26.65 +Sample_698M DUP chr15:78207740-78208927 1.19 chr15 78208333 98003..98006 4 5 54 54 24 5 4.24 139.64 +Sample_698M DEL chr16:1279191-1292554 13.36 chr16 1285872 99711..99717 7 5 59 60 13 0 -3.16 44.70 +Sample_698M DUP chr16:1306273-1308494 2.22 chr16 1307383 99718..99722 5 8 91 92 1 8 4.24 92.02 +Sample_698M DEL chr16:14988855-15125763 136.91 chr16 15057309 101197..101214 18 5 99 99 8 5 -3.63 20.43 +Sample_698M DUP chr16:74446671-74452196 5.53 chr16 74449433 105296..105298 3 18 37 37 19 17 4.64 87.14 +Sample_698M DEL chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 8 91 92 7 33 -2.77 28.69 +Sample_698M DUP chr17:18380099-18430160 50.06 chr17 18405129 109355..109365 11 6 98 99 2 6 3.45 51.25 +Sample_698M DUP chr19:15763633-15807984 44.35 chr19 15785808 122093..122109 17 3 99 99 3 11 4.51 47.92 +Sample_698M DUP chr19:43348511-43441330 92.82 chr19 43394920 125376..125392 17 14 99 99 14 27 4.00 56.89 +Sample_698M DEL chr19:52133552-52149893 16.34 chr19 52141722 127512..127516 5 18 99 99 27 17 -4.49 1.72 +Sample_698M DEL chr19:55239077-55361964 122.89 chr19 55300520 128015..128034 20 3 66 99 22 14 -2.31 9.16 +Sample_698M DUP chr21:45959068-46117959 158.89 chr21 46038513 134150..134167 18 13 99 99 24 8 4.00 194.74 +Sample_698M DUP chr22:25044121-25055114 10.99 chr22 25049617 135495..135500 6 2 99 99 11 2 3.84 124.60 +Sample_698P DEL chr1:12851546-12854642 3.10 chr1 12853094 1602..1604 3 8 31 31 8 9 -4.55 39.36 +Sample_698P DUP chr1:12918840-12939926 21.09 chr1 12929383 1614..1617 4 20 99 99 19 20 5.64 73.24 +Sample_698P DUP chr1:16895568-16946533 50.97 chr1 16921050 1945..1963 19 17 99 99 6 5 3.75 69.36 +Sample_698P DEL chr1:16954963-17084583 129.62 chr1 17019773 1965..1979 15 10 66 99 4 17 -3.64 42.43 +Sample_698P DEL chr1:17086647-17090975 4.33 chr1 17088811 1984..1986 3 79 99 99 6 0 -7.29 61.40 +Sample_698P DUP chr1:17248445-17275421 26.98 chr1 17261933 1987..2005 19 4 99 99 0 4 5.30 78.27 +Sample_698P DUP chr1:144854165-144855883 1.72 chr1 144855024 8344..8346 3 29 40 40 5 22 4.76 96.18 +Sample_698P DEL chr1:148930405-149399229 468.82 chr1 149164817 8608..8613 6 51 99 99 49 66 -5.17 30.64 +Sample_698P DUP chr1:248436155-248525929 89.78 chr1 248481042 15079..15083 5 19 31 31 17 15 3.39 62.27 +Sample_698P DUP chr2:96688772-96690085 1.31 chr2 96689428 18716..18720 5 11 51 51 26 11 3.67 63.48 +Sample_698P DUP chr2:114341230-114384715 43.49 chr2 114362972 19699..19709 11 4 46 46 18 3 2.49 54.91 +Sample_698P DUP chr2:130806641-130899954 93.31 chr2 130853297 20144..20154 11 3 99 99 3 4 2.92 49.27 +Sample_698P DEL chr3:75470705-75484266 13.56 chr3 75477485 29262..29269 8 24 99 99 75 24 -6.44 33.89 +Sample_698P DUP chr3:195447753-195475935 28.18 chr3 195461844 32797..32802 6 44 98 99 8 4 4.48 61.72 +Sample_698P DUP chr3:195710983-195717150 6.17 chr3 195714066 32849..32852 4 6 75 75 4 7 4.51 51.79 +Sample_698P DUP chr4:190903679-190906024 2.35 chr4 190904851 37228..37231 4 12 72 72 15 12 4.46 65.06 +Sample_698P DUP chr8:11985367-12291623 306.26 chr8 12138495 55312..55323 12 7 99 99 20 7 4.10 50.26 +Sample_698P DEL chr12:87984-90655 2.67 chr12 89319 79925..79930 6 26 31 31 31 23 -3.00 10.70 +Sample_698P DEL chr15:22143113-22369516 226.40 chr15 22256314 94357..94363 7 4 59 59 2 6 -3.24 20.88 +Sample_698P DUP chr15:23261763-23312308 50.55 chr15 23287035 94422..94430 9 6 97 99 8 7 3.17 45.10 +Sample_698P DUP chr15:78207740-78208271 0.53 chr15 78208005 98003..98005 3 13 71 71 5 9 5.54 123.18 +Sample_698P DUP chr16:28616918-28621357 4.44 chr16 28619137 102277..102282 6 28 99 99 31 24 5.99 59.87 +Sample_698P DEL chr16:74442531-74447574 5.04 chr16 74445052 105291..105297 7 73 99 99 5 6 -5.25 37.01 +Sample_698P DUP chr17:14095306-14140150 44.84 chr17 14117728 108884..108888 5 10 98 99 10 21 4.50 67.35 +Sample_698P DUP chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 11 42 42 11 25 2.42 41.32 +Sample_698P DEL chr17:18390961-18398258 7.30 chr17 18394609 109357..109362 6 21 96 99 12 6 -3.90 14.72 +Sample_698P DUP chr19:50463394-50464429 1.04 chr19 50463911 127079..127081 3 5 33 33 5 2 4.56 61.54 +Sample_698P DUP chr21:45959068-46058370 99.30 chr21 46008719 134150..134161 12 9 99 99 12 5 3.81 147.27 +Sample_698P DEL chr22:20386517-20398336 11.82 chr22 20392426 134921..134925 5 21 30 30 5 18 -3.25 7.85 +Sample_698P DUP chr22:23637211-23656901 19.69 chr22 23647056 135258..135264 7 5 40 40 7 6 2.94 87.58 +Sample_698P DUP chr22:25040707-25055114 14.41 chr22 25047910 135492..135500 9 1 57 57 3 4 2.69 74.33 +Sample_703F DUP chr1:12853352-12943231 89.88 chr1 12898291 1603..1619 17 26 99 99 17 36 2.50 88.71 +Sample_703F DEL chr1:16894474-17275421 380.95 chr1 17084947 1944..2005 62 4 97 99 23 4 -4.15 88.07 +Sample_703F DUP chr1:21806544-21811392 4.85 chr1 21808968 2575..2577 3 9 50 50 6 17 4.87 49.17 +Sample_703F DUP chr1:25611064-25633220 22.16 chr1 25622142 3041..3046 6 15 95 95 36 13 3.85 75.29 +Sample_703F DEL chr1:161518801-161601158 82.36 chr1 161559979 11050..11060 11 2 76 76 2 21 -2.67 26.52 +Sample_703F DUP chr2:132290437-132290642 0.21 chr2 132290539 20265..20266 2 44 67 67 20 24 7.46 161.02 +Sample_703F DUP chr3:75470705-75477059 6.36 chr3 75473882 29262..29265 4 17 32 32 28 7 3.82 186.79 +Sample_703F DEL chr5:795720-825366 29.65 chr5 810543 37326..37330 5 46 98 99 19 32 -5.24 24.69 +Sample_703F DEL chr5:177466388-177474656 8.27 chr5 177470522 42444..42447 4 23 52 52 23 33 -4.12 51.34 +Sample_703F DUP chr7:6851583-6864368 12.79 chr7 6857975 48985..48989 5 10 69 69 10 22 3.84 48.16 +Sample_703F DUP chr7:72476099-72649368 173.27 chr7 72562733 50674..50677 4 16 48 48 19 8 4.33 87.28 +Sample_703F DUP chr7:76610139-76682355 72.22 chr7 76646247 51094..51101 8 32 99 99 45 32 3.57 75.43 +Sample_703F DEL chr7:102114808-102246434 131.63 chr7 102180621 52449..52455 7 24 99 99 12 27 -3.79 27.35 +Sample_703F DEL chr7:143955790-144075959 120.17 chr7 144015874 54231..54237 7 5 99 99 29 4 -3.82 29.79 +Sample_703F DUP chr8:7154584-7220490 65.91 chr8 7187537 55172..55178 7 19 89 89 3 19 3.44 64.11 +Sample_703F DUP chr8:7320229-7752292 432.06 chr8 7536260 55182..55185 4 8 99 99 8 26 6.45 92.57 +Sample_703F DUP chr8:11979496-12291623 312.13 chr8 12135559 55311..55323 13 6 99 99 8 9 4.24 85.77 +Sample_703F DUP chr9:15909-17166 1.26 chr9 16537 59397..59398 2 66 67 67 66 42 7.17 88.77 +Sample_703F DUP chr10:46918169-47756092 837.92 chr10 47337130 66730..66766 37 10 99 99 10 47 4.15 90.95 +Sample_703F DUP chr10:135368855-135381779 12.93 chr10 135375317 70976..70987 12 62 99 99 4 27 5.27 122.47 +Sample_703F DEL chr13:24465671-24471125 5.46 chr13 24468398 88168..88171 4 9 34 34 16 9 -3.73 30.56 +Sample_703F DEL chr15:21134198-21134625 0.43 chr15 21134411 94353..94354 2 49 49 49 42 1 -6.49 0.51 +Sample_703F DUP chr15:21932514-22145802 213.29 chr15 22039158 94355..94359 5 8 99 99 0 53 5.60 88.58 +Sample_703F DUP chr15:22708983-22710019 1.04 chr15 22709501 94367..94369 3 51 99 99 43 28 7.51 72.61 +Sample_703F DUP chr16:2201570-2202886 1.32 chr16 2202228 100155..100158 4 23 42 42 23 17 4.04 142.52 +Sample_703F DUP chr16:3076680-3077501 0.82 chr16 3077090 100446..100450 5 5 54 54 7 6 3.69 198.10 +Sample_703F DUP chr16:55846815-55855433 8.62 chr16 55851124 103457..103461 5 37 50 50 21 27 3.66 80.80 +Sample_703F DUP chr16:74385938-74452196 66.26 chr16 74419067 105286..105298 13 19 99 99 15 22 4.25 102.88 +Sample_703F DEL chr17:20355108-20358711 3.60 chr17 20356909 109567..109569 3 45 90 90 6 6 -6.01 2.60 +Sample_703F DUP chr17:34499214-34757050 257.84 chr17 34628132 110586..110588 3 33 55 55 20 51 5.48 68.56 +Sample_703F DUP chr17:39261641-39412615 150.97 chr17 39337128 111317..111332 16 10 99 99 7 10 2.69 143.20 +Sample_703F DUP chr19:6375713-6387570 11.86 chr19 6381641 119698..119706 9 98 99 99 15 31 9.26 150.30 +Sample_703F DUP chr19:54724398-54726959 2.56 chr19 54725678 127862..127865 4 25 95 96 54 24 5.01 76.36 +Sample_703F DUP chr19:54784119-54803978 19.86 chr19 54794048 127892..127900 9 18 99 99 17 20 3.71 115.28 +Sample_703F DEL chr19:55294938-55361964 67.03 chr19 55328451 128024..128034 11 5 99 99 2 21 -4.87 2.01 +Sample_703F DUP chr21:45959068-46117959 158.89 chr21 46038513 134150..134167 18 37 99 99 34 22 4.25 255.62 +Sample_703F DEL chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 84 99 99 30 35 -7.70 47.49 +Sample_703F DEL chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 52 99 99 11 10 -5.07 20.25 +Sample_703F DEL chr22:42898755-42950048 51.29 chr22 42924401 137451..137460 10 8 77 77 7 21 -2.83 41.01 +Sample_703M DEL chr1:12907236-12955703 48.47 chr1 12931469 1610..1622 13 9 91 99 9 36 -3.36 35.30 +Sample_703M DEL chr1:16913545-16955145 41.60 chr1 16934345 1952..1965 14 39 99 99 9 0 -3.80 115.58 +Sample_703M DEL chr1:17017713-17034573 16.86 chr1 17026143 1969..1976 8 16 99 99 2 4 -4.12 56.19 +Sample_703M DUP chr1:17086647-17087597 0.95 chr1 17087122 1984..1985 2 30 34 34 9 10 6.15 263.23 +Sample_703M DEL chr1:36773371-36773810 0.44 chr1 36773590 4352..4354 3 6 68 68 16 6 -5.49 162.95 +Sample_703M DUP chr1:78715868-79387471 671.60 chr1 79051669 6754..6766 13 7 99 99 2 19 3.03 38.35 +Sample_703M DEL chr1:161560934-161601158 40.23 chr1 161581046 11054..11060 7 3 68 68 7 3 -3.18 27.16 +Sample_703M DUP chr2:114352946-114358421 5.48 chr2 114355683 19702..19708 7 9 95 96 9 9 3.51 125.02 +Sample_703M DEL chr2:130897464-130897669 0.21 chr2 130897566 20150..20151 2 44 68 68 31 11 -7.49 59.68 +Sample_703M DUP chr2:132290162-132290642 0.48 chr2 132290402 20264..20266 3 7 44 44 13 3 4.82 142.90 +Sample_703M DEL chr3:49723746-49725330 1.58 chr3 49724538 27606..27612 7 5 39 39 12 3 -2.90 204.46 +Sample_703M DUP chr5:837480-878602 41.12 chr5 858041 37332..37342 11 7 98 99 7 24 2.92 97.40 +Sample_703M DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 56 95 98 34 13 -4.37 78.40 +Sample_703M DUP chr7:74306509-74306965 0.46 chr7 74306737 50916..50917 2 30 30 30 3 25 5.89 158.90 +Sample_703M DEL chr7:102191679-102257205 65.53 chr7 102224442 52453..52456 4 3 58 58 7 3 -4.21 22.64 +Sample_703M DUP chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 5 53 53 5 20 4.11 91.78 +Sample_703M DUP chr8:7153153-7217854 64.70 chr8 7185503 55171..55176 6 5 65 65 21 3 3.52 66.07 +Sample_703M DUP chr9:15909-17166 1.26 chr9 16537 59397..59398 2 77 99 99 76 33 8.72 110.19 +Sample_703M DEL chr10:135368855-135370326 1.47 chr10 135369590 70976..70979 4 4 34 34 3 5 -3.80 144.76 +Sample_703M DEL chr12:87984-90655 2.67 chr12 89319 79925..79930 6 99 99 99 89 0 -7.65 4.25 +Sample_703M DUP chr12:147946-149412 1.47 chr12 148679 79931..79932 2 53 82 82 0 41 7.86 155.61 +Sample_703M DEL chr15:20776609-21134625 358.02 chr15 20955617 94350..94354 5 11 73 73 10 38 -4.23 9.29 +Sample_703M DEL chr15:22332388-22414393 82.01 chr15 22373390 94360..94366 7 26 99 99 59 11 -4.12 33.49 +Sample_703M DUP chr15:23260811-23311838 51.03 chr15 23286324 94420..94429 10 17 99 99 17 17 3.83 91.00 +Sample_703M DUP chr15:72954593-72958469 3.88 chr15 72956531 97496..97500 5 17 99 99 30 13 4.52 90.13 +Sample_703M DEL chr15:75562173-75586172 24.00 chr15 75574172 97822..97827 6 5 99 99 9 3 -4.06 6.24 +Sample_703M DEL chr15:78207982-78208271 0.29 chr15 78208126 98004..98005 2 52 55 55 12 46 -6.98 211.50 +Sample_703M DUP chr16:1279191-1290729 11.54 chr16 1284960 99711..99714 4 16 99 99 6 13 5.43 107.19 +Sample_703M DUP chr16:55844429-55857595 13.17 chr16 55851012 103455..103462 8 4 76 76 4 10 3.11 66.34 +Sample_703M DUP chr16:74446671-74447574 0.90 chr16 74447122 105296..105297 2 80 98 99 42 5 8.77 190.75 +Sample_703M DUP chr17:18291533-18430160 138.63 chr17 18360846 109352..109365 14 13 98 99 24 13 3.48 76.31 +Sample_703M DEL chr17:20354794-20358711 3.92 chr17 20356752 109566..109569 4 9 98 99 9 4 -6.32 3.73 +Sample_703M DEL chr17:48269149-48270054 0.91 chr17 48269601 112940..112943 4 9 41 41 9 35 -4.00 108.21 +Sample_703M DUP chr19:1388832-1391164 2.33 chr19 1389998 118541..118543 3 29 38 38 12 30 4.73 137.63 +Sample_703M DUP chr19:6375713-6387570 11.86 chr19 6381641 119698..119706 9 87 99 99 14 24 8.95 163.09 +Sample_703M DEL chr19:40373945-40382826 8.88 chr19 40378385 124708..124712 5 9 51 51 36 9 -3.68 24.45 +Sample_703M DUP chr19:40389652-40398510 8.86 chr19 40394081 124714..124718 5 46 99 99 22 18 8.18 123.43 +Sample_703M DEL chr19:54745452-54746724 1.27 chr19 54746088 127866..127869 4 33 99 99 33 21 -5.73 27.73 +Sample_703M DEL chr19:55105113-55105743 0.63 chr19 55105428 127979..127980 2 12 36 36 10 7 -6.22 112.09 +Sample_703M DEL chr19:55315346-55361964 46.62 chr19 55338655 128025..128034 10 54 99 99 12 20 -5.42 0.40 +Sample_703M DEL chr21:45959068-46012386 53.32 chr21 45985727 134150..134156 7 28 48 48 9 40 -3.05 317.29 +Sample_703M DEL chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 81 99 99 19 11 -7.42 40.05 +Sample_703M DEL chr22:20383731-20393604 9.87 chr22 20388667 134919..134923 5 8 33 33 32 8 -3.39 24.57 +Sample_703M DEL chr22:22985163-22989508 4.35 chr22 22987335 135218..135221 4 39 95 96 5 19 -5.04 98.20 +Sample_703M DUP chr22:24347142-24384284 37.14 chr22 24365713 135355..135361 7 4 99 99 4 15 4.67 66.48 +Sample_703M DUP chr22:25041133-25045989 4.86 chr22 25043561 135493..135498 6 24 99 99 12 31 4.05 195.92 +Sample_703P DEL chr1:1633047-1677431 44.38 chr1 1655239 369..382 14 5 93 93 5 12 -2.54 14.55 +Sample_703P DUP chr1:16348486-16359751 11.27 chr1 16354118 1819..1836 18 31 99 99 18 9 4.17 59.82 +Sample_703P DEL chr1:16918342-17023419 105.08 chr1 16970880 1955..1971 17 7 99 99 5 6 -4.26 72.83 +Sample_703P DEL chr1:17084437-17085663 1.23 chr1 17085050 1979..1981 3 32 94 94 12 10 -6.17 95.40 +Sample_703P DEL chr1:17086647-17256842 170.20 chr1 17171744 1984..1992 9 36 99 99 11 6 -4.01 75.00 +Sample_703P DUP chr2:130897464-130897669 0.21 chr2 130897566 20150..20151 2 50 50 50 8 10 6.78 92.49 +Sample_703P DEL chr5:795720-825366 29.65 chr5 810543 37326..37330 5 13 53 53 13 22 -3.71 18.47 +Sample_703P DEL chr5:140220907-140238166 17.26 chr5 140229536 40585..40587 3 39 42 42 5 6 -4.73 30.76 +Sample_703P DEL chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 31 99 99 14 30 -5.48 10.64 +Sample_703P DEL chr7:143955790-144070377 114.59 chr7 144013083 54231..54236 6 45 76 76 29 12 -3.72 10.36 +Sample_703P DUP chr8:11985367-12044126 58.76 chr8 12014746 55312..55316 5 42 87 88 13 15 4.29 70.70 +Sample_703P DEL chr8:12245467-12286407 40.94 chr8 12265937 55318..55321 4 5 36 36 15 5 -3.93 12.33 +Sample_703P DUP chr9:33384949-33402517 17.57 chr9 33393733 60082..60089 8 25 99 99 18 29 4.47 65.37 +Sample_703P DUP chr10:46958528-47756092 797.57 chr10 47357310 66732..66766 35 5 99 99 5 12 3.99 61.36 +Sample_703P DUP chr10:135368855-135381779 12.93 chr10 135375317 70976..70987 12 14 99 99 8 50 3.45 72.96 +Sample_703P DUP chr11:5274421-5276011 1.59 chr11 5275216 71922..71924 3 8 62 62 28 7 5.27 64.21 +Sample_703P DUP chr15:22014420-22145802 131.38 chr15 22080111 94356..94359 4 60 99 99 17 32 6.13 61.05 +Sample_703P DEL chr15:78207740-78208271 0.53 chr15 78208005 98003..98005 3 42 98 99 27 3 -6.32 99.03 +Sample_703P DEL chr16:1279191-1291700 12.51 chr16 1285445 99711..99716 6 15 37 37 11 21 -3.15 39.20 +Sample_703P DUP chr17:15635591-15640837 5.25 chr17 15638214 108932..108935 4 11 34 34 11 34 3.89 67.77 +Sample_703P DUP chr17:16675291-16736147 60.86 chr17 16705719 109039..109050 12 10 98 99 3 36 3.99 55.72 +Sample_703P DEL chr17:18380099-18430160 50.06 chr17 18405129 109355..109365 11 28 98 99 15 21 -3.81 15.93 +Sample_703P DEL chr17:20355108-20358711 3.60 chr17 20356909 109567..109569 3 24 38 38 16 5 -4.71 2.29 +Sample_703P DEL chr17:39253236-39412615 159.38 chr17 39332925 111316..111332 17 8 99 99 2 8 -2.77 70.80 +Sample_703P DEL chr19:39735428-39759869 24.44 chr19 39747648 124534..124537 4 31 57 57 32 30 -4.35 77.19 +Sample_703P DUP chr19:40389652-40406060 16.41 chr19 40397856 124714..124720 7 7 99 99 11 7 3.71 56.54 +Sample_703P DUP chr19:54724398-54746186 21.79 chr19 54735292 127862..127867 6 30 99 99 10 5 5.03 55.65 +Sample_703P DUP chr19:55247287-55267601 20.32 chr19 55257444 128016..128022 7 12 91 92 8 2 3.45 36.90 +Sample_703P DEL chr21:45959068-46117959 158.89 chr21 46038513 134150..134167 18 55 99 99 11 15 -5.40 133.16 +Sample_703P DEL chr22:23651611-23654023 2.41 chr22 23652817 135259..135261 3 5 43 43 5 3 -4.75 71.01 +Sample_703P DEL chr22:24347142-24394849 47.71 chr22 24370995 135355..135362 8 13 99 99 4 13 -5.36 0.21 +Sample_703P DEL chr22:25041133-25045989 4.86 chr22 25043561 135493..135498 6 9 99 99 9 13 -4.86 80.61 +Sample_703P DEL chr22:50017826-50018329 0.50 chr22 50018077 137887..137888 2 43 65 65 65 18 -7.39 188.97 +Sample_703P DEL chr22:50900225-50901367 1.14 chr22 50900796 138166..138170 5 18 47 47 14 16 -3.61 77.03 +Sample_756F DUP chr1:14970-17742 2.77 chr1 16356 2..4 3 27 32 32 32 27 4.46 92.44 +Sample_756F DUP chr1:1451392-1454370 2.98 chr1 1452881 317..319 3 13 39 39 11 15 4.76 106.12 +Sample_756F DEL chr1:1623888-1670496 46.61 chr1 1647192 368..381 14 4 99 99 4 12 -2.73 28.21 +Sample_756F DUP chr1:12853352-12958094 104.74 chr1 12905723 1603..1623 21 7 96 96 4 17 2.23 66.11 +Sample_756F DEL chr1:16383364-16385212 1.85 chr1 16384288 1857..1858 2 22 43 43 5 15 -6.48 69.67 +Sample_756F DUP chr1:16952270-16975287 23.02 chr1 16963778 1964..1967 4 20 99 99 18 20 5.28 233.43 +Sample_756F DEL chr1:17085561-17275421 189.86 chr1 17180491 1981..2005 25 2 99 99 9 2 -2.68 104.73 +Sample_756F DUP chr1:148930405-149399229 468.82 chr1 149164817 8608..8613 6 36 99 99 29 54 4.69 126.72 +Sample_756F DEL chr1:161559352-161601158 41.81 chr1 161580255 11053..11060 8 7 91 91 4 21 -3.22 21.91 +Sample_756F DUP chr7:74152387-74306965 154.58 chr7 74229676 50905..50917 13 5 99 99 5 33 5.32 91.52 +Sample_756F DEL chr7:74573056-75044301 471.25 chr7 74808678 50924..50929 6 11 99 99 9 19 -4.70 33.45 +Sample_756F DUP chr7:76121470-76126794 5.33 chr7 76124132 51074..51075 2 17 42 42 19 17 6.45 72.58 +Sample_756F DEL chr7:100331650-100334972 3.32 chr7 100333311 52178..52181 4 83 99 99 18 4 -8.72 0.00 +Sample_756F DEL chr7:102114808-102246434 131.63 chr7 102180621 52449..52455 7 5 34 34 16 5 -2.93 30.98 +Sample_756F DUP chr7:143955790-144070377 114.59 chr7 144013083 54231..54236 6 15 72 72 35 28 3.66 63.78 +Sample_756F DEL chr8:11979496-12008698 29.20 chr8 11994097 55311..55314 4 37 99 99 8 9 -6.34 16.37 +Sample_756F DUP chr8:12245467-12250923 5.46 chr8 12248195 55318..55320 3 70 99 99 22 53 8.31 89.68 +Sample_756F DUP chr9:15909-179075 163.17 chr9 97492 59397..59399 3 27 99 99 65 22 7.06 78.36 +Sample_756F DEL chr9:117085943-117087432 1.49 chr9 117086687 62580..62583 4 17 45 45 17 16 -4.09 38.85 +Sample_756F DUP chr9:141069815-141071884 2.07 chr9 141070849 65438..65440 3 77 99 99 20 7 9.17 182.50 +Sample_756F DUP chr10:27225666-27230930 5.26 chr10 27228298 66314..66315 2 95 99 99 25 27 9.50 189.19 +Sample_756F DEL chr10:135369284-135371718 2.44 chr10 135370501 70977..70982 6 8 49 49 4 6 -3.26 96.89 +Sample_756F DEL chr11:71502785-71507212 4.43 chr11 71504998 76832..76834 3 46 60 60 20 4 -5.24 115.89 +Sample_756F DEL chr12:87984-149412 61.43 chr12 118698 79925..79932 8 54 99 99 95 4 -5.65 22.78 +Sample_756F DUP chr12:9447028-9453842 6.82 chr12 9450435 81112..81117 6 11 82 82 11 17 3.72 85.65 +Sample_756F DEL chr12:11034816-11035297 0.48 chr12 11035056 81234..81235 2 50 73 73 37 11 -7.69 57.50 +Sample_756F DEL chr15:20743914-20776700 32.79 chr15 20760307 94345..94350 6 25 99 99 34 25 -4.14 14.17 +Sample_756F DUP chr15:21932514-22145802 213.29 chr15 22039158 94355..94359 5 17 90 91 6 56 4.37 74.71 +Sample_756F DUP chr15:23299915-23444098 144.18 chr15 23372006 94426..94438 13 14 99 99 13 23 3.05 61.82 +Sample_756F DEL chr15:25474114-25477557 3.44 chr15 25475835 94487..94489 3 12 83 83 5 22 -5.87 20.89 +Sample_756F DEL chr15:78207982-78208271 0.29 chr15 78208126 98004..98005 2 82 89 90 6 44 -8.29 181.41 +Sample_756F DEL chr16:2155323-2162964 7.64 chr16 2159143 100136..100144 9 37 94 95 7 28 -3.10 50.21 +Sample_756F DEL chr16:70207928-70220796 12.87 chr16 70214362 104896..104898 3 17 41 41 16 17 -4.70 22.30 +Sample_756F DEL chr16:70714697-70714928 0.23 chr16 70714812 105025..105026 2 63 66 66 15 20 -7.36 56.69 +Sample_756F DEL chr16:74446671-74452196 5.53 chr16 74449433 105296..105298 3 9 89 90 38 9 -5.96 73.97 +Sample_756F DUP chr17:14095306-14140150 44.84 chr17 14117728 108884..108888 5 12 98 99 9 20 5.08 124.45 +Sample_756F DEL chr17:15635591-15640837 5.25 chr17 15638214 108932..108935 4 13 30 30 8 7 -3.77 47.20 +Sample_756F DEL chr17:16701556-16736147 34.59 chr17 16718851 109044..109050 7 4 98 99 5 10 -4.06 49.30 +Sample_756F DUP chr17:18392255-18430160 37.91 chr17 18411207 109358..109365 8 9 43 43 8 12 2.76 60.46 +Sample_756F DUP chr17:39240459-39254375 13.92 chr17 39247417 111315..111316 2 41 42 42 26 4 6.39 160.43 +Sample_756F DUP chr17:39388715-39395255 6.54 chr17 39391985 111327..111329 3 34 57 57 6 24 5.17 141.37 +Sample_756F DUP chr17:40766278-40811964 45.69 chr17 40789121 111749..111753 5 27 77 77 30 13 4.12 104.35 +Sample_756F DEL chr17:79768701-79769204 0.50 chr17 79768952 115982..115984 3 32 99 99 22 7 -7.88 89.04 +Sample_756F DEL chr19:39759157-39759869 0.71 chr19 39759513 124535..124537 3 17 63 63 20 20 -5.40 98.04 +Sample_756F DEL chr19:43708038-43763287 55.25 chr19 43735662 125407..125410 4 16 31 31 16 27 -3.87 30.06 +Sample_756F DEL chr19:50463394-50464429 1.04 chr19 50463911 127079..127081 3 5 52 52 22 0 -5.11 57.30 +Sample_756F DUP chr19:50473069-50473627 0.56 chr19 50473348 127082..127083 2 58 59 59 2 27 7.20 133.75 +Sample_756F DUP chr19:54722514-54726959 4.45 chr19 54724736 127859..127865 7 21 99 99 21 36 7.08 97.82 +Sample_756F DEL chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 45 99 99 39 34 -6.54 54.07 +Sample_756F DEL chr19:55247287-55290114 42.83 chr19 55268700 128016..128023 8 7 99 99 20 3 -4.40 3.08 +Sample_756F DUP chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 64 99 99 23 44 6.79 121.60 +Sample_756F DUP chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 41 97 98 36 8 3.52 59.29 +Sample_756F DUP chr22:24342269-24384284 42.02 chr22 24363276 135354..135361 8 11 73 73 15 3 3.07 57.74 +Sample_756F DEL chr22:42538480-42538881 0.40 chr22 42538680 137436..137437 2 57 58 58 21 25 -7.10 132.21 +Sample_756F DUP chrX:103217200-103294971 77.77 chrX 103256085 140819..140821 3 31 99 99 24 32 6.69 72.15 +Sample_756M DEL chr1:12851546-12921764 70.22 chr1 12886655 1602..1616 15 25 99 99 8 12 -2.90 42.71 +Sample_756M DEL chr1:16918654-16921156 2.50 chr1 16919905 1956..1958 3 59 99 99 39 24 -6.45 86.13 +Sample_756M DEL chr1:17085561-17087597 2.04 chr1 17086579 1981..1985 5 59 99 99 15 8 -4.90 39.38 +Sample_756M DUP chr2:128387220-128394203 6.98 chr2 128390711 20038..20048 11 2 98 99 2 17 2.85 50.44 +Sample_756M DUP chr3:52552328-52556246 3.92 chr3 52554287 28423..28436 14 8 56 56 7 14 2.34 48.13 +Sample_756M DUP chr3:195447753-195475935 28.18 chr3 195461844 32797..32802 6 4 81 81 9 5 3.69 61.03 +Sample_756M DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 36 84 84 29 37 -4.16 38.54 +Sample_756M DEL chr7:100331650-100334972 3.32 chr7 100333311 52178..52181 4 32 44 44 18 12 -4.02 16.22 +Sample_756M DUP chr8:145736374-145738154 1.78 chr8 145737264 59313..59319 7 11 63 63 3 13 3.17 50.02 +Sample_756M DUP chr10:47658234-47680438 22.20 chr10 47669336 66745..66759 15 2 73 73 3 6 2.36 46.53 +Sample_756M DUP chr14:104565190-104575652 10.46 chr14 104570421 94107..94114 8 18 35 35 12 12 2.73 46.07 +Sample_756M DUP chr16:69985164-69997887 12.72 chr16 69991525 104857..104860 4 14 60 60 8 20 4.33 40.10 +Sample_756M DUP chr16:88780055-88781514 1.46 chr16 88780784 106027..106032 6 27 98 99 24 23 4.10 52.16 +Sample_756M DEL chr17:39261641-39504891 243.25 chr17 39383266 111317..111337 21 7 99 99 13 6 -2.88 42.67 +Sample_756M DEL chr17:40765665-40766675 1.01 chr17 40766170 111747..111750 4 10 51 51 9 7 -4.19 46.46 +Sample_756M DEL chr19:43699147-43763287 64.14 chr19 43731217 125406..125410 5 6 76 76 2 21 -4.04 7.18 +Sample_756M DEL chr22:20385726-20398336 12.61 chr22 20392031 134920..134925 6 13 99 99 4 16 -4.08 11.50 +Sample_756M DUP chr22:42905034-42952594 47.56 chr22 42928814 137453..137461 9 9 80 81 13 11 3.01 50.96 +Sample_756M DUP chrX:153049207-153050628 1.42 chrX 153049917 141889..141894 6 8 53 53 8 22 3.34 64.12 +Sample_756P DEL chr1:16913545-17090975 177.43 chr1 17002260 1952..1986 35 3 99 99 15 0 -3.21 119.35 +Sample_756P DUP chr1:17248445-17275019 26.57 chr1 17261732 1987..2004 18 16 99 99 0 3 3.33 126.48 +Sample_756P DUP chr1:25611064-25633220 22.16 chr1 25622142 3041..3046 6 11 69 69 28 11 3.51 72.73 +Sample_756P DEL chr1:144994591-145209436 214.85 chr1 145102013 8385..8393 9 14 36 36 15 17 -2.68 98.14 +Sample_756P DEL chr1:148930405-149399229 468.82 chr1 149164817 8608..8613 6 29 99 99 37 28 -4.64 70.66 +Sample_756P DUP chr2:114346127-114353780 7.65 chr2 114349953 19700..19704 5 20 77 77 1 8 4.14 83.24 +Sample_756P DUP chr3:48604093-48622202 18.11 chr3 48613147 27135..27210 76 3 98 99 6 4 2.43 123.90 +Sample_756P DUP chr3:49719781-49723165 3.38 chr3 49721473 27591..27603 13 15 53 53 9 4 2.37 115.52 +Sample_756P DUP chr3:75470705-75480065 9.36 chr3 75475385 29262..29267 6 13 58 58 26 9 3.40 144.30 +Sample_756P DUP chr3:195392937-195453443 60.51 chr3 195423190 32791..32799 9 8 82 82 6 31 3.02 87.00 +Sample_756P DEL chr5:140474237-140627799 153.56 chr5 140551018 40594..40611 18 8 94 95 4 8 -2.33 73.24 +Sample_756P DUP chr7:74191613-74306965 115.35 chr7 74249289 50908..50917 10 28 99 99 5 37 4.00 106.25 +Sample_756P DEL chr7:74573056-74988678 415.62 chr7 74780867 50924..50928 5 17 99 99 12 2 -5.38 37.54 +Sample_756P DEL chr7:100331650-100334972 3.32 chr7 100333311 52178..52181 4 38 80 80 21 19 -4.73 31.89 +Sample_756P DUP chr9:15909-17166 1.26 chr9 16537 59397..59398 2 93 99 99 92 34 8.75 99.78 +Sample_756P DEL chr10:47700835-47756732 55.90 chr10 47728783 66763..66767 5 37 71 71 18 38 -3.92 61.53 +Sample_756P DUP chr11:72398733-72410597 11.87 chr11 72404665 76998..77013 16 2 75 75 11 2 2.32 98.69 +Sample_756P DUP chr12:9570288-9578420 8.13 chr12 9574354 81130..81141 12 18 43 43 37 16 2.39 73.85 +Sample_756P DUP chr15:75557463-75557765 0.30 chr15 75557614 97820..97821 2 49 50 50 16 4 6.65 83.76 +Sample_756P DUP chr15:102513423-102516807 3.38 chr15 102515115 99267..99269 3 37 99 99 29 37 7.51 110.51 +Sample_756P DUP chr17:18380099-18430160 50.06 chr17 18405129 109355..109365 11 7 98 99 26 7 3.14 70.50 +Sample_756P DEL chr19:50463394-50464429 1.04 chr19 50463911 127079..127081 3 38 94 95 18 0 -6.26 48.95 +Sample_756P DUP chr19:50473069-50473627 0.56 chr19 50473348 127082..127083 2 72 74 74 0 20 7.80 155.36 +Sample_756P DEL chr19:52133552-52149893 16.34 chr19 52141722 127512..127516 5 10 66 66 9 14 -3.90 2.39 +Sample_756P DEL chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 89 99 99 18 37 -8.85 0.50 +Sample_756P DEL chr19:55341383-55361964 20.58 chr19 55351673 128028..128034 7 23 99 99 11 25 -4.60 0.28 +Sample_756P DEL chr21:45959068-46048294 89.23 chr21 46003681 134150..134160 11 19 99 99 11 10 -3.49 208.17 +Sample_756P DUP chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 43 99 99 19 49 7.24 136.46 +Sample_756P DUP chr22:20383731-20461786 78.06 chr22 20422758 134919..134926 8 9 99 99 33 9 8.36 120.61 +Sample_756P DEL chr22:42905034-42910310 5.28 chr22 42907672 137453..137457 5 3 46 46 3 4 -3.52 54.89 +Sample_756P DUP chrX:48837627-48838284 0.66 chrX 48837955 139394..139397 4 6 57 57 7 12 4.30 81.45 +Sample_756P DUP chrX:148626914-148628854 1.94 chrX 148627884 141596..141598 3 3 58 58 20 3 5.05 70.60 +Sample_772F DUP chr1:16975251-17090975 115.72 chr1 17033113 1967..1986 20 14 99 99 34 14 4.15 126.90 +Sample_772F DEL chr2:240981231-240985489 4.26 chr2 240983360 24411..24412 2 28 43 43 17 26 -6.31 84.27 +Sample_772F DEL chr3:48610946-48611323 0.38 chr3 48611134 27163..27165 3 20 38 38 20 20 -4.76 124.03 +Sample_772F DEL chr3:49723746-49724911 1.17 chr3 49724328 27606..27610 5 51 97 99 5 18 -4.44 182.11 +Sample_772F DEL chr3:195390495-195475935 85.44 chr3 195433215 32789..32802 14 5 98 99 4 10 -3.27 38.23 +Sample_772F DEL chr5:180375355-180431762 56.41 chr5 180403558 42756..42763 8 9 99 99 4 8 -3.63 12.81 +Sample_772F DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 49 99 99 15 30 -4.72 60.49 +Sample_772F DUP chr7:76111825-76126794 14.97 chr7 76119309 51073..51075 3 6 43 43 7 11 4.85 83.11 +Sample_772F DUP chr7:102191679-102257205 65.53 chr7 102224442 52453..52456 4 7 45 45 3 7 3.95 58.38 +Sample_772F DEL chr8:11979496-12291623 312.13 chr8 12135559 55311..55323 13 8 99 99 20 8 -3.60 34.16 +Sample_772F DUP chr10:46918169-47701446 783.28 chr10 47309807 66730..66764 35 7 99 99 7 9 3.83 76.69 +Sample_772F DEL chr10:81315609-81320163 4.55 chr10 81317886 68058..68063 6 18 99 99 28 18 -4.06 25.59 +Sample_772F DEL chr12:87984-149412 61.43 chr12 118698 79925..79932 8 44 99 99 74 13 -4.39 28.91 +Sample_772F DUP chr12:8376045-8385203 9.16 chr12 8380624 80972..80976 5 45 99 99 17 21 7.76 110.38 +Sample_772F DUP chr12:9447413-9456803 9.39 chr12 9452108 81113..81121 9 29 54 54 4 23 2.75 55.36 +Sample_772F DUP chr15:23299915-23443575 143.66 chr15 23371745 94426..94437 12 30 99 99 30 32 3.95 53.46 +Sample_772F DUP chr15:41853325-41871526 18.20 chr15 41862425 95370..95387 18 22 99 99 48 28 3.66 69.49 +Sample_772F DEL chr16:1279191-1291700 12.51 chr16 1285445 99711..99716 6 11 63 63 10 10 -3.48 61.86 +Sample_772F DUP chr16:18554939-18604038 49.10 chr16 18579488 101385..101392 8 7 99 99 4 24 4.05 64.23 +Sample_772F DEL chr16:28608318-28621357 13.04 chr16 28614837 102276..102282 7 11 68 68 15 7 -3.23 48.39 +Sample_772F DUP chr16:70177413-70220796 43.38 chr16 70199104 104891..104898 8 34 99 99 28 14 3.46 61.34 +Sample_772F DUP chr16:74446671-74447574 0.90 chr16 74447122 105296..105297 2 58 58 58 37 25 7.10 152.24 +Sample_772F DEL chr17:16733797-16736147 2.35 chr17 16734972 109047..109050 4 84 98 99 19 38 -8.51 32.24 +Sample_772F DUP chr17:18380099-18398258 18.16 chr17 18389178 109355..109362 8 8 98 99 21 8 4.33 76.29 +Sample_772F DUP chr17:20406116-20407811 1.70 chr17 20406963 109575..109577 3 7 32 32 3 7 4.31 84.00 +Sample_772F DUP chr17:39535208-39538636 3.43 chr17 39536922 111348..111353 6 6 98 99 5 26 4.15 78.71 +Sample_772F DEL chr17:43697712-44116052 418.34 chr17 43906882 112458..112480 23 32 99 99 2 9 -2.56 13.76 +Sample_772F DUP chr19:40391998-40398510 6.51 chr19 40395254 124715..124718 4 58 99 99 7 26 7.16 106.76 +Sample_772F DUP chr19:43244473-43359870 115.40 chr19 43302171 125370..125379 10 7 99 99 7 42 4.17 76.14 +Sample_772F DEL chr19:50473069-50473627 0.56 chr19 50473348 127082..127083 2 91 99 99 8 21 -9.24 44.50 +Sample_772F DEL chr19:54746371-54756266 9.90 chr19 54751318 127868..127872 5 8 30 30 4 8 -3.32 34.25 +Sample_772F DUP chr19:55239077-55361964 122.89 chr19 55300520 128015..128034 20 12 99 99 9 12 3.18 41.30 +Sample_772F DEL chr21:45959068-46074576 115.51 chr21 46016822 134150..134163 14 7 99 99 12 6 -4.74 217.75 +Sample_772F DUP chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 99 99 99 24 20 7.86 125.74 +Sample_772F DEL chr22:25044121-25045989 1.87 chr22 25045055 135495..135498 4 12 99 99 9 14 -5.45 145.46 +Sample_772F DUP chr22:42522502-42526883 4.38 chr22 42524692 137422..137430 9 24 99 99 19 23 6.63 127.21 +Sample_772F DUP chrX:49178516-49355920 177.41 chrX 49267218 139561..139563 3 70 99 99 18 36 6.46 62.81 +Sample_772M DUP chr1:17084437-17090975 6.54 chr1 17087706 1979..1986 8 6 96 96 24 6 3.23 31.12 +Sample_772M DEL chr1:25611064-25629950 18.89 chr1 25620507 3041..3045 5 35 37 37 16 10 -3.47 0.13 +Sample_772M DEL chr3:49849303-49850171 0.87 chr3 49849737 27701..27704 4 27 33 33 27 23 -3.86 30.61 +Sample_772M DUP chr12:8376045-8385203 9.16 chr12 8380624 80972..80976 5 6 99 99 6 29 7.51 38.42 +Sample_772M DUP chr19:43258385-43373186 114.80 chr19 43315785 125371..125380 10 7 95 96 14 1 2.96 16.69 +Sample_772M DEL chr22:50017826-50018584 0.76 chr22 50018205 137887..137889 3 16 47 47 47 16 -4.96 35.79 +Sample_772P DUP chr1:16921426-17090975 169.55 chr1 17006200 1959..1986 28 10 99 99 5 10 4.06 109.71 +Sample_772P DEL chr3:49714042-49714457 0.42 chr3 49714249 27581..27583 3 15 34 34 34 14 -4.65 109.08 +Sample_772P DEL chr3:49723746-49724911 1.17 chr3 49724328 27606..27610 5 31 99 99 22 16 -4.74 143.51 +Sample_772P DUP chr7:102180462-102257205 76.74 chr7 102218833 52451..52456 6 5 85 85 27 5 3.71 44.00 +Sample_772P DEL chr8:7153153-7320381 167.23 chr8 7236767 55171..55182 12 9 91 91 10 4 -2.70 16.75 +Sample_772P DEL chr8:11979496-12044126 64.63 chr8 12011811 55311..55316 6 7 92 93 7 3 -3.86 33.12 +Sample_772P DEL chr8:12286142-12291623 5.48 chr8 12288882 55321..55323 3 20 40 40 35 20 -4.61 15.52 +Sample_772P DUP chr10:46963840-47747132 783.29 chr10 47355486 66733..66765 33 6 99 99 5 9 3.46 65.28 +Sample_772P DEL chr10:81315609-81320163 4.55 chr10 81317886 68058..68063 6 13 88 88 14 19 -3.73 20.71 +Sample_772P DUP chr10:124344787-124353114 8.33 chr10 124348950 70420..70426 7 33 99 99 33 31 5.08 78.93 +Sample_772P DUP chr12:9447028-9458353 11.33 chr12 9452690 81112..81122 11 9 99 99 18 9 3.83 55.97 +Sample_772P DUP chr15:20771427-22414393 1642.97 chr15 21592910 94346..94366 21 18 99 99 42 18 4.60 56.44 +Sample_772P DUP chr15:23443500-23444098 0.60 chr15 23443799 94437..94438 2 49 49 49 3 41 6.38 98.19 +Sample_772P DUP chr15:41860415-41871526 11.11 chr15 41865970 95376..95387 12 7 83 84 1 8 2.57 56.03 +Sample_772P DEL chr16:3076517-3077074 0.56 chr16 3076795 100445..100448 4 5 57 57 3 33 -4.26 123.45 +Sample_772P DUP chr17:40703984-40707224 3.24 chr17 40705604 111703..111708 6 2 80 80 4 5 3.63 58.50 +Sample_772P DEL chr19:39911589-39911753 0.17 chr19 39911671 124598..124599 2 40 40 40 4 22 -6.35 115.56 +Sample_772P DUP chr19:40368303-40398510 30.21 chr19 40383406 124706..124718 13 4 78 99 4 23 3.51 58.42 +Sample_772P DEL chr19:55249974-55290114 40.14 chr19 55270044 128018..128023 6 8 36 36 14 8 -3.14 9.56 +Sample_772P DEL chr21:45959068-46067564 108.50 chr21 46013316 134150..134162 13 75 99 99 37 5 -6.51 158.81 +Sample_772P DEL chr22:20385726-20398336 12.61 chr22 20392031 134920..134925 6 26 67 67 8 16 -3.45 10.74 +Sample_772P DUP chr22:23652511-23654023 1.51 chr22 23653267 135260..135261 2 40 47 47 6 30 6.63 159.14 +Sample_772P DEL chr22:25044300-25045989 1.69 chr22 25045144 135496..135498 3 80 97 98 53 10 -6.27 108.80 +Sample_772P DUP chr22:42522502-42538640 16.14 chr22 42530571 137422..137436 15 30 99 99 18 35 4.56 92.98 +Sample_772P DEL chr22:50017826-50018584 0.76 chr22 50018205 137887..137889 3 6 43 43 43 5 -4.83 159.20 +Sample_830F DUP chr1:16370247-16385212 14.97 chr1 16377729 1838..1858 21 17 99 99 9 17 4.36 64.49 +Sample_830F DEL chr1:16975251-17046652 71.40 chr1 17010951 1967..1977 11 17 83 99 21 4 -3.81 50.00 +Sample_830F DUP chr1:17084437-17275019 190.58 chr1 17179728 1979..2004 26 5 99 99 4 5 3.00 109.58 +Sample_830F DUP chr1:32137216-32154686 17.47 chr1 32145951 3752..3776 25 1 58 58 5 2 1.99 69.41 +Sample_830F DEL chr1:248285438-248814185 528.75 chr1 248549811 15074..15093 20 4 44 44 4 8 -2.16 36.14 +Sample_830F DEL chr2:130806641-130897669 91.03 chr2 130852155 20144..20151 8 15 42 42 13 7 -2.84 44.42 +Sample_830F DEL chr2:131975924-132202467 226.54 chr2 132089195 20234..20238 5 45 52 52 15 7 -3.82 52.86 +Sample_830F DUP chr3:47046462-47048840 2.38 chr3 47047651 26842..26850 9 17 30 30 25 3 2.53 83.19 +Sample_830F DUP chr3:48606808-48623408 16.60 chr3 48615108 27143..27216 74 10 99 99 7 13 2.38 89.26 +Sample_830F DUP chr3:49713127-49719400 6.27 chr3 49716263 27577..27590 14 3 58 58 12 3 2.34 80.71 +Sample_830F DUP chr3:49724582-49725101 0.52 chr3 49724841 27609..27611 3 35 64 64 16 23 5.41 214.86 +Sample_830F DEL chr5:140165876-140627799 461.92 chr5 140396837 40578..40611 34 7 99 99 7 15 -2.52 47.85 +Sample_830F DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 96 99 99 29 24 7.70 102.62 +Sample_830F DEL chr7:74303804-74312628 8.82 chr7 74308216 50915..50919 5 5 99 99 6 8 -5.13 1.24 +Sample_830F DEL chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 19 99 99 8 19 -5.09 6.46 +Sample_830F DEL chr7:143955790-144075959 120.17 chr7 144015874 54231..54237 7 7 61 61 21 7 -3.24 13.75 +Sample_830F DUP chr8:11985367-12044126 58.76 chr8 12014746 55312..55316 5 28 54 54 20 9 3.77 70.74 +Sample_830F DUP chr8:144894987-144896288 1.30 chr8 144895637 58934..58940 7 13 99 99 3 22 4.11 117.57 +Sample_830F DUP chr8:145540516-145542731 2.22 chr8 145541623 59138..59151 14 7 99 99 6 5 2.97 112.59 +Sample_830F DUP chr8:145649598-145651591 1.99 chr8 145650594 59237..59242 6 10 37 37 5 10 3.12 88.00 +Sample_830F DUP chr9:130565508-130566831 1.32 chr9 130566169 63360..63362 3 3 38 38 3 3 4.60 107.71 +Sample_830F DUP chr9:135945848-135947248 1.40 chr9 135946548 64291..64292 2 25 50 50 5 9 6.65 78.96 +Sample_830F DUP chr9:139743256-139747910 4.66 chr9 139745583 64966..64972 7 4 66 66 3 10 3.21 69.56 +Sample_830F DEL chr9:141069815-141071884 2.07 chr9 141070849 65438..65440 3 56 99 99 21 15 -6.36 57.32 +Sample_830F DUP chr11:809936-823855 13.92 chr11 816895 71295..71306 12 4 87 87 5 5 2.66 63.70 +Sample_830F DEL chr11:123847403-123909708 62.31 chr11 123878555 79304..79308 5 14 51 51 10 16 -3.63 47.69 +Sample_830F DEL chr12:87984-90655 2.67 chr12 89319 79925..79930 6 28 99 99 59 28 -4.11 9.65 +Sample_830F DUP chr12:31247524-31249313 1.79 chr12 31248418 81838..81840 3 20 37 37 27 19 4.74 69.72 +Sample_830F DEL chr15:23261763-23316186 54.42 chr15 23288974 94422..94432 11 10 75 75 8 3 -2.68 25.52 +Sample_830F DUP chr15:78206559-78208271 1.71 chr15 78207415 98002..98005 4 4 49 49 4 28 4.13 142.07 +Sample_830F DUP chr16:708896-733781 24.89 chr16 721338 99491..99543 53 16 99 99 7 2 2.63 72.21 +Sample_830F DUP chr16:773857-776085 2.23 chr16 774971 99568..99577 10 5 54 54 4 15 2.62 72.41 +Sample_830F DUP chr16:3073475-3077501 4.03 chr16 3075488 100437..100450 14 3 99 99 9 3 3.21 107.73 +Sample_830F DEL chr16:74394531-74452196 57.67 chr16 74423363 105289..105298 10 3 99 99 6 4 -4.57 37.48 +Sample_830F DEL chr17:14139175-14140150 0.98 chr17 14139662 108886..108888 3 10 55 55 24 10 -5.03 47.77 +Sample_830F DEL chr17:18380099-18398258 18.16 chr17 18389178 109355..109362 8 13 96 99 24 12 -3.34 22.65 +Sample_830F DEL chr17:39240459-39412615 172.16 chr17 39326537 111315..111332 18 2 99 99 5 3 -2.62 78.50 +Sample_830F DUP chr17:48267362-48273889 6.53 chr17 48270625 112935..112958 24 5 46 46 6 8 1.98 87.06 +Sample_830F DUP chr17:79099076-79102349 3.27 chr17 79100712 115799..115804 6 6 66 66 5 4 3.46 75.12 +Sample_830F DUP chr17:79862092-79867478 5.39 chr17 79864785 116023..116034 12 3 48 48 3 8 2.40 69.91 +Sample_830F DUP chr17:79982569-79987511 4.94 chr17 79985040 116088..116099 12 24 67 67 19 13 2.54 73.87 +Sample_830F DUP chr17:79993758-80019859 26.10 chr17 80006808 116107..116141 35 3 99 99 4 3 2.11 71.18 +Sample_830F DUP chr19:2042606-2046467 3.86 chr19 2044536 118726..118731 6 10 33 33 7 10 3.08 71.84 +Sample_830F DUP chr19:36268726-36273771 5.05 chr19 36271248 123800..123812 13 5 51 51 7 5 2.36 75.19 +Sample_830F DUP chr20:62319290-62319739 0.45 chr20 62319514 132786..132788 3 19 69 69 8 14 5.51 143.52 +Sample_830F DUP chr21:47536291-47536728 0.44 chr21 47536509 134331..134333 3 35 57 57 4 22 5.18 134.04 +Sample_830F DEL chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 48 52 52 36 26 -4.95 37.48 +Sample_830F DEL chr22:24347142-24394849 47.71 chr22 24370995 135355..135362 8 8 99 99 10 8 -5.55 0.31 +Sample_830F DEL chr22:24656876-24658575 1.70 chr22 24657725 135429..135430 2 32 55 55 36 22 -7.01 121.60 +Sample_830F DUP chr22:50898963-50905139 6.18 chr22 50902051 138163..138181 19 5 99 99 14 5 2.50 90.38 +Sample_830F DUP chr22:50957078-50961595 4.52 chr22 50959336 138217..138228 12 6 99 99 6 14 3.42 105.10 +Sample_830M DUP chr1:16360106-16385212 25.11 chr1 16372659 1837..1858 22 3 99 99 3 21 3.06 30.78 +Sample_830M DEL chr1:16918342-17046652 128.31 chr1 16982497 1955..1977 23 11 82 99 6 10 -4.02 34.20 +Sample_830M DUP chr1:17084437-17086181 1.75 chr1 17085309 1979..1982 4 22 67 67 14 15 4.50 81.29 +Sample_830M DUP chr3:47047436-47047939 0.50 chr3 47047687 26846..26848 3 16 47 47 12 18 4.98 59.14 +Sample_830M DUP chr3:48607567-48609971 2.40 chr3 48608769 27147..27157 11 3 53 53 23 3 2.52 50.70 +Sample_830M DUP chr3:48616802-48624541 7.74 chr3 48620671 27184..27220 37 5 99 99 15 2 2.15 47.75 +Sample_830M DUP chr3:49847950-49849639 1.69 chr3 49848794 27697..27702 6 16 64 64 15 8 3.48 54.33 +Sample_830M DUP chr3:52557443-52558897 1.46 chr3 52558170 28442..28448 7 6 43 43 3 13 2.94 55.01 +Sample_830M DEL chr7:74306509-74306965 0.46 chr7 74306737 50916..50917 2 68 77 77 8 12 -7.77 22.26 +Sample_830M DUP chr8:11979496-12044342 64.85 chr8 12011919 55311..55317 7 5 76 99 52 0 5.70 46.38 +Sample_830M DUP chr8:144894436-144895696 1.26 chr8 144895066 58933..58937 5 7 47 47 4 6 3.56 67.14 +Sample_830M DUP chr9:136648625-136675327 26.70 chr9 136661976 64495..64508 14 7 72 72 3 17 2.42 31.86 +Sample_830M DUP chr14:105179165-105179943 0.78 chr14 105179554 94152..94154 3 33 39 39 3 23 4.70 41.79 +Sample_830M DEL chr15:20743914-22414393 1670.48 chr15 21579153 94345..94366 22 17 99 99 37 17 -2.88 6.43 +Sample_830M DUP chr15:83013569-83015609 2.04 chr15 83014589 98300..98301 2 13 37 37 34 13 6.02 29.87 +Sample_830M DUP chr16:732953-733781 0.83 chr16 733367 99539..99543 5 12 36 36 26 9 3.44 62.20 +Sample_830M DUP chr16:772590-775880 3.29 chr16 774235 99565..99576 12 2 36 36 4 5 2.32 36.03 +Sample_830M DUP chr16:1279191-1280185 0.99 chr16 1279688 99711..99713 3 46 88 88 16 31 5.98 35.38 +Sample_830M DUP chr16:28616918-28620649 3.73 chr16 28618783 102277..102281 5 39 99 99 25 13 4.65 43.17 +Sample_830M DUP chr16:74394531-74447574 53.04 chr16 74421052 105289..105297 9 3 99 99 3 6 3.52 45.52 +Sample_830M DUP chr17:18145480-18149776 4.30 chr17 18147628 109277..109287 11 4 58 58 4 14 2.55 39.78 +Sample_830M DEL chr17:39202798-39316983 114.19 chr17 39259890 111312..111321 10 6 49 49 4 20 -2.63 39.72 +Sample_830M DUP chr19:14876336-14884866 8.53 chr19 14880601 121892..121897 6 7 50 50 23 7 3.30 35.43 +Sample_830M DEL chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 23 99 99 18 6 -4.54 15.53 +Sample_830M DEL chr21:45959068-46048294 89.23 chr21 46003681 134150..134160 11 4 89 89 26 2 -2.78 97.22 +Sample_830M DUP chr22:21064196-21068988 4.79 chr22 21066592 134973..134979 7 14 77 77 9 11 3.34 54.67 +Sample_830M DEL chr22:24347142-24384284 37.14 chr22 24365713 135355..135361 7 10 90 90 7 4 -3.46 0.00 +Sample_830M DUP chr22:50900988-50903558 2.57 chr22 50902273 138169..138175 7 3 78 78 6 2 3.30 53.05 +Sample_830M DEL chrX:149100416-149102355 1.94 chrX 149101385 141610..141612 3 10 30 30 10 13 -4.50 15.79 +Sample_830M DUP chrX:153043716-153050628 6.91 chrX 153047172 141878..141894 17 13 32 32 14 11 2.09 37.03 +Sample_830P DUP chr1:16975251-16976914 1.66 chr1 16976082 1967..1968 2 27 50 50 34 10 6.63 76.18 +Sample_830P DUP chr1:17084437-17257892 173.46 chr1 17171164 1979..1994 16 7 99 99 14 7 5.42 63.91 +Sample_830P DUP chr3:49720276-49720579 0.30 chr3 49720427 27593..27594 2 29 30 30 26 18 6.05 57.07 +Sample_830P DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 50 99 99 40 33 5.39 47.66 +Sample_830P DEL chr7:74306509-74306965 0.46 chr7 74306737 50916..50917 2 31 34 34 12 17 -6.14 20.44 +Sample_830P DUP chr9:15909-17166 1.26 chr9 16537 59397..59398 2 99 99 99 95 27 9.93 44.70 +Sample_830P DUP chr10:46963840-47133836 170.00 chr10 47048838 66733..66742 10 2 99 99 4 4 3.46 39.67 +Sample_830P DUP chr11:71939234-71941063 1.83 chr11 71940148 76917..76923 7 38 40 40 27 5 2.94 36.69 +Sample_830P DEL chr15:102513423-102516807 3.38 chr15 102515115 99267..99269 3 31 34 34 16 33 -4.45 7.09 +Sample_830P DEL chr16:1274602-1280185 5.58 chr16 1277393 99708..99713 6 12 32 32 12 12 -3.06 8.87 +Sample_830P DEL chr16:3076868-3077281 0.41 chr16 3077074 100447..100449 3 24 35 35 17 7 -4.66 60.97 +Sample_830P DEL chr16:74442531-74446778 4.25 chr16 74444654 105291..105296 6 14 96 99 7 14 -3.94 20.41 +Sample_830P DUP chr22:23656155-23656901 0.75 chr22 23656528 135263..135264 2 31 32 32 20 31 6.11 79.80 +Sample_894F DEL chr1:14970-17742 2.77 chr1 16356 2..4 3 33 62 62 26 52 -5.23 39.50 +Sample_894F DUP chr1:16348486-16359751 11.27 chr1 16354118 1819..1836 18 21 99 99 31 21 4.97 96.61 +Sample_894F DUP chr1:16383364-16385212 1.85 chr1 16384288 1857..1858 2 24 48 48 20 37 6.72 142.73 +Sample_894F DEL chr1:17248445-17277617 29.17 chr1 17263031 1987..2006 20 6 99 99 22 6 -5.76 70.92 +Sample_894F DEL chr1:154919893-154920842 0.95 chr1 154920367 9646..9649 4 22 99 99 27 1 -5.78 44.88 +Sample_894F DUP chr1:155184845-155205102 20.26 chr1 155194973 9807..9819 13 6 99 99 24 6 4.06 109.63 +Sample_894F DUP chr1:207718653-207741387 22.73 chr1 207730020 13418..13420 3 23 87 88 54 20 6.01 56.55 +Sample_894F DEL chr5:177466388-177474656 8.27 chr5 177470522 42444..42447 4 59 96 99 20 41 -5.02 41.19 +Sample_894F DEL chr7:100331650-100334972 3.32 chr7 100333311 52178..52181 4 32 61 61 19 5 -4.33 33.52 +Sample_894F DUP chr7:102114808-102235816 121.01 chr7 102175312 52449..52454 6 29 77 77 16 32 3.72 71.78 +Sample_894F DEL chr8:7153153-7320381 167.23 chr8 7236767 55171..55182 12 10 99 99 10 24 -3.00 19.28 +Sample_894F DUP chr9:72042449-72047592 5.14 chr9 72045020 60870..60871 2 29 54 54 25 29 6.90 102.01 +Sample_894F DEL chr10:27225666-27230930 5.26 chr10 27228298 66314..66315 2 46 70 70 35 26 -7.34 96.84 +Sample_894F DUP chr10:47658234-47756092 97.86 chr10 47707163 66745..66766 22 26 99 99 25 49 3.52 81.33 +Sample_894F DUP chr10:89120238-89124960 4.72 chr10 89122599 68298..68299 2 66 89 90 30 9 8.30 92.30 +Sample_894F DEL chr10:135368855-135371718 2.86 chr10 135370286 70976..70982 7 4 99 99 11 4 -3.64 97.66 +Sample_894F DEL chr11:61015891-61017486 1.60 chr11 61016688 74469..74471 3 30 99 99 0 15 -6.69 50.85 +Sample_894F DUP chr12:88570-90655 2.09 chr12 89612 79927..79930 4 31 37 37 31 35 3.83 60.98 +Sample_894F DEL chr12:11506008-11546911 40.90 chr12 11526459 81255..81259 5 6 99 99 38 3 -5.75 24.37 +Sample_894F DUP chr15:20776102-20776700 0.60 chr15 20776401 94349..94350 2 52 60 60 26 59 6.95 89.87 +Sample_894F DEL chr15:22145375-22369516 224.14 chr15 22257445 94358..94363 6 6 60 60 10 6 -3.59 46.20 +Sample_894F DEL chr15:23308564-23444098 135.53 chr15 23376331 94427..94438 12 14 98 99 15 17 -3.40 12.26 +Sample_894F DUP chr15:41853325-41871526 18.20 chr15 41862425 95370..95387 18 12 99 99 14 13 2.50 73.96 +Sample_894F DUP chr15:78206559-78208271 1.71 chr15 78207415 98002..98005 4 21 99 99 21 48 5.91 212.00 +Sample_894F DEL chr16:223124-223708 0.58 chr16 223416 99316..99317 2 46 72 72 23 4 -7.55 19.31 +Sample_894F DUP chr16:1280163-1292554 12.39 chr16 1286358 99713..99717 5 12 99 99 12 39 7.18 150.85 +Sample_894F DUP chr16:28607104-28621357 14.25 chr16 28614230 102275..102282 8 39 99 99 29 28 6.38 128.22 +Sample_894F DEL chr17:15635591-15640837 5.25 chr17 15638214 108932..108935 4 5 30 30 5 25 -3.77 54.43 +Sample_894F DUP chr17:16733797-16736147 2.35 chr17 16734972 109047..109050 4 39 82 82 9 34 4.66 119.66 +Sample_894F DUP chr17:18380099-18391071 10.97 chr17 18385585 109355..109357 3 44 71 71 59 6 5.57 100.16 +Sample_894F DUP chr17:20356330-20405283 48.95 chr17 20380806 109568..109573 6 33 98 99 30 31 4.12 75.04 +Sample_894F DEL chr17:39388715-39395255 6.54 chr17 39391985 111327..111329 3 81 99 99 17 26 -9.20 74.00 +Sample_894F DEL chr17:40766514-40811964 45.45 chr17 40789239 111750..111753 4 27 31 31 26 21 -3.88 56.06 +Sample_894F DUP chr19:43349168-43441330 92.16 chr19 43395249 125377..125392 16 62 99 99 3 26 5.20 91.78 +Sample_894F DEL chr19:43585033-43709790 124.76 chr19 43647411 125399..125408 10 28 99 99 3 22 -4.62 33.22 +Sample_894F DUP chr19:49526127-49527593 1.47 chr19 49526860 126640..126641 2 34 59 59 34 34 7.08 127.14 +Sample_894F DEL chr19:49547102-49552368 5.27 chr19 49549735 126650..126652 3 79 95 96 2 6 -6.18 93.14 +Sample_894F DEL chr19:54726815-54746186 19.37 chr19 54736500 127865..127867 3 13 51 51 41 12 -5.14 35.45 +Sample_894F DEL chr19:55247287-55294990 47.70 chr19 55271138 128016..128024 9 6 58 99 17 0 -3.50 6.17 +Sample_894F DUP chr19:55315346-55361964 46.62 chr19 55338655 128025..128034 10 11 70 99 1 17 3.79 57.69 +Sample_894F DEL chr21:14982498-14983070 0.57 chr21 14982784 132983..132983 1 31 31 31 30 15 -10.00 0.96 +Sample_894F DEL chr22:21330940-21331384 0.45 chr22 21331162 135043..135045 3 29 45 45 24 15 -4.93 131.22 +Sample_894F DUP chr22:24656876-24658575 1.70 chr22 24657725 135429..135430 2 69 79 79 5 3 7.74 276.75 +Sample_894F DEL chr22:25044121-25045989 1.87 chr22 25045055 135495..135498 4 59 99 99 3 29 -5.28 178.76 +Sample_894F DEL chrX:55115497-55117043 1.55 chrX 55116270 139931..139932 2 31 31 31 26 17 -5.88 33.56 +Sample_894F DUP chrX:148626914-148627429 0.52 chrX 148627171 141596..141597 2 36 57 57 29 28 7.08 153.46 +Sample_894F DEL chrX:149101840-149102355 0.52 chrX 149102097 141611..141612 2 35 57 57 19 3 -6.92 69.86 +Sample_894M DEL chr1:14970-70008 55.04 chr1 42489 2..5 4 15 99 99 12 15 -5.20 21.57 +Sample_894M DEL chr1:16913545-16976914 63.37 chr1 16945229 1952..1968 17 13 99 99 12 8 -4.37 113.25 +Sample_894M DEL chr1:152758753-152770656 11.90 chr1 152764704 9192..9194 3 3 47 47 3 36 -4.89 22.49 +Sample_894M DUP chr2:96689057-96690085 1.03 chr2 96689571 18718..18720 3 19 67 67 23 11 5.50 114.17 +Sample_894M DEL chr4:190903679-190906024 2.35 chr4 190904851 37228..37231 4 30 84 84 19 30 -4.69 71.08 +Sample_894M DUP chr5:819640-848775 29.14 chr5 834207 37329..37335 7 13 98 99 15 15 4.32 95.09 +Sample_894M DUP chr5:68856051-68929028 72.98 chr5 68892539 38765..38766 2 17 34 34 7 17 6.03 96.33 +Sample_894M DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 59 99 99 16 27 6.88 130.44 +Sample_894M DEL chr7:100331650-100334972 3.32 chr7 100333311 52178..52181 4 25 44 44 20 15 -4.04 30.66 +Sample_894M DUP chr7:102119255-102246434 127.18 chr7 102182844 52450..52455 6 66 99 99 16 6 5.32 79.02 +Sample_894M DEL chr8:7154584-7305571 150.99 chr8 7230077 55172..55179 8 6 96 97 5 5 -3.38 16.30 +Sample_894M DEL chr8:11979496-12008698 29.20 chr8 11994097 55311..55314 4 28 84 84 22 30 -4.78 23.21 +Sample_894M DUP chr9:72042449-72047592 5.14 chr9 72045020 60870..60871 2 29 54 54 23 26 6.90 93.95 +Sample_894M DEL chr10:27225666-27230930 5.26 chr10 27228298 66314..66315 2 37 61 61 31 28 -6.99 79.50 +Sample_894M DUP chr10:46918530-47756092 837.56 chr10 47337311 66731..66766 36 6 99 99 3 46 6.90 111.32 +Sample_894M DUP chr10:124344787-124359609 14.82 chr10 124352198 70420..70429 10 6 99 99 5 21 4.87 100.99 +Sample_894M DEL chr10:135368855-135371422 2.57 chr10 135370138 70976..70981 6 3 43 43 4 6 -3.18 95.96 +Sample_894M DEL chr11:61015891-61017486 1.60 chr11 61016688 74469..74471 3 20 99 99 20 13 -6.63 43.51 +Sample_894M DUP chr12:87984-90655 2.67 chr12 89319 79925..79930 6 52 99 99 78 33 4.29 68.34 +Sample_894M DEL chr15:23308564-23443575 135.01 chr15 23376069 94427..94437 11 18 93 99 10 7 -3.73 3.66 +Sample_894M DUP chr15:78207740-78208271 0.53 chr15 78208005 98003..98005 3 40 46 46 14 22 4.97 213.70 +Sample_894M DUP chr15:102462345-102514309 51.97 chr15 102488327 99266..99268 3 7 99 99 7 24 7.00 65.32 +Sample_894M DUP chr16:1280163-1292554 12.39 chr16 1286358 99713..99717 5 50 99 99 37 32 8.18 140.88 +Sample_894M DEL chr16:69984810-70012015 27.21 chr16 69998412 104856..104862 7 3 99 99 22 3 -4.16 32.45 +Sample_894M DEL chr16:70207928-70220796 12.87 chr16 70214362 104896..104898 3 17 33 33 31 17 -4.50 20.62 +Sample_894M DUP chr16:74442531-74444932 2.40 chr16 74443731 105291..105295 5 6 99 99 3 6 6.64 114.66 +Sample_894M DUP chr17:16733797-16736147 2.35 chr17 16734972 109047..109050 4 37 99 99 15 36 6.88 122.28 +Sample_894M DUP chr17:34591884-34757050 165.17 chr17 34674467 110587..110588 2 36 36 36 17 14 6.46 75.36 +Sample_894M DUP chr19:40391998-40398510 6.51 chr19 40395254 124715..124718 4 56 99 99 15 3 6.63 104.76 +Sample_894M DEL chr19:43528843-43709790 180.95 chr19 43619316 125395..125408 14 34 99 99 6 34 -3.90 28.28 +Sample_894M DUP chr19:50462617-50464192 1.58 chr19 50463404 127078..127080 3 9 44 44 9 5 4.86 103.72 +Sample_894M DEL chr19:50473069-50473627 0.56 chr19 50473348 127082..127083 2 67 77 77 5 12 -7.85 62.12 +Sample_894M DUP chr19:54724025-54726002 1.98 chr19 54725013 127861..127864 4 13 99 99 11 6 7.61 87.75 +Sample_894M DUP chr19:54745902-54756412 10.51 chr19 54751157 127867..127873 7 4 99 99 6 3 3.98 83.75 +Sample_894M DEL chr19:55247287-55264503 17.22 chr19 55255895 128016..128020 5 13 99 99 15 3 -4.46 0.06 +Sample_894M DUP chr21:45970318-46012386 42.07 chr21 45991352 134151..134156 6 9 47 47 9 46 3.27 283.88 +Sample_894M DEL chr22:25041713-25055114 13.40 chr22 25048413 135494..135500 7 9 99 99 8 9 -4.24 112.67 +Sample_894M DEL chr22:25713888-25777544 63.66 chr22 25745716 135561..135569 9 20 99 99 39 20 -4.04 30.10 +Sample_894M DUP chr22:42905034-42910310 5.28 chr22 42907672 137453..137457 5 17 34 34 9 13 3.41 73.25 +Sample_894M DEL chrX:149101840-149102355 0.52 chrX 149102097 141611..141612 2 57 72 72 28 23 -7.64 55.36 +Sample_894P DEL chr1:12916941-12946025 29.09 chr1 12931483 1613..1620 8 16 99 99 5 16 -4.91 36.34 +Sample_894P DUP chr1:16348486-16360544 12.06 chr1 16354515 1819..1837 19 40 99 99 25 40 7.99 138.70 +Sample_894P DUP chr1:16383364-16385212 1.85 chr1 16384288 1857..1858 2 18 41 41 17 28 6.46 186.82 +Sample_894P DEL chr1:16809782-16811401 1.62 chr1 16810591 1936..1937 2 99 99 99 44 29 -9.89 1.28 +Sample_894P DUP chr1:17084437-17087597 3.16 chr1 17086017 1979..1985 7 32 99 99 7 8 4.03 237.93 +Sample_894P DEL chr1:17250820-17275421 24.60 chr1 17263120 1989..2005 17 14 99 99 6 12 -2.61 131.76 +Sample_894P DEL chr1:22328149-22336350 8.20 chr1 22332249 2731..2737 7 11 99 99 33 11 -6.08 36.75 +Sample_894P DUP chr1:36773371-36773564 0.19 chr1 36773467 4352..4353 2 30 30 30 29 26 6.04 287.30 +Sample_894P DEL chr1:40229361-40237020 7.66 chr1 40233190 4706..4709 4 4 34 34 5 9 -3.71 43.56 +Sample_894P DUP chr1:104108057-104166606 58.55 chr1 104137331 7333..7345 13 8 99 99 10 12 2.87 49.45 +Sample_894P DEL chr1:154919893-154920842 0.95 chr1 154920367 9646..9649 4 17 99 99 20 15 -5.49 57.30 +Sample_894P DUP chr1:155184845-155205102 20.26 chr1 155194973 9807..9819 13 42 99 99 51 27 3.32 120.84 +Sample_894P DUP chr1:207718653-207741387 22.73 chr1 207730020 13418..13420 3 35 92 93 57 21 6.15 63.61 +Sample_894P DUP chr2:87140935-87141044 0.11 chr2 87140989 18559..18559 1 30 30 30 25 20 10.00 244.71 +Sample_894P DUP chr2:114341230-114353092 11.86 chr2 114347161 19699..19702 4 5 96 99 27 5 5.43 159.77 +Sample_894P DUP chr2:130897464-130897669 0.21 chr2 130897566 20150..20151 2 35 35 35 6 19 6.19 160.56 +Sample_894P DUP chr2:131975924-132202467 226.54 chr2 132089195 20234..20238 5 15 50 50 21 14 3.80 158.41 +Sample_894P DUP chr4:190903679-190905707 2.03 chr4 190904693 37228..37230 3 48 99 99 18 24 7.02 200.41 +Sample_894P DEL chr5:837480-848775 11.30 chr5 843127 37332..37335 4 21 97 99 5 7 -5.13 67.13 +Sample_894P DEL chr5:21495207-21497349 2.14 chr5 21496278 37853..37854 2 14 36 36 13 4 -6.16 47.64 +Sample_894P DUP chr5:140174444-140627799 453.36 chr5 140401121 40579..40611 33 9 99 99 4 21 2.52 122.74 +Sample_894P DEL chr5:177466388-177474656 8.27 chr5 177470522 42444..42447 4 3 32 32 3 20 -3.68 56.59 +Sample_894P DEL chr7:74306509-74306965 0.46 chr7 74306737 50916..50917 2 87 94 95 4 22 -8.42 88.27 +Sample_894P DEL chr8:7153153-7320381 167.23 chr8 7236767 55171..55182 12 10 99 99 10 4 -3.74 18.57 +Sample_894P DEL chr9:15909-17166 1.26 chr9 16537 59397..59398 2 99 99 99 93 62 -9.75 5.57 +Sample_894P DUP chr9:141070053-141071884 1.83 chr9 141070968 65439..65440 2 12 40 40 12 19 6.23 236.67 +Sample_894P DEL chr10:46963840-47416976 453.14 chr10 47190408 66733..66744 12 12 99 99 3 14 -5.30 77.08 +Sample_894P DUP chr10:89120238-89124960 4.72 chr10 89122599 68298..68299 2 43 67 67 36 13 7.45 99.43 +Sample_894P DUP chr12:87984-90655 2.67 chr12 89319 79925..79930 6 85 99 99 82 38 5.82 93.59 +Sample_894P DUP chr12:9073581-9083523 9.94 chr12 9078552 81033..81036 4 5 40 40 5 16 3.96 80.66 +Sample_894P DEL chr12:9447028-9456803 9.78 chr12 9451915 81112..81121 10 55 99 99 26 13 -3.98 37.68 +Sample_894P DEL chr12:11506008-11507488 1.48 chr12 11506748 81255..81257 3 6 46 46 23 2 -4.86 36.01 +Sample_894P DUP chr15:20776609-20776700 0.09 chr15 20776654 94350..94350 1 30 30 30 15 30 10.00 98.08 +Sample_894P DEL chr15:22143113-22145802 2.69 chr15 22144457 94357..94359 3 6 44 44 6 44 -4.69 27.26 +Sample_894P DUP chr15:72954593-72958469 3.88 chr15 72956531 97496..97500 5 30 79 79 15 17 4.11 90.90 +Sample_894P DEL chr15:102513423-102516807 3.38 chr15 102515115 99267..99269 3 71 99 99 12 83 -7.25 34.11 +Sample_894P DEL chr16:1291435-1308494 17.06 chr16 1299964 99716..99722 7 29 99 99 5 11 -3.90 113.22 +Sample_894P DEL chr16:2155323-2156949 1.63 chr16 2156136 100136..100140 5 52 86 86 40 14 -4.21 59.02 +Sample_894P DUP chr16:28606871-28621357 14.49 chr16 28614114 102274..102282 9 6 99 99 4 3 5.47 134.92 +Sample_894P DUP chr16:69984810-69997887 13.08 chr16 69991348 104856..104860 5 11 55 55 11 18 3.71 111.51 +Sample_894P DEL chr16:74385938-74452196 66.26 chr16 74419067 105286..105298 13 23 99 99 18 28 -3.78 66.42 +Sample_894P DUP chr17:39164774-39341147 176.37 chr17 39252960 111308..111325 18 3 62 91 6 4 2.33 152.67 +Sample_894P DEL chr17:39388715-39395255 6.54 chr17 39391985 111327..111329 3 75 99 99 10 0 -8.09 91.67 +Sample_894P DUP chr19:43348511-43530631 182.12 chr19 43439571 125376..125396 21 11 99 99 11 25 4.85 98.22 +Sample_894P DUP chr19:49520324-49527593 7.27 chr19 49523958 126639..126641 3 17 99 99 4 26 6.31 193.29 +Sample_894P DEL chr19:49535130-49552368 17.24 chr19 49543749 126643..126652 10 14 94 99 14 0 -3.77 67.44 +Sample_894P DUP chr19:49557532-49558997 1.47 chr19 49558264 126653..126655 3 10 49 49 0 13 5.13 177.61 +Sample_894P DEL chr19:54726815-54746724 19.91 chr19 54736769 127865..127869 5 5 94 95 26 5 -4.33 42.63 +Sample_894P DEL chr21:14982498-14983070 0.57 chr21 14982784 132983..132983 1 31 31 31 31 31 -10.00 0.64 +Sample_894P DUP chr21:45970318-46000481 30.16 chr21 45985399 134151..134155 5 52 99 99 4 5 5.16 383.32 +Sample_894P DUP chr21:46020497-46117959 97.46 chr21 46069228 134157..134167 11 18 99 99 5 9 3.26 310.90 +Sample_894P DUP chr22:24347142-24384284 37.14 chr22 24365713 135355..135361 7 9 61 61 23 5 3.16 75.10 +Sample_894P DUP chrX:148626914-148627429 0.52 chrX 148627171 141596..141597 2 55 78 78 33 20 7.89 123.73 +Sample_894P DEL chrX:149101840-149102355 0.52 chrX 149102097 141611..141612 2 70 94 94 30 13 -8.45 7.11 +Sample_NN1075 DEL chr1:12851546-12921764 70.22 chr1 12886655 1602..1616 15 30 99 99 35 3 -3.22 42.20 +Sample_NN1075 DUP chr1:16918342-16976914 58.57 chr1 16947628 1955..1968 14 14 87 99 10 0 3.16 123.83 +Sample_NN1075 DEL chr1:17017713-17046652 28.94 chr1 17032182 1969..1977 9 3 95 99 0 3 -3.15 32.38 +Sample_NN1075 DUP chr1:17085298-17275019 189.72 chr1 17180158 1980..2004 25 11 99 99 24 5 4.10 105.31 +Sample_NN1075 DUP chr2:87140935-87141044 0.11 chr2 87140989 18559..18559 1 30 30 30 16 20 10.00 129.12 +Sample_NN1075 DUP chr2:114346127-114384715 38.59 chr2 114365421 19700..19709 10 8 42 42 16 8 2.56 70.00 +Sample_NN1075 DUP chr2:130807389-130897944 90.56 chr2 130852666 20145..20152 8 3 39 39 8 4 2.79 68.59 +Sample_NN1075 DUP chr2:233244223-233246077 1.85 chr2 233245150 23899..23904 6 30 99 99 9 17 4.84 115.56 +Sample_NN1075 DUP chr3:49724117-49724911 0.80 chr3 49724514 27607..27610 4 26 42 42 7 40 4.02 202.38 +Sample_NN1075 DEL chr3:75470705-75484266 13.56 chr3 75477485 29262..29269 8 21 99 99 74 21 -7.18 44.37 +Sample_NN1075 DUP chr3:195392937-195452155 59.22 chr3 195422546 32791..32798 8 10 98 99 5 5 4.11 68.83 +Sample_NN1075 DUP chr5:140552243-140560019 7.78 chr5 140556131 40600..40601 2 74 95 97 3 14 8.49 130.49 +Sample_NN1075 DUP chr7:76111825-76126794 14.97 chr7 76119309 51073..51075 3 4 37 37 4 15 4.65 69.42 +Sample_NN1075 DUP chr8:12039614-12291623 252.01 chr8 12165618 55315..55323 9 3 36 36 12 4 2.65 56.76 +Sample_NN1075 DUP chr9:90744221-90748584 4.36 chr9 90746402 61295..61297 3 6 41 41 8 9 4.80 97.79 +Sample_NN1075 DUP chr9:117085303-117088757 3.46 chr9 117087030 62579..62584 6 45 99 99 45 4 8.52 110.63 +Sample_NN1075 DEL chr11:89603608-89609185 5.58 chr11 89606396 77731..77735 5 15 55 55 14 49 -3.63 15.61 +Sample_NN1075 DEL chr12:87984-90655 2.67 chr12 89319 79925..79930 6 7 99 99 80 7 -3.90 14.36 +Sample_NN1075 DUP chr13:24465429-24468340 2.91 chr13 24466884 88167..88170 4 11 34 34 10 6 3.83 54.10 +Sample_NN1075 DEL chr15:20743914-20776177 32.26 chr15 20760045 94345..94349 5 23 39 39 38 8 -3.51 11.25 +Sample_NN1075 DUP chr15:22332388-22414393 82.01 chr15 22373390 94360..94366 7 12 99 99 16 12 3.74 61.24 +Sample_NN1075 DEL chr15:78206559-78208271 1.71 chr15 78207415 98002..98005 4 7 95 97 7 7 -5.05 100.78 +Sample_NN1075 DUP chr16:21475024-21531765 56.74 chr16 21503394 101744..101748 5 47 98 99 14 27 4.42 65.18 +Sample_NN1075 DUP chr16:22441117-22588186 147.07 chr16 22514651 101863..101869 7 4 73 73 4 18 3.31 52.70 +Sample_NN1075 DEL chr16:69984810-69997887 13.08 chr16 69991348 104856..104860 5 24 98 99 21 22 -4.61 22.70 +Sample_NN1075 DUP chr16:74442531-74444932 2.40 chr16 74443731 105291..105295 5 6 99 99 28 6 6.14 98.74 +Sample_NN1075 DEL chr17:16703265-16736147 32.88 chr17 16719706 109045..109050 6 11 98 99 4 37 -5.59 29.14 +Sample_NN1075 DUP chr17:18380099-18430160 50.06 chr17 18405129 109355..109365 11 10 98 99 3 13 3.28 58.67 +Sample_NN1075 DEL chr17:20404829-20407811 2.98 chr17 20406320 109572..109577 6 11 98 99 13 16 -4.33 30.93 +Sample_NN1075 DUP chr17:48266103-48274031 7.93 chr17 48270067 112929..112959 31 4 98 99 4 6 2.26 94.38 +Sample_NN1075 DUP chr19:40373945-40382826 8.88 chr19 40378385 124708..124712 5 4 72 72 14 4 3.97 49.77 +Sample_NN1075 DEL chr19:43258385-43269831 11.45 chr19 43264108 125371..125375 5 15 75 75 15 21 -3.95 18.85 +Sample_NN1075 DEL chr19:43708038-43763287 55.25 chr19 43735662 125407..125410 4 68 99 99 15 12 -6.21 0.00 +Sample_NN1075 DEL chr19:49557532-49558997 1.47 chr19 49558264 126653..126655 3 4 30 30 13 4 -4.46 53.60 +Sample_NN1075 DUP chr19:50462617-50464429 1.81 chr19 50463523 127078..127081 4 12 32 32 13 7 3.78 70.14 +Sample_NN1075 DEL chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 33 94 95 31 38 -4.31 36.01 +Sample_NN1075 DUP chr20:3734158-3739325 5.17 chr20 3736741 129196..129199 4 25 58 58 22 15 4.33 66.81 +Sample_NN1075 DUP chr21:45959068-46022083 63.02 chr21 45990575 134150..134158 9 7 99 99 7 8 3.50 211.27 +Sample_NN1075 DUP chr21:47536565-47538590 2.03 chr21 47537577 134332..134336 5 18 33 33 32 17 3.40 96.63 +Sample_NN1075 DEL chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 39 77 77 29 38 -5.60 39.27 +Sample_NN2624 DUP chr1:16918654-16946533 27.88 chr1 16932593 1956..1963 8 33 98 99 32 21 3.34 172.85 +Sample_NN2624 DUP chr1:17017713-17275421 257.71 chr1 17146567 1969..2005 37 2 90 99 10 5 3.69 137.47 +Sample_NN2624 DUP chr1:104108057-104162406 54.35 chr1 104135231 7333..7344 12 6 99 99 15 4 5.00 71.88 +Sample_NN2624 DEL chr2:130897464-130899954 2.49 chr2 130898709 20150..20154 5 17 35 35 18 16 -3.43 51.88 +Sample_NN2624 DUP chr3:195392937-195479317 86.38 chr3 195436127 32791..32805 15 7 98 99 10 5 3.63 98.26 +Sample_NN2624 DUP chr3:195701268-195711608 10.34 chr3 195706438 32844..32850 7 35 66 66 20 31 3.24 99.61 +Sample_NN2624 DUP chr5:833888-848775 14.89 chr5 841331 37331..37335 5 23 98 99 30 7 4.76 114.40 +Sample_NN2624 DEL chr5:175528050-175530783 2.73 chr5 175529416 42080..42083 4 10 40 40 9 3 -3.92 40.90 +Sample_NN2624 DEL chr7:74303804-74312628 8.82 chr7 74308216 50915..50919 5 3 99 99 7 4 -4.48 34.51 +Sample_NN2624 DEL chr8:12043861-12245843 201.98 chr8 12144852 55316..55319 4 30 31 31 5 4 -3.97 50.85 +Sample_NN2624 DEL chr9:15909-17166 1.26 chr9 16537 59397..59398 2 36 36 36 36 0 -6.01 1.78 +Sample_NN2624 DUP chr9:178816-432324 253.51 chr9 305570 59399..59432 34 60 99 99 0 21 6.03 70.01 +Sample_NN2624 DUP chr9:117085303-117088757 3.46 chr9 117087030 62579..62584 6 24 99 99 11 20 8.04 137.75 +Sample_NN2624 DEL chr10:124344787-124353114 8.33 chr10 124348950 70420..70426 7 11 99 99 11 9 -6.14 39.70 +Sample_NN2624 DUP chr11:1278470-1279597 1.13 chr11 1279033 71488..71491 4 9 62 62 9 6 4.38 117.85 +Sample_NN2624 DEL chr11:60970984-60978907 7.92 chr11 60974945 74466..74468 3 38 99 99 50 31 -6.97 14.84 +Sample_NN2624 DUP chr12:9447028-9456803 9.78 chr12 9451915 81112..81121 10 7 32 32 7 7 2.49 71.32 +Sample_NN2624 DEL chr15:21932514-22414393 481.88 chr15 22173453 94355..94366 12 13 99 99 13 5 -3.86 40.02 +Sample_NN2624 DUP chr15:23282265-23311838 29.57 chr15 23297051 94424..94429 6 11 31 31 12 9 3.08 103.23 +Sample_NN2624 DEL chr15:102513423-102514309 0.89 chr15 102513866 99267..99268 2 53 53 53 51 47 -6.90 0.17 +Sample_NN2624 DUP chr16:18532087-18604038 71.95 chr16 18568062 101380..101392 13 19 99 99 49 19 3.17 71.58 +Sample_NN2624 DEL chr16:28607104-28621357 14.25 chr16 28614230 102275..102282 8 5 56 56 4 14 -2.90 69.23 +Sample_NN2624 DEL chr16:69984810-70016397 31.59 chr16 70000603 104856..104863 8 4 99 99 27 4 -4.21 39.01 +Sample_NN2624 DEL chr16:70207928-70220796 12.87 chr16 70214362 104896..104898 3 53 61 61 8 41 -5.23 17.45 +Sample_NN2624 DUP chr16:74385938-74452196 66.26 chr16 74419067 105286..105298 13 13 99 99 12 26 4.44 109.48 +Sample_NN2624 DEL chr17:16703265-16736147 32.88 chr17 16719706 109045..109050 6 11 98 99 7 38 -6.67 44.01 +Sample_NN2624 DUP chr17:18380099-18430160 50.06 chr17 18405129 109355..109365 11 5 69 69 6 11 2.62 78.87 +Sample_NN2624 DUP chr19:12500831-12577664 76.83 chr19 12539247 121267..121272 6 15 99 99 29 15 4.05 67.12 +Sample_NN2624 DUP chr19:40373945-40380711 6.77 chr19 40377328 124708..124711 4 16 36 36 16 7 3.89 75.24 +Sample_NN2624 DEL chr19:40389652-40398510 8.86 chr19 40394081 124714..124718 5 35 99 99 7 5 -7.20 28.87 +Sample_NN2624 DEL chr19:54726815-54756266 29.45 chr19 54741540 127865..127872 8 4 82 82 27 3 -3.17 43.40 +Sample_NN2624 DEL chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 23 99 99 20 20 -5.82 53.56 +Sample_NN2624 DEL chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 39 99 99 36 12 -4.38 17.48 +Sample_NN2624 DEL chr22:25041133-25045989 4.86 chr22 25043561 135493..135498 6 21 62 62 21 3 -3.42 159.27 +Sample_NN2624 DEL chr22:39378405-39388154 9.75 chr22 39383279 136949..136955 7 28 86 86 37 4 -3.40 20.58 +Sample_NN2742 DUP chr1:17087450-17090975 3.53 chr1 17089212 1985..1986 2 36 48 48 5 6 6.39 197.08 +Sample_NN2742 DEL chr1:17249158-17275421 26.26 chr1 17262289 1988..2005 18 4 62 62 3 9 -2.18 81.74 +Sample_NN2742 DUP chr1:104108057-104118162 10.11 chr1 104113109 7333..7338 6 4 42 42 4 12 3.17 60.65 +Sample_NN2742 DUP chr4:119158201-119475357 317.16 chr4 119316779 36086..36104 19 12 98 99 12 31 2.67 46.83 +Sample_NN2742 DEL chr5:180375355-180431762 56.41 chr5 180403558 42756..42763 8 14 99 99 30 12 -5.15 11.23 +Sample_NN2742 DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 62 99 99 18 30 -5.61 61.22 +Sample_NN2742 DUP chr7:72418838-72420735 1.90 chr7 72419786 50664..50669 6 43 99 99 6 10 5.23 110.94 +Sample_NN2742 DEL chr7:74197282-74299569 102.29 chr7 74248425 50910..50913 4 5 99 99 45 5 -5.70 47.56 +Sample_NN2742 DUP chr7:74573056-74578824 5.77 chr7 74575940 50924..50926 3 10 65 65 10 21 5.26 88.24 +Sample_NN2742 DEL chr7:74988447-75048176 59.73 chr7 75018311 50928..50934 7 7 96 98 12 5 -3.60 36.54 +Sample_NN2742 DUP chr8:7305276-7320381 15.11 chr8 7312828 55179..55182 4 21 68 68 34 18 4.40 55.55 +Sample_NN2742 DUP chr8:12039614-12286407 246.79 chr8 12163010 55315..55321 7 17 99 99 20 5 4.16 75.18 +Sample_NN2742 DEL chr9:117085943-117088757 2.81 chr9 117087350 62580..62584 5 6 58 58 7 6 -3.74 36.81 +Sample_NN2742 DUP chr10:89120238-89124960 4.72 chr10 89122599 68298..68299 2 39 63 63 33 10 7.27 55.63 +Sample_NN2742 DEL chr10:135368348-135370660 2.31 chr10 135369504 70975..70980 6 20 62 62 19 49 -3.47 82.20 +Sample_NN2742 DEL chr12:9447028-9447570 0.54 chr12 9447299 81112..81113 2 29 39 39 15 14 -6.36 73.06 +Sample_NN2742 DUP chr14:20215587-20404761 189.18 chr14 20310174 90042..90047 6 38 99 99 50 29 5.73 72.19 +Sample_NN2742 DEL chr15:23299681-23444098 144.42 chr15 23371889 94425..94438 14 25 99 99 4 25 -3.20 34.57 +Sample_NN2742 DEL chr15:102462345-102516807 54.46 chr15 102489576 99266..99269 4 16 99 99 16 97 -6.26 9.03 +Sample_NN2742 DEL chr16:1279191-1290729 11.54 chr16 1284960 99711..99714 4 9 92 93 3 9 -4.96 30.63 +Sample_NN2742 DEL chr16:28616918-28620649 3.73 chr16 28618783 102277..102281 5 26 97 99 21 18 -4.47 41.83 +Sample_NN2742 DUP chr16:74446671-74447574 0.90 chr16 74447122 105296..105297 2 95 99 99 38 4 9.40 179.64 +Sample_NN2742 DUP chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 6 98 99 6 28 3.15 69.48 +Sample_NN2742 DEL chr17:18380099-18430160 50.06 chr17 18405129 109355..109365 11 5 98 99 13 5 -3.23 34.05 +Sample_NN2742 DEL chr17:25969264-25974144 4.88 chr17 25971704 109649..109654 6 17 57 57 7 14 -3.39 43.06 +Sample_NN2742 DEL chr19:43585033-43709790 124.76 chr19 43647411 125399..125408 10 3 99 99 3 13 -3.45 30.09 +Sample_NN2742 DEL chr19:54724398-54725251 0.85 chr19 54724824 127862..127863 2 31 54 54 53 6 -6.93 1.62 +Sample_NN2742 DUP chr19:54784816-54803978 19.16 chr19 54794397 127894..127900 7 14 92 92 8 25 3.50 75.13 +Sample_NN2742 DUP chr19:55294938-55361964 67.03 chr19 55328451 128024..128034 11 8 87 99 7 26 3.17 47.17 +Sample_NN2742 DEL chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 51 76 76 31 35 -5.58 49.12 +Sample_NN2742 DUP chr22:20385726-20398336 12.61 chr22 20392031 134920..134925 6 27 32 32 8 15 3.01 44.65 +Sample_NN2742 DUP chr22:24347142-24384284 37.14 chr22 24365713 135355..135361 7 8 99 99 5 4 4.06 53.41 +Sample_NN2742 DUP chr22:42898755-42952594 53.84 chr22 42925674 137451..137461 11 36 99 99 28 35 4.31 68.99 +Sample_NN2742 DUP chrX:148626914-148627429 0.52 chrX 148627171 141596..141597 2 37 38 38 7 18 6.31 83.42 +Sample_NN2742 DEL chrX:149101840-149102355 0.52 chrX 149102097 141611..141612 2 43 48 48 8 16 -6.69 6.35 +Sample_NN2901 DUP chr1:12916941-12943231 26.29 chr1 12930086 1613..1619 7 11 36 36 8 9 2.90 74.34 +Sample_NN2901 DEL chr1:16895568-16976914 81.35 chr1 16936241 1945..1968 24 5 99 99 5 20 -3.02 76.01 +Sample_NN2901 DUP chr1:17090909-17275421 184.51 chr1 17183165 1986..2005 20 6 99 99 45 6 4.85 113.18 +Sample_NN2901 DUP chr2:233245333-233246077 0.74 chr2 233245705 23902..23904 3 67 69 69 16 10 5.54 123.22 +Sample_NN2901 DUP chr3:48617021-48620086 3.07 chr3 48618553 27186..27200 15 10 99 99 10 33 3.00 118.30 +Sample_NN2901 DUP chr3:49723746-49724911 1.17 chr3 49724328 27606..27610 5 16 74 74 16 46 4.04 223.33 +Sample_NN2901 DUP chr3:195392937-195475935 83.00 chr3 195434436 32791..32802 12 17 98 99 17 8 4.16 86.61 +Sample_NN2901 DUP chr3:195690171-195711608 21.44 chr3 195700889 32841..32850 10 8 98 99 8 45 3.87 75.13 +Sample_NN2901 DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 14 99 99 13 8 4.80 118.42 +Sample_NN2901 DEL chr8:12245467-12287960 42.49 chr8 12266713 55318..55322 5 14 73 73 2 7 -3.96 29.97 +Sample_NN2901 DEL chr15:21134198-21134625 0.43 chr15 21134411 94353..94354 2 44 71 71 34 22 -7.32 5.98 +Sample_NN2901 DUP chr15:22014420-22145802 131.38 chr15 22080111 94356..94359 4 31 99 99 21 3 5.46 77.50 +Sample_NN2901 DUP chr15:74364559-74368131 3.57 chr15 74366345 97609..97610 2 32 56 56 15 25 6.85 91.01 +Sample_NN2901 DEL chr15:78206559-78211657 5.10 chr15 78209108 98002..98009 8 5 99 99 5 32 -6.32 81.13 +Sample_NN2901 DUP chr15:102513423-102516807 3.38 chr15 102515115 99267..99269 3 99 99 99 17 98 9.81 168.13 +Sample_NN2901 DEL chr16:1279191-1280185 0.99 chr16 1279688 99711..99713 3 52 99 99 23 25 -7.38 13.03 +Sample_NN2901 DUP chr16:28607104-28621357 14.25 chr16 28614230 102275..102282 8 9 99 99 9 9 3.83 94.19 +Sample_NN2901 DEL chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 5 98 99 5 23 -3.71 31.60 +Sample_NN2901 DUP chr17:18292171-18430160 137.99 chr17 18361165 109353..109365 13 3 98 99 2 3 3.12 66.95 +Sample_NN2901 DEL chr19:39225453-39229288 3.84 chr19 39227370 124394..124402 9 38 99 99 31 13 -4.99 32.76 +Sample_NN2901 DUP chr19:50473069-50473627 0.56 chr19 50473348 127082..127083 2 65 67 67 15 11 7.39 149.36 +Sample_NN2901 DUP chr21:47411924-47417397 5.47 chr21 47414660 134306..134311 6 11 66 66 12 7 3.50 104.85 +Sample_NN2901 DUP chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 6 37 37 6 36 4.55 91.51 +Sample_NN2901 DUP chr22:20383731-20461786 78.06 chr22 20422758 134919..134926 8 4 99 99 19 4 5.37 48.66 +Sample_NN2901 DEL chr22:23652511-23660223 7.71 chr22 23656367 135260..135265 6 17 74 74 20 17 -3.54 127.68 +Sample_NN2901 DEL chr22:24347142-24394849 47.71 chr22 24370995 135355..135362 8 15 99 99 5 5 -5.28 0.00 +Sample_NN2901 DUP chr22:25041133-25045989 4.86 chr22 25043561 135493..135498 6 17 56 56 16 6 3.37 156.53 +Sample_NN2901 DEL chrX:49178516-49355920 177.41 chrX 49267218 139561..139563 3 51 61 61 11 31 -5.44 6.31 +Sample_NN3506 DEL chr1:16918654-16946533 27.88 chr1 16932593 1956..1963 8 30 86 86 3 22 -3.20 55.85 +Sample_NN3506 DUP chr1:16954963-16976914 21.95 chr1 16965938 1965..1968 4 7 69 69 7 33 4.47 88.94 +Sample_NN3506 DUP chr1:17084437-17090975 6.54 chr1 17087706 1979..1986 8 25 99 99 10 31 4.70 82.17 +Sample_NN3506 DEL chr1:17250820-17272900 22.08 chr1 17261860 1989..2002 14 5 30 30 6 12 -2.20 48.70 +Sample_NN3506 DEL chr1:22328149-22334008 5.86 chr1 22331078 2731..2736 6 15 64 64 33 3 -3.45 15.74 +Sample_NN3506 DUP chr2:130896862-130897944 1.08 chr2 130897403 20149..20152 4 3 42 42 4 5 3.94 48.80 +Sample_NN3506 DEL chr3:48481686-48482038 0.35 chr3 48481862 27094..27096 3 9 31 31 30 3 -4.43 26.99 +Sample_NN3506 DUP chr3:48618315-48619192 0.88 chr3 48618753 27191..27196 6 15 45 45 14 10 3.25 63.80 +Sample_NN3506 DUP chr7:76142401-76631638 489.24 chr7 76387019 51082..51097 16 17 99 99 5 18 2.68 31.72 +Sample_NN3506 DEL chr8:11979496-12008698 29.20 chr8 11994097 55311..55314 4 33 99 99 30 0 -6.85 0.00 +Sample_NN3506 DUP chr8:12039614-12250923 211.31 chr8 12145268 55315..55320 6 10 75 99 0 9 5.97 57.87 +Sample_NN3506 DEL chr9:117072829-117087432 14.60 chr9 117080130 62578..62583 6 5 30 30 5 14 -3.04 21.47 +Sample_NN3506 DUP chr12:8376045-8385203 9.16 chr12 8380624 80972..80976 5 3 53 53 3 26 3.64 48.21 +Sample_NN3506 DUP chr12:9436253-9456803 20.55 chr12 9446528 81110..81121 12 10 30 30 10 18 2.31 28.97 +Sample_NN3506 DEL chr15:20743914-22414393 1670.48 chr15 21579153 94345..94366 22 1 97 99 34 2 -2.53 14.87 +Sample_NN3506 DUP chr15:41853325-41871526 18.20 chr15 41862425 95370..95387 18 37 99 99 6 25 4.27 44.69 +Sample_NN3506 DEL chr16:3076517-3077281 0.77 chr16 3076899 100445..100449 5 2 52 52 4 3 -3.61 80.81 +Sample_NN3506 DUP chr17:18380099-18416772 36.67 chr17 18398435 109355..109363 9 5 84 84 6 2 2.98 39.82 +Sample_NN3506 DUP chr19:54724398-54726959 2.56 chr19 54725678 127862..127865 4 8 47 47 17 8 4.05 36.10 +Sample_NN3506 DUP chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 19 50 50 15 18 3.61 48.34 +Sample_NN3506 DEL chr21:45959068-46000481 41.41 chr21 45979774 134150..134155 6 15 39 39 21 16 -3.16 113.51 +Sample_NN3506 DUP chr22:24373117-24434909 61.79 chr22 24404013 135356..135367 12 2 42 42 7 2 2.37 27.32 +Sample_NN3506 DUP chr22:25041133-25044164 3.03 chr22 25042648 135493..135495 3 7 31 31 7 28 4.56 77.18 +Sample_NN3528 DUP chr1:14363-70008 55.65 chr1 42185 1..5 5 34 39 39 0 29 3.42 95.06 +Sample_NN3528 DEL chr1:763064-789740 26.68 chr1 776402 8..12 5 9 99 99 7 27 -6.48 3.65 +Sample_NN3528 DEL chr1:12851546-12976507 124.96 chr1 12914026 1602..1624 23 11 99 99 57 10 -4.92 38.50 +Sample_NN3528 DEL chr1:16972069-16975287 3.22 chr1 16973678 1966..1967 2 43 51 51 14 3 -6.74 173.98 +Sample_NN3528 DUP chr1:17087450-17275421 187.97 chr1 17181435 1985..2005 21 10 99 99 29 10 4.18 153.43 +Sample_NN3528 DEL chr1:25611064-25633220 22.16 chr1 25622142 3041..3046 6 29 99 99 32 10 -4.61 32.22 +Sample_NN3528 DEL chr1:152759754-152770656 10.90 chr1 152765205 9193..9194 2 26 38 38 21 29 -6.33 18.88 +Sample_NN3528 DUP chr1:161575849-161643019 67.17 chr1 161609434 11056..11062 7 11 61 61 14 11 3.21 70.16 +Sample_NN3528 DEL chr2:96697781-96698167 0.39 chr2 96697974 18726..18727 2 28 51 51 26 23 -6.61 0.00 +Sample_NN3528 DUP chr2:130806641-130897669 91.03 chr2 130852155 20144..20151 8 4 99 99 4 16 3.53 107.66 +Sample_NN3528 DUP chr3:195390957-195475935 84.98 chr3 195433446 32790..32802 13 9 98 99 3 11 3.15 98.77 +Sample_NN3528 DEL chr4:190903679-190906024 2.35 chr4 190904851 37228..37231 4 7 98 99 17 7 -6.22 72.68 +Sample_NN3528 DEL chr5:140213969-140238166 24.20 chr5 140226067 40584..40587 4 6 99 99 3 11 -5.32 77.92 +Sample_NN3528 DEL chr7:74306509-74312628 6.12 chr7 74309568 50916..50919 4 3 72 72 6 3 -4.39 41.89 +Sample_NN3528 DUP chr8:11979496-12291623 312.13 chr8 12135559 55311..55323 13 4 99 99 4 26 3.63 83.42 +Sample_NN3528 DEL chr9:117085943-117087432 1.49 chr9 117086687 62580..62583 4 15 97 99 3 18 -5.06 55.29 +Sample_NN3528 DEL chr9:135937365-135947248 9.88 chr9 135942306 64282..64292 11 29 99 99 23 27 -4.14 31.36 +Sample_NN3528 DUP chr10:135267432-135381779 114.35 chr10 135324605 70960..70987 28 35 99 99 24 24 4.18 90.06 +Sample_NN3528 DEL chr12:87984-90655 2.67 chr12 89319 79925..79930 6 26 61 61 26 0 -3.39 30.66 +Sample_NN3528 DUP chr12:147946-149412 1.47 chr12 148679 79931..79932 2 20 42 42 0 41 6.32 128.97 +Sample_NN3528 DEL chr15:72954593-72958469 3.88 chr15 72956531 97496..97500 5 8 53 53 8 20 -3.70 42.51 +Sample_NN3528 DUP chr16:14968893-14972691 3.80 chr16 14970792 101188..101191 4 16 73 73 16 6 4.61 105.49 +Sample_NN3528 DEL chr16:32888797-32896463 7.67 chr16 32892630 103097..103104 8 28 99 99 24 28 -4.53 33.42 +Sample_NN3528 DEL chr16:74442531-74444530 2.00 chr16 74443530 105291..105294 4 8 91 92 7 11 -4.97 90.27 +Sample_NN3528 DUP chr19:40373945-40382826 8.88 chr19 40378385 124708..124712 5 9 53 53 29 8 3.71 66.88 +Sample_NN3528 DUP chr19:43348511-43441330 92.82 chr19 43394920 125376..125392 17 10 99 99 6 17 5.02 92.44 +Sample_NN3528 DEL chr19:49519804-49527593 7.79 chr19 49523698 126638..126641 4 24 66 66 24 33 -4.48 93.38 +Sample_NN3528 DUP chr19:49539393-49547481 8.09 chr19 49543437 126647..126650 4 29 33 33 19 11 3.86 126.47 +Sample_NN3528 DEL chr19:50462617-50464192 1.58 chr19 50463404 127078..127080 3 15 37 37 15 25 -4.78 57.33 +Sample_NN3528 DUP chr19:54745902-54746724 0.82 chr19 54746313 127867..127869 3 21 53 53 17 15 5.15 83.85 +Sample_NN3528 DUP chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 7 39 39 29 7 3.44 108.80 +Sample_NN3528 DUP chr21:14982498-14983070 0.57 chr21 14982784 132983..132983 1 31 31 31 30 31 10.00 114.63 +Sample_NN3528 DEL chr21:45970318-46032871 62.55 chr21 46001594 134151..134159 9 6 99 99 16 6 -3.35 265.45 +Sample_NN3528 DUP chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 99 99 99 18 45 7.48 140.59 +Sample_NN3528 DEL chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 10 84 84 30 7 -3.37 19.87 +Sample_NN3528 DUP chr22:42905034-42952594 47.56 chr22 42928814 137453..137461 9 43 99 99 5 5 5.94 94.52 +Sample_NN3538 DUP chr1:1230098-1235448 5.35 chr1 1232773 194..206 13 7 41 41 7 9 2.31 108.85 +Sample_NN3538 DEL chr1:16918654-17275019 356.37 chr1 17096836 1956..2004 49 11 99 99 8 7 -3.22 106.85 +Sample_NN3538 DEL chr2:87140935-87141044 0.11 chr2 87140989 18559..18559 1 30 30 30 25 28 -10.00 49.23 +Sample_NN3538 DUP chr2:96689057-96689748 0.69 chr2 96689402 18718..18719 2 32 32 32 9 12 6.10 146.19 +Sample_NN3538 DUP chr2:128392171-128394203 2.03 chr2 128393187 20044..20048 5 27 57 57 20 16 3.77 112.94 +Sample_NN3538 DEL chr2:130806641-130899954 93.31 chr2 130853297 20144..20154 11 12 99 99 10 12 -3.06 56.68 +Sample_NN3538 DEL chr2:233244474-233246077 1.60 chr2 233245275 23900..23904 5 29 42 42 7 23 -3.52 120.83 +Sample_NN3538 DUP chr2:233272977-233274158 1.18 chr2 233273567 23912..23915 4 6 34 34 6 26 3.86 71.36 +Sample_NN3538 DUP chr3:46966946-47043316 76.37 chr3 47005131 26802..26833 32 4 99 99 4 11 2.06 100.11 +Sample_NN3538 DUP chr3:48604561-48607933 3.37 chr3 48606247 27137..27149 13 7 68 68 8 4 2.46 116.91 +Sample_NN3538 DUP chr3:50220619-50223781 3.16 chr3 50222200 27802..27808 7 44 61 61 13 16 3.18 105.77 +Sample_NN3538 DUP chr3:52549439-52554136 4.70 chr3 52551787 28414..28428 15 3 62 62 3 6 2.30 104.40 +Sample_NN3538 DEL chr5:140165876-140627799 461.92 chr5 140396837 40578..40611 34 10 99 99 9 23 -2.80 80.72 +Sample_NN3538 DEL chr5:177466388-177474656 8.27 chr5 177470522 42444..42447 4 13 36 36 23 12 -3.81 51.23 +Sample_NN3538 DEL chr6:35754775-35787240 32.47 chr6 35771007 44052..44059 8 10 99 99 34 10 -3.91 69.25 +Sample_NN3538 DEL chr7:72476099-72649368 173.27 chr7 72562733 50674..50677 4 6 50 50 49 5 -4.36 30.18 +Sample_NN3538 DEL chr7:74306509-74306965 0.46 chr7 74306737 50916..50917 2 47 49 49 21 16 -6.72 54.90 +Sample_NN3538 DEL chr8:7718168-7721318 3.15 chr8 7719743 55183..55184 2 40 42 42 12 4 -6.24 16.67 +Sample_NN3538 DEL chr8:11979496-12044342 64.85 chr8 12011919 55311..55317 7 12 99 99 12 1 -5.79 33.62 +Sample_NN3538 DEL chr9:90744221-90747941 3.72 chr9 90746081 61295..61296 2 9 33 33 3 13 -6.01 62.61 +Sample_NN3538 DEL chr9:117085943-117087432 1.49 chr9 117086687 62580..62583 4 45 99 99 3 9 -5.40 50.58 +Sample_NN3538 DUP chr9:137709624-137710899 1.28 chr9 137710261 64594..64597 4 14 36 36 18 14 3.91 142.36 +Sample_NN3538 DEL chr10:92828-94665 1.84 chr10 93746 65442..65443 2 31 32 32 2 13 -6.10 197.87 +Sample_NN3538 DEL chr10:27225666-27230930 5.26 chr10 27228298 66314..66315 2 33 33 33 22 29 -5.93 113.74 +Sample_NN3538 DUP chr10:46963840-47416976 453.14 chr10 47190408 66733..66744 12 8 99 99 6 17 3.66 105.61 +Sample_NN3538 DEL chr10:135368855-135370660 1.81 chr10 135369757 70976..70980 5 12 56 56 13 14 -3.75 123.92 +Sample_NN3538 DUP chr11:196761-239076 42.32 chr11 217918 70991..71017 27 3 99 99 4 3 4.67 100.14 +Sample_NN3538 DEL chr11:55032376-55038594 6.22 chr11 55035485 74018..74021 4 98 99 99 7 12 -7.66 0.43 +Sample_NN3538 DUP chr12:87984-90655 2.67 chr12 89319 79925..79930 6 22 99 99 22 38 4.81 78.05 +Sample_NN3538 DEL chr15:21932514-22145802 213.29 chr15 22039158 94355..94359 5 13 68 68 13 8 -4.00 30.58 +Sample_NN3538 DUP chr15:23299681-23443575 143.90 chr15 23371628 94425..94437 13 3 69 69 3 10 2.51 64.54 +Sample_NN3538 DEL chr15:102513423-102514309 0.89 chr15 102513866 99267..99268 2 58 58 58 15 35 -7.11 1.66 +Sample_NN3538 DUP chr16:1279191-1280185 0.99 chr16 1279688 99711..99713 3 50 99 99 21 26 7.81 125.66 +Sample_NN3538 DEL chr16:1291154-1291700 0.55 chr16 1291427 99715..99716 2 46 48 48 26 46 -6.74 122.82 +Sample_NN3538 DEL chr16:16349577-16367932 18.36 chr16 16358754 101364..101368 5 14 75 75 4 14 -3.91 0.31 +Sample_NN3538 DEL chr16:28616918-28621357 4.44 chr16 28619137 102277..102282 6 15 79 79 16 17 -3.66 57.00 +Sample_NN3538 DUP chr16:67233587-67236298 2.71 chr16 67234942 104252..104263 12 5 56 56 3 2 2.43 112.45 +Sample_NN3538 DEL chr16:70154364-70220796 66.43 chr16 70187580 104880..104898 19 4 99 99 4 24 -2.88 31.57 +Sample_NN3538 DUP chr16:72097125-72111144 14.02 chr16 72104134 105210..105213 4 10 99 99 9 23 6.45 79.61 +Sample_NN3538 DEL chr16:74394531-74452196 57.67 chr16 74423363 105289..105298 10 6 99 99 6 16 -3.45 65.78 +Sample_NN3538 DUP chr16:88799015-88802816 3.80 chr16 88800915 106065..106072 8 7 81 81 9 7 3.16 108.93 +Sample_NN3538 DEL chr17:14139175-14140150 0.98 chr17 14139662 108886..108888 3 14 70 70 13 13 -5.40 71.35 +Sample_NN3538 DUP chr17:16733797-16736147 2.35 chr17 16734972 109047..109050 4 45 98 99 3 42 6.92 136.00 +Sample_NN3538 DEL chr17:18387189-18430160 42.97 chr17 18408674 109356..109365 10 4 98 99 7 6 -3.33 39.32 +Sample_NN3538 DUP chr17:34591884-34592027 0.14 chr17 34591955 110587..110587 1 31 31 31 11 19 10.00 127.92 +Sample_NN3538 DEL chr17:39140079-39412615 272.54 chr17 39276347 111305..111332 28 4 99 99 6 7 -4.49 96.04 +Sample_NN3538 DEL chr17:43552466-44116052 563.59 chr17 43834259 112453..112480 28 1 32 32 2 3 -1.94 16.28 +Sample_NN3538 DEL chr19:40373945-40382826 8.88 chr19 40378385 124708..124712 5 5 90 92 23 3 -4.25 16.19 +Sample_NN3538 DUP chr19:40389652-40406060 16.41 chr19 40397856 124714..124720 7 24 99 99 7 22 3.81 91.96 +Sample_NN3538 DUP chr19:55247287-55294990 47.70 chr19 55271138 128016..128024 9 6 84 99 5 6 3.60 52.01 +Sample_NN3538 DEL chr21:31720717-31874408 153.69 chr21 31797562 133151..133161 11 11 46 46 10 10 -2.50 64.75 +Sample_NN3538 DEL chr21:45959068-46117959 158.89 chr21 46038513 134150..134167 18 15 99 99 15 6 -3.96 268.03 +Sample_NN3538 DEL chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 99 99 99 24 42 -8.85 37.76 +Sample_NN3538 DEL chr22:21043843-21068988 25.15 chr22 21056415 134963..134979 17 4 99 99 10 5 -2.41 91.62 +Sample_NN3752 DUP chr1:12851546-12854642 3.10 chr1 12853094 1602..1604 3 9 31 31 24 6 4.55 138.07 +Sample_NN3752 DEL chr1:16382917-16386099 3.18 chr1 16384508 1856..1859 4 8 72 72 8 7 -4.58 49.77 +Sample_NN3752 DUP chr1:16952270-17017789 65.52 chr1 16985029 1964..1969 6 3 68 68 14 3 3.54 187.52 +Sample_NN3752 DUP chr1:17086647-17090975 4.33 chr1 17088811 1984..1986 3 27 95 95 32 17 6.04 214.46 +Sample_NN3752 DUP chr1:161494036-161565380 71.34 chr1 161529708 11047..11055 9 17 99 99 30 16 3.55 68.78 +Sample_NN3752 DUP chr3:48481506-48482038 0.53 chr3 48481772 27093..27096 4 4 45 45 17 4 4.00 115.56 +Sample_NN3752 DEL chr3:195390957-195475935 84.98 chr3 195433446 32790..32802 13 12 98 99 3 12 -4.83 46.09 +Sample_NN3752 DEL chr3:195701268-195711608 10.34 chr3 195706438 32844..32850 7 27 32 32 11 8 -2.86 55.22 +Sample_NN3752 DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 76 99 99 14 18 6.72 148.97 +Sample_NN3752 DEL chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 29 99 99 14 27 -6.12 43.04 +Sample_NN3752 DEL chr8:7153153-7320381 167.23 chr8 7236767 55171..55182 12 4 76 99 6 0 -3.87 19.17 +Sample_NN3752 DEL chr8:12245467-12287960 42.49 chr8 12266713 55318..55322 5 75 99 99 47 3 -5.84 27.86 +Sample_NN3752 DUP chr10:92828-94852 2.02 chr10 93840 65442..65444 3 28 49 49 49 15 5.03 199.55 +Sample_NN3752 DUP chr10:27225666-27230930 5.26 chr10 27228298 66314..66315 2 97 99 99 36 34 9.29 191.72 +Sample_NN3752 DEL chr11:60970984-60978907 7.92 chr11 60974945 74466..74468 3 27 76 76 30 17 -5.61 15.35 +Sample_NN3752 DEL chr12:8376045-8385203 9.16 chr12 8380624 80972..80976 5 7 44 44 7 11 -3.53 66.01 +Sample_NN3752 DEL chr12:9436253-9456803 20.55 chr12 9446528 81110..81121 12 19 99 99 17 5 -3.06 28.56 +Sample_NN3752 DUP chr12:11034816-11035297 0.48 chr12 11035056 81234..81235 2 24 47 47 21 19 6.70 146.01 +Sample_NN3752 DEL chr15:43888606-43941039 52.43 chr15 43914822 95831..95857 27 23 99 99 29 23 -2.95 17.24 +Sample_NN3752 DUP chr15:78207982-78208271 0.29 chr15 78208126 98004..98005 2 37 52 52 6 32 6.82 273.26 +Sample_NN3752 DEL chr15:102462345-102516807 54.46 chr15 102489576 99266..99269 4 6 84 84 6 62 -4.73 23.96 +Sample_NN3752 DUP chr16:1290678-1291700 1.02 chr16 1291189 99714..99716 3 41 60 60 4 12 5.36 163.93 +Sample_NN3752 DUP chr16:28616918-28621357 4.44 chr16 28619137 102277..102282 6 25 99 99 5 4 5.50 112.30 +Sample_NN3752 DUP chr16:55844839-55855433 10.60 chr16 55850136 103456..103461 6 8 54 54 3 12 3.32 69.91 +Sample_NN3752 DEL chr16:74385938-74452196 66.26 chr16 74419067 105286..105298 13 27 99 99 15 23 -3.10 51.91 +Sample_NN3752 DUP chr16:75562430-75575353 12.92 chr16 75568891 105406..105410 5 5 56 56 41 4 3.73 76.90 +Sample_NN3752 DEL chr17:18380099-18430160 50.06 chr17 18405129 109355..109365 11 10 46 46 12 10 -2.46 47.88 +Sample_NN3752 DUP chr17:39210753-39411837 201.09 chr17 39311295 111313..111331 19 14 98 99 5 6 2.65 149.94 +Sample_NN3752 DUP chr17:39533923-39538636 4.71 chr17 39536279 111347..111353 7 5 99 99 5 24 4.97 89.44 +Sample_NN3752 DUP chr17:76128422-76128589 0.17 chr17 76128505 115337..115338 2 48 48 48 25 4 6.64 201.72 +Sample_NN3752 DEL chr19:40380119-40408135 28.02 chr19 40394127 124711..124721 11 10 99 99 9 49 -3.21 42.11 +Sample_NN3752 DEL chr19:49535130-49539560 4.43 chr19 49537345 126643..126647 5 9 44 44 9 23 -3.56 34.94 +Sample_NN3752 DEL chr19:52133552-52149893 16.34 chr19 52141722 127512..127516 5 34 99 99 36 8 -5.87 2.72 +Sample_NN3752 DEL chr19:54784816-54803978 19.16 chr19 54794397 127894..127900 7 44 99 99 44 23 -5.74 46.08 +Sample_NN3752 DEL chr19:55247287-55266508 19.22 chr19 55256897 128016..128021 6 14 99 99 12 3 -4.60 9.84 +Sample_NN3752 DEL chr21:14982498-14983070 0.57 chr21 14982784 132983..132983 1 31 31 31 31 30 -10.00 0.35 +Sample_NN3752 DUP chr21:45959068-46012386 53.32 chr21 45985727 134150..134156 7 30 99 99 26 27 4.69 329.79 +Sample_NN3752 DEL chr22:16256332-16279301 22.97 chr22 16267816 134510..134512 3 40 49 49 41 5 -4.84 29.34 +Sample_NN3752 DUP chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 99 99 99 35 27 8.99 130.82 +Sample_NN3752 DUP chr22:25041133-25055114 13.98 chr22 25048123 135493..135500 8 4 99 99 6 7 3.69 164.99 +Sample_NN6367 DEL chr1:1635263-1669887 34.62 chr1 1652575 371..380 10 3 99 99 9 2 -3.01 20.71 +Sample_NN6367 DUP chr1:12853352-12943231 89.88 chr1 12898291 1603..1619 17 38 72 72 8 16 2.29 75.10 +Sample_NN6367 DUP chr1:16954963-16976914 21.95 chr1 16965938 1965..1968 4 10 77 77 10 22 4.62 167.65 +Sample_NN6367 DUP chr1:17085971-17090975 5.00 chr1 17088473 1982..1986 5 41 73 73 5 67 3.89 124.29 +Sample_NN6367 DEL chr1:25611064-25633220 22.16 chr1 25622142 3041..3046 6 6 98 98 30 6 -3.87 23.06 +Sample_NN6367 DUP chr2:240981231-240985489 4.26 chr2 240983360 24411..24412 2 31 39 39 4 28 6.08 137.20 +Sample_NN6367 DUP chr3:195390957-195447954 57.00 chr3 195419455 32790..32797 8 17 98 99 17 45 4.92 80.67 +Sample_NN6367 DUP chr3:195701268-195702771 1.50 chr3 195702019 32844..32845 2 24 37 37 35 24 6.31 94.72 +Sample_NN6367 DUP chr5:140480234-140560019 79.79 chr5 140520126 40595..40601 7 8 99 99 3 10 4.12 105.57 +Sample_NN6367 DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 79 99 99 4 27 6.60 122.42 +Sample_NN6367 DUP chr7:74306509-74306965 0.46 chr7 74306737 50916..50917 2 36 36 36 16 8 6.21 130.81 +Sample_NN6367 DUP chr7:76121470-76126794 5.33 chr7 76124132 51074..51075 2 35 42 42 22 27 6.47 68.78 +Sample_NN6367 DEL chr8:11979496-12041215 61.72 chr8 12010355 55311..55315 5 5 99 99 8 5 -4.86 24.97 +Sample_NN6367 DUP chr10:135267432-135381779 114.35 chr10 135324605 70960..70987 28 26 99 99 20 31 3.21 66.69 +Sample_NN6367 DEL chr12:9447028-9456803 9.78 chr12 9451915 81112..81121 10 53 99 99 26 6 -3.96 20.82 +Sample_NN6367 DUP chr12:9580229-9590085 9.86 chr12 9585157 81143..81150 8 2 90 90 2 11 3.20 65.40 +Sample_NN6367 DUP chr13:24465429-24468340 2.91 chr13 24466884 88167..88170 4 4 51 51 4 11 4.15 65.81 +Sample_NN6367 DEL chr15:20743914-22414393 1670.48 chr15 21579153 94345..94366 22 15 99 99 43 15 -3.54 21.67 +Sample_NN6367 DUP chr15:41859558-41871526 11.97 chr15 41865542 95375..95387 13 9 63 63 3 9 2.39 62.47 +Sample_NN6367 DUP chr15:72958123-72958469 0.35 chr15 72958296 97499..97500 2 27 46 46 7 20 6.64 123.70 +Sample_NN6367 DUP chr16:1279191-1280185 0.99 chr16 1279688 99711..99713 3 75 97 99 22 26 6.31 78.23 +Sample_NN6367 DUP chr16:21475024-21531765 56.74 chr16 21503394 101744..101748 5 60 99 99 21 19 4.74 77.94 +Sample_NN6367 DUP chr16:28606871-28620649 13.78 chr16 28613760 102274..102281 8 4 30 30 6 5 2.67 83.09 +Sample_NN6367 DEL chr16:69984810-69997887 13.08 chr16 69991348 104856..104860 5 26 98 99 17 16 -4.56 25.86 +Sample_NN6367 DUP chr16:74442531-74444530 2.00 chr16 74443530 105291..105294 4 35 40 40 26 9 3.99 113.94 +Sample_NN6367 DUP chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 22 98 99 19 26 3.50 70.77 +Sample_NN6367 DEL chr17:18380099-18430160 50.06 chr17 18405129 109355..109365 11 7 98 99 23 7 -3.17 30.43 +Sample_NN6367 DEL chr17:20404829-20407811 2.98 chr17 20406320 109572..109577 6 36 98 99 36 48 -5.71 28.95 +Sample_NN6367 DUP chr17:39190139-39406904 216.77 chr17 39298521 111310..111330 21 5 96 99 5 9 2.28 110.38 +Sample_NN6367 DUP chr19:40389652-40398510 8.86 chr19 40394081 124714..124718 5 24 95 97 21 21 4.38 73.70 +Sample_NN6367 DEL chr19:49557532-49558997 1.47 chr19 49558264 126653..126655 3 23 73 73 23 23 -5.63 51.29 +Sample_NN6367 DEL chr19:52133552-52149893 16.34 chr19 52141722 127512..127516 5 31 99 99 33 32 -5.01 1.46 +Sample_NN6367 DUP chr19:55239077-55266508 27.43 chr19 55252792 128015..128021 7 4 48 48 4 8 3.02 44.10 +Sample_NN6367 DEL chr21:10906743-10990920 84.18 chr21 10948831 132954..132974 21 1 70 70 3 3 -2.11 24.53 +Sample_NN6367 DUP chr21:45959068-46048294 89.23 chr21 46003681 134150..134160 11 11 99 99 19 11 3.18 231.17 +Sample_NN6367 DUP chr22:20383731-20461786 78.06 chr22 20422758 134919..134926 8 3 99 99 48 3 6.75 70.86 +Sample_NN6367 DUP chr22:24342269-24394849 52.58 chr22 24368559 135354..135362 9 4 99 99 4 13 3.55 47.99 +Sample_NN6367 DEL chr22:42905034-42950048 45.02 chr22 42927541 137453..137460 8 10 99 99 5 5 -3.73 29.59 +Sample_NN6368 DEL chr1:12851546-12958094 106.55 chr1 12904820 1602..1623 22 26 99 99 50 3 -3.78 26.62 +Sample_NN6368 DEL chr1:16952270-17046652 94.38 chr1 16999461 1964..1977 14 15 98 99 3 15 -3.43 37.34 +Sample_NN6368 DUP chr1:17248445-17275421 26.98 chr1 17261933 1987..2005 19 7 99 99 21 7 3.37 67.11 +Sample_NN6368 DUP chr1:104112026-104122147 10.12 chr1 104117086 7334..7341 8 23 99 99 6 16 3.38 47.06 +Sample_NN6368 DEL chr1:161575849-161601158 25.31 chr1 161588503 11056..11060 5 22 44 44 4 14 -3.47 16.92 +Sample_NN6368 DUP chr2:87140935-87141044 0.11 chr2 87140989 18559..18559 1 30 30 30 28 29 10.00 91.05 +Sample_NN6368 DEL chr2:240981231-240985489 4.26 chr2 240983360 24411..24412 2 33 57 57 11 31 -6.83 60.31 +Sample_NN6368 DEL chr3:75470705-75484266 13.56 chr3 75477485 29262..29269 8 15 99 99 80 15 -8.22 0.48 +Sample_NN6368 DUP chr3:195410623-195475935 65.31 chr3 195443279 32796..32802 7 20 42 42 2 37 2.96 61.11 +Sample_NN6368 DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 56 99 99 10 20 -6.56 37.00 +Sample_NN6368 DEL chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 6 68 68 7 6 -4.37 26.48 +Sample_NN6368 DUP chr9:117085303-117088757 3.46 chr9 117087030 62579..62584 6 24 99 99 18 21 8.08 84.92 +Sample_NN6368 DUP chr12:9436253-9456803 20.55 chr12 9446528 81110..81121 12 11 99 99 10 29 3.05 37.20 +Sample_NN6368 DUP chr15:21134198-21134625 0.43 chr15 21134411 94353..94354 2 50 73 73 20 29 7.39 62.51 +Sample_NN6368 DUP chr15:22332388-22414393 82.01 chr15 22373390 94360..94366 7 25 99 99 62 25 5.45 60.50 +Sample_NN6368 DUP chr16:18542788-18604038 61.25 chr16 18573413 101381..101392 12 6 43 43 4 16 2.35 37.23 +Sample_NN6368 DUP chr16:21475024-21531765 56.74 chr16 21503394 101744..101748 5 39 44 44 3 35 3.47 44.55 +Sample_NN6368 DEL chr16:28606871-28621357 14.49 chr16 28614114 102274..102282 9 10 99 99 10 24 -3.46 33.62 +Sample_NN6368 DUP chr16:70162687-70211383 48.70 chr16 70187035 104882..104897 16 9 99 99 9 5 2.52 39.83 +Sample_NN6368 DUP chr16:74394531-74447574 53.04 chr16 74421052 105289..105297 9 19 99 99 15 55 3.73 65.77 +Sample_NN6368 DEL chr17:16733797-16736147 2.35 chr17 16734972 109047..109050 4 18 54 54 24 18 -4.14 23.77 +Sample_NN6368 DUP chr19:36604612-36605314 0.70 chr19 36604963 123971..123974 4 28 49 49 26 25 4.16 69.54 +Sample_NN6368 DUP chr19:40373945-40382826 8.88 chr19 40378385 124708..124712 5 21 99 99 30 10 5.75 50.99 +Sample_NN6368 DUP chr20:3734158-3739325 5.17 chr20 3736741 129196..129199 4 22 41 41 22 19 4.02 50.87 +Sample_NN6368 DEL chr22:24347142-24394849 47.71 chr22 24370995 135355..135362 8 6 99 99 6 6 -3.51 0.00 +Sample_NN6985 DUP chr1:12916941-12955703 38.76 chr1 12936322 1613..1622 10 2 30 30 24 2 2.44 83.62 +Sample_NN6985 DUP chr1:17084437-17086181 1.75 chr1 17085309 1979..1982 4 16 99 99 8 16 5.44 222.43 +Sample_NN6985 DUP chr1:25611064-25633220 22.16 chr1 25622142 3041..3046 6 16 58 58 16 15 3.37 76.72 +Sample_NN6985 DUP chr1:104108057-104166606 58.55 chr1 104137331 7333..7345 13 6 99 99 25 6 4.48 75.97 +Sample_NN6985 DEL chr1:161483685-161565380 81.70 chr1 161524532 11046..11055 10 10 99 99 6 16 -3.94 28.95 +Sample_NN6985 DEL chr1:248524883-248637608 112.73 chr1 248581245 15083..15087 5 66 99 99 12 15 -5.35 81.99 +Sample_NN6985 DEL chr2:97860463-97911808 51.35 chr2 97886135 18984..19005 22 5 99 99 5 20 -2.46 18.98 +Sample_NN6985 DEL chr2:130897464-130897669 0.21 chr2 130897566 20150..20151 2 31 31 31 19 5 -6.01 66.70 +Sample_NN6985 DUP chr3:195392937-195395512 2.58 chr3 195394224 32791..32792 2 11 35 35 10 8 6.18 136.26 +Sample_NN6985 DUP chr5:837480-848775 11.30 chr5 843127 37332..37335 4 9 81 81 8 16 4.77 125.09 +Sample_NN6985 DUP chr7:72469994-72476455 6.46 chr7 72473224 50673..50674 2 61 67 67 31 21 7.21 143.06 +Sample_NN6985 DEL chr7:74299285-74312628 13.34 chr7 74305956 50913..50919 7 6 99 99 9 8 -4.15 45.35 +Sample_NN6985 DUP chr8:7154584-7220490 65.91 chr8 7187537 55172..55178 7 12 48 48 4 3 2.99 70.84 +Sample_NN6985 DEL chr8:8088365-8094797 6.43 chr8 8091581 55186..55191 6 22 36 36 30 5 -3.11 103.51 +Sample_NN6985 DEL chr8:11979496-12044342 64.85 chr8 12011919 55311..55317 7 14 99 99 20 14 -4.27 49.40 +Sample_NN6985 DUP chr8:12286142-12287960 1.82 chr8 12287051 55321..55322 2 14 38 38 27 14 6.31 117.84 +Sample_NN6985 DEL chr9:15909-17166 1.26 chr9 16537 59397..59398 2 37 37 37 37 0 -6.03 2.20 +Sample_NN6985 DUP chr9:178816-432324 253.51 chr9 305570 59399..59432 34 72 99 99 0 13 6.84 78.15 +Sample_NN6985 DUP chr9:43624504-43630730 6.23 chr9 43627617 60802..60804 3 40 64 64 39 52 5.23 64.18 +Sample_NN6985 DUP chr10:47658234-47756732 98.50 chr10 47707483 66745..66767 23 14 99 99 14 32 3.54 83.99 +Sample_NN6985 DEL chr12:87984-90655 2.67 chr12 89319 79925..79930 6 42 99 99 86 8 -5.28 20.62 +Sample_NN6985 DUP chr12:8376045-8385203 9.16 chr12 8380624 80972..80976 5 48 99 99 15 62 8.76 166.96 +Sample_NN6985 DUP chr13:24465429-24468340 2.91 chr13 24466884 88167..88170 4 37 53 53 24 40 4.24 85.79 +Sample_NN6985 DEL chr15:21932514-22371086 438.57 chr15 22151800 94355..94364 10 5 99 99 29 5 -3.74 48.50 +Sample_NN6985 DUP chr15:23299915-23443575 143.66 chr15 23371745 94426..94437 12 9 84 84 29 9 2.71 63.03 +Sample_NN6985 DUP chr15:102462345-102516807 54.46 chr15 102489576 99266..99269 4 10 73 73 10 72 4.54 82.85 +Sample_NN6985 DEL chr16:1290678-1291700 1.02 chr16 1291189 99714..99716 3 58 96 99 17 11 -6.29 96.44 +Sample_NN6985 DEL chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 13 98 99 4 38 -4.49 40.55 +Sample_NN6985 DUP chr17:18380099-18430160 50.06 chr17 18405129 109355..109365 11 5 64 64 16 5 2.58 81.61 +Sample_NN6985 DEL chr17:25969264-25972375 3.11 chr17 25970819 109649..109651 3 63 91 92 4 15 -6.10 57.50 +Sample_NN6985 DUP chr17:79862942-79864422 1.48 chr17 79863682 116024..116028 5 9 34 34 8 18 3.40 132.94 +Sample_NN6985 DUP chr19:12500831-12577664 76.83 chr19 12539247 121267..121272 6 15 99 99 24 15 4.16 71.07 +Sample_NN6985 DEL chr19:40389652-40408135 18.48 chr19 40398893 124714..124721 8 4 99 99 12 5 -4.38 50.87 +Sample_NN6985 DEL chr19:50473069-50473627 0.56 chr19 50473348 127082..127083 2 99 99 99 24 18 -10.00 75.59 +Sample_NN6985 DEL chr19:54724025-54746724 22.70 chr19 54735374 127861..127869 9 55 99 99 7 9 -3.56 35.07 +Sample_NN6985 DUP chr19:55247438-55327989 80.55 chr19 55287713 128017..128026 10 21 99 99 6 5 4.21 60.70 +Sample_NN6985 DEL chr22:22980494-22990368 9.88 chr22 22985431 135216..135223 8 5 93 94 3 30 -3.19 93.56 +Sample_NN6985 DUP chr22:23652511-23654023 1.51 chr22 23653267 135260..135261 2 47 68 68 15 8 7.47 244.00 +Sample_NN6985 DEL chr22:25016295-25055114 38.82 chr22 25035704 135482..135500 19 16 99 99 5 18 -3.08 93.50 +Sample_NN6985 DEL chr22:39378405-39388154 9.75 chr22 39383279 136949..136955 7 24 99 99 11 13 -3.63 24.88 +Sample_NN6985 DUP chr22:42898755-42911274 12.52 chr22 42905014 137451..137458 8 4 99 99 4 23 3.51 79.20 +Sample_NN6985 DUP chrX:148614417-148619310 4.89 chrX 148616863 141590..141591 2 39 46 46 32 30 6.66 97.37 +Sample_NN6986 DUP chr1:1633047-1670496 37.45 chr1 1651771 369..381 13 14 44 44 5 21 2.33 33.93 +Sample_NN6986 DUP chr1:16946340-16972173 25.83 chr1 16959256 1963..1966 4 10 33 33 9 26 3.87 112.81 +Sample_NN6986 DUP chr3:50326686-50327517 0.83 chr3 50327101 27871..27874 4 17 44 44 17 13 4.06 93.64 +Sample_NN6986 DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 12 82 82 12 6 4.11 80.71 +Sample_NN6986 DUP chr7:74197282-74306965 109.68 chr7 74252123 50910..50917 8 43 99 99 5 7 4.99 72.72 +Sample_NN6986 DEL chr7:74573672-74578824 5.15 chr7 74576248 50925..50926 2 35 63 63 7 18 -6.99 25.29 +Sample_NN6986 DUP chr8:11979496-12044126 64.63 chr8 12011811 55311..55316 6 19 99 99 28 8 4.48 63.45 +Sample_NN6986 DEL chr8:12245467-12291623 46.16 chr8 12268545 55318..55323 6 2 99 99 8 2 -4.77 10.35 +Sample_NN6986 DUP chr9:117072829-117088757 15.93 chr9 117080793 62578..62584 7 13 99 99 9 9 7.31 82.06 +Sample_NN6986 DEL chr10:46965715-47133836 168.12 chr10 47049775 66734..66742 9 6 99 99 6 14 -4.03 41.16 +Sample_NN6986 DEL chr10:124344787-124353114 8.33 chr10 124348950 70420..70426 7 15 99 99 11 35 -4.66 20.53 +Sample_NN6986 DUP chr15:20743914-22145802 1401.89 chr15 21444858 94345..94359 15 30 99 99 86 6 4.87 47.05 +Sample_NN6986 DUP chr15:23282265-23300167 17.90 chr15 23291216 94424..94426 3 4 99 99 4 39 6.82 103.58 +Sample_NN6986 DUP chr15:23443500-23444098 0.60 chr15 23443799 94437..94438 2 12 43 43 9 42 6.23 91.74 +Sample_NN6986 DUP chr16:18532087-18604038 71.95 chr16 18568062 101380..101392 13 48 99 99 53 38 5.01 53.53 +Sample_NN6986 DUP chr16:32888797-32896463 7.67 chr16 32892630 103097..103104 8 3 61 61 3 13 2.87 40.70 +Sample_NN6986 DEL chr16:55806281-55808824 2.54 chr16 55807552 103453..103454 2 42 54 54 7 6 -6.76 0.00 +Sample_NN6986 DUP chr16:55844839-55857595 12.76 chr16 55851217 103456..103462 7 15 99 99 5 4 4.73 51.69 +Sample_NN6986 DEL chr16:69984810-69997887 13.08 chr16 69991348 104856..104860 5 19 97 99 23 13 -4.43 16.40 +Sample_NN6986 DUP chr16:74442531-74452196 9.67 chr16 74447363 105291..105298 8 10 99 99 5 10 5.29 82.54 +Sample_NN6986 DUP chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 21 54 54 20 27 2.51 45.76 +Sample_NN6986 DEL chr19:55263819-55361964 98.15 chr19 55312891 128020..128034 15 5 79 79 4 17 -2.42 9.50 +Sample_NN6986 DUP chr21:14982498-14983070 0.57 chr21 14982784 132983..132983 1 31 31 31 31 31 10.00 63.74 +Sample_NN6986 DUP chr21:45959068-46020655 61.59 chr21 45989861 134150..134157 8 15 50 50 15 32 2.90 161.58 +Sample_NN6986 DUP chr22:23651611-23655208 3.60 chr22 23653409 135259..135262 4 5 32 32 5 29 3.80 107.19 +Sample_NN6986 DEL chr22:24347142-24394849 47.71 chr22 24370995 135355..135362 8 12 99 99 8 5 -4.78 0.07 +Sample_NN7021 DUP chr1:69091-70008 0.92 chr1 69549 5..5 1 32 32 32 5 32 10.00 58.81 +Sample_NN7021 DEL chr1:12907236-12946025 38.79 chr1 12926630 1610..1620 11 11 99 99 25 10 -3.51 18.57 +Sample_NN7021 DUP chr1:16900982-16935274 34.29 chr1 16918128 1946..1960 15 19 99 99 14 11 2.77 60.31 +Sample_NN7021 DUP chr1:17017713-17085663 67.95 chr1 17051688 1969..1981 13 36 99 99 36 7 3.32 57.88 +Sample_NN7021 DUP chr1:17250820-17257892 7.07 chr1 17254356 1989..1994 6 8 57 57 4 10 3.35 83.89 +Sample_NN7021 DUP chr1:104108057-104122147 14.09 chr1 104115102 7333..7341 9 3 36 36 4 4 2.54 33.02 +Sample_NN7021 DEL chr3:48608534-48610781 2.25 chr3 48609657 27152..27162 11 4 31 31 3 5 -2.35 48.99 +Sample_NN7021 DEL chr8:145540850-145541832 0.98 chr8 145541341 59140..59146 7 7 36 36 3 11 -2.88 64.88 +Sample_NN7021 DUP chr9:15909-17166 1.26 chr9 16537 59397..59398 2 86 99 99 85 27 9.07 59.18 +Sample_NN7021 DEL chr9:135937365-135947248 9.88 chr9 135942306 64282..64292 11 6 84 85 15 6 -2.73 13.73 +Sample_NN7021 DEL chr15:23311307-23444098 132.79 chr15 23377702 94428..94438 11 14 67 67 6 47 -2.63 12.54 +Sample_NN7021 DEL chr16:3075925-3077074 1.15 chr16 3076499 100441..100448 8 11 40 40 11 11 -2.77 70.37 +Sample_NN7021 DEL chr16:18584199-18604038 19.84 chr16 18594118 101386..101392 7 22 99 99 34 22 -4.04 12.45 +Sample_NN7021 DEL chr16:28607104-28620649 13.55 chr16 28613876 102275..102281 7 13 44 44 20 13 -3.00 28.18 +Sample_NN7021 DUP chr16:69984810-69997887 13.08 chr16 69991348 104856..104860 5 11 32 32 14 14 3.35 44.18 +Sample_NN7021 DUP chr16:70162687-70220796 58.11 chr16 70191741 104882..104898 17 8 98 99 15 9 2.56 37.20 +Sample_NN7021 DUP chr16:74394531-74447574 53.04 chr16 74421052 105289..105297 9 37 99 99 6 32 4.40 67.31 +Sample_NN7021 DEL chr17:48266529-48272691 6.16 chr17 48269610 112931..112952 22 3 41 41 3 7 -2.00 46.04 +Sample_NN7021 DEL chr19:55105662-55105941 0.28 chr19 55105801 127980..127981 2 12 37 37 5 12 -6.25 57.16 +Sample_NN7021 DUP chr19:55315346-55361964 46.62 chr19 55338655 128025..128034 10 2 34 34 2 32 2.46 26.52 +Sample_NN7021 DUP chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 99 99 99 39 33 9.07 89.52 +Sample_NN7022 DEL chr1:12851546-12891264 39.72 chr1 12871405 1602..1609 8 14 99 99 15 7 -4.07 39.90 +Sample_NN7022 DEL chr1:12941675-13001395 59.72 chr1 12971535 1618..1625 8 8 82 82 16 4 -3.15 13.61 +Sample_NN7022 DUP chr1:16914220-17033914 119.69 chr1 16974067 1953..1974 22 14 99 99 36 5 5.06 99.39 +Sample_NN7022 DUP chr1:161575849-161643019 67.17 chr1 161609434 11056..11062 7 34 72 72 29 33 3.34 44.78 +Sample_NN7022 DEL chr5:819640-843839 24.20 chr5 831739 37329..37334 6 16 68 68 16 6 -3.53 28.58 +Sample_NN7022 DEL chr5:21495207-21497349 2.14 chr5 21496278 37853..37854 2 14 40 40 14 6 -6.33 9.79 +Sample_NN7022 DUP chr6:35754775-35773859 19.09 chr6 35764317 44052..44057 6 2 49 49 4 5 3.24 78.73 +Sample_NN7022 DEL chr7:74303804-74312628 8.82 chr7 74308216 50915..50919 5 2 99 99 3 3 -4.33 19.63 +Sample_NN7022 DEL chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 51 99 99 36 17 -8.26 6.32 +Sample_NN7022 DUP chr8:7308087-7721318 413.23 chr8 7514702 55180..55184 5 14 99 99 14 9 5.12 55.18 +Sample_NN7022 DUP chr8:11985367-12291623 306.26 chr8 12138495 55312..55323 12 30 99 99 9 23 5.17 67.67 +Sample_NN7022 DUP chr9:117085943-117088757 2.81 chr9 117087350 62580..62584 5 8 99 99 11 7 4.74 55.89 +Sample_NN7022 DUP chr10:135270783-135381779 111.00 chr10 135326281 70962..70987 26 34 99 99 6 28 3.47 51.39 +Sample_NN7022 DUP chr16:1279191-1280185 0.99 chr16 1279688 99711..99713 3 40 98 99 15 33 6.35 60.89 +Sample_NN7022 DEL chr16:32888797-32896463 7.67 chr16 32892630 103097..103104 8 3 70 70 47 3 -2.97 18.00 +Sample_NN7022 DUP chr16:69988237-69997887 9.65 chr16 69993062 104858..104860 3 20 62 62 26 19 5.32 56.26 +Sample_NN7022 DUP chr16:70154364-70220796 66.43 chr16 70187580 104880..104898 19 5 65 65 6 17 2.16 39.99 +Sample_NN7022 DUP chr16:74446671-74452196 5.53 chr16 74449433 105296..105298 3 17 99 99 42 16 6.84 91.12 +Sample_NN7022 DUP chr17:16675291-16736147 60.86 chr17 16705719 109039..109050 12 18 82 82 15 23 2.62 46.21 +Sample_NN7022 DEL chr17:20355108-20358711 3.60 chr17 20356909 109567..109569 3 33 44 44 13 23 -4.89 0.52 +Sample_NN7022 DEL chr19:40389652-40398510 8.86 chr19 40394081 124714..124718 5 15 99 99 14 18 -4.50 9.73 +Sample_NN7022 DEL chr19:41349444-41381779 32.34 chr19 41365611 124955..124964 10 11 54 54 12 11 -2.65 19.27 +Sample_NN7022 DUP chr19:43348511-43441330 92.82 chr19 43394920 125376..125392 17 13 99 99 12 8 4.41 52.77 +Sample_NN7022 DEL chr19:43708038-43763287 55.25 chr19 43735662 125407..125410 4 57 99 99 46 15 -5.47 0.19 +Sample_NN7022 DUP chr19:49517741-49527593 9.85 chr19 49522667 126633..126641 9 8 90 90 5 28 3.04 69.46 +Sample_NN7022 DEL chr19:49547102-49552368 5.27 chr19 49549735 126650..126652 3 41 49 49 24 26 -5.00 51.14 +Sample_NN7022 DEL chr22:24656876-24658575 1.70 chr22 24657725 135429..135430 2 11 35 35 14 11 -6.21 98.28 +Sample_NN7022 DUP chr22:42905034-42952594 47.56 chr22 42928814 137453..137461 9 38 99 99 35 14 5.06 55.86 +Sample_NN7123 DEL chr1:16809782-16811401 1.62 chr1 16810591 1936..1937 2 43 57 57 19 33 -7.07 34.84 +Sample_NN7123 DEL chr1:16918342-17017789 99.45 chr1 16968065 1955..1969 15 12 99 99 3 8 -3.95 118.33 +Sample_NN7123 DUP chr1:17084437-17086502 2.07 chr1 17085469 1979..1983 5 8 80 80 9 12 4.10 173.06 +Sample_NN7123 DEL chr1:25611064-25633220 22.16 chr1 25622142 3041..3046 6 19 99 99 21 16 -4.30 24.64 +Sample_NN7123 DUP chr1:248524883-248637608 112.73 chr1 248581245 15083..15087 5 24 34 34 18 20 3.43 128.34 +Sample_NN7123 DEL chr2:130806641-130878181 71.54 chr2 130842411 20144..20148 5 6 35 35 6 20 -3.42 49.47 +Sample_NN7123 DEL chr3:48613300-48614204 0.91 chr3 48613752 27173..27177 5 10 39 39 3 16 -3.46 111.55 +Sample_NN7123 DEL chr3:48618881-48620086 1.21 chr3 48619483 27194..27200 7 30 68 68 9 17 -3.25 131.26 +Sample_NN7123 DEL chr3:49723495-49725101 1.61 chr3 49724298 27605..27611 7 14 92 93 7 18 -3.52 176.00 +Sample_NN7123 DUP chr3:75476578-75484266 7.69 chr3 75480422 29264..29269 6 7 98 99 7 7 3.91 119.74 +Sample_NN7123 DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 70 99 99 10 15 -6.60 69.95 +Sample_NN7123 DEL chr7:72476099-72717737 241.64 chr7 72596918 50674..50680 7 5 37 37 11 5 -3.06 50.99 +Sample_NN7123 DUP chr8:11979496-12008698 29.20 chr8 11994097 55311..55314 4 13 34 34 31 9 3.81 79.33 +Sample_NN7123 DUP chr9:40715524-40792112 76.59 chr9 40753818 60793..60796 4 53 99 99 53 91 5.39 86.84 +Sample_NN7123 DEL chr9:43624504-43630730 6.23 chr9 43627617 60802..60804 3 30 30 30 29 13 -4.35 0.05 +Sample_NN7123 DUP chr10:46963840-47416976 453.14 chr10 47190408 66733..66744 12 6 78 78 7 8 2.73 103.73 +Sample_NN7123 DUP chr11:197297-233215 35.92 chr11 215256 70992..71014 23 12 99 99 12 4 4.88 99.05 +Sample_NN7123 DEL chr11:64568236-64569593 1.36 chr11 64568914 75402..75407 6 14 34 34 9 16 -3.10 102.31 +Sample_NN7123 DUP chr12:87984-90655 2.67 chr12 89319 79925..79930 6 89 99 99 85 43 6.67 93.47 +Sample_NN7123 DEL chr12:8376612-8385203 8.59 chr12 8380907 80973..80976 4 25 45 45 8 17 -4.06 73.34 +Sample_NN7123 DUP chr12:11034816-11035297 0.48 chr12 11035056 81234..81235 2 63 86 86 43 22 8.21 147.75 +Sample_NN7123 DUP chr15:20743914-20776177 32.26 chr15 20760045 94345..94349 5 4 48 48 32 4 3.62 70.14 +Sample_NN7123 DUP chr15:22145703-22414393 268.69 chr15 22280048 94359..94366 8 10 99 99 15 10 4.18 90.51 +Sample_NN7123 DUP chr15:23444007-23444098 0.09 chr15 23444052 94438..94438 1 31 31 31 29 30 10.00 176.67 +Sample_NN7123 DEL chr15:74362198-74368131 5.93 chr15 74365164 97607..97610 4 3 44 44 4 10 -3.91 15.50 +Sample_NN7123 DUP chr15:78206559-78212453 5.89 chr15 78209506 98002..98011 10 7 99 99 23 7 3.68 153.60 +Sample_NN7123 DEL chr16:223124-223708 0.58 chr16 223416 99316..99317 2 69 94 96 47 3 -8.43 0.00 +Sample_NN7123 DUP chr16:72093013-72111144 18.13 chr16 72102078 105208..105213 6 27 99 99 23 21 6.18 75.70 +Sample_NN7123 DUP chr17:16675291-16736147 60.86 chr17 16705719 109039..109050 12 6 98 99 5 29 3.80 77.81 +Sample_NN7123 DEL chr17:18392255-18430160 37.91 chr17 18411207 109358..109365 8 10 98 99 6 10 -3.79 36.10 +Sample_NN7123 DUP chr17:20355108-20358711 3.60 chr17 20356909 109567..109569 3 26 34 34 19 9 4.64 61.55 +Sample_NN7123 DEL chr17:39261641-39280419 18.78 chr17 39271030 111317..111319 3 26 30 30 9 4 -4.42 132.71 +Sample_NN7123 DEL chr19:40373945-40382826 8.88 chr19 40378385 124708..124712 5 18 55 55 38 17 -3.75 24.83 +Sample_NN7123 DUP chr19:40389652-40398510 8.86 chr19 40394081 124714..124718 5 12 75 75 12 17 4.03 74.22 +Sample_NN7123 DEL chr19:50462617-50464192 1.58 chr19 50463404 127078..127080 3 46 99 99 27 14 -7.37 26.63 +Sample_NN7123 DUP chr19:50473069-50473627 0.56 chr19 50473348 127082..127083 2 99 99 99 14 24 10.00 197.14 +Sample_NN7123 DEL chr19:54726815-54746724 19.91 chr19 54736769 127865..127869 5 4 88 99 4 19 -4.49 28.11 +Sample_NN7123 DUP chr19:55247287-55267601 20.32 chr19 55257444 128016..128022 7 7 99 99 10 5 4.14 57.19 +Sample_NN7123 DEL chr22:21057756-21067678 9.92 chr22 21062717 134967..134977 11 6 54 54 16 6 -2.53 80.52 +Sample_NN7123 DUP chr22:23653884-23655208 1.32 chr22 23654546 135261..135262 2 6 30 30 30 6 5.99 305.38 +Sample_NN7123 DEL chr22:25041133-25045989 4.86 chr22 25043561 135493..135498 6 14 99 99 14 17 -5.13 125.74 +Sample_NN7123 DEL chrX:140786599-140786655 0.06 chrX 140786627 141532..141532 1 33 33 33 4 24 -10.00 9.07 +Sample_NN7123 DUP chrX:148626914-148628854 1.94 chrX 148627884 141596..141598 3 5 42 42 33 5 4.67 120.14 +Sample_NN7124 DEL chr1:12888357-12946025 57.67 chr1 12917191 1608..1620 13 8 99 99 15 8 -4.29 35.62 +Sample_NN7124 DUP chr1:16914220-16955145 40.93 chr1 16934682 1953..1965 13 13 89 89 14 9 2.59 135.14 +Sample_NN7124 DEL chr1:17084437-17263368 178.93 chr1 17173902 1979..1995 17 3 99 99 6 3 -5.24 89.25 +Sample_NN7124 DUP chr2:96688883-96689748 0.87 chr2 96689315 18717..18719 3 7 42 42 7 7 4.80 115.33 +Sample_NN7124 DEL chr2:97860582-97884983 24.40 chr2 97872782 18985..19004 20 4 50 50 5 5 -2.06 17.31 +Sample_NN7124 DEL chr2:233244896-233246077 1.18 chr2 233245486 23901..23904 4 8 99 99 8 14 -5.32 52.56 +Sample_NN7124 DUP chr2:233272977-233274158 1.18 chr2 233273567 23912..23915 4 12 97 99 8 21 5.14 57.41 +Sample_NN7124 DEL chr3:195390495-195475935 85.44 chr3 195433215 32789..32802 14 18 98 99 17 40 -4.65 40.39 +Sample_NN7124 DEL chr7:74303804-74312628 8.82 chr7 74308216 50915..50919 5 8 99 99 29 5 -4.80 26.37 +Sample_NN7124 DUP chr7:76142401-76633624 491.22 chr7 76388012 51082..51098 17 27 99 99 8 13 2.82 58.55 +Sample_NN7124 DUP chr7:143400074-143530976 130.90 chr7 143465525 54217..54219 3 14 37 37 14 21 4.81 44.55 +Sample_NN7124 DUP chr8:8088365-8090396 2.03 chr8 8089380 55186..55187 2 31 40 40 31 4 6.32 123.81 +Sample_NN7124 DEL chr8:11985367-12044342 58.98 chr8 12014854 55312..55317 6 3 36 36 11 4 -3.05 48.83 +Sample_NN7124 DEL chr10:135369284-135370326 1.04 chr10 135369805 70977..70979 3 31 50 50 34 26 -5.07 130.38 +Sample_NN7124 DUP chr12:8071825-8086498 14.67 chr12 8079161 80932..80940 9 23 77 77 22 32 2.91 45.54 +Sample_NN7124 DEL chr15:20743914-22414393 1670.48 chr15 21579153 94345..94366 22 13 99 99 32 13 -3.50 26.92 +Sample_NN7124 DEL chr15:23261763-23444098 182.34 chr15 23352930 94422..94438 17 8 99 99 8 49 -2.99 36.52 +Sample_NN7124 DEL chr15:102513423-102516807 3.38 chr15 102515115 99267..99269 3 64 99 99 4 96 -7.19 17.53 +Sample_NN7124 DEL chr16:28616918-28621357 4.44 chr16 28619137 102277..102282 6 7 46 46 33 6 -3.22 49.29 +Sample_NN7124 DUP chr16:69988237-69997887 9.65 chr16 69993062 104858..104860 3 15 45 45 3 15 4.80 79.78 +Sample_NN7124 DEL chr17:14139175-14139747 0.57 chr17 14139461 108886..108887 2 48 49 49 22 14 -6.77 70.29 +Sample_NN7124 DUP chr17:15635591-15640837 5.25 chr17 15638214 108932..108935 4 10 35 35 9 4 3.86 89.29 +Sample_NN7124 DUP chr17:18380099-18391071 10.97 chr17 18385585 109355..109357 3 6 35 35 34 6 4.66 86.58 +Sample_NN7124 DEL chr17:18542488-18545046 2.56 chr17 18543767 109373..109375 3 21 53 53 6 3 -5.03 77.69 +Sample_NN7124 DUP chr17:34591884-34592027 0.14 chr17 34591955 110587..110587 1 31 31 31 22 10 10.00 135.63 +Sample_NN7124 DEL chr17:39388715-39395255 6.54 chr17 39391985 111327..111329 3 71 99 99 32 33 -8.99 63.61 +Sample_NN7124 DEL chr19:54722632-54726002 3.37 chr19 54724317 127860..127864 5 17 99 99 3 13 -4.55 22.42 +Sample_NN7124 DUP chr19:54783646-54803978 20.33 chr19 54793812 127891..127900 10 12 99 99 8 19 3.15 99.22 +Sample_NN7124 DUP chr22:39427699-39441547 13.85 chr22 39434623 136965..136971 7 26 99 99 25 20 3.75 61.40 +Sample_NN7139 DEL chr1:16918342-16946533 28.19 chr1 16932437 1955..1963 9 30 99 99 4 11 -4.59 104.48 +Sample_NN7139 DEL chr1:17017713-17275421 257.71 chr1 17146567 1969..2005 37 5 99 99 52 5 -4.58 62.36 +Sample_NN7139 DUP chr5:795720-825366 29.65 chr5 810543 37326..37330 5 26 92 93 26 31 4.33 71.06 +Sample_NN7139 DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 70 99 99 29 21 -5.09 71.41 +Sample_NN7139 DEL chr7:74197282-74203048 5.77 chr7 74200165 50910..50912 3 10 88 88 38 10 -5.86 44.43 +Sample_NN7139 DUP chr7:74573056-75044301 471.25 chr7 74808678 50924..50929 6 14 99 99 21 9 4.81 90.34 +Sample_NN7139 DEL chr8:7154584-7220490 65.91 chr8 7187537 55172..55178 7 20 99 99 13 8 -4.57 19.70 +Sample_NN7139 DEL chr8:12245467-12287960 42.49 chr8 12266713 55318..55322 5 10 99 99 36 10 -5.26 32.70 +Sample_NN7139 DUP chr11:811597-811814 0.22 chr11 811705 71297..71298 2 37 38 38 14 14 6.32 160.44 +Sample_NN7139 DEL chr12:8376045-8385203 9.16 chr12 8380624 80972..80976 5 13 46 46 12 39 -3.59 60.39 +Sample_NN7139 DUP chr14:20215587-20404761 189.18 chr14 20310174 90042..90047 6 20 81 81 37 19 3.80 65.17 +Sample_NN7139 DUP chr15:41857224-41871526 14.30 chr15 41864375 95374..95387 14 2 34 34 1 9 2.16 65.99 +Sample_NN7139 DEL chr15:78207740-78208271 0.53 chr15 78208005 98003..98005 3 56 99 99 14 25 -6.65 137.19 +Sample_NN7139 DEL chr16:14988855-15123913 135.06 chr16 15056384 101197..101213 17 21 99 99 9 23 -4.54 32.90 +Sample_NN7139 DEL chr16:28608318-28621357 13.04 chr16 28614837 102276..102282 7 7 99 99 10 4 -4.07 46.36 +Sample_NN7139 DUP chr16:69988237-69997887 9.65 chr16 69993062 104858..104860 3 19 34 34 7 17 4.58 70.89 +Sample_NN7139 DEL chr16:74442531-74444932 2.40 chr16 74443731 105291..105295 5 21 59 59 15 22 -3.80 58.78 +Sample_NN7139 DEL chr17:20355108-20363756 8.65 chr17 20359432 109567..109571 5 5 90 91 6 2 -4.15 12.49 +Sample_NN7139 DEL chr17:60342069-60345600 3.53 chr17 60343834 113673..113676 4 3 42 42 4 12 -3.98 53.22 +Sample_NN7139 DEL chr19:49557532-49558997 1.47 chr19 49558264 126653..126655 3 20 40 40 21 24 -4.77 58.55 +Sample_NN7139 DEL chr19:54724025-54726002 1.98 chr19 54725013 127861..127864 4 8 77 79 21 1 -4.94 15.36 +Sample_NN7139 DEL chr19:54784318-54803978 19.66 chr19 54794148 127893..127900 8 30 99 99 3 16 -3.80 58.15 +Sample_NN7139 DEL chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 5 49 49 5 33 -4.84 45.53 +Sample_NN7139 DUP chr22:20385726-20398336 12.61 chr22 20392031 134920..134925 6 23 99 99 7 15 4.13 43.21 +Sample_NN7139 DUP chr22:24342269-24394849 52.58 chr22 24368559 135354..135362 9 10 99 99 17 9 4.08 46.51 +Sample_NN7139 DUP chr22:42898755-42952594 53.84 chr22 42925674 137451..137461 11 28 99 99 33 7 3.89 67.02 +Sample_NN7139 DUP chrX:49178516-49355920 177.41 chrX 49267218 139561..139563 3 41 99 99 26 10 6.89 69.51 +Sample_NN7139 DUP chrX:148626914-148627429 0.52 chrX 148627171 141596..141597 2 99 99 99 6 19 10.00 171.69 +Sample_NN7139 DEL chrX:149101840-149102355 0.52 chrX 149102097 141611..141612 2 99 99 99 40 4 -10.00 7.79 +Sample_NN7140 DEL chr1:14363-70008 55.65 chr1 42185 1..5 5 46 99 99 0 49 -4.93 31.43 +Sample_NN7140 DEL chr1:12916941-12955703 38.76 chr1 12936322 1613..1622 10 30 99 99 9 32 -3.37 27.88 +Sample_NN7140 DUP chr1:17087450-17090975 3.53 chr1 17089212 1985..1986 2 35 38 38 3 21 5.98 190.90 +Sample_NN7140 DEL chr1:17256781-17277617 20.84 chr1 17267199 1992..2006 15 3 99 99 7 3 -2.73 73.51 +Sample_NN7140 DEL chr1:25611064-25633220 22.16 chr1 25622142 3041..3046 6 15 99 99 12 11 -3.99 24.19 +Sample_NN7140 DEL chr1:248737102-248814185 77.08 chr1 248775643 15089..15093 5 10 51 51 13 10 -3.67 27.54 +Sample_NN7140 DEL chr3:129816625-129824474 7.85 chr3 129820549 30788..30792 5 20 65 65 13 20 -3.88 80.87 +Sample_NN7140 DUP chr4:119199914-119475357 275.44 chr4 119337635 36087..36104 18 26 98 99 17 46 2.71 44.37 +Sample_NN7140 DUP chr5:140552243-140560019 7.78 chr5 140556131 40600..40601 2 61 84 85 13 21 8.13 137.86 +Sample_NN7140 DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 55 99 99 30 26 -5.67 57.69 +Sample_NN7140 DUP chr7:72418838-72420735 1.90 chr7 72419786 50664..50669 6 15 99 99 7 14 4.62 108.42 +Sample_NN7140 DEL chr7:75044163-75048176 4.01 chr7 75046169 50929..50934 6 12 94 96 9 11 -3.88 37.18 +Sample_NN7140 DUP chr8:7305276-7320381 15.11 chr8 7312828 55179..55182 4 3 67 87 32 0 4.71 53.39 +Sample_NN7140 DEL chr8:7718168-7721318 3.15 chr8 7719743 55183..55184 2 35 35 35 3 4 -6.00 15.27 +Sample_NN7140 DEL chr8:11979496-12008698 29.20 chr8 11994097 55311..55314 4 9 96 99 29 9 -5.06 22.82 +Sample_NN7140 DUP chr8:12245467-12286407 40.94 chr8 12265937 55318..55321 4 25 99 99 22 23 6.25 69.69 +Sample_NN7140 DUP chr9:43624504-43630730 6.23 chr9 43627617 60802..60804 3 52 66 66 49 65 5.27 49.53 +Sample_NN7140 DUP chr9:117085303-117087432 2.13 chr9 117086367 62579..62583 5 23 99 99 4 23 7.12 89.21 +Sample_NN7140 DUP chr11:66332029-66332477 0.45 chr11 66332253 76163..76165 3 9 35 35 6 9 4.62 131.25 +Sample_NN7140 DUP chr12:9436253-9456803 20.55 chr12 9446528 81110..81121 12 7 99 99 3 24 2.78 51.51 +Sample_NN7140 DEL chr12:11034816-11035297 0.48 chr12 11035056 81234..81235 2 33 53 53 14 19 -6.94 47.31 +Sample_NN7140 DUP chr14:20215587-20404761 189.18 chr14 20310174 90042..90047 6 75 99 99 38 23 7.95 86.72 +Sample_NN7140 DEL chr15:23261763-23316186 54.42 chr15 23288974 94422..94432 11 9 75 75 22 5 -2.70 37.53 +Sample_NN7140 DUP chr15:78207740-78208271 0.53 chr15 78208005 98003..98005 3 6 33 33 23 7 4.60 186.29 +Sample_NN7140 DEL chr16:28618272-28621357 3.09 chr16 28619814 102279..102282 4 17 48 48 10 9 -4.09 52.25 +Sample_NN7140 DEL chr16:32163770-32896463 732.69 chr16 32530116 103096..103104 9 33 99 99 10 34 -4.83 26.13 +Sample_NN7140 DUP chr16:74394531-74447574 53.04 chr16 74421052 105289..105297 9 4 98 99 2 4 4.64 102.95 +Sample_NN7140 DEL chr17:18380099-18430160 50.06 chr17 18405129 109355..109365 11 6 98 99 30 6 -3.13 33.73 +Sample_NN7140 DUP chr19:40373945-40382826 8.88 chr19 40378385 124708..124712 5 4 40 40 13 4 3.48 51.77 +Sample_NN7140 DEL chr19:43586658-43709790 123.13 chr19 43648224 125400..125408 9 3 99 99 3 9 -3.68 26.09 +Sample_NN7140 DEL chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 32 99 99 18 17 -4.97 41.56 +Sample_NN7140 DUP chr22:20385726-20398336 12.61 chr22 20392031 134920..134925 6 11 50 50 11 11 3.24 40.38 +Sample_NN7140 DUP chr22:22312864-22330179 17.32 chr22 22321521 135175..135190 16 22 99 99 18 8 5.97 86.24 +Sample_NN7140 DUP chr22:24342269-24394849 52.58 chr22 24368559 135354..135362 9 8 40 40 9 13 2.65 43.53 +Sample_NN7140 DUP chr22:25041713-25045989 4.28 chr22 25043851 135494..135498 5 14 39 39 9 10 3.47 173.11 +Sample_NN7391 DUP chr1:12907236-12954995 47.76 chr1 12931115 1610..1621 12 14 99 99 6 6 2.95 66.52 +Sample_NN7391 DEL chr1:16918654-17086181 167.53 chr1 17002417 1956..1982 27 35 99 99 24 8 -3.30 88.07 +Sample_NN7391 DUP chr2:114352640-114356605 3.97 chr2 114354622 19701..19707 7 9 58 58 11 10 3.14 93.91 +Sample_NN7391 DUP chr3:49724582-49725101 0.52 chr3 49724841 27609..27611 3 32 43 43 3 36 4.81 258.00 +Sample_NN7391 DUP chr3:195390495-195475935 85.44 chr3 195433215 32789..32802 14 31 99 99 15 12 3.02 76.01 +Sample_NN7391 DUP chr5:68840731-70388897 1548.17 chr5 69614814 38763..38769 7 52 99 99 17 50 5.93 61.85 +Sample_NN7391 DUP chr5:177466388-177474656 8.27 chr5 177470522 42444..42447 4 94 99 99 33 38 7.23 117.05 +Sample_NN7391 DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 51 99 99 18 17 5.77 123.31 +Sample_NN7391 DUP chr6:36100398-36104727 4.33 chr6 36102562 44091..44096 6 5 78 78 5 21 3.64 113.89 +Sample_NN7391 DUP chr8:7154584-7220490 65.91 chr8 7187537 55172..55178 7 17 55 55 18 21 3.09 55.48 +Sample_NN7391 DEL chr8:11979496-12044342 64.85 chr8 12011919 55311..55317 7 18 31 31 21 18 -2.81 46.39 +Sample_NN7391 DUP chr9:137710502-137710899 0.40 chr9 137710700 64595..64597 3 21 55 55 7 14 5.16 135.52 +Sample_NN7391 DUP chr11:60970984-61017486 46.50 chr11 60994235 74466..74471 6 29 58 58 15 27 3.44 78.10 +Sample_NN7391 DEL chr12:8376045-8385203 9.16 chr12 8380624 80972..80976 5 18 97 99 12 15 -4.40 50.90 +Sample_NN7391 DEL chr15:21134198-21134625 0.43 chr15 21134411 94353..94354 2 52 79 79 7 52 -7.58 4.28 +Sample_NN7391 DUP chr15:22145375-22145802 0.43 chr15 22145588 94358..94359 2 41 49 49 18 39 6.50 93.00 +Sample_NN7391 DEL chr15:78206559-78213784 7.23 chr15 78210171 98002..98013 12 4 71 99 21 15 -4.10 90.28 +Sample_NN7391 DUP chr15:83013569-83015609 2.04 chr15 83014589 98300..98301 2 60 60 60 3 31 6.83 53.96 +Sample_NN7391 DEL chr15:102462345-102516807 54.46 chr15 102489576 99266..99269 4 26 99 99 24 96 -6.01 8.60 +Sample_NN7391 DUP chr16:28616918-28621357 4.44 chr16 28619137 102277..102282 6 15 99 99 26 15 4.92 95.90 +Sample_NN7391 DUP chr16:32162610-32163874 1.26 chr16 32163242 103095..103096 2 3 35 35 3 9 5.79 96.06 +Sample_NN7391 DUP chr16:67691142-67691587 0.45 chr16 67691364 104460..104462 3 22 32 32 3 30 4.51 128.78 +Sample_NN7391 DUP chr16:69984810-69997887 13.08 chr16 69991348 104856..104860 5 25 76 76 14 3 3.99 78.43 +Sample_NN7391 DUP chr16:70161163-70208305 47.14 chr16 70184734 104881..104896 16 14 99 99 10 36 4.07 59.54 +Sample_NN7391 DUP chr16:74394531-74452196 57.67 chr16 74423363 105289..105298 10 56 99 99 31 25 4.65 93.77 +Sample_NN7391 DUP chr17:14095306-14140150 44.84 chr17 14117728 108884..108888 5 22 85 86 14 22 4.15 112.94 +Sample_NN7391 DUP chr17:39240459-39395255 154.80 chr17 39317857 111315..111329 15 10 81 81 8 6 2.44 130.74 +Sample_NN7391 DEL chr19:39225453-39229288 3.84 chr19 39227370 124394..124402 9 61 99 99 12 5 -5.31 31.52 +Sample_NN7391 DUP chr19:52133552-52149893 16.34 chr19 52141722 127512..127516 5 18 99 99 14 6 4.79 55.47 +Sample_NN7391 DEL chr19:55249974-55361964 111.99 chr19 55305969 128018..128034 17 18 99 99 14 15 -2.64 15.32 +Sample_NN7391 DUP chr21:45999564-46020655 21.09 chr21 46010109 134155..134157 3 10 79 79 10 10 5.82 303.09 +Sample_NN7391 DUP chr21:47706267-47924402 218.14 chr21 47815334 134413..134467 55 4 99 99 4 10 3.51 58.32 +Sample_NN7391 DUP chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 99 99 99 43 17 10.00 125.09 +Sample_NN7391 DUP chr22:20383731-20461786 78.06 chr22 20422758 134919..134926 8 5 99 99 26 5 5.40 49.98 +Sample_NN7391 DUP chr22:22980494-22989760 9.27 chr22 22985127 135216..135222 7 17 99 99 8 18 4.43 119.79 +Sample_NN7391 DEL chr22:24342269-24394849 52.58 chr22 24368559 135354..135362 9 3 99 99 3 14 -4.92 1.21 +Sample_NN7391 DUP chr22:25041713-25045035 3.32 chr22 25043374 135494..135496 3 37 39 39 17 6 4.73 191.99 +Sample_NN7391 DEL chrX:49178516-49355920 177.41 chrX 49267218 139561..139563 3 51 56 56 16 30 -5.33 7.18 +Sample_NN7392 DEL chr1:1634915-1677431 42.52 chr1 1656173 370..382 13 2 99 99 8 2 -2.80 12.73 +Sample_NN7392 DUP chr1:12908238-12943231 34.99 chr1 12925734 1611..1619 9 4 52 52 4 5 2.73 52.50 +Sample_NN7392 DUP chr1:17084437-17275421 190.99 chr1 17179929 1979..2005 27 3 99 99 3 13 5.06 92.58 +Sample_NN7392 DEL chr1:22328149-22334008 5.86 chr1 22331078 2731..2736 6 11 78 78 21 9 -3.65 22.09 +Sample_NN7392 DEL chr2:114346127-114356605 10.48 chr2 114351366 19700..19707 8 12 99 99 29 11 -3.49 32.55 +Sample_NN7392 DUP chr3:195392937-195475935 83.00 chr3 195434436 32791..32802 12 23 98 99 9 7 4.80 67.37 +Sample_NN7392 DEL chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 58 99 99 4 13 -5.56 42.25 +Sample_NN7392 DUP chr8:11979496-12044342 64.85 chr8 12011919 55311..55317 7 12 99 99 22 11 5.03 63.76 +Sample_NN7392 DEL chr9:117085943-117087432 1.49 chr9 117086687 62580..62583 4 48 99 99 14 19 -5.22 24.74 +Sample_NN7392 DUP chr12:8376045-8391345 15.30 chr12 8383695 80972..80977 6 5 82 82 5 11 3.70 66.28 +Sample_NN7392 DUP chr13:24465429-24471125 5.70 chr13 24468277 88167..88171 5 3 48 48 3 14 3.47 46.80 +Sample_NN7392 DUP chr15:20776102-20776700 0.60 chr15 20776401 94349..94350 2 3 33 33 3 33 5.80 38.09 +Sample_NN7392 DUP chr15:21932514-22414393 481.88 chr15 22173453 94355..94366 12 6 99 99 7 21 3.62 56.05 +Sample_NN7392 DEL chr15:78207982-78211657 3.68 chr15 78209819 98004..98009 6 10 77 77 13 7 -3.64 75.72 +Sample_NN7392 DUP chr15:102513423-102516807 3.38 chr15 102515115 99267..99269 3 99 99 99 5 91 10.00 121.66 +Sample_NN7392 DEL chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 9 98 99 4 21 -3.24 22.35 +Sample_NN7392 DUP chr17:18392255-18430160 37.91 chr17 18411207 109358..109365 8 11 34 34 13 12 2.68 46.05 +Sample_NN7392 DEL chr17:20404829-20406547 1.72 chr17 20405688 109572..109576 5 18 70 70 18 21 -3.97 25.70 +Sample_NN7392 DEL chr19:55249974-55267601 17.63 chr19 55258787 128018..128022 5 7 59 59 7 5 -3.72 9.91 +Sample_NN7392 DUP chr22:16256332-16279301 22.97 chr22 16267816 134510..134512 3 36 43 43 36 16 4.74 59.54 +Sample_NN7392 DUP chr22:20383731-20461786 78.06 chr22 20422758 134919..134926 8 5 99 99 12 5 7.04 52.97 +Sample_NN7392 DEL chr22:24347142-24394849 47.71 chr22 24370995 135355..135362 8 10 99 99 7 10 -4.68 0.23 +Sample_NN7681 DUP chr1:16918654-17046652 128.00 chr1 16982653 1956..1977 22 1 77 99 1 10 2.38 83.74 +Sample_NN7681 DUP chr1:17248445-17275019 26.57 chr1 17261732 1987..2004 18 8 85 99 0 19 2.83 81.58 +Sample_NN7681 DEL chr1:22328149-22336350 8.20 chr1 22332249 2731..2737 7 7 99 99 23 7 -4.55 17.22 +Sample_NN7681 DUP chr2:130877568-130897669 20.10 chr2 130887618 20148..20151 4 25 35 35 24 6 3.90 82.47 +Sample_NN7681 DUP chr3:48613955-48614460 0.51 chr3 48614207 27176..27179 4 18 62 62 11 17 4.41 100.18 +Sample_NN7681 DUP chr5:140552243-140560019 7.78 chr5 140556131 40600..40601 2 54 78 78 5 7 7.79 112.44 +Sample_NN7681 DUP chr6:304628-351353 46.73 chr6 327990 42799..42805 7 7 83 83 23 7 3.39 59.05 +Sample_NN7681 DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 27 62 62 30 23 3.83 88.11 +Sample_NN7681 DUP chr7:76142401-76179178 36.78 chr7 76160789 51082..51085 4 19 71 71 11 15 4.51 59.22 +Sample_NN7681 DUP chr8:145112111-145113982 1.87 chr8 145113046 59042..59049 8 23 60 60 27 17 2.97 63.83 +Sample_NN7681 DUP chr8:145541577-145542583 1.01 chr8 145542080 59145..59150 6 21 47 47 14 12 3.27 99.75 +Sample_NN7681 DEL chr9:117072829-117087432 14.60 chr9 117080130 62578..62583 6 7 99 99 7 11 -4.06 25.70 +Sample_NN7681 DEL chr10:124339094-124353114 14.02 chr10 124346104 70418..70426 9 8 99 99 5 10 -4.60 25.74 +Sample_NN7681 DUP chr11:64564454-64567688 3.23 chr11 64566071 75392..75400 9 6 87 87 32 6 3.04 88.59 +Sample_NN7681 DEL chr12:147946-149412 1.47 chr12 148679 79931..79932 2 20 43 43 20 21 -6.33 24.52 +Sample_NN7681 DUP chr15:75580599-75581824 1.23 chr15 75581211 97824..97825 2 19 42 42 4 8 6.37 71.09 +Sample_NN7681 DUP chr16:109247-111694 2.45 chr16 110470 99280..99287 8 38 59 59 8 3 2.93 76.97 +Sample_NN7681 DEL chr16:14988855-15123913 135.06 chr16 15056384 101197..101213 17 7 99 99 5 27 -4.32 22.53 +Sample_NN7681 DUP chr16:69984810-69996970 12.16 chr16 69990890 104856..104859 4 38 41 41 21 17 4.03 60.98 +Sample_NN7681 DEL chr16:74442531-74447574 5.04 chr16 74445052 105291..105297 7 27 98 99 5 14 -3.83 55.93 +Sample_NN7681 DEL chr19:43708038-43763287 55.25 chr19 43735662 125407..125410 4 58 99 99 22 17 -5.62 0.06 +Sample_NN7681 DUP chr19:55249974-55267601 17.63 chr19 55258787 128018..128022 5 7 33 33 10 5 3.32 42.84 +Sample_NN7681 DEL chr19:55315346-55361964 46.62 chr19 55338655 128025..128034 10 6 80 80 6 20 -2.83 8.91 +Sample_NN7681 DUP chr21:45959068-46032871 73.80 chr21 45995969 134150..134159 10 20 40 40 19 4 2.53 170.93 +Sample_NN7681 DEL chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 10 38 38 10 29 -4.59 38.39 +Sample_NN7681 DEL chr22:20383731-20393604 9.87 chr22 20388667 134919..134923 5 15 96 97 9 4 -4.34 6.57 +Sample_NN7681 DUP chr22:24347142-24384284 37.14 chr22 24365713 135355..135361 7 8 99 99 7 16 3.99 41.53 +Sample_NN7681 DUP chr22:50960170-50960998 0.83 chr22 50960584 138221..138225 5 37 65 65 9 8 3.87 114.49 +Sample_NN7681 DUP chrX:103267742-103294971 27.23 chrX 103281356 140820..140821 2 28 38 38 26 20 6.20 60.99 +Sample_NN7682 DUP chr1:16975251-17090975 115.72 chr1 17033113 1967..1986 20 25 99 99 4 15 3.50 110.55 +Sample_NN7682 DUP chr2:114341230-114358421 17.19 chr2 114349825 19699..19708 10 8 95 96 44 7 2.93 92.33 +Sample_NN7682 DUP chr2:130807389-130897669 90.28 chr2 130852529 20145..20151 7 50 99 99 22 8 4.13 97.36 +Sample_NN7682 DEL chr2:240981231-240985489 4.26 chr2 240983360 24411..24412 2 22 35 35 35 9 -5.99 111.30 +Sample_NN7682 DUP chr3:48607313-48609854 2.54 chr3 48608583 27146..27156 11 5 99 99 4 11 2.96 131.20 +Sample_NN7682 DUP chr3:48616802-48617777 0.98 chr3 48617289 27184..27189 6 10 32 32 31 10 3.08 136.55 +Sample_NN7682 DUP chr3:48619139-48620086 0.95 chr3 48619612 27196..27200 5 9 50 50 30 6 3.65 156.77 +Sample_NN7682 DUP chr5:68856051-68856073 0.02 chr5 68856062 38765..38765 1 30 30 30 7 11 10.00 112.09 +Sample_NN7682 DEL chr5:140552243-140560019 7.78 chr5 140556131 40600..40601 2 28 31 31 26 30 -6.08 75.57 +Sample_NN7682 DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 56 99 99 22 22 5.57 131.99 +Sample_NN7682 DEL chr8:11979496-12008698 29.20 chr8 11994097 55311..55314 4 34 99 99 39 0 -6.24 21.34 +Sample_NN7682 DUP chr8:12039614-12250923 211.31 chr8 12145268 55315..55320 6 10 75 99 0 32 5.43 98.31 +Sample_NN7682 DEL chr10:124344787-124353114 8.33 chr10 124348950 70420..70426 7 23 99 99 18 27 -4.98 33.43 +Sample_NN7682 DUP chr11:60970984-60978907 7.92 chr11 60974945 74466..74468 3 22 63 63 17 18 5.28 66.94 +Sample_NN7682 DUP chr12:6645850-6647536 1.69 chr12 6646693 80521..80526 6 7 44 44 7 23 3.22 79.29 +Sample_NN7682 DUP chr12:8376045-8385203 9.16 chr12 8380624 80972..80976 5 31 99 99 26 6 6.78 120.50 +Sample_NN7682 DUP chr12:9447028-9456803 9.78 chr12 9451915 81112..81121 10 6 88 88 31 5 2.89 60.32 +Sample_NN7682 DEL chr12:9580229-9600768 20.54 chr12 9590498 81143..81151 9 17 99 99 3 17 -3.13 42.95 +Sample_NN7682 DUP chr12:124114944-124191620 76.68 chr12 124153282 87425..87445 21 16 99 99 9 13 3.00 55.13 +Sample_NN7682 DUP chr14:19558991-20404761 845.77 chr14 19981876 90040..90047 8 12 99 99 27 14 3.91 62.97 +Sample_NN7682 DEL chr15:20743914-21134625 390.71 chr15 20939269 94345..94354 10 19 99 99 91 25 -3.48 18.53 +Sample_NN7682 DEL chr15:22332388-22414393 82.01 chr15 22373390 94360..94366 7 23 99 99 30 23 -4.34 36.15 +Sample_NN7682 DUP chr15:41828699-41871526 42.83 chr15 41850112 95367..95387 21 6 99 99 6 21 2.69 69.48 +Sample_NN7682 DUP chr16:21415918-21475063 59.15 chr16 21445490 101741..101744 4 16 33 33 29 8 3.92 57.72 +Sample_NN7682 DEL chr16:74442531-74452196 9.67 chr16 74447363 105291..105298 8 12 42 42 8 18 -2.75 69.39 +Sample_NN7682 DUP chr17:14095306-14139747 44.44 chr17 14117526 108884..108887 4 16 41 41 15 17 4.05 124.91 +Sample_NN7682 DUP chr17:16733797-16736147 2.35 chr17 16734972 109047..109050 4 25 42 42 27 25 3.91 93.36 +Sample_NN7682 DUP chr19:40389652-40398510 8.86 chr19 40394081 124714..124718 5 6 81 87 6 16 4.20 66.78 +Sample_NN7682 DUP chr19:50463394-50464429 1.04 chr19 50463911 127079..127081 3 6 76 99 5 0 6.84 118.82 +Sample_NN7682 DEL chr19:50473069-50473627 0.56 chr19 50473348 127082..127083 2 99 99 99 1 17 -10.00 59.03 +Sample_NN7682 DEL chr21:10933852-10944787 10.94 chr21 10939319 132959..132964 6 9 38 38 19 5 -3.12 53.11 +Sample_NN7682 DUP chr22:24347142-24394849 47.71 chr22 24370995 135355..135362 8 5 99 99 4 4 4.95 51.68 +Sample_NN7682 DUP chr22:25041133-25045989 4.86 chr22 25043561 135493..135498 6 20 96 97 18 25 3.90 163.19 +Sample_NN7682 DUP chrX:8095006-8139308 44.30 chrX 8117157 138390..138392 3 6 46 46 6 31 4.80 69.44 +Sample_NN7715 DEL chr1:16383364-16390131 6.77 chr1 16386747 1857..1863 7 15 75 75 39 14 -3.27 39.08 +Sample_NN7715 DEL chr1:16914220-16955145 40.93 chr1 16934682 1953..1965 13 5 99 99 5 27 -2.80 106.18 +Sample_NN7715 DUP chr1:17086647-17090975 4.33 chr1 17088811 1984..1986 3 27 91 91 6 23 5.89 168.96 +Sample_NN7715 DEL chr1:40229361-40230489 1.13 chr1 40229925 4706..4708 3 24 41 41 23 9 -4.78 29.46 +Sample_NN7715 DUP chr2:97749324-97849391 100.07 chr2 97799357 18961..18980 20 17 99 99 28 7 2.94 63.65 +Sample_NN7715 DEL chr3:195390957-195456610 65.65 chr3 195423783 32790..32800 11 7 98 99 3 13 -3.04 48.21 +Sample_NN7715 DEL chr3:195701268-195711608 10.34 chr3 195706438 32844..32850 7 36 84 84 3 6 -3.40 51.34 +Sample_NN7715 DEL chr6:304628-351353 46.73 chr6 327990 42799..42805 7 12 99 99 5 12 -5.06 36.17 +Sample_NN7715 DUP chr7:102191679-102257205 65.53 chr7 102224442 52453..52456 4 10 40 40 6 24 3.91 47.73 +Sample_NN7715 DEL chr7:142478757-142482397 3.64 chr7 142480577 54061..54064 4 57 99 99 5 25 -8.40 7.58 +Sample_NN7715 DUP chr7:143883677-144069850 186.17 chr7 143976763 54230..54235 6 15 54 54 16 15 3.50 56.41 +Sample_NN7715 DUP chr8:7718168-8094797 376.63 chr8 7906482 55183..55191 9 25 53 53 25 4 2.93 93.31 +Sample_NN7715 DEL chr8:12245467-12286407 40.94 chr8 12265937 55318..55321 4 30 98 99 7 21 -5.20 24.67 +Sample_NN7715 DEL chr9:117085943-117087432 1.49 chr9 117086687 62580..62583 4 24 46 46 6 9 -4.08 47.00 +Sample_NN7715 DUP chr10:27225666-27230930 5.26 chr10 27228298 66314..66315 2 90 99 99 32 20 8.62 163.88 +Sample_NN7715 DEL chr11:60906209-61018913 112.70 chr11 60962561 74465..74472 8 3 99 99 11 4 -3.51 42.41 +Sample_NN7715 DUP chr12:31244653-31249679 5.03 chr12 31247166 81835..81841 7 7 57 57 4 6 3.11 96.53 +Sample_NN7715 DEL chr13:24465429-24468340 2.91 chr13 24466884 88167..88170 4 59 99 99 23 20 -5.21 23.11 +Sample_NN7715 DUP chr15:20771427-20776177 4.75 chr15 20773802 94346..94349 4 25 31 31 25 10 3.82 53.87 +Sample_NN7715 DEL chr15:102462345-102516807 54.46 chr15 102489576 99266..99269 4 18 99 99 15 66 -5.27 19.03 +Sample_NN7715 DEL chr16:28606871-28607255 0.39 chr16 28607063 102274..102275 2 17 40 40 9 21 -6.41 65.87 +Sample_NN7715 DUP chr16:55844839-55860207 15.37 chr16 55852523 103456..103463 8 12 83 83 4 5 3.16 62.26 +Sample_NN7715 DEL chr16:70162687-70195184 32.50 chr16 70178935 104882..104895 14 26 99 99 12 37 -3.33 36.32 +Sample_NN7715 DEL chr16:74394531-74452196 57.67 chr16 74423363 105289..105298 10 12 99 99 4 22 -4.39 60.36 +Sample_NN7715 DEL chr17:14139175-14139747 0.57 chr17 14139461 108886..108887 2 59 59 59 17 4 -7.08 63.56 +Sample_NN7715 DUP chr17:16701556-16736147 34.59 chr17 16718851 109044..109050 7 4 98 99 4 25 5.23 91.28 +Sample_NN7715 DEL chr17:18380099-18430160 50.06 chr17 18405129 109355..109365 11 9 53 53 13 9 -2.51 40.61 +Sample_NN7715 DEL chr17:20355108-20363756 8.65 chr17 20359432 109567..109571 5 4 46 46 8 4 -3.49 12.08 +Sample_NN7715 DUP chr17:39535208-39538636 3.43 chr17 39536922 111348..111353 6 25 99 99 3 24 5.19 86.57 +Sample_NN7715 DUP chr19:7051052-7056914 5.86 chr19 7053983 119917..119918 2 31 31 31 17 30 6.00 71.31 +Sample_NN7715 DUP chr19:40391998-40398510 6.51 chr19 40395254 124715..124718 4 55 99 99 6 10 7.21 88.62 +Sample_NN7715 DEL chr19:52133552-52149893 16.34 chr19 52141722 127512..127516 5 33 99 99 33 9 -5.43 1.56 +Sample_NN7715 DUP chr19:54802483-54803978 1.50 chr19 54803230 127897..127900 4 53 99 99 8 23 5.60 90.64 +Sample_NN7715 DUP chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 13 69 69 60 13 5.39 112.23 +Sample_NN7715 DEL chr22:20383731-20398336 14.61 chr22 20391033 134919..134925 7 26 70 70 25 12 -3.23 17.43 +Sample_NN7716 DUP chr1:16348486-16360544 12.06 chr1 16354515 1819..1837 19 18 99 99 10 18 4.96 80.69 +Sample_NN7716 DUP chr1:16918342-16972173 53.83 chr1 16945257 1955..1966 12 36 99 99 14 18 4.06 159.22 +Sample_NN7716 DEL chr1:17085298-17090975 5.68 chr1 17088136 1980..1986 7 35 99 99 29 30 -4.48 97.15 +Sample_NN7716 DUP chr1:161483685-161578341 94.66 chr1 161531013 11046..11056 11 2 99 99 5 3 3.16 70.34 +Sample_NN7716 DUP chr2:233272555-233273548 0.99 chr2 233273051 23911..23913 3 34 42 42 4 11 4.81 104.70 +Sample_NN7716 DEL chr3:195390495-195479317 88.82 chr3 195434906 32789..32805 17 2 98 99 9 2 -4.15 39.83 +Sample_NN7716 DEL chr3:195701268-195711608 10.34 chr3 195706438 32844..32850 7 4 31 31 4 23 -2.83 54.06 +Sample_NN7716 DUP chr6:35754775-35765102 10.33 chr6 35759938 44052..44056 5 30 84 84 26 19 4.17 127.57 +Sample_NN7716 DEL chr8:7153153-7308721 155.57 chr8 7230937 55171..55181 11 13 99 99 12 10 -3.46 21.10 +Sample_NN7716 DUP chr8:11979496-12008698 29.20 chr8 11994097 55311..55314 4 26 99 99 12 4 5.52 85.01 +Sample_NN7716 DEL chr8:12245467-12287960 42.49 chr8 12266713 55318..55322 5 10 99 99 6 3 -4.50 38.95 +Sample_NN7716 DUP chr10:27225666-27230930 5.26 chr10 27228298 66314..66315 2 58 82 82 17 29 7.78 168.69 +Sample_NN7716 DEL chr12:8376045-8385203 9.16 chr12 8380624 80972..80976 5 5 39 39 5 37 -3.45 66.09 +Sample_NN7716 DEL chr12:9436253-9456803 20.55 chr12 9446528 81110..81121 12 5 99 99 25 5 -2.81 27.61 +Sample_NN7716 DUP chr15:21134526-21134625 0.10 chr15 21134575 94354..94354 1 32 32 32 7 7 9.97 110.00 +Sample_NN7716 DEL chr15:23299681-23300167 0.49 chr15 23299924 94425..94426 2 58 59 59 3 6 -6.92 120.21 +Sample_NN7716 DEL chr15:43888606-43941039 52.43 chr15 43914822 95831..95857 27 5 99 99 27 5 -2.81 18.91 +Sample_NN7716 DUP chr15:75557463-75557765 0.30 chr15 75557614 97820..97821 2 33 36 36 25 7 6.19 72.77 +Sample_NN7716 DUP chr15:78206559-78208271 1.71 chr15 78207415 98002..98005 4 12 78 78 14 12 4.72 181.29 +Sample_NN7716 DUP chr16:1290678-1291700 1.02 chr16 1291189 99714..99716 3 32 33 33 1 32 4.71 132.97 +Sample_NN7716 DEL chr16:70162687-70195184 32.50 chr16 70178935 104882..104895 14 10 31 31 15 9 -2.20 36.77 +Sample_NN7716 DEL chr16:70714697-70714928 0.23 chr16 70714812 105025..105026 2 98 99 99 32 24 -9.90 45.77 +Sample_NN7716 DEL chr16:74394531-74452196 57.67 chr16 74423363 105289..105298 10 8 99 99 3 17 -4.38 53.92 +Sample_NN7716 DUP chr16:75562430-75576581 14.15 chr16 75569505 105406..105411 6 25 42 42 22 23 3.21 67.89 +Sample_NN7716 DEL chr17:14095306-14140150 44.84 chr17 14117728 108884..108888 5 14 37 37 27 14 -3.41 76.93 +Sample_NN7716 DEL chr17:16691249-16736147 44.90 chr17 16713698 109040..109050 11 33 98 99 10 35 -4.32 33.03 +Sample_NN7716 DUP chr17:18380099-18430160 50.06 chr17 18405129 109355..109365 11 5 60 60 14 4 2.55 71.73 +Sample_NN7716 DUP chr17:48270001-48271987 1.99 chr17 48270994 112943..112949 7 17 34 34 18 22 2.89 134.17 +Sample_NN7716 DEL chr17:61950539-61951089 0.55 chr17 61950814 113912..113913 2 57 58 58 20 13 -7.04 67.18 +Sample_NN7716 DUP chr19:50473069-50473627 0.56 chr19 50473348 127082..127083 2 75 87 87 37 26 8.17 174.41 +Sample_NN7716 DUP chr19:54724025-54746724 22.70 chr19 54735374 127861..127869 9 86 99 99 24 17 7.89 92.88 +Sample_NN7716 DEL chr19:54801927-54803978 2.05 chr19 54802952 127896..127900 5 90 99 99 26 17 -9.58 0.40 +Sample_NN7716 DEL chr22:16256332-16279301 22.97 chr22 16267816 134510..134512 3 27 72 72 52 7 -5.45 33.76 +Sample_NN7716 DEL chr22:18766903-18778742 11.84 chr22 18772822 134658..134660 3 99 99 99 35 25 -8.22 30.04 +Sample_NN7716 DUP chrX:52661841-52683950 22.11 chrX 52672895 139641..139647 7 21 99 99 21 29 3.83 66.27 +Sample_NN7716 DUP chrX:103217200-103294971 77.77 chrX 103256085 140819..140821 3 26 73 73 25 38 5.62 102.89 diff --git a/intro-unix-command-line/README.md b/intro-unix-command-line/README.md index 601769e..12407a7 100644 --- a/intro-unix-command-line/README.md +++ b/intro-unix-command-line/README.md @@ -2,3 +2,5 @@ [Link to wiki page](https://github.com/gladstone-institutes/Bioinformatics-Workshops/wiki/Introduction-to-Unix-Command-Line) ### Description of files +* Slides in PDF +* Data files diff --git a/intro-unix-command-line/XHMM_results.tar.bz2 b/intro-unix-command-line/XHMM_results.tar.bz2 new file mode 100644 index 0000000..28e8f4d Binary files /dev/null and b/intro-unix-command-line/XHMM_results.tar.bz2 differ diff --git a/intro-unix-command-line/data.tar.gz b/intro-unix-command-line/data.tar.gz new file mode 100644 index 0000000..33e05c1 Binary files /dev/null and b/intro-unix-command-line/data.tar.gz differ diff --git a/whole-genome-analysis/script.sh b/whole-genome-analysis/script.sh new file mode 100644 index 0000000..4040dc9 --- /dev/null +++ b/whole-genome-analysis/script.sh @@ -0,0 +1,134 @@ +# analysis.sh +# C: Jul 8, 2019 +# M: Feb 26, 2020 +# A: Leandro Lima + + +######################################## +## Variables with tools and databases ## +######################################## + + +REF_GENOME=/root/resources/chr19.fa +DATA_DIR=/root/data/ +GATK_DIR=/root/tools/GenomeAnalysisTK-3.8-1-0 + + +############# +## Mapping ## +############# + + +cd /root/analysis + + +# BWA - http://bio-bwa.sourceforge.net/bwa.shtml + +bwa mem $REF_GENOME $DATA_DIR/patient3.1.fastq.gz $DATA_DIR/patient3.2.fastq.gz > patient3.sam +bwa mem $REF_GENOME $DATA_DIR/patient4.1.fastq.gz $DATA_DIR/patient4.2.fastq.gz > patient4.sam +bwa mem $REF_GENOME $DATA_DIR/patient5.1.fastq.gz $DATA_DIR/patient5.2.fastq.gz > patient5.sam + + +# Picard - https://broadinstitute.github.io/picard/command-line-overview.html#Overview + +# SAM to BAM, with read group information +for pat_id in patient3 patient4 patient5; do + java -jar /root/tools/picard.jar AddOrReplaceReadGroups \ + I=$pat_id.sam \ + O=$pat_id.bam \ + RGID=4 \ + RGLB=lib1 \ + RGPL=illumina \ + RGPU=unit1 \ + RGSM=$pat_id +done + + +# Samtools - http://www.htslib.org/doc/samtools.html + +# Sort +samtools sort patient3.bam -o patient3.sort.bam +samtools sort patient4.bam -o patient4.sort.bam +samtools sort patient5.bam -o patient5.sort.bam + +# Create index +samtools index patient3.sort.bam +samtools index patient4.sort.bam +samtools index patient5.sort.bam + + + +# Check file sizes +ls -lh + +# Remove SAM file + +# Check some flags (number of mapped/unmapped reads, etc.) + + +##################### +## Variant Calling ## +##################### + + +# GATK Haplotype Caller - https://gatk.broadinstitute.org/hc/en-us/articles/360037225632-HaplotypeCaller + +GATK_DIR=/root/tools/GenomeAnalysisTK-3.8-1-0 + +for pat_id in patient3 patient4 patient5; do + java -jar $GATK_DIR/GenomeAnalysisTK.jar \ + -T HaplotypeCaller \ + -R $REF_GENOME \ + -I $pat_id.sort.bam \ + -o $pat_id.gatk.g.vcf \ + --emitRefConfidence GVCF +done + + +# GATK Joint Genotyping +java -jar $GATK_DIR/GenomeAnalysisTK.jar \ + -T GenotypeGVCFs \ + -R $REF_GENOME \ + --variant patient3.gatk.g.vcf \ + --variant patient4.gatk.g.vcf \ + --variant patient5.gatk.g.vcf \ + -o all_patients.vcf + + +################ +## Annotation ## +################ + + +# snpEff - http://snpeff.sourceforge.net/SnpEff_manual.html + +SNPEFF_DIR=/root/tools/snpEff +# snpEff +java -Xmx4g -jar $SNPEFF_DIR/snpEff.jar \ + -v -stats all_patients.html \ + GRCh38.86 all_patients.vcf > all_patients.ann.vcf + +# Adding ID field from dbSNP +java -jar $SNPEFF_DIR/SnpSift.jar annotate \ + -id /root/resources/dbSNP_chr19.vcf.gz \ + all_patients.ann.vcf > all_patients.dbSnp.vcf + +rm all_patients.ann.vcf + + +################### +## APOE analysis ## +################### + + +# SnpSift extractFields - http://snpeff.sourceforge.net/SnpSift.html#Extract + +# Extracting gene name, rsID and genotypes +cat all_patients.dbSnp.vcf | grep CHROM | cut -f1-5,8,10- > APOE_status.txt +java -jar /root/tools/snpEff/SnpSift.jar \ + extractFields \ + all_patients.dbSnp.vcf \ + CHROM POS ID REF ALT EFF[0].GENE GEN[*].GT \ + | grep -E 'rs429358|rs7412' >> APOE_status.txt + +column -t APOE_status.txt