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dantaki / SV2

Support Vector Structural Variation Genotyper
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genotyping error - sklearn: NotFittedError: This SVC instance is not fitted yet #1

Closed amaiacc closed 7 years ago

amaiacc commented 7 years ago

Hi,

I'm running SV2 (v 1.2) on some human WGS samples, but I keep getting this error (copied below).

The txt file is generated, but no vcf. I tried different callsets in vcf and bed formats, and I was able to get the vcf output for some runs but not others.

My sklearn version is: 0.0, scikit-learn v 0.18.1.

Any help is really appreciated.

Thanks,

amaia

/usr/local/apps/python-2.7.11/lib/python2.7/site-packages/sklearn/base.py:315: UserWarning: Trying to unpickle estimator SVC from version pre-0.18 when using version 0.18.1. This might lead to breaking code or invalid results. Use at your own risk.
  UserWarning)
Traceback (most recent call last):
  File "shared_spaces/Resource_DB/sv2/sv2", line 4, in <module>
    main()
  File "shared_spaces/Resource_DB/sv2/src/sv2.py", line 119, in main
    genos,REF,NON,GQ,HEMI,STD_FILT,DNM_FILT = genotype(raw,feats,gender_dict,gen,ofh.replace('.vcf','.txt'))
  File "src/core.pyx", line 915, in src.core.genotype (src/core.c:34542)
  File "src/core.pyx", line 1080, in src.core.sexchr_del_svm (src/core.c:40710)
  File "/usr/local/apps/python-2.7.11/lib/python2.7/site-packages/sklearn/svm/base.py", line 619, in _predict_proba
    X = self._validate_for_predict(X)
  File "/usr/local/apps/python-2.7.11/lib/python2.7/site-packages/sklearn/svm/base.py", line 457, in _validate_for_predict
    check_is_fitted(self, 'support_')
  File "/usr/local/apps/python-2.7.11/lib/python2.7/site-packages/sklearn/utils/validation.py", line 690, in check_is_fitted
    raise _NotFittedError(msg % {'name': type(estimator).__name__})
sklearn.exceptions.NotFittedError: This SVC instance is not fitted yet. Call 'fit' with appropriate arguments before using this method.
dantaki commented 7 years ago

Hi amaia,

Thanks for opening an issue. I think the error is shown here

UserWarning: Trying to unpickle estimator SVC from version pre-0.18 when using version 0.18.1. This might lead to breaking code or invalid results. Use at your own risk

Thanks for bringing this to my attention. It seems I created the models with an older version of scikit-learn (Version: 0.17)

Could you try pip install -I scikit-learn==0.17 and see if this resolves the issue?

I'll have to retrain the models with the most recent version of scikit-learn sometime in the future. Training does take a few hours to complete, this is why I packaged .pkl files instead to speed up the genotyping process.

Please let me know if this resolves the issue.

Thanks!

Danny

amaiacc commented 7 years ago

Hi Danny, Thanks for the prompt reply. I got scikit-learn v 0.17 and it seems to work now (tested one chromosome only, but got no warning, and .txt + .vcf output). Thanks! amaia

dantaki commented 7 years ago

Thanks for the reply!

amaiacc commented 7 years ago

Hi Danny,

Unfortunately I got the same error when I tried to run SV2 on all the chromosomes. I then ran it per chromosomes, and found out the error occurs only on the sex chromosomes (both X and Y).

The error message is the same, copied below. I also attach the txt output I got for chromsome Y in case it could be of any use.

Thanks again,

amaia

PREPROCESSING COMPLETE <time elapsed: 0:00:00>

FEATURE EXTRACTION COMPLETE <time elapsed: 0:00:00>

Traceback (most recent call last): File "/data/corpora/MPI_workspace/lag/shared_spaces/Resource_DB/sv2/sv2", line 4, in main() File "/data/corpora/MPI_workspace/lag/shared_spaces/Resource_DB/sv2/src/sv2.py", line 119, in main genos,REF,NON,GQ,HEMI,STD_FILT,DNM_FILT = genotype(raw,feats,gender_dict,gen,ofh.replace('.vcf','.txt')) File "src/core.pyx", line 915, in src.core.genotype (src/core.c:34542) File "src/core.pyx", line 1080, in src.core.sexchr_del_svm (src/core.c:40710) File "/home/amacar/.local/lib/python2.7/site-packages/sklearn/svm/base.py", line 614, in _predict_proba X = self._validate_for_predict(X) File "/home/amacar/.local/lib/python2.7/site-packages/sklearn/svm/base.py", line 452, in _validate_for_predict check_isfitted(self, 'support') File "/home/amacar/.local/lib/python2.7/site-packages/sklearn/utils/validation.py", line 678, in check_is_fitted raise NotFittedError(msg % {'name': type(estimator).name}) sklearn.utils.validation.NotFittedError: This SVC instance is not fitted yet. Call 'fit' with appropriate arguments before using this method.

2017-06-01 17:19 GMT+02:00 Danny Antaki notifications@github.com:

Thanks for the reply!

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/dantaki/SV2/issues/1#issuecomment-305526657, or mute the thread https://github.com/notifications/unsubscribe-auth/APGbb1DIKg372XZ3MzJAdh2nmslQrdAAks5r_taVgaJpZM4NrbuK .

CHROM START END LENGTH TYPE ID COVERAGE DISCORDANT_PAIRED-END SPLIT_READS SNP_COVERAGE SNPs HETEROZYGOUS_ALLELIC_DEPTH_RATIO HETEROZYGOUS_SNPs COPY_NUMBER GTL_HOM-ALT GTL_HET GTL_HOM-REF GTL_ALT PHRED_REF PHRED_ALT CLASSIFIER

chrY 6670651 6672400 1750 DEL 439 0.171 0.0 0.0 nan 0 nan 0 0 0.987186831692 0.00474241532645 0.00807075298155 0.991929247018 0.0351930438344 20.9308594477 DEL_gt1KB chrY 6670651 6672400 1750 DEL 469 0.178 0.0 0.0 nan 0 nan 0 0 0.988611767247 0.00384500080341 0.00754323195 0.99245676805 0.0328840225377 21.2244253778 DEL_gt1KB chrY 6670651 6672400 1750 DEL t0_612 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 6670651 6672400 1750 DEL 462 0.204 0.0 0.0 nan 0 nan 0 0 0.984677048688 0.00869806959456 0.00662488171736 0.993375118283 0.0288672226296 21.7882187135 DEL_gt1KB chrY 6670651 6672400 1750 DEL t0_574 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 6670651 6672400 1750 DEL t0_585 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 6670651 6672400 1750 DEL 428 0.244 0.0 0.0 nan 0 nan 0 0 0.954098601439 0.0387862745609 0.00711512400042 0.992884876 0.0310110459283 21.4781752675 DEL_gt1KB chrY 6670651 6672400 1750 DEL 450 0.177 0.0 0.0 nan 0 nan 0 0 0.988671907797 0.00373837310772 0.00758971909491 0.992410280905 0.0330874528937 21.1977429759 DEL_gt1KB chrY 6670651 6672400 1750 DEL 706 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 6670651 6672400 1750 DEL 701 0.248 0.0 0.0 nan 0 nan 0 0 0.947156031107 0.0454705566385 0.00737341225456 0.992626587745 0.032140962992 21.323314836 DEL_gt1KB chrY 6670651 6672400 1750 DEL t0_444 0.479 0.0 0.0 nan 0 nan 0 1 0.0266098582519 0.969757712896 0.00363242885224 0.996367571148 0.0158041592153 24.398028834 DEL_gt1KB chrY 6670651 6672400 1750 DEL t0_387 0.541 0.0 0.0 nan 0 nan 0 1 0.026215377519 0.969411398059 0.0043732244218 0.995626775578 0.0190343234318 23.5919823529 DEL_gt1KB chrY 6670651 6672400 1750 DEL t0_654 0.418 0.0 0.0 nan 0 nan 0 1 0.0548410061366 0.938711385276 0.00644760858791 0.993552391412 0.0280922699276 21.9060133492 DEL_gt1KB chrY 6670651 6672400 1750 DEL t0_397 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 6670651 6672400 1750 DEL 723 0.185 0.0 0.0 nan 0 nan 0 0 0.988046789983 0.00471556069029 0.00723764932717 0.992762350673 0.0315470129688 21.4040246281 DEL_gt1KB chrY 6670651 6672400 1750 DEL t0_473 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 6670651 6672400 1750 DEL t0_519 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 6670651 6672400 1750 DEL t0_543 0.043 0.0 0.0 nan 0 nan 0 0 0.979168594014 0.00343039395015 0.0174010120359 0.982598987964 0.0762368750612 17.5942549259 DEL_gt1KB chrY 6670651 6672400 1750 DEL t0_474 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 6670651 6672400 1750 DEL t0_552 0.221 0.0 0.0 nan 0 nan 0 0 0.977567719764 0.015978884783 0.00645339545276 0.993546604547 0.0281175651291 21.9021172127 DEL_gt1KB chrY 8094301 8095650 1350 DEL 723 0.104 0.0 0.0 nan 0 nan 0 0 0.984363900749 0.00322195813445 0.0124141411165 0.987585858884 0.0542513730311 19.0608332212 DEL_gt1KB chrY 8094301 8095650 1350 DEL 450 0.093 0.0 0.0 nan 0 nan 0 0 0.983551262711 0.00322219503787 0.0132265422514 0.986773457749 0.057825406865 18.785536764 DEL_gt1KB chrY 8094301 8095650 1350 DEL t0_552 0.27 0.0 0.0 nan 0 nan 0 0 0.889569122357 0.10114358678 0.00928729086271 0.990712709137 0.040522657217 20.3211095285 DEL_gt1KB chrY 8094301 8095650 1350 DEL t0_654 0.847 0.0 0.0 nan 0 nan 0 2 0.000376871823374 0.0247339980082 0.974889130168 0.0251108698316 16.0013824322 0.11044771885 DEL_gt1KB chrY 8094301 8095650 1350 DEL t0_387 0.528 0.0 0.0 nan 0 nan 0 1 0.0251418366295 0.971030159568 0.00382800380268 0.996171996197 0.016656710637 24.1702763947 DEL_gt1KB chrY 8094301 8095650 1350 DEL 428 0.377 0.0 0.0 nan 0 nan 0 1 0.137333595127 0.851672336411 0.0109940684619 0.989005931538 0.0480110372483 19.5884156294 DEL_gt1KB chrY 8094301 8095650 1350 DEL 706 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 8094301 8095650 1350 DEL t0_444 0.665 0.0 0.0 nan 0 nan 0 1 0.0272922807463 0.872991433528 0.0997162857255 0.900283714275 0.456206059753 10.0123390665 DEL_gt1KB chrY 8094301 8095650 1350 DEL t0_612 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 8094301 8095650 1350 DEL 701 0.218 0.0 0.0 nan 0 nan 0 0 0.97924660311 0.0143027891958 0.00645060769382 0.993549392306 0.0281053794237 21.9039936976 DEL_gt1KB chrY 8094301 8095650 1350 DEL t0_474 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 8094301 8095650 1350 DEL t0_574 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 8094301 8095650 1350 DEL 462 0.072 0.0 0.0 nan 0 nan 0 0 0.98186729276 0.00327217976757 0.0148605274722 0.985139472528 0.0650227928799 18.2796577508 DEL_gt1KB chrY 8094301 8095650 1350 DEL t0_543 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 8094301 8095650 1350 DEL t0_519 0.039 0.0 0.0 nan 0 nan 0 0 0.978748674069 0.00346181430802 0.0177895116225 0.982210488378 0.0779543263553 17.4983597449 DEL_gt1KB chrY 8094301 8095650 1350 DEL 469 0.093 0.0 0.0 nan 0 nan 0 0 0.983551262711 0.00322219503787 0.0132265422514 0.986773457749 0.057825406865 18.785536764 DEL_gt1KB chrY 8094301 8095650 1350 DEL t0_397 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 8094301 8095650 1350 DEL 439 0.171 0.0 0.0 nan 0 nan 0 0 0.987186831692 0.00474241532645 0.00807075298155 0.991929247018 0.0351930438344 20.9308594477 DEL_gt1KB chrY 8094301 8095650 1350 DEL t0_473 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 8094301 8095650 1350 DEL t0_585 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 8480601 9026900 546300 DEL t0_444 0.561 0.0 0.0 nan 0 nan 0 1 0.0288481157548 0.965075430795 0.00607645344988 0.99392354655 0.0264702062118 22.1634982476 DEL_gt1KB chrY 8480601 9026900 546300 DEL t0_473 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 8480601 9026900 546300 DEL 706 0.002 0.0 0.0 nan 0 nan 0 0 0.973989405033 0.00392808729786 0.0220825076694 0.977917492331 0.0969778543437 16.5595161006 DEL_gt1KB chrY 8480601 9026900 546300 DEL t0_397 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 8480601 9026900 546300 DEL 439 0.873 0.0 0.0 nan 0 nan 0 2 0.000186877348882 0.0160244223626 0.983788700289 0.0162112997115 17.9018216499 0.070981700167 DEL_gt1KB chrY 8480601 9026900 546300 DEL t0_574 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 8480601 9026900 546300 DEL 462 0.92 0.0 0.0 nan 0 nan 0 2 9.84521426498e-05 0.0102809703556 0.989620577502 0.0103794224982 19.8382680957 0.0453128285896 DEL_gt1KB chrY 8480601 9026900 546300 DEL t0_474 0.02 0.0 0.0 nan 0 nan 0 0 0.976531417978 0.00365512759846 0.019813454424 0.980186545576 0.0869126307843 17.0303979975 DEL_gt1KB chrY 8480601 9026900 546300 DEL t0_543 0.001 0.0 0.0 nan 0 nan 0 0 0.973832465545 0.00394654994967 0.0222209845054 0.977779015495 0.0975928753925 16.5323670346 DEL_gt1KB chrY 8480601 9026900 546300 DEL 701 0.876 0.0 0.0 nan 0 nan 0 2 0.000175273392171 0.0153770919147 0.984447634693 0.0155523653069 18.0820355123 0.0680738015426 DEL_gt1KB chrY 8480601 9026900 546300 DEL t0_612 0.001 0.0 0.0 nan 0 nan 0 0 0.973832465545 0.00394654994967 0.0222209845054 0.977779015495 0.0975928753925 16.5323670346 DEL_gt1KB chrY 8480601 9026900 546300 DEL t0_585 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 8480601 9026900 546300 DEL 428 0.916 0.0 0.0 nan 0 nan 0 2 0.000101141880457 0.0105078423428 0.989391015777 0.0106089842232 19.7432619644 0.0463203759048 DEL_gt1KB chrY 8480601 9026900 546300 DEL t0_387 0.569 0.0 0.0 nan 0 nan 0 1 0.0302052913955 0.962551326219 0.00724338238501 0.992756617615 0.0315720929143 21.4005858738 DEL_gt1KB chrY 8480601 9026900 546300 DEL 450 0.882 0.0 0.0 nan 0 nan 0 2 0.000155761477856 0.0142375455891 0.985606692933 0.014393307067 18.4183940926 0.0629635601771 DEL_gt1KB chrY 8480601 9026900 546300 DEL t0_519 0.008 0.0 0.0 nan 0 nan 0 0 0.974893888702 0.00382519209715 0.0212809192006 0.978719080799 0.0934194472999 16.7200961721 DEL_gt1KB chrY 8480601 9026900 546300 DEL 723 0.892 0.0 0.0 nan 0 nan 0 2 0.000131752036918 0.0127250580609 0.987143189902 0.0128568100978 18.9086677082 0.0561984624227 DEL_gt1KB chrY 8480601 9026900 546300 DEL t0_552 0.861 0.0 0.0 nan 0 nan 0 2 0.000250033179461 0.0192480589536 0.980501907867 0.019498092133 17.100078818 0.0855155694236 DEL_gt1KB chrY 8480601 9026900 546300 DEL t0_654 0.593 0.0 0.0 nan 0 nan 0 1 0.0348279775452 0.951278871266 0.0138931511888 0.986106848811 0.0607602488131 18.5719923816 DEL_gt1KB chrY 8480601 9026900 546300 DEL 469 0.913 0.0 0.0 nan 0 nan 0 2 0.000103519683543 0.0107006621407 0.989195818176 0.0108041818242 19.6640811566 0.047177282863 DEL_gt1KB chrY 9783901 9908550 124650 DEL t0_473 0.002 0.0 0.0 nan 0 nan 0 0 0.973989405033 0.00392808729786 0.0220825076694 0.977917492331 0.0969778543437 16.5595161006 DEL_gt1KB chrY 9783901 9908550 124650 DEL 701 0.85 0.0 0.0 nan 0 nan 0 2 0.000342974718641 0.0233626579509 0.97629436733 0.0237056326695 16.2514844949 0.104192163167 DEL_gt1KB chrY 9783901 9908550 124650 DEL t0_654 0.618 0.0 0.0 nan 0 nan 0 1 0.035321711213 0.936550774135 0.0281275146522 0.971872485348 0.123907129983 15.5086864041 DEL_gt1KB chrY 9783901 9908550 124650 DEL t0_552 0.854 0.0 0.0 nan 0 nan 0 2 0.000304086887476 0.021712144229 0.977983768883 0.0220162311165 16.5725702439 0.096683529249 DEL_gt1KB chrY 9783901 9908550 124650 DEL 439 0.843 0.0 0.0 nan 0 nan 0 2 0.000429566855699 0.0267619419706 0.972808491174 0.0271915088263 15.6556669323 0.119726473088 DEL_gt1KB chrY 9783901 9908550 124650 DEL 706 0.001 0.0 0.0 nan 0 nan 0 0 0.973832465545 0.00394654994967 0.0222209845054 0.977779015495 0.0975928753925 16.5323670346 DEL_gt1KB chrY 9783901 9908550 124650 DEL t0_474 0.02 0.0 0.0 nan 0 nan 0 0 0.976531417978 0.00365512759846 0.019813454424 0.980186545576 0.0869126307843 17.0303979975 DEL_gt1KB chrY 9783901 9908550 124650 DEL 462 0.858 0.0 0.0 nan 0 nan 0 2 0.00027127686542 0.0202432453491 0.979485477785 0.0205145222145 16.8793859335 0.0900199863238 DEL_gt1KB chrY 9783901 9908550 124650 DEL t0_387 0.627 0.0 0.0 nan 0 nan 0 1 0.0343901803971 0.930033240207 0.0355765793956 0.964423420604 0.157322515134 14.4883581064 DEL_gt1KB chrY 9783901 9908550 124650 DEL 469 0.867 0.0 0.0 nan 0 nan 0 2 0.000214655255769 0.017498020107 0.982287324637 0.0177126753628 17.5171583703 0.0776146002086 DEL_gt1KB chrY 9783901 9908550 124650 DEL t0_574 0.0 0.0 0.0 nan 0 nan 0 0 0.97367367515 0.00396540833597 0.0223609165144 0.977639083486 0.0982144478275 16.5051039985 DEL_gt1KB chrY 9783901 9908550 124650 DEL t0_397 0.002 0.0 0.0 nan 0 nan 0 0 0.973989405033 0.00392808729786 0.0220825076694 0.977917492331 0.0969778543437 16.5595161006 DEL_gt1KB chrY 9783901 9908550 124650 DEL t0_444 0.639 0.0 0.0 nan 0 nan 0 1 0.0324628213268 0.919107751245 0.0484294274286 0.951570572571 0.215589970335 13.148906655 DEL_gt1KB chrY 9783901 9908550 124650 DEL 723 0.834 0.0 0.0 nan 0 nan 0 2 0.000588735888694 0.0323132012127 0.967098062899 0.0329019371014 14.8277853221 0.145294866032 DEL_gt1KB chrY 9783901 9908550 124650 DEL t0_519 0.009 0.0 0.0 nan 0 nan 0 0 0.975038721422 0.00380928755066 0.0211519910274 0.978848008973 0.0928473821627 16.7464874642 DEL_gt1KB chrY 9783901 9908550 124650 DEL 450 0.841 0.0 0.0 nan 0 nan 0 2 0.00045961699299 0.027869820499 0.971670562508 0.028329437492 15.4776204873 0.124809543495 DEL_gt1KB chrY 9783901 9908550 124650 DEL t0_543 0.002 0.0 0.0 nan 0 nan 0 0 0.973989405033 0.00392808729786 0.0220825076694 0.977917492331 0.0969778543437 16.5595161006 DEL_gt1KB chrY 9783901 9908550 124650 DEL 428 0.897 0.0 0.0 nan 0 nan 0 2 0.000122781862336 0.0121190882625 0.987758129875 0.0122418701248 19.1215223229 0.0534938711307 DEL_gt1KB chrY 9783901 9908550 124650 DEL t0_585 0.001 0.0 0.0 nan 0 nan 0 0 0.973832465545 0.00394654994967 0.0222209845054 0.977779015495 0.0975928753925 16.5323670346 DEL_gt1KB chrY 9783901 9908550 124650 DEL t0_612 0.001 0.0 0.0 nan 0 nan 0 0 0.973832465545 0.00394654994967 0.0222209845054 0.977779015495 0.0975928753925 16.5323670346 DEL_gt1KB chrY 9914551 9917700 3150 DEL t0_387 1.82 0.0 0.0 1.203 11 nan 0 2 0.00167333372017 0.0185837273516 0.979742938928 0.0202570610718 16.9342356257 0.0888785782747 DEL_gt1KB chrY 9914551 9917700 3150 DEL 701 1.294 0.0 0.0 0.208 11 0.236 2 2 0.00146719978829 0.017788988818 0.980743811394 0.0192561886063 17.1542966898 0.0844442363792 DEL_gt1KB chrY 9914551 9917700 3150 DEL 428 1.39 0.0 0.0 0.343 11 nan 0 2 0.00166629216114 0.0178510218086 0.98048268603 0.0195173139698 17.0957995144 0.0856007096908 DEL_gt1KB chrY 9914551 9917700 3150 DEL 723 1.339 0.0 0.0 0.269 11 nan 0 2 0.00161272747968 0.0176572996159 0.980729972904 0.0192700270956 17.1511767468 0.0845055166228 DEL_gt1KB chrY 9914551 9917700 3150 DEL t0_444 1.623 0.01 0.0 1.032 11 0.25 1 2 0.00207837939024 0.0248917266349 0.973029893975 0.0269701060251 15.6911734624 0.118738168859 DEL_gt1KB chrY 9914551 9917700 3150 DEL 439 1.402 0.0 0.0 0.272 11 nan 0 2 0.00166744852003 0.0179298117865 0.980402739693 0.0195972603066 17.0780463869 0.0859548380095 DEL_gt1KB chrY 9914551 9917700 3150 DEL 462 1.339 0.0 0.0 0.361 11 nan 0 2 0.00161272747968 0.0176572996159 0.980729972904 0.0192700270956 17.1511767468 0.0845055166228 DEL_gt1KB chrY 9914551 9917700 3150 DEL t0_474 3.61 0.0 0.0 1.0 11 1.0 1 2 0.00466792994916 0.0178572217512 0.9774748483 0.0225251517003 16.4733227549 0.0989440875071 DEL_gt1KB chrY 9914551 9917700 3150 DEL t0_543 3.245 0.0 0.0 1.171 11 nan 0 2 0.00316675013659 0.019118385187 0.977714864676 0.0222851353236 16.5198472437 0.0978778197396 DEL_gt1KB chrY 9914551 9917700 3150 DEL t0_654 1.959 0.0 0.0 1.243 11 0.133 3 2 0.00167290449551 0.0185670723926 0.979760023112 0.0202399768881 16.9378998775 0.0888028492063 DEL_gt1KB chrY 9914551 9917700 3150 DEL 706 3.519 0.0 0.0 0.225 11 nan 0 2 0.00415796611365 0.018446661909 0.977395371977 0.0226046280226 16.4580263524 0.0992972171203 DEL_gt1KB chrY 9914551 9917700 3150 DEL t0_519 2.563 0.0 0.0 0.847 11 0.264 4 2 0.00168363357274 0.0185564234185 0.979759943009 0.0202400569913 16.9378826896 0.0888032042765 DEL_gt1KB chrY 9914551 9917700 3150 DEL 469 1.387 0.0 0.0 0.272 11 nan 0 2 0.00166550175375 0.0178325738572 0.980501924389 0.019498075611 17.100082498 0.0855154962424 DEL_gt1KB chrY 9914551 9917700 3150 DEL t0_552 1.683 0.0 0.0 0.507 11 nan 0 2 0.00167358896663 0.0184359645117 0.979890446522 0.0201095534783 16.9659757257 0.0882247648166 DEL_gt1KB chrY 9914551 9917700 3150 DEL 450 1.387 0.0 0.0 0.306 11 nan 0 2 0.00166550175375 0.0178325738572 0.980501924389 0.019498075611 17.100082498 0.0855154962424 DEL_gt1KB chrY 10045201 10048100 2900 DEL 723 1.411 0.0 0.0 0.244 7 0.267 3 2 0.00166657342885 0.0179925300478 0.980340896523 0.0196591034767 17.0643629139 0.0862287967978 DEL_gt1KB chrY 10045201 10048100 2900 DEL 469 1.298 0.0 0.0 0.247 7 0.571 3 2 0.00148445831133 0.0177646291265 0.980750912562 0.0192490874378 17.1558985473 0.0844127909896 DEL_gt1KB chrY 10045201 10048100 2900 DEL t0_444 0.81 0.0 0.0 0.19 7 0.091 2 2 0.00152569291348 0.057202258531 0.941272048556 0.0587279514445 12.3115514801 0.262848376663 DEL_gt1KB chrY 10045201 10048100 2900 DEL t0_654 1.48 0.0 0.0 0.176 7 0.429 2 2 0.00164166635037 0.0184245528363 0.979933780813 0.0200662191866 16.9753444819 0.0880327083711 DEL_gt1KB chrY 10045201 10048100 2900 DEL t0_474 0.898 0.0 0.0 0.133 7 0.5 3 2 0.000121185880997 0.0120083420078 0.987870472111 0.0121295278888 19.1615610262 0.0529999563008 DEL_gt1KB chrY 10045201 10048100 2900 DEL t0_473 4.362 0.0 0.0 0.173 7 0.679 2 2 0.041992181331 0.0352699684312 0.922737850238 0.0772621497623 11.120332121 0.349216644845 DEL_gt1KB chrY 10045201 10048100 2900 DEL t0_585 3.012 0.0 0.0 0.216 7 0.521 2 2 0.00179745332911 0.0186142534858 0.979588293185 0.0204117068149 16.9012067832 0.0895641366114 DEL_gt1KB chrY 10045201 10048100 2900 DEL 701 1.588 0.0 0.0 0.417 7 0.737 3 2 0.00164328581069 0.0185077885798 0.979848925609 0.0201510743905 16.9570179372 0.0884087923799 DEL_gt1KB chrY 10045201 10048100 2900 DEL 428 1.769 0.0 0.0 0.358 7 0.55 3 2 0.0016783046009 0.0185330956993 0.9797885997 0.0202114003002 16.9440359635 0.0886761807042 DEL_gt1KB chrY 10045201 10048100 2900 DEL t0_397 4.228 0.0 0.0 0.391 7 0.741 2 2 0.0282974022381 0.0285346775879 0.943167920174 0.056832079826 12.4540645023 0.254109792535 DEL_gt1KB chrY 10045201 10048100 2900 DEL 450 1.493 0.0 0.0 0.247 7 0.385 3 2 0.00163776119551 0.0184746806345 0.97988755817 0.02011244183 16.9653519897 0.0882375662177 DEL_gt1KB chrY 10045201 10048100 2900 DEL t0_543 0.755 0.0 0.0 0.11 7 0.625 1 2 0.00659139548249 0.256726386307 0.73668221821 0.26331778179 5.79519812097 1.32719812874 DEL_gt1KB chrY 10045201 10048100 2900 DEL t0_612 3.414 0.0 0.0 0.124 7 0.602 2 2 0.00370807777636 0.0190474033245 0.977244518899 0.0227554811009 16.4291397812 0.0999675672948 DEL_gt1KB chrY 10045201 10048100 2900 DEL t0_387 1.317 0.0 0.0 0.356 7 nan 0 2 0.00155485684316 0.0176818919001 0.980763251257 0.0192367487433 17.1586832742 0.0843581533323 DEL_gt1KB chrY 10045201 10048100 2900 DEL 462 0.974 0.0 0.0 0.301 7 0.429 3 2 9.92525212978e-05 0.00962079982471 0.990279947654 0.009720052346 20.1233139623 0.0424201496334 DEL_gt1KB chrY 10045201 10048100 2900 DEL t0_519 0.821 0.0 0.0 0.051 7 0.5 1 2 0.000970358231798 0.0435302043717 0.955499437397 0.0445005626035 13.5163449837 0.19769564324 DEL_gt1KB chrY 10045201 10048100 2900 DEL 439 1.752 0.0 0.0 0.272 7 0.217 3 2 0.00167923771589 0.0185100839989 0.979810678285 0.0201893217148 16.9487827147 0.088578317759 DEL_gt1KB chrY 10045201 10048100 2900 DEL 706 2.198 0.0 0.0 0.141 7 0.167 1 2 0.00167840177847 0.0185803736963 0.979741224525 0.0202587754748 16.9338680876 0.0888861777825 DEL_gt1KB chrY 10045201 10048100 2900 DEL t0_574 4.37 0.0 0.0 0.211 7 0.774 2 2 0.0428665867613 0.0356712572148 0.921462156024 0.0785378439761 11.0492102517 0.355224963293 DEL_gt1KB chrY 10045201 10048100 2900 DEL t0_552 1.772 0.0 0.0 0.301 7 0.321 2 2 0.00167807878431 0.0185369764266 0.979784944789 0.0202150552109 16.9432506819 0.088692381245 DEL_gt1KB chrY 10051501 10054200 2700 DEL t0_612 4.474 0.0 0.0 0.133 4 1.0 1 2 0.0546646698566 0.0407023275306 0.904633002613 0.0953669973873 10.2060189083 0.435275724699 DEL_gt1KB chrY 10051501 10054200 2700 DEL t0_574 3.437 0.0 0.0 0.158 4 0.8 1 2 0.00379718634376 0.0189420563535 0.977260757303 0.0227392426973 16.4322400305 0.0998954032627 DEL_gt1KB chrY 10051501 10054200 2700 DEL t0_552 1.74 0.0 0.0 0.329 4 0.238 3 2 0.00167945506376 0.0184935289503 0.979827015986 0.0201729840141 16.9522985563 0.0885059026052 DEL_gt1KB chrY 10051501 10054200 2700 DEL t0_444 0.878 0.0 0.0 0.119 4 0.6 3 2 0.000168259482247 0.0149753345622 0.984856405956 0.0151435940444 18.1977104106 0.0662708589544 DEL_gt1KB chrY 10051501 10054200 2700 DEL t0_585 1.876 0.0 0.0 0.039 4 nan 0 2 0.00166942598916 0.0185928481584 0.979737725852 0.0202622741476 16.9331181296 0.0889016865411 DEL_gt1KB chrY 10051501 10054200 2700 DEL t0_543 0.703 0.0 0.0 0.079 4 nan 0 1 0.0203226657099 0.68461136568 0.29506596861 0.70493403139 1.51851522929 5.30080876902 DEL_gt1KB chrY 10051501 10054200 2700 DEL t0_473 4.419 0.0 0.0 0.212 4 nan 0 2 0.0483248254095 0.0380885193687 0.913586655222 0.0864133447782 10.6341918442 0.392502527999 DEL_gt1KB chrY 10051501 10054200 2700 DEL 462 0.338 0.0 0.0 0.102 4 nan 0 1 0.364470014603 0.619970228866 0.0155597565303 0.98444024347 0.068106408453 18.0799720287 DEL_gt1KB chrY 10051501 10054200 2700 DEL 439 1.574 0.0 0.0 0.346 4 0.611 3 2 0.00163922408411 0.0185265720974 0.979834203818 0.0201657961815 16.953846266 0.0884740436698 DEL_gt1KB chrY 10051501 10054200 2700 DEL 450 1.369 0.0 0.0 0.224 4 0.462 3 2 0.00165550467875 0.0177367860787 0.980607709243 0.0193922907575 17.1237088589 0.0850469678399 DEL_gt1KB chrY 10051501 10054200 2700 DEL 706 2.45 0.0 0.0 0.077 4 0.2 1 2 0.00168049460044 0.0185658148452 0.979753690554 0.0202463094456 16.9365412966 0.0888309193828 DEL_gt1KB chrY 10051501 10054200 2700 DEL t0_519 1.639 0.0 0.0 0.203 4 nan 0 2 0.00166102952651 0.0184440613083 0.979894909165 0.0201050908348 16.9669396041 0.0882049861054 DEL_gt1KB chrY 10051501 10054200 2700 DEL t0_387 1.558 0.0 0.0 0.288 4 0.417 4 2 0.00163561912139 0.0185429596818 0.979821421197 0.0201785788031 16.951094248 0.0885307007882 DEL_gt1KB chrY 10051501 10054200 2700 DEL 428 1.37 0.0 0.0 0.343 4 0.533 3 2 0.00165632523566 0.0177413213455 0.980602353419 0.0193976465812 17.1225095764 0.0850706879371 DEL_gt1KB chrY 10051501 10054200 2700 DEL 701 1.395 0.0 0.0 0.125 4 0.833 3 2 0.00166714096476 0.017882979432 0.980449879603 0.0195501203968 17.0885056372 0.0857460247361 DEL_gt1KB chrY 10051501 10054200 2700 DEL 723 1.266 0.0 0.0 0.205 4 0.8 3 2 0.00132436154796 0.018013978868 0.980661659584 0.0193383404159 17.1358079908 0.0848080375225 DEL_gt1KB chrY 10051501 10054200 2700 DEL t0_654 1.23 0.0 0.0 0.196 4 0.75 3 2 0.00109771259974 0.0183527412978 0.980549546102 0.0194504538976 17.1107025948 0.0853045701379 DEL_gt1KB chrY 10051501 10054200 2700 DEL 469 1.167 0.0 0.0 0.198 4 0.6 3 2 0.000682536031399 0.0183064958317 0.981010968137 0.0189890318631 17.2149717677 0.0832613698834 DEL_gt1KB chrY 10051501 10054200 2700 DEL t0_474 1.589 0.0 0.0 0.167 4 0.143 2 2 0.00164360124024 0.0185063648686 0.979850033891 0.0201499661089 16.9572567998 0.0884038801906 DEL_gt1KB chrY 10057601 10059400 1800 DEL t0_612 1.207 0.072 0.0 nan 0 nan 0 1 0.0122634696 0.53322530011 0.45451123029 0.54548876971 2.63214186053 3.42455381545 DEL_gt1KB chrY 10057601 10059400 1800 DEL t0_387 1.401 0.03 0.0 nan 0 nan 0 2 0.00442832218923 0.0638154064959 0.931756271315 0.0682437286851 11.6593725231 0.30697675485 DEL_gt1KB chrY 10057601 10059400 1800 DEL t0_519 0.248 0.225 0.0 nan 0 nan 0 0 0.99200491856 0.00106805720036 0.00692702423962 0.99307297576 0.0301883629259 21.5945329264 DEL_gt1KB chrY 10057601 10059400 1800 DEL t0_552 1.303 0.021 0.0 nan 0 nan 0 2 0.00298716189365 0.0494002442879 0.947612593818 0.0523874061815 12.8077310392 0.233691761157 DEL_gt1KB chrY 10057601 10059400 1800 DEL t0_397 1.046 0.09 0.0 nan 0 nan 0 1 0.0140613156053 0.882071237014 0.103867447381 0.896132552619 0.476277463499 9.83520541355 DEL_gt1KB chrY 10057601 10059400 1800 DEL 428 1.405 0.051 0.0 nan 0 nan 0 2 0.00798288546694 0.1466254287 0.845391685833 0.154608314167 8.1076715531 0.729420276384 DEL_gt1KB chrY 10057601 10059400 1800 DEL t0_444 1.758 0.024 0.0 nan 0 nan 0 2 0.00266964468808 0.0330386413208 0.964291713991 0.0357082860088 14.4723099536 0.157915650475 DEL_gt1KB chrY 10057601 10059400 1800 DEL t0_473 1.388 0.067 0.0 nan 0 nan 0 2 0.0124389801743 0.267256938032 0.720304081793 0.279695918207 5.53313871538 1.42484124172 DEL_gt1KB chrY 10057601 10059400 1800 DEL t0_474 0.705 0.075 0.0 nan 0 nan 0 1 0.0154096367935 0.979016432976 0.00557393023002 0.99442606977 0.0242749879839 22.5383847174 DEL_gt1KB chrY 10057601 10059400 1800 DEL t0_654 1.753 0.058 0.0 nan 0 nan 0 2 0.00617761329038 0.0764381875166 0.917384199193 0.082615800807 10.829368831 0.374487443244 DEL_gt1KB chrY 10057601 10059400 1800 DEL t0_585 0.585 0.076 0.0 nan 0 nan 0 1 0.0145562562852 0.984659752247 0.000783991468096 0.999216008532 0.00340616706202 31.0568866356 DEL_gt1KB chrY 10057601 10059400 1800 DEL t0_574 0.84 0.073 0.0 nan 0 nan 0 1 0.0113284824569 0.916385828597 0.072285688946 0.927714311054 0.325857438619 11.4094767542 DEL_gt1KB chrY 10057601 10059400 1800 DEL 723 1.217 0.021 0.0 nan 0 nan 0 2 0.00251930492828 0.0588491051965 0.938631589875 0.0613684101248 12.1205512786 0.275048335908 DEL_gt1KB chrY 10057601 10059400 1800 DEL t0_543 0.247 0.12 0.0 nan 0 nan 0 0 0.987350209969 0.00875628273391 0.00389350729719 0.996106492703 0.0169422912562 24.0965900701 DEL_gt1KB chrY 10057601 10059400 1800 DEL 469 1.178 0.048 0.0 nan 0 nan 0 2 0.00543898612923 0.257615559391 0.73694545448 0.26305454552 5.79954189297 1.32564655553 DEL_gt1KB chrY 10057601 10059400 1800 DEL 439 1.449 0.037 0.0 nan 0 nan 0 2 0.0055619094338 0.0782762834156 0.916161807151 0.0838381928494 10.7655809157 0.380278170016 DEL_gt1KB chrY 10057601 10059400 1800 DEL 462 0.679 0.038 0.0 nan 0 nan 0 1 0.0184101138509 0.962923879392 0.018666006757 0.981333993243 0.0818315700762 17.289485813 DEL_gt1KB chrY 10057601 10059400 1800 DEL 706 0.474 0.044 0.0 nan 0 nan 0 1 0.017991828337 0.980440021125 0.00156815053842 0.998431849462 0.00681573670469 28.046122485 DEL_gt1KB chrY 10057601 10059400 1800 DEL 701 1.431 0.029 0.0 nan 0 nan 0 2 0.00417777091066 0.0588500073159 0.936972221773 0.0630277782265 12.0046800179 0.282732843623 DEL_gt1KB chrY 10057601 10059400 1800 DEL 450 1.28 0.043 0.0 nan 0 nan 0 2 0.00567629342139 0.147045196321 0.847278510258 0.152721489742 8.16099848211 0.719738085756 DEL_gt1KB chrY 10062001 10063350 1350 DEL t0_612 3.549 0.0 0.0 nan 0 nan 0 2 0.00431059819176 0.018245052587 0.977444349221 0.0225556507787 16.4674463806 0.0990795977775 DEL_gt1KB chrY 10062001 10063350 1350 DEL t0_474 0.945 0.024 0.0 nan 0 nan 0 2 0.000733237389558 0.0688492149279 0.930417547683 0.0695824523175 11.5750026933 0.313221074049 DEL_gt1KB chrY 10062001 10063350 1350 DEL t0_473 3.685 0.0 0.0 nan 0 nan 0 2 0.00523403104526 0.0175036432188 0.977262325736 0.022737674264 16.4325395944 0.099888433154 DEL_gt1KB chrY 10062001 10063350 1350 DEL 462 1.113 0.01 0.0 nan 0 nan 0 2 0.000766786356934 0.0322559500406 0.966977263602 0.0330227363976 14.8118694218 0.145837373008 DEL_gt1KB chrY 10062001 10063350 1350 DEL 439 0.983 0.0 0.0 nan 0 nan 0 2 0.000104739012849 0.00982482896928 0.990070432018 0.00992956798213 20.0306964648 0.0433390929267 DEL_gt1KB chrY 10062001 10063350 1350 DEL t0_585 1.685 0.0 0.0 nan 0 nan 0 2 0.00167400743708 0.0184368888238 0.979889103739 0.0201108962609 16.9656857423 0.0882307161295 DEL_gt1KB chrY 10062001 10063350 1350 DEL 701 1.133 0.0 0.0 nan 0 nan 0 2 0.000494595969221 0.0174627769868 0.982042627044 0.017957372956 17.4575719741 0.0786966059574 DEL_gt1KB chrY 10062001 10063350 1350 DEL 428 1.03 0.004 0.0 nan 0 nan 0 2 0.000218927460555 0.0160340554722 0.983747017067 0.0162529829328 17.8906692069 0.0711657150527 DEL_gt1KB chrY 10062001 10063350 1350 DEL t0_543 0.863 0.021 0.0 nan 0 nan 0 2 0.0013386890256 0.105145182014 0.893516128961 0.106483871039 9.72716169212 0.488976035888 DEL_gt1KB chrY 10062001 10063350 1350 DEL t0_387 0.885 0.0 0.0 nan 0 nan 0 2 0.000147572609962 0.0137371302287 0.986115297161 0.0138847028386 18.5746341061 0.0607230413225 DEL_gt1KB chrY 10062001 10063350 1350 DEL 469 1.13 0.004 0.0 nan 0 nan 0 2 0.000586900834348 0.022462551867 0.976950547299 0.0230494527014 16.3733938227 0.101274194735 DEL_gt1KB chrY 10062001 10063350 1350 DEL t0_397 4.67 0.005 0.0 nan 0 nan 0 2 0.0810571231218 0.0497292509922 0.869213625886 0.130786374114 8.83437500319 0.608734742513 DEL_gt1KB chrY 10062001 10063350 1350 DEL t0_574 2.903 0.0 0.0 nan 0 nan 0 2 0.00175505372279 0.0186079558593 0.979636990418 0.020363009582 16.9115803438 0.0893482457723 DEL_gt1KB chrY 10062001 10063350 1350 DEL t0_444 0.752 0.006 0.0 nan 0 nan 0 2 0.00895063296123 0.37705951002 0.613989857019 0.386010142981 4.13401283455 2.11838803252 DEL_gt1KB chrY 10062001 10063350 1350 DEL 450 1.079 0.011 0.0 nan 0 nan 0 2 0.000650324059975 0.0319627537666 0.967386922173 0.0326130778266 14.8660821315 0.143997880105 DEL_gt1KB chrY 10062001 10063350 1350 DEL 723 0.926 0.0 0.0 nan 0 nan 0 2 9.5339488004e-05 0.00999995537483 0.989904705137 0.0100952948628 19.9588099168 0.0440661148838 DEL_gt1KB chrY 10062001 10063350 1350 DEL t0_519 0.722 0.019 0.0 nan 0 nan 0 1 0.0172506599644 0.803184577691 0.179564762345 0.820435237655 0.859556949753 7.45778884933 DEL_gt1KB chrY 10062001 10063350 1350 DEL t0_654 0.746 0.01 0.0 nan 0 nan 0 1 0.0114250941014 0.500182691952 0.488392213947 0.511607786053 2.91062854705 3.11231268288 DEL_gt1KB chrY 10062001 10063350 1350 DEL 706 1.423 0.007 0.0 nan 0 nan 0 2 0.00200916812239 0.0241023314617 0.973888500416 0.0261114995841 15.8316818592 0.114907622446 DEL_gt1KB chrY 10062001 10063350 1350 DEL t0_552 1.626 0.0 0.0 nan 0 nan 0 2 0.00165647010438 0.0184565059708 0.979887023925 0.0201129760752 16.96523663 0.0882399340385 DEL_gt1KB chrY 10073701 10075050 1350 DEL t0_473 0.518 0.0 0.0 nan 0 nan 0 1 0.0246836387227 0.971725173594 0.00359118768374 0.996408812316 0.0156244018471 24.4476189705 DEL_gt1KB chrY 10073701 10075050 1350 DEL 439 1.456 0.0 0.0 nan 0 nan 0 2 0.00165092330942 0.0182994098515 0.980049666839 0.0199503331609 17.0004984741 0.087519146263 DEL_gt1KB chrY 10073701 10075050 1350 DEL 462 1.379 0.0 0.0 nan 0 nan 0 2 0.00166224530934 0.0177865434831 0.980551211208 0.0194487887924 17.1110743995 0.0852971952393 DEL_gt1KB chrY 10073701 10075050 1350 DEL 469 1.309 0.0 0.0 nan 0 nan 0 2 0.0015275615171 0.0177098824224 0.98076255606 0.0192374439395 17.1585263275 0.084361231751 DEL_gt1KB chrY 10073701 10075050 1350 DEL t0_387 1.481 0.0 0.0 nan 0 nan 0 2 0.00164133168033 0.0184288729488 0.979929795371 0.0200702046291 16.9744819957 0.0880503713932 DEL_gt1KB chrY 10073701 10075050 1350 DEL 450 1.532 0.0 0.0 nan 0 nan 0 2 0.00163292941689 0.0185477327061 0.979819337877 0.020180662123 16.9506458876 0.0885399348716 DEL_gt1KB chrY 10073701 10075050 1350 DEL t0_474 0.963 0.0 0.0 nan 0 nan 0 2 9.45085123653e-05 0.00947165345942 0.990433838028 0.00956616197178 20.1926227004 0.041745304626 DEL_gt1KB chrY 10073701 10075050 1350 DEL t0_519 0.703 0.0 0.0 nan 0 nan 0 1 0.0203226657099 0.68461136568 0.29506596861 0.70493403139 1.51851522929 5.30080876902 DEL_gt1KB chrY 10073701 10075050 1350 DEL 706 0.159 0.0 0.0 nan 0 nan 0 0 0.987202772449 0.00405575048699 0.00874147706372 0.991258522936 0.0381306555249 20.5841517761 DEL_gt1KB chrY 10073701 10075050 1350 DEL t0_654 1.408 0.0 0.0 nan 0 nan 0 2 0.00166700597428 0.0179713937375 0.980361600288 0.0196383997118 17.0689390477 0.0861370793562 DEL_gt1KB chrY 10073701 10075050 1350 DEL t0_397 0.251 0.0 0.0 nan 0 nan 0 0 0.941145092525 0.0512540290101 0.00760087846455 0.992399121535 0.03313628834 21.1913621163 DEL_gt1KB chrY 10073701 10075050 1350 DEL t0_612 0.254 0.0 0.0 nan 0 nan 0 0 0.936649591395 0.0556732186428 0.00767718996211 0.992322810038 0.0334702561547 21.1479771321 DEL_gt1KB chrY 10073701 10075050 1350 DEL 723 1.448 0.0 0.0 nan 0 nan 0 2 0.00165427894409 0.0182496803279 0.980096040728 0.019903959272 17.0106052565 0.0873136521102 DEL_gt1KB chrY 10073701 10075050 1350 DEL 701 1.328 0.0 0.0 nan 0 nan 0 2 0.00158687274927 0.0176600715203 0.98075305573 0.0192469442696 17.156382112 0.0844033006585 DEL_gt1KB chrY 10073701 10075050 1350 DEL 428 1.619 0.0 0.0 nan 0 nan 0 2 0.00165396012958 0.0184647094498 0.979881330421 0.0201186695793 16.9640074198 0.088265168219 DEL_gt1KB chrY 10073701 10075050 1350 DEL t0_585 0.197 0.0 0.0 nan 0 nan 0 0 0.986313852628 0.00687798476596 0.00680816260602 0.993191837394 0.0296685837776 21.6697008012 DEL_gt1KB chrY 10073701 10075050 1350 DEL t0_574 0.403 0.0 0.0 nan 0 nan 0 1 0.0739125958552 0.918245704335 0.00784169980949 0.992158300191 0.0341903004901 21.0558978708 DEL_gt1KB chrY 10073701 10075050 1350 DEL t0_543 0.623 0.0 0.0 nan 0 nan 0 1 0.0348840724442 0.933029651365 0.0320862761912 0.967913723809 0.141633523441 14.9368068251 DEL_gt1KB chrY 10073701 10075050 1350 DEL t0_552 1.403 0.0 0.0 nan 0 nan 0 2 0.00166741691252 0.0179366640593 0.980395919028 0.0196040809718 17.0765351236 0.0859850519968 DEL_gt1KB chrY 10073701 10075050 1350 DEL t0_444 1.275 0.004 0.0 nan 0 nan 0 2 0.00152842611545 0.0219897014674 0.976481872417 0.0235181275828 16.2859725797 0.103358146212 DEL_gt1KB chrY 13136101 13137300 1200 DEL t0_552 0.995 0.0 0.0 nan 0 nan 0 2 0.000114386048349 0.010199097309 0.989686516643 0.0103134833574 19.8659462789 0.0450234646491 DEL_gt1KB chrY 13136101 13137300 1200 DEL t0_444 2.622 0.0 0.0 nan 0 nan 0 2 0.00168785766227 0.0185500909151 0.979762051423 0.0202379485773 16.9383351193 0.0887938583998 DEL_gt1KB chrY 13136101 13137300 1200 DEL t0_519 4.998 0.0 0.0 nan 0 nan 0 2 0.161181901331 0.066555536376 0.772262562293 0.227737437707 6.42565569943 1.12235018358 DEL_gt1KB chrY 13136101 13137300 1200 DEL 450 0.974 0.0 0.0 nan 0 nan 0 2 9.92525212978e-05 0.00962079982471 0.990279947654 0.009720052346 20.1233139623 0.0424201496334 DEL_gt1KB chrY 13136101 13137300 1200 DEL t0_574 0.455 0.0 0.0 nan 0 nan 0 1 0.03213675436 0.963576475729 0.00428676991083 0.995713230089 0.018657223419 23.678698263 DEL_gt1KB chrY 13136101 13137300 1200 DEL 469 0.981 0.0 0.0 nan 0 nan 0 2 0.000103393023663 0.00977351949508 0.990123087481 0.00987691251875 20.0537879282 0.0431081258321 DEL_gt1KB chrY 13136101 13137300 1200 DEL t0_397 0.773 0.0 0.0 nan 0 nan 0 2 0.00376761499569 0.15767040506 0.838561979944 0.161438020056 7.91994177446 0.764648322194 DEL_gt1KB chrY 13136101 13137300 1200 DEL 723 1.103 0.0 0.0 nan 0 nan 0 2 0.000361108569722 0.0161359342634 0.983502957167 0.0164970428331 17.8259389799 0.0722432991918 DEL_gt1KB chrY 13136101 13137300 1200 DEL t0_612 0.624 0.0 0.0 nan 0 nan 0 1 0.034771214282 0.93229901961 0.0329297661084 0.967070233892 0.145419839481 14.8241135396 DEL_gt1KB chrY 13136101 13137300 1200 DEL 701 1.064 0.0 0.0 nan 0 nan 0 2 0.000233170452527 0.0138556496819 0.985911179866 0.0140888201344 18.5112537528 0.0616220862041 DEL_gt1KB chrY 13136101 13137300 1200 DEL 439 1.008 0.0 0.0 nan 0 nan 0 2 0.000128046502115 0.0107205196866 0.989151433811 0.0108485661888 19.6462765697 0.047372151429 DEL_gt1KB chrY 13136101 13137300 1200 DEL t0_387 2.943 0.0 0.0 nan 0 nan 0 2 0.0017694817813 0.0186010533845 0.979629464834 0.0203705351658 16.9099756126 0.0893816084575 DEL_gt1KB chrY 13136101 13137300 1200 DEL 428 1.014 0.0 0.0 nan 0 nan 0 2 0.000135559418196 0.0109967810634 0.988867659518 0.0111323404816 19.5341351928 0.0486182628618 DEL_gt1KB chrY 13136101 13137300 1200 DEL t0_585 0.403 0.0 0.0 nan 0 nan 0 1 0.0739125958552 0.918245704335 0.00784169980949 0.992158300191 0.0341903004901 21.0558978708 DEL_gt1KB chrY 13136101 13137300 1200 DEL t0_473 0.585 0.0 0.0 nan 0 nan 0 1 0.0332780610933 0.955714524979 0.0110074139281 0.988992586072 0.0480696405511 19.583147018 DEL_gt1KB chrY 13136101 13137300 1200 DEL 462 0.906 0.0 0.0 nan 0 nan 0 2 0.000110440091789 0.0112341677725 0.988655392136 0.0113446078643 19.4521051126 0.0495506065156 DEL_gt1KB chrY 13136101 13137300 1200 DEL t0_654 2.807 0.0 0.0 nan 0 nan 0 2 0.0017247038573 0.0186072497697 0.979668046373 0.020331953627 16.918208895 0.0892105701207 DEL_gt1KB chrY 13136101 13137300 1200 DEL 706 0.849 0.0 0.0 nan 0 nan 0 2 0.000353787331114 0.0238063962995 0.975839816369 0.0241601836307 16.1689976916 0.106214657106 DEL_gt1KB chrY 13143901 13194000 50100 DEL t0_519 1.972 0.0 0.0 nan 0 nan 0 2 0.00167414525287 0.0185652817335 0.979760573014 0.0202394269864 16.938017873 0.0888004116786 DEL_gt1KB chrY 13143901 13194000 50100 DEL t0_474 2.804 0.012 0.0 nan 0 nan 0 2 0.00180449802183 0.0194754549094 0.978720047069 0.0212799529313 16.7202933698 0.0934151596012 DEL_gt1KB chrY 13143901 13194000 50100 DEL t0_654 2.169 0.02 0.003 nan 0 nan 0 2 0.00205037815517 0.0236685722826 0.974281049562 0.0257189504378 15.8974675847 0.11315744695 DEL_gt1KB chrY 13143901 13194000 50100 DEL t0_387 1.045 0.0 0.003 nan 0 nan 0 2 0.000191059536154 0.0128346007308 0.986974339733 0.0130256602669 18.8520025321 0.056941383711 DEL_gt1KB chrY 13143901 13194000 50100 DEL t0_444 1.532 0.006 0.0 nan 0 nan 0 2 0.00189939896446 0.0228337503366 0.975266850699 0.0247331493011 16.0672058089 0.108765371943 DEL_gt1KB chrY 13143901 13194000 50100 DEL t0_543 1.179 0.027 0.0 nan 0 nan 0 2 0.00233100662386 0.0888740037926 0.908794989584 0.0912050104164 10.3998130272 0.415340760017 DEL_gt1KB chrY 13143901 13194000 50100 DEL t0_552 4.548 0.0 0.0 nan 0 nan 0 2 0.0636820283147 0.0440769936844 0.892240978001 0.107759021999 9.67546358844 0.495178347696 DEL_gt1KB chrY 13462101 13463200 1100 DEL 450 1.277 0.0 0.0 nan 0 nan 0 2 0.00138482992658 0.0179158521612 0.980699317912 0.0193006820878 17.1442734272 0.0846412675671 DEL_gt1KB chrY 13462101 13463200 1100 DEL 439 1.239 0.0 0.0 nan 0 nan 0 2 0.00115738364467 0.018273302326 0.980569314029 0.0194306859707 17.1151186703 0.0852170170401 DEL_gt1KB chrY 13462101 13463200 1100 DEL 723 1.296 0.0 0.0 nan 0 nan 0 2 0.00147593345534 0.0177765234772 0.980747543067 0.0192524569325 17.1551383945 0.0844277117555 DEL_gt1KB chrY 13462101 13463200 1100 DEL t0_552 1.28 0.0 0.0 nan 0 nan 0 2 0.00140038646786 0.017890997628 0.980708615904 0.0192913840959 17.1463661198 0.0846000923839 DEL_gt1KB chrY 13462101 13463200 1100 DEL 428 1.373 0.0 0.0 nan 0 nan 0 2 0.00165858548746 0.017755538049 0.980585876464 0.0194141235365 17.1188221119 0.0851436625823 DEL_gt1KB chrY 13462101 13463200 1100 DEL 462 1.627 0.0 0.0 nan 0 nan 0 2 0.00165682688338 0.0184554125672 0.979887760549 0.0201122394506 16.9653956904 0.0882366692549 DEL_gt1KB chrY 13462101 13463200 1100 DEL 469 1.392 0.0 0.0 nan 0 nan 0 2 0.00166669947895 0.0178636339322 0.980469666589 0.0195303334112 17.0929034261 0.0856583783187 DEL_gt1KB chrY 13462101 13463200 1100 DEL t0_612 3.811 0.0 0.0 nan 0 nan 0 2 0.00678182797428 0.0174927773724 0.975725394653 0.0242746053466 16.1484782207 0.106723917259 DEL_gt1KB chrY 13462101 13463200 1100 DEL t0_574 4.149 0.0 0.0 nan 0 nan 0 2 0.0214863016419 0.0249279867759 0.953585711582 0.0464142884179 13.3334830337 0.206402649733 DEL_gt1KB chrY 13462101 13463200 1100 DEL 706 3.136 0.0 0.0 nan 0 nan 0 2 0.00288520480507 0.0187641145353 0.97835068066 0.0216493193404 16.6455575341 0.0950544850781 DEL_gt1KB chrY 13462101 13463200 1100 DEL 701 1.189 0.0 0.0 nan 0 nan 0 2 0.000821649217234 0.0184972357915 0.980681114991 0.0193188850088 17.1401794254 0.0847218784269 DEL_gt1KB chrY 13678201 13680400 2200 DEL 723 1.154 0.0 0.0 nan 0 nan 0 2 0.000606342337125 0.018068365359 0.981325292304 0.0186747076962 17.2874618721 0.0818700767076 DEL_gt1KB chrY 13678201 13680400 2200 DEL t0_612 1.089 0.0 0.0 nan 0 nan 0 2 0.00030941296081 0.015365108788 0.984325478251 0.0156745217488 18.0480570122 0.0686127348344 DEL_gt1KB chrY 13678201 13680400 2200 DEL t0_552 1.155 0.0 0.0 nan 0 nan 0 2 0.000612021941514 0.0180903022688 0.98129767579 0.0187023242103 17.2810441865 0.0819922978361 DEL_gt1KB chrY 13678201 13680400 2200 DEL t0_574 0.609 0.0 0.0 nan 0 nan 0 1 0.0370775285673 0.940671856166 0.0222506152665 0.977749384734 0.0977244866341 16.5265797555 DEL_gt1KB chrY 13678201 13680400 2200 DEL t0_585 0.814 0.0 0.0 nan 0 nan 0 2 0.00129133456758 0.0516899184364 0.947018746996 0.0529812530039 12.7587777487 0.236414237039 DEL_gt1KB chrY 13678201 13680400 2200 DEL 428 1.231 0.0 0.0 nan 0 nan 0 2 0.00110440438252 0.0183443661954 0.980551229422 0.0194487705779 17.1110784668 0.0852971145657 DEL_gt1KB chrY 13678201 13680400 2200 DEL t0_444 0.982 0.004 0.0 nan 0 nan 0 2 0.000148802465589 0.0135513567668 0.986299840768 0.0137001592324 18.6327438515 0.0599103699071 DEL_gt1KB chrY 13678201 13680400 2200 DEL t0_543 0.622 0.024 0.0 nan 0 nan 0 1 0.0258608526274 0.962631718415 0.0115074289577 0.988492571042 0.0502659025265 19.3902169759 DEL_gt1KB chrY 13678201 13680400 2200 DEL t0_387 0.967 0.004 0.0 nan 0 nan 0 2 0.000139116376618 0.013222213921 0.986638669702 0.0133613302976 18.7415029993 0.058418670725 DEL_gt1KB chrY 13678201 13680400 2200 DEL 462 1.34 0.0 0.0 nan 0 nan 0 2 0.00161478496224 0.0176579642228 0.980727250815 0.019272749185 17.1505633045 0.0845175708078 DEL_gt1KB chrY 13678201 13680400 2200 DEL 450 1.243 0.0 0.0 nan 0 nan 0 2 0.00118341752469 0.0182357270317 0.980580855444 0.0194191445564 17.1176990536 0.0851659003778 DEL_gt1KB chrY 13678201 13680400 2200 DEL 439 1.415 0.0 0.0 nan 0 nan 0 2 0.00166580445264 0.0180209430862 0.980313252461 0.0196867475389 17.0582602803 0.086351262697 DEL_gt1KB chrY 13678201 13680400 2200 DEL t0_654 0.784 0.0 0.0 nan 0 nan 0 2 0.00264888749108 0.115922391527 0.881428720982 0.118571279018 9.26020495411 0.548128022936 DEL_gt1KB chrY 13678201 13680400 2200 DEL 706 0.837 0.0 0.0 nan 0 nan 0 2 0.000528393576177 0.0302941878145 0.969177418609 0.0308225813907 15.1113099194 0.135967132795 DEL_gt1KB chrY 13678201 13680400 2200 DEL 469 1.176 0.0 0.0 nan 0 nan 0 2 0.000738068583208 0.0184144874703 0.980847443946 0.0191525560535 17.1777325794 0.0839853533604 DEL_gt1KB chrY 13678201 13680400 2200 DEL t0_397 1.545 0.0 0.0 nan 0 nan 0 2 0.00163372908287 0.0185495377684 0.979816733149 0.0201832668513 16.9500853777 0.0885514800675 DEL_gt1KB chrY 13678201 13680400 2200 DEL t0_519 0.804 0.04 0.0 nan 0 nan 0 1 0.00938291748224 0.65588495248 0.334732130037 0.665267869963 1.77003450904 4.75302598881 DEL_gt1KB chrY 13678201 13680400 2200 DEL t0_473 1.304 0.0 0.0 nan 0 nan 0 2 0.00150876710773 0.0177324833452 0.980758749547 0.0192412504529 17.1576670739 0.0843780875227 DEL_gt1KB chrY 13678201 13680400 2200 DEL t0_474 0.895 0.015 0.0 nan 0 nan 0 2 0.000884676273046 0.043996484084 0.955118839643 0.0448811603571 13.4793592336 0.199425884265 DEL_gt1KB chrY 13678201 13680400 2200 DEL 701 1.06 0.0 0.0 nan 0 nan 0 2 0.000222796793251 0.0136081903893 0.986169012817 0.0138309871825 18.5914682115 0.0604864789473 DEL_gt1KB chrY 13681601 13684200 2600 DEL 706 2.096 0.0 0.0 0.155 1 nan 0 2 0.00168197456303 0.0185923518625 0.979725673574 0.0202743264255 16.9305356545 0.0889551117574 DEL_gt1KB chrY 13681601 13684200 2600 DEL t0_444 0.689 0.0 0.0 0.222 1 nan 0 1 0.0236240624818 0.774991039059 0.201384898459 0.798615101541 0.976624817026 6.9597309963 DEL_gt1KB chrY 13681601 13684200 2600 DEL t0_585 3.24 0.0 0.0 1.569 1 nan 0 2 0.00315300539362 0.0191042983558 0.977742696251 0.0222573037494 16.5252744726 0.0977541954858 DEL_gt1KB chrY 13681601 13684200 2600 DEL t0_654 0.694 0.005 0.0 0.23 1 nan 0 1 0.0221352833897 0.79943060558 0.178434111031 0.821565888969 0.853576007398 7.48522118479 DEL_gt1KB chrY 13681601 13684200 2600 DEL t0_473 3.974 0.0 0.0 0.038 1 nan 0 2 0.0111881061975 0.0193781435552 0.969433750247 0.0305662497527 15.1475784265 0.134818646514 DEL_gt1KB chrY 13681601 13684200 2600 DEL t0_574 3.129 0.0 0.0 1.175 1 nan 0 2 0.00286818972598 0.0187431552621 0.978388655012 0.0216113449881 16.6531820384 0.0948859184085 DEL_gt1KB chrY 13681601 13684200 2600 DEL 469 1.66 0.0 0.0 1.21 1 nan 0 2 0.00166774011745 0.0184332968373 0.979898963045 0.0201010369548 16.96781538 0.0881870191369 DEL_gt1KB chrY 13681601 13684200 2600 DEL t0_397 4.541 0.0 0.0 0.413 1 nan 0 2 0.0627966502484 0.0437621014759 0.893441248276 0.106558751724 9.72410875659 0.489340009519 DEL_gt1KB chrY 13681601 13684200 2600 DEL t0_519 0.217 0.0 0.0 0.119 1 nan 0 0 0.979758508503 0.0137883440994 0.0064531473976 0.993546852602 0.028116480842 21.9022841497 DEL_gt1KB chrY 13681601 13684200 2600 DEL t0_543 0.307 0.038 0.0 0.037 1 nan 0 0 0.690956527132 0.298023412087 0.0110200607811 0.988979939219 0.0481251767975 19.5781601013 DEL_gt1KB chrY 13681601 13684200 2600 DEL t0_387 0.526 0.0 0.0 0.288 1 nan 0 1 0.0250238451481 0.971206374467 0.00376978038531 0.996230219615 0.016402885293 24.2368394959 DEL_gt1KB chrY 13681601 13684200 2600 DEL 462 1.67 0.0 0.0 1.422 1 nan 0 2 0.00167050709656 0.0184326089715 0.979896883932 0.0201031160681 16.9673661988 0.088196233846 DEL_gt1KB chrY 13681601 13684200 2600 DEL 450 1.295 0.0 0.0 0.788 1 nan 0 2 0.00147159262563 0.0177826855516 0.980745721823 0.0192542781772 17.1547275798 0.0844357765961 DEL_gt1KB chrY 13681601 13684200 2600 DEL 428 1.567 0.0 0.0 1.209 1 nan 0 2 0.00163749137471 0.0185346314638 0.979827877161 0.0201721228385 16.9524839586 0.0885020855679 DEL_gt1KB chrY 13681601 13684200 2600 DEL t0_474 0.322 0.0 0.0 0.133 1 nan 0 0 0.507201182908 0.476899544671 0.0158992724202 0.98410072758 0.0696044710401 17.9862274933 DEL_gt1KB chrY 13681601 13684200 2600 DEL 701 1.392 0.0 0.0 0.847 1 nan 0 2 0.00166669947895 0.0178636339322 0.980469666589 0.0195303334112 17.0929034261 0.0856583783187 DEL_gt1KB chrY 13681601 13684200 2600 DEL t0_552 1.299 0.0 0.0 1.151 1 nan 0 2 0.00148864198497 0.0177588997775 0.980752458238 0.0192475417625 17.1562472938 0.0844059464614 DEL_gt1KB chrY 13681601 13684200 2600 DEL t0_612 2.707 0.0 0.0 0.195 1 nan 0 2 0.00170035636968 0.0185678320814 0.979731811549 0.0202681884511 16.9318506635 0.0889279033242 DEL_gt1KB chrY 13681601 13684200 2600 DEL 723 1.414 0.0 0.0 0.974 1 nan 0 2 0.00166601600241 0.0180138212313 0.980320162766 0.0196798372337 17.0597849781 0.0863206490456 DEL_gt1KB chrY 13681601 13684200 2600 DEL 439 1.387 0.0 0.0 0.975 1 nan 0 2 0.00166550175375 0.0178325738572 0.980501924389 0.019498075611 17.100082498 0.0855154962424 DEL_gt1KB chrY 13685251 13686600 1350 DEL t0_574 3.222 0.003 0.0 nan 0 nan 0 2 0.00311872284552 0.0191907488719 0.977690528283 0.0223094717174 16.5151071358 0.0979859217383 DEL_gt1KB chrY 13685251 13686600 1350 DEL 701 1.776 0.0 0.0 nan 0 nan 0 2 0.00167775465201 0.0185420269984 0.97978021835 0.0202197816504 16.9422353858 0.0887133314703 DEL_gt1KB chrY 13685251 13686600 1350 DEL 462 2.267 0.0 0.0 nan 0 nan 0 2 0.00167641287128 0.018553378982 0.979770208147 0.0202297918533 16.9400858571 0.0887577026261 DEL_gt1KB chrY 13685251 13686600 1350 DEL 439 2.267 0.001 0.0 nan 0 nan 0 2 0.00168858198251 0.0187186242937 0.979592793724 0.0204072062762 16.9021644564 0.0895441837942 DEL_gt1KB chrY 13685251 13686600 1350 DEL t0_552 1.352 0.0 0.0 nan 0 nan 0 2 0.00163588835085 0.01767722922 0.980686882429 0.0193131175709 17.1414761568 0.084696337412 DEL_gt1KB chrY 13685251 13686600 1350 DEL 723 2.448 0.0 0.0 nan 0 nan 0 2 0.00168044705201 0.0185655970138 0.979753955934 0.0202460440658 16.9365982224 0.0888297430362 DEL_gt1KB chrY 13685251 13686600 1350 DEL t0_612 4.61 0.0 0.0 nan 0 nan 0 2 0.0719503697039 0.0468671070699 0.881182523226 0.118817476774 9.25119674606 0.549341249367 DEL_gt1KB chrY 13685251 13686600 1350 DEL t0_519 0.181 0.0 0.0 nan 0 nan 0 0 0.988402064335 0.00419004639735 0.00740788926754 0.992592110732 0.0322918096116 21.3030551807 DEL_gt1KB chrY 13685251 13686600 1350 DEL 469 2.289 0.0 0.0 nan 0 nan 0 2 0.00167637877425 0.0185479822739 0.979775638952 0.0202243610482 16.9412519024 0.0887336300208 DEL_gt1KB chrY 13685251 13686600 1350 DEL t0_474 0.314 0.0 0.0 nan 0 nan 0 0 0.584444342655 0.400209052308 0.0153466050376 0.984653394962 0.0671661736605 18.139876838 DEL_gt1KB chrY 13685251 13686600 1350 DEL 428 1.96 0.0 0.0 nan 0 nan 0 2 0.00167299703426 0.0185668900834 0.979760112882 0.0202398871177 16.9379191398 0.0888024512842 DEL_gt1KB chrY 13685251 13686600 1350 DEL 450 2.951 0.001 0.0 nan 0 nan 0 2 0.00177701896726 0.018655087708 0.979567893325 0.0204321066752 16.8968685264 0.0896545790869 DEL_gt1KB chrY 13685251 13686600 1350 DEL t0_444 0.694 0.0 0.0 nan 0 nan 0 1 0.0225183871688 0.745685459492 0.23179615334 0.76820384666 1.14523522504 6.34893775436 DEL_gt1KB chrY 13685251 13686600 1350 DEL t0_543 0.192 0.0 0.0 nan 0 nan 0 0 0.987175561256 0.0058534136066 0.00697102513779 0.993028974862 0.0303807936042 21.5670335118 DEL_gt1KB chrY 13685251 13686600 1350 DEL t0_654 0.776 0.0 0.0 nan 0 nan 0 2 0.00342313400835 0.145005802445 0.851571063546 0.148428936454 8.28481424413 0.697791043447 DEL_gt1KB chrY 13685251 13686600 1350 DEL t0_387 0.553 0.0 0.0 nan 0 nan 0 1 0.0276581936469 0.967114111377 0.00522769497582 0.994772305024 0.0227631421694 22.8168976045 DEL_gt1KB chrY 13688601 13703400 14800 DEL t0_585 0.843 0.0 0.0 nan 0 nan 0 2 0.000429566855699 0.0267619419706 0.972808491174 0.0271915088263 15.6556669323 0.119726473088 DEL_gt1KB chrY 13688601 13703400 14800 DEL t0_397 1.019 0.0 0.0 nan 0 nan 0 2 0.000142437870439 0.0112422001926 0.988615361937 0.011384638063 19.4368077179 0.0497264538989 DEL_gt1KB chrY 13688601 13703400 14800 DEL 706 0.868 0.0 0.0 nan 0 nan 0 2 0.000209551483246 0.0172345326513 0.982555915865 0.0174440841345 17.5835182735 0.0764272516543 DEL_gt1KB chrY 13688601 13703400 14800 DEL t0_474 0.695 0.0 0.0 nan 0 nan 0 1 0.0222871990118 0.739422554708 0.23829024628 0.76170975372 1.18210483215 6.22893733874 DEL_gt1KB chrY 13688601 13703400 14800 DEL t0_543 0.269 0.0 0.0 nan 0 nan 0 0 0.893336293283 0.0974981558807 0.00916555083633 0.990834449164 0.03998902347 20.3784142945 DEL_gt1KB chrY 13688601 13703400 14800 DEL t0_473 1.712 0.0 0.0 nan 0 nan 0 2 0.00167812168001 0.0184585515107 0.979863326809 0.0201366731908 16.9601227828 0.0883449629929 DEL_gt1KB chrY 13688601 13703400 14800 DEL t0_574 0.829 0.0 0.0 nan 0 nan 0 2 0.000709487733347 0.0361123562525 0.963178156014 0.0368218439858 14.3389446643 0.1629337537 DEL_gt1KB chrY 13688601 13703400 14800 DEL t0_612 0.893 0.0 0.0 nan 0 nan 0 2 0.000129817829558 0.0125966002429 0.987273581928 0.0127264180725 18.9529381396 0.055624839488 DEL_gt1KB chrY 13688601 13703400 14800 DEL t0_519 0.332 0.091 0.0 nan 0 nan 0 0 0.587458117137 0.40361662691 0.00892525595273 0.991074744047 0.0389359102108 20.4937932062 DEL_gt1KB chrY 13706551 13710600 4050 DEL t0_474 2.04 0.0 0.0 0.3 2 nan 0 2 0.00168018641955 0.0185754053988 0.979744408182 0.0202555918184 16.9345506328 0.0888720654626 DEL_gt1KB chrY 13706551 13710600 4050 DEL t0_543 0.715 0.0 0.0 0.073 2 nan 0 1 0.0170357086647 0.588663642656 0.394300648679 0.605699351321 2.17742891448 4.04172508452 DEL_gt1KB chrY 13706551 13710600 4050 DEL t0_519 1.435 0.0 0.0 0.153 2 nan 0 2 0.00165954556359 0.0181626722247 0.980177782212 0.0198222177883 17.0284775654 0.0869514590849 DEL_gt1KB chrY 13803301 13808200 4900 DEL t0_552 1.493 0.0 0.0 3.753 3 nan 0 2 0.00163776119551 0.0184746806345 0.97988755817 0.02011244183 16.9653519897 0.0882375662177 DEL_gt1KB chrY 13803301 13808200 4900 DEL 462 2.314 0.0 0.0 5.952 3 nan 0 2 0.00167667614717 0.0185451579819 0.979778165871 0.0202218341291 16.9417945626 0.0887224292361 DEL_gt1KB chrY 13803301 13808200 4900 DEL t0_585 4.614 0.0 0.0 4.941 3 nan 0 2 0.0725154680965 0.0470486548055 0.880435877098 0.119564122902 9.22399117698 0.553022685855 DEL_gt1KB chrY 13803301 13808200 4900 DEL t0_387 3.107 0.031 0.0 0.831 3 nan 0 2 0.00310406342227 0.0205526949863 0.976343241591 0.0236567584085 16.2604476528 0.103974756499 DEL_gt1KB chrY 13803301 13808200 4900 DEL 439 1.841 0.0 0.0 3.605 3 nan 0 2 0.00167137656258 0.0185926255432 0.979735997894 0.0202640021058 16.9327477809 0.0889093461764 DEL_gt1KB chrY 13803301 13808200 4900 DEL 469 1.833 0.0 0.0 0.259 3 0.312 2 2 0.0016720717684 0.0185901009373 0.979737827294 0.0202621727057 16.9331398723 0.0889012368734 DEL_gt1KB chrY 13803301 13808200 4900 DEL 723 2.028 0.0 0.0 4.718 3 nan 0 2 0.00167934012615 0.0185717722768 0.979748887597 0.020251112403 16.935511158 0.088852209458 DEL_gt1KB chrY 13803301 13808200 4900 DEL t0_654 3.361 0.019 0.002 0.959 3 nan 0 2 0.00366066551215 0.02014406806 0.976195266428 0.0238047335722 16.2333667488 0.104633025689 DEL_gt1KB chrY 13803301 13808200 4900 DEL 701 1.864 0.0 0.0 0.278 3 0.176 2 2 0.00166986765162 0.0185945116224 0.979735620726 0.020264379274 16.9326669476 0.0889110180768 DEL_gt1KB chrY 13803301 13808200 4900 DEL 450 1.737 0.0 0.0 3.094 3 nan 0 2 0.00167944195607 0.0184894522495 0.979831105794 0.0201688942056 16.9531791208 0.0884877751449 DEL_gt1KB chrY 13803301 13808200 4900 DEL t0_444 2.526 0.009 0.001 0.714 3 nan 0 2 0.00177585878106 0.019590628174 0.978633513045 0.0213664869551 16.70266878 0.0937991602216 DEL_gt1KB chrY 13803301 13808200 4900 DEL 428 1.921 0.0 0.0 4.194 3 nan 0 2 0.00167006275919 0.0185782545865 0.979751682654 0.0202483173457 16.9361106123 0.0888398197913 DEL_gt1KB chrY 13811701 13812800 1100 DEL 469 1.973 0.0 0.0 nan 0 nan 0 2 0.00167424329507 0.0185651974427 0.979760559262 0.0202394407378 16.9380149222 0.088800472634 DEL_gt1KB chrY 13811701 13812800 1100 DEL 439 2.15 0.0 0.0 nan 0 nan 0 2 0.00168063443243 0.0185943314678 0.9797250341 0.0202749659002 16.9303986754 0.0889579464327 DEL_gt1KB chrY 13811701 13812800 1100 DEL t0_552 1.432 0.0 0.0 nan 0 nan 0 2 0.00166067280562 0.0181417874224 0.980197539772 0.019802460228 17.0328085029 0.0868639187111 DEL_gt1KB chrY 13811701 13812800 1100 DEL t0_543 0.903 0.007 0.0 nan 0 nan 0 2 0.000261177554539 0.0209004352662 0.978838387179 0.0211616128207 16.7445123586 0.0928900722662 DEL_gt1KB chrY 13811701 13812800 1100 DEL t0_397 2.969 0.0 0.0 nan 0 nan 0 2 0.00177952238274 0.018600126294 0.979620351323 0.0203796486768 16.9080330704 0.0894220111411 DEL_gt1KB chrY 13811701 13812800 1100 DEL t0_519 0.985 0.0 0.002 nan 0 nan 0 2 0.000107536300363 0.00997015162613 0.989922312074 0.0100776879265 19.9663909447 0.0439888697989 DEL_gt1KB chrY 13811701 13812800 1100 DEL t0_654 1.037 0.001 0.0 nan 0 nan 0 2 0.000184782774398 0.0131773862399 0.986637830986 0.0133621690143 18.7412303928 0.0584223625543 DEL_gt1KB chrY 13811701 13812800 1100 DEL t0_612 1.199 0.001 0.0 nan 0 nan 0 2 0.000916289794107 0.019604230261 0.979479479945 0.0205205200551 16.8781163702 0.090046580256 DEL_gt1KB chrY 13811701 13812800 1100 DEL t0_474 1.751 0.0 0.002 nan 0 nan 0 2 0.00170479007748 0.0188611197878 0.979434090135 0.0205659098653 16.8685207192 0.0902478402236 DEL_gt1KB chrY 13811701 13812800 1100 DEL 701 1.931 0.0 0.0 nan 0 nan 0 2 0.00167065106592 0.0185746950268 0.979754653907 0.0202453460927 16.936747946 0.0888266491394 DEL_gt1KB chrY 13811701 13812800 1100 DEL t0_473 1.47 0.0 0.0 nan 0 nan 0 2 0.00164527751862 0.0183772517897 0.979977470692 0.0200225293083 16.9848106196 0.0878390845725 DEL_gt1KB chrY 13811701 13812800 1100 DEL t0_574 0.762 0.0 0.0 nan 0 nan 0 2 0.00532775450304 0.213314061009 0.781358184488 0.218641815512 6.60266775097 1.07149834386 DEL_gt1KB chrY 13811701 13812800 1100 DEL 723 2.586 0.0 0.0 nan 0 nan 0 2 0.00168492004458 0.0185527381678 0.979762341788 0.0202376582124 16.9383974303 0.088792571313 DEL_gt1KB chrY 13811701 13812800 1100 DEL 450 2.344 0.0 0.0 nan 0 nan 0 2 0.00167738742743 0.0185463445964 0.979776267976 0.0202237320238 16.9413869801 0.088730841814 DEL_gt1KB chrY 13811701 13812800 1100 DEL t0_585 1.302 0.0 0.0 nan 0 nan 0 2 0.00150087618822 0.0177425990785 0.980756524733 0.0192434752667 17.15716494 0.0843879393383 DEL_gt1KB chrY 13811701 13812800 1100 DEL 428 2.458 0.0 0.0 nan 0 nan 0 2 0.00168067982601 0.0185665369172 0.979752783257 0.0202472167432 16.9363466806 0.0888349411537 DEL_gt1KB chrY 13811701 13812800 1100 DEL t0_387 1.174 0.006 0.001 nan 0 nan 0 2 0.000932028127242 0.0264570452007 0.972610926672 0.027389073328 15.6242266126 0.120608557151 DEL_gt1KB chrY 13811701 13812800 1100 DEL 462 3.092 0.0 0.0 nan 0 nan 0 2 0.00277994476416 0.0186467551792 0.978573300057 0.0214266999434 16.6904471215 0.0940663794894 DEL_gt1KB chrY 13811701 13812800 1100 DEL t0_444 1.071 0.002 0.002 nan 0 nan 0 2 0.000290122036727 0.0165981559612 0.983111722002 0.016888277998 17.7241463072 0.0739712561452 DEL_gt1KB chrY 13814001 13817750 3750 DEL t0_552 1.342 0.0 0.0 0.582 8 nan 0 2 0.0016187581425 0.0176597391374 0.98072150272 0.0192784972799 17.149268215 0.0845430251142 DEL_gt1KB chrY 13814001 13817750 3750 DEL 723 1.63 0.0 0.0 0.436 8 0.292 2 2 0.00165789264362 0.0184522609145 0.979889846442 0.0201101535581 16.9658461318 0.0882274244144 DEL_gt1KB chrY 13814001 13817750 3750 DEL t0_585 4.015 0.0 0.0 0.529 8 nan 0 2 0.0129975032241 0.0203287786072 0.966673718169 0.0333262818313 14.7721313729 0.147200888028 DEL_gt1KB chrY 13814001 13817750 3750 DEL t0_574 3.267 0.0 0.0 0.351 8 nan 0 2 0.00322842088268 0.0191730194552 0.977598559662 0.0224014403379 16.4972405708 0.0983944696573 DEL_gt1KB chrY 13814001 13817750 3750 DEL t0_519 1.435 0.037 0.019 0.898 8 nan 0 2 0.00725285905222 0.0975725613619 0.895174579586 0.104825420414 9.79533387134 0.480922590337 DEL_gt1KB chrY 13814001 13817750 3750 DEL 469 1.629 0.0 0.0 0.994 8 nan 0 2 0.00165753823718 0.0184532895839 0.979889172179 0.020110827821 16.9657005219 0.0882304127989 DEL_gt1KB chrY 13814001 13817750 3750 DEL t0_444 1.078 0.045 0.015 0.77 8 nan 0 2 0.00390840350283 0.278197268419 0.717894328078 0.282105671922 5.49588181978 1.43939477916 DEL_gt1KB chrY 13814001 13817750 3750 DEL t0_612 4.033 0.0 0.0 0.858 8 nan 0 2 0.0139033387211 0.0208147413053 0.965281919974 0.0347180800264 14.5944430011 0.153458282025 DEL_gt1KB chrY 13814001 13817750 3750 DEL 439 1.884 0.0 0.0 1.105 8 nan 0 2 0.00166927569363 0.0185909767707 0.979739747536 0.0202602524643 16.9335514717 0.0888927249081 DEL_gt1KB chrY 13814001 13817750 3750 DEL t0_387 1.169 0.04 0.002 1.11 8 nan 0 2 0.00386667694001 0.182661475874 0.813471847186 0.186528152814 7.29255610562 0.89657472627 DEL_gt1KB chrY 13814001 13817750 3750 DEL 462 1.883 0.0 0.0 0.771 8 nan 0 2 0.00166928807813 0.0185912387549 0.979739473167 0.020260526833 16.933492659 0.0888939411172 DEL_gt1KB chrY 13814001 13817750 3750 DEL t0_654 1.055 0.074 0.01 0.764 8 nan 0 1 0.0108839171051 0.737506306784 0.251609776111 0.748390223889 1.2587189426 5.9927248871 DEL_gt1KB chrY 13814001 13817750 3750 DEL t0_474 2.109 0.078 0.013 0.889 8 0.5 3 2 0.00520912870187 0.0575450468556 0.937245824443 0.0627541755575 12.0235737166 0.28146485743 DEL_gt1KB chrY 13814001 13817750 3750 DEL 701 1.38 0.0 0.0 0.729 8 nan 0 2 0.00166274965716 0.0177920210217 0.980545229321 0.0194547706789 17.1097388403 0.0853236896046 DEL_gt1KB chrY 13814001 13817750 3750 DEL 706 2.655 0.0 0.0 0.359 8 nan 0 2 0.00169173513065 0.0185528219637 0.979755442906 0.0202445570944 16.9369172018 0.088823151759 DEL_gt1KB chrY 13814001 13817750 3750 DEL t0_473 4.966 0.0 0.0 0.644 8 nan 0 2 0.15105784769 0.0653605350402 0.78358161727 0.21641838273 6.64705852719 1.05915761054 DEL_gt1KB chrY 13814001 13817750 3750 DEL 450 1.526 0.0 0.0 0.794 8 nan 0 2 0.0016329576527 0.0185435215723 0.979823520775 0.020176479225 16.9515461543 0.0885213946616 DEL_gt1KB chrY 13814001 13817750 3750 DEL 428 1.448 0.0 0.0 0.925 8 nan 0 2 0.00165427894409 0.0182496803279 0.980096040728 0.019903959272 17.0106052565 0.0873136521102 DEL_gt1KB chrY 13814001 13817750 3750 DEL t0_543 1.046 0.115 0.012 0.61 8 nan 0 1 0.022133628213 0.950822286494 0.0270440852932 0.972955914707 0.119068374637 15.6792770303 DEL_gt1KB chrY 13821801 13825650 3850 DEL t0_519 1.891 0.0 0.0 nan 0 nan 0 2 0.00166924026073 0.0185889529864 0.979741806753 0.0202581932471 16.9339929036 0.0888835969155 DEL_gt1KB chrY 13821801 13825650 3850 DEL 469 1.45 0.0 0.0 nan 0 nan 0 2 0.00165344022253 0.0182624259467 0.980084133831 0.0199158661692 17.0080080076 0.0873664135843 DEL_gt1KB chrY 13821801 13825650 3850 DEL t0_552 1.264 0.0 0.0 nan 0 nan 0 2 0.00131282602558 0.0180327594906 0.980654414484 0.0193455855162 17.1341812133 0.0848401231931 DEL_gt1KB chrY 13821801 13825650 3850 DEL 450 1.443 0.0 0.0 nan 0 nan 0 2 0.00165635570615 0.0182170017906 0.980126642503 0.0198733574968 17.0172875498 0.0871780534129 DEL_gt1KB chrY 13821801 13825650 3850 DEL t0_612 2.761 0.0 0.0 nan 0 nan 0 2 0.00171239305739 0.0185909619225 0.97969664502 0.0203033549799 16.9243219219 0.0890837919388 DEL_gt1KB chrY 13821801 13825650 3850 DEL 723 1.475 0.0 0.0 nan 0 nan 0 2 0.00164341521791 0.0184018215856 0.979954763196 0.0200452368035 16.9798880886 0.0879397180506 DEL_gt1KB chrY 13821801 13825650 3850 DEL t0_574 2.19 0.0 0.0 nan 0 nan 0 2 0.00167876918946 0.0185834361952 0.979737794615 0.0202622053847 16.933132868 0.0889013817315 DEL_gt1KB chrY 13821801 13825650 3850 DEL t0_397 4.078 0.0 0.0 nan 0 nan 0 2 0.0164830109832 0.0222138081132 0.961303180904 0.0386968190964 14.123247328 0.171396206271 DEL_gt1KB chrY 13821801 13825650 3850 DEL t0_654 1.406 0.0 0.0 nan 0 nan 0 2 0.00166721909628 0.0179574166995 0.980375364204 0.0196246357958 17.0719839437 0.0860761064374 DEL_gt1KB chrY 13821801 13825650 3850 DEL t0_444 1.653 0.0 0.0 nan 0 nan 0 2 0.00166562323432 0.0184355037664 0.979898872999 0.0201011270008 16.9677959251 0.0881874182237 DEL_gt1KB chrY 13821801 13825650 3850 DEL t0_585 3.244 0.0 0.0 nan 0 nan 0 2 0.00316399347864 0.0191156116071 0.977720394914 0.0222796050858 16.5209251146 0.0978532548582 DEL_gt1KB chrY 13821801 13825650 3850 DEL 428 1.402 0.0 0.0 nan 0 nan 0 2 0.00166744852003 0.0179298117865 0.980402739693 0.0195972603066 17.0780463869 0.0859548380095 DEL_gt1KB chrY 13821801 13825650 3850 DEL t0_473 3.677 0.0 0.0 nan 0 nan 0 2 0.0051647306947 0.0175319476161 0.977303321689 0.0226966783108 16.4403769773 0.0997062513348 DEL_gt1KB chrY 13821801 13825650 3850 DEL t0_474 2.149 0.013 0.0 nan 0 nan 0 2 0.0018922453382 0.0216488198439 0.976458934818 0.0235410651821 16.2817389017 0.103460163362 DEL_gt1KB chrY 13821801 13825650 3850 DEL t0_387 1.468 0.0 0.0 nan 0 nan 0 2 0.0016460500297 0.018366925864 0.979987024106 0.0200129758937 16.9868832775 0.0877967471194 DEL_gt1KB chrY 13821801 13825650 3850 DEL 706 2.515 0.0 0.0 nan 0 nan 0 2 0.0016819578897 0.0185645575898 0.97975348452 0.0202465154795 16.9364971014 0.0888318326672 DEL_gt1KB chrY 13821801 13825650 3850 DEL 439 1.527 0.0 0.0 nan 0 nan 0 2 0.00163293500766 0.0185443838709 0.979822681121 0.0201773188786 16.9513654244 0.0885251163223 DEL_gt1KB chrY 13821801 13825650 3850 DEL 462 1.947 0.0 0.0 nan 0 nan 0 2 0.00167184856744 0.0185697913517 0.979758360081 0.0202416399191 16.9375430512 0.0888102208665 DEL_gt1KB chrY 13821801 13825650 3850 DEL t0_543 1.863 0.009 0.0 nan 0 nan 0 2 0.00190060891796 0.0222503238684 0.975849067214 0.0241509327863 16.1706609075 0.106173486706 DEL_gt1KB chrY 13821801 13825650 3850 DEL 701 1.12 0.0 0.0 nan 0 nan 0 2 0.00043292094935 0.0169502544077 0.982616824643 0.017383175357 17.5987088876 0.0761580402467 DEL_gt1KB chrY 13827901 13832000 4100 DEL t0_543 1.012 0.0 0.0 0.098 1 nan 0 2 0.000132966805264 0.0109023964926 0.988964636702 0.0110353632979 19.5721336475 0.0481923758352 DEL_gt1KB chrY 13827901 13832000 4100 DEL 469 1.666 0.0 0.0 0.235 1 nan 0 2 0.00166943907911 0.0184325365223 0.979898024399 0.0201019756015 16.9676125847 0.0881911792522 DEL_gt1KB chrY 13827901 13832000 4100 DEL t0_519 1.094 0.0 0.0 0.102 1 nan 0 2 0.000327114371832 0.0156490377188 0.984023847909 0.0159761520906 17.965278137 0.0699437627398 DEL_gt1KB chrY 13827901 13832000 4100 DEL t0_552 1.405 0.0 0.0 0.342 1 nan 0 2 0.00166730173965 0.0179504686445 0.980382229616 0.0196177703842 17.0735035296 0.0860456935971 DEL_gt1KB chrY 13827901 13832000 4100 DEL 723 1.632 0.0 0.0 0.282 1 nan 0 2 0.0016585985008 0.0184502713915 0.979891130108 0.0201088698923 16.9661233583 0.0882217351155 DEL_gt1KB chrY

dantaki commented 7 years ago

Hey amaia,

I can't thank you enough for bringing this to my attention and for testing my software so well!

I managed to replicate your error. It seems that I goofed when I created the pickle files for the classifier for deletions on male sex chromosomes.

I remade the pickle files and updated the source files on SourceForge. I also tested SV2 with a clean install and I got it to work.

Please download the source files from SourceForge again and re-install SV2

I think this should fix the issue now.

Thanks so much!

Danny

amaiacc commented 7 years ago

Dear Danny, Sorry for the late reply. I just wanted to let you know that I got the vcf file for all chromosomes using sv2-1.3. Thanks again for your help, and for the useful tool! amaia

2017-06-02 19:44 GMT+02:00 Danny Antaki notifications@github.com:

Hey amaia,

I can't thank you enough for bringing this to my attention and for testing my software so well!

I managed to replicate your error. It seems that I goofed when I created the pickle files for the classifier for deletions on male sex chromosomes.

I remade the pickle files and updated the source files on SourceForge. I also tested SV2 with a clean install and I got it to work.

Please download the source files from SourceForge again and re-install SV2

I think this should fix the issue now.

Thanks so much!

Danny

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