bio-vcf 0.8.2 → 0.9.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- checksums.yaml +4 -4
- data/.travis.yml +8 -2
- data/Gemfile +4 -6
- data/README.md +92 -57
- data/Rakefile +3 -41
- data/TAGS +115 -0
- data/VERSION +1 -1
- data/bin/bio-vcf +58 -70
- data/bio-vcf.gemspec +23 -75
- data/features/cli.feature +6 -1
- data/features/multisample.feature +12 -0
- data/features/step_definitions/cli-feature.rb +2 -2
- data/features/step_definitions/multisample.rb +19 -0
- data/features/step_definitions/vcf_header.rb +1 -1
- data/features/support/env.rb +0 -9
- data/lib/bio-vcf/pcows.rb +210 -0
- data/lib/bio-vcf/vcfheader.rb +28 -9
- data/lib/bio-vcf/vcfheader_line.rb +455 -160
- data/lib/bio-vcf/vcfrecord.rb +30 -15
- data/ragel/gen_vcfheaderline_parser.rl +68 -25
- data/ragel/generate.sh +4 -1
- data/template/vcf2json.erb +16 -16
- data/template/vcf2json_full_header.erb +16 -17
- data/template/vcf2json_use_meta.erb +35 -35
- data/test/data/input/gatk_exome.vcf +237 -0
- data/test/data/input/gatk_wgs.vcf +1000 -0
- data/test/data/input/test.bed +632 -0
- data/test/data/regression/eval_once-stderr.new +1 -0
- data/test/data/regression/eval_once.new +1 -0
- data/test/data/regression/eval_once.ref +1 -0
- data/test/data/regression/eval_r.info.dp-stderr.new +4 -0
- data/test/data/regression/eval_r.info.dp.new +150 -0
- data/test/data/regression/ifilter_s.dp-stderr.new +28 -0
- data/test/data/regression/ifilter_s.dp.new +31 -0
- data/test/data/regression/r.info.dp-stderr.new +4 -0
- data/test/data/regression/r.info.dp.new +147 -0
- data/test/data/regression/rewrite.info.sample-stderr.new +4 -0
- data/test/data/regression/rewrite.info.sample.new +150 -0
- data/test/data/regression/s.dp-stderr.new +12 -0
- data/test/data/regression/s.dp.new +145 -0
- data/test/data/regression/seval_s.dp-stderr.new +4 -0
- data/test/data/regression/seval_s.dp.new +36 -0
- data/test/data/regression/sfilter_seval_s.dp-stderr.new +12 -0
- data/test/data/regression/sfilter_seval_s.dp.new +31 -0
- data/test/data/regression/thread4-stderr.new +4 -0
- data/test/data/regression/thread4.new +150 -0
- data/test/data/regression/thread4_4-stderr.new +15 -0
- data/test/data/regression/thread4_4.new +150 -0
- data/test/data/regression/thread4_4_failed_filter-stderr.new +5 -0
- data/test/data/regression/thread4_4_failed_filter-stderr.ref +5 -2
- data/test/data/regression/thread4_4_failed_filter.new +110 -0
- data/test/data/regression/vcf2json_full_header-stderr.new +4 -0
- data/test/data/regression/vcf2json_full_header.new +225 -0
- data/test/data/regression/vcf2json_full_header.ref +222 -258
- data/test/data/regression/vcf2json_use_meta-stderr.new +4 -0
- data/test/data/regression/vcf2json_use_meta.new +4697 -0
- data/test/data/regression/vcf2json_use_meta.ref +4697 -0
- data/test/performance/metrics.md +18 -1
- data/test/tmp/test.vcf +12469 -0
- metadata +38 -62
- data/Gemfile.lock +0 -81
- data/ragel/gen_vcfheaderline_parser.rb +0 -483
|
@@ -0,0 +1,632 @@
|
|
|
1
|
+
1 172628340 172628472 FASLG
|
|
2
|
+
1 172628550 172628688 FASLG
|
|
3
|
+
1 172629196 172629317 FASLG
|
|
4
|
+
1 172633440 172633562 FASLG
|
|
5
|
+
1 172634760 172635156 FASLG
|
|
6
|
+
1 223968514 223968635 TP53BP2
|
|
7
|
+
1 223971815 223972016 TP53BP2
|
|
8
|
+
1 223976708 223976876 TP53BP2
|
|
9
|
+
1 223980089 223980223 TP53BP2
|
|
10
|
+
1 223981003 223981141 TP53BP2
|
|
11
|
+
1 223983515 223984283 TP53BP2
|
|
12
|
+
1 223985915 223986378 TP53BP2
|
|
13
|
+
1 223987599 223987749 TP53BP2
|
|
14
|
+
1 223988395 223988517 TP53BP2
|
|
15
|
+
1 223989816 223990044 TP53BP2
|
|
16
|
+
1 223990431 223990597 TP53BP2
|
|
17
|
+
1 223990971 223991154 TP53BP2
|
|
18
|
+
1 223991874 223992050 TP53BP2
|
|
19
|
+
1 223994535 223994658 TP53BP2
|
|
20
|
+
1 223998112 223998234 TP53BP2
|
|
21
|
+
1 224001924 224002058 TP53BP2
|
|
22
|
+
1 224008920 224009200 TP53BP2
|
|
23
|
+
1 224033308 224033428 TP53BP2
|
|
24
|
+
2 112524494 112524614 ANAPC1
|
|
25
|
+
2 112526864 112526985 ANAPC1
|
|
26
|
+
2 112529916 112530052 ANAPC1
|
|
27
|
+
2 112534434 112534632 ANAPC1
|
|
28
|
+
2 112536238 112536359 ANAPC1
|
|
29
|
+
2 112537857 112537979 ANAPC1
|
|
30
|
+
2 112539944 112540084 ANAPC1
|
|
31
|
+
2 112541446 112541567 ANAPC1
|
|
32
|
+
2 112541877 112541998 ANAPC1
|
|
33
|
+
2 112542934 112543055 ANAPC1
|
|
34
|
+
2 112545792 112545914 ANAPC1
|
|
35
|
+
2 112549937 112550132 ANAPC1
|
|
36
|
+
2 112551620 112551741 ANAPC1
|
|
37
|
+
2 112551793 112551915 ANAPC1
|
|
38
|
+
2 112552371 112552493 ANAPC1
|
|
39
|
+
2 112558349 112558471 ANAPC1
|
|
40
|
+
2 112559982 112560104 ANAPC1
|
|
41
|
+
2 112561004 112561126 ANAPC1
|
|
42
|
+
2 112561280 112561416 ANAPC1
|
|
43
|
+
2 112563363 112563484 ANAPC1
|
|
44
|
+
2 112566522 112566756 ANAPC1
|
|
45
|
+
2 112572945 112573217 ANAPC1
|
|
46
|
+
2 112576414 112576536 ANAPC1
|
|
47
|
+
2 112578814 112579030 ANAPC1
|
|
48
|
+
2 112579997 112580177 ANAPC1
|
|
49
|
+
2 112582516 112582638 ANAPC1
|
|
50
|
+
2 112582665 112582785 ANAPC1
|
|
51
|
+
2 112583331 112583453 ANAPC1
|
|
52
|
+
2 112588861 112589011 ANAPC1
|
|
53
|
+
2 112590781 112590902 ANAPC1
|
|
54
|
+
2 112592179 112592447 ANAPC1
|
|
55
|
+
2 112595990 112596112 ANAPC1
|
|
56
|
+
2 112600987 112601176 ANAPC1
|
|
57
|
+
2 112604683 112604805 ANAPC1
|
|
58
|
+
2 112605300 112605442 ANAPC1
|
|
59
|
+
2 112608351 112608487 ANAPC1
|
|
60
|
+
2 112614162 112614283 ANAPC1
|
|
61
|
+
2 112614332 112614452 ANAPC1
|
|
62
|
+
2 112615869 112615990 ANAPC1
|
|
63
|
+
2 112619964 112620174 ANAPC1
|
|
64
|
+
2 112621250 112621472 ANAPC1
|
|
65
|
+
2 112622381 112622527 ANAPC1
|
|
66
|
+
2 112625575 112625696 ANAPC1
|
|
67
|
+
2 112630186 112630308 ANAPC1
|
|
68
|
+
2 112630873 112630995 ANAPC1
|
|
69
|
+
2 112631154 112631275 ANAPC1
|
|
70
|
+
2 112636385 112636547 ANAPC1
|
|
71
|
+
2 112638188 112638401 ANAPC1
|
|
72
|
+
2 202122953 202123105 CASP8
|
|
73
|
+
2 202131182 202131548 CASP8
|
|
74
|
+
2 202134219 202134340 CASP8
|
|
75
|
+
2 202136199 202136353 CASP8
|
|
76
|
+
2 202137358 202137498 CASP8
|
|
77
|
+
2 202137581 202137703 CASP8
|
|
78
|
+
2 202139582 202139704 CASP8
|
|
79
|
+
2 202140198 202140318 CASP8
|
|
80
|
+
2 202141519 202141691 CASP8
|
|
81
|
+
2 202149537 202150033 CASP8
|
|
82
|
+
2 202151180 202151316 CASP8
|
|
83
|
+
2 202152128 202152248 CASP8
|
|
84
|
+
2 215593398 215593728 BARD1
|
|
85
|
+
2 215595122 215595245 BARD1
|
|
86
|
+
2 215595579 215595699 BARD1
|
|
87
|
+
2 215609775 215609897 BARD1
|
|
88
|
+
2 215610444 215610578 BARD1
|
|
89
|
+
2 215617163 215617285 BARD1
|
|
90
|
+
2 215632204 215632378 BARD1
|
|
91
|
+
2 215633934 215634056 BARD1
|
|
92
|
+
2 215645282 215646227 BARD1
|
|
93
|
+
2 215657019 215657169 BARD1
|
|
94
|
+
2 215661751 215661873 BARD1
|
|
95
|
+
2 215674094 215674334 BARD1
|
|
96
|
+
2 24300447 24300630 TP53I3
|
|
97
|
+
2 24302312 24302510 TP53I3
|
|
98
|
+
2 24303640 24303900 TP53I3
|
|
99
|
+
2 24305708 24306068 TP53I3
|
|
100
|
+
2 24307057 24307195 TP53I3
|
|
101
|
+
3 134197430 134197556 ANAPC13
|
|
102
|
+
3 134201635 134201757 ANAPC13
|
|
103
|
+
4 145916523 145916754 ANAPC10
|
|
104
|
+
4 145974844 145974965 ANAPC10
|
|
105
|
+
4 145985722 145985844 ANAPC10
|
|
106
|
+
4 146002795 146002917 ANAPC10
|
|
107
|
+
4 146017132 146017254 ANAPC10
|
|
108
|
+
4 25379048 25379178 ANAPC4
|
|
109
|
+
4 25381970 25382108 ANAPC4
|
|
110
|
+
4 25384846 25385014 ANAPC4
|
|
111
|
+
4 25390097 25390219 ANAPC4
|
|
112
|
+
4 25390291 25390411 ANAPC4
|
|
113
|
+
4 25390420 25390542 ANAPC4
|
|
114
|
+
4 25391738 25391860 ANAPC4
|
|
115
|
+
4 25392523 25392645 ANAPC4
|
|
116
|
+
4 25393940 25394061 ANAPC4
|
|
117
|
+
4 25395408 25395530 ANAPC4
|
|
118
|
+
4 25395902 25396024 ANAPC4
|
|
119
|
+
4 25396252 25396374 ANAPC4
|
|
120
|
+
4 25396427 25396549 ANAPC4
|
|
121
|
+
4 25398274 25398396 ANAPC4
|
|
122
|
+
4 25398434 25398555 ANAPC4
|
|
123
|
+
4 25404559 25404680 ANAPC4
|
|
124
|
+
4 25407156 25407279 ANAPC4
|
|
125
|
+
4 25408417 25408539 ANAPC4
|
|
126
|
+
4 25408785 25408907 ANAPC4
|
|
127
|
+
4 25411305 25411426 ANAPC4
|
|
128
|
+
4 25415256 25415376 ANAPC4
|
|
129
|
+
4 25415944 25416166 ANAPC4
|
|
130
|
+
4 25416210 25416331 ANAPC4
|
|
131
|
+
4 25417063 25417185 ANAPC4
|
|
132
|
+
4 25418045 25418219 ANAPC4
|
|
133
|
+
4 25419236 25419360 ANAPC4
|
|
134
|
+
4 25419775 25420003 ANAPC4
|
|
135
|
+
5 112043413 112043579 APC
|
|
136
|
+
5 112090586 112090722 APC
|
|
137
|
+
5 112102003 112102125 APC
|
|
138
|
+
5 112102884 112103085 APC
|
|
139
|
+
5 112111322 112111442 APC
|
|
140
|
+
5 112116482 112116606 APC
|
|
141
|
+
5 112128123 112128244 APC
|
|
142
|
+
5 112136963 112137083 APC
|
|
143
|
+
5 112151179 112151301 APC
|
|
144
|
+
5 112154661 112155039 APC
|
|
145
|
+
5 112157579 112157700 APC
|
|
146
|
+
5 112162803 112162943 APC
|
|
147
|
+
5 112163603 112163724 APC
|
|
148
|
+
5 112164549 112164671 APC
|
|
149
|
+
5 112170646 112170862 APC
|
|
150
|
+
5 112173248 112177254 APC
|
|
151
|
+
5 112177355 112179812 APC
|
|
152
|
+
7 150773793 150773925 FASTK
|
|
153
|
+
7 150773936 150774483 FASTK
|
|
154
|
+
7 150774667 150774907 FASTK
|
|
155
|
+
7 150774964 150775201 FASTK
|
|
156
|
+
7 150775598 150775838 FASTK
|
|
157
|
+
7 150775927 150776119 FASTK
|
|
158
|
+
7 150776527 150777037 FASTK
|
|
159
|
+
7 150777751 150777872 FASTK
|
|
160
|
+
7 50660627 50660815 GRB10
|
|
161
|
+
7 50663090 50663240 GRB10
|
|
162
|
+
7 50671673 50671802 GRB10
|
|
163
|
+
7 50671976 50672101 GRB10
|
|
164
|
+
7 50672965 50673123 GRB10
|
|
165
|
+
7 50674011 50674132 GRB10
|
|
166
|
+
7 50680366 50680546 GRB10
|
|
167
|
+
7 50682445 50682597 GRB10
|
|
168
|
+
7 50683885 50684049 GRB10
|
|
169
|
+
7 50685713 50685835 GRB10
|
|
170
|
+
7 50686845 50687002 GRB10
|
|
171
|
+
7 50694497 50694695 GRB10
|
|
172
|
+
7 50737406 50737580 GRB10
|
|
173
|
+
7 50742111 50742372 GRB10
|
|
174
|
+
7 50771496 50771625 GRB10
|
|
175
|
+
7 50778503 50778647 GRB10
|
|
176
|
+
7 50799932 50800054 GRB10
|
|
177
|
+
8 90947764 90947884 NBN
|
|
178
|
+
8 90949217 90949338 NBN
|
|
179
|
+
8 90955476 90955597 NBN
|
|
180
|
+
8 90958366 90958522 NBN
|
|
181
|
+
8 90960024 90960146 NBN
|
|
182
|
+
8 90965470 90965919 NBN
|
|
183
|
+
8 90967509 90967781 NBN
|
|
184
|
+
8 90970951 90971081 NBN
|
|
185
|
+
8 90976625 90976746 NBN
|
|
186
|
+
8 90982590 90982785 NBN
|
|
187
|
+
8 90983398 90983519 NBN
|
|
188
|
+
8 90990433 90990559 NBN
|
|
189
|
+
8 90992960 90993120 NBN
|
|
190
|
+
8 90993578 90993750 NBN
|
|
191
|
+
8 90994166 90994286 NBN
|
|
192
|
+
8 90994948 90995082 NBN
|
|
193
|
+
8 90996710 90996830 NBN
|
|
194
|
+
9 140069388 140069619 ANAPC2
|
|
195
|
+
9 140069686 140069926 ANAPC2
|
|
196
|
+
9 140070104 140070344 ANAPC2
|
|
197
|
+
9 140074631 140074835 ANAPC2
|
|
198
|
+
9 140074880 140075001 ANAPC2
|
|
199
|
+
9 140075160 140075430 ANAPC2
|
|
200
|
+
9 140076073 140076343 ANAPC2
|
|
201
|
+
9 140077574 140077695 ANAPC2
|
|
202
|
+
9 140078033 140078303 ANAPC2
|
|
203
|
+
9 140079331 140079571 ANAPC2
|
|
204
|
+
9 140080591 140080861 ANAPC2
|
|
205
|
+
9 140081931 140082551 ANAPC2
|
|
206
|
+
9 140082805 140083045 ANAPC2
|
|
207
|
+
10 73983671 73983813 ANAPC16
|
|
208
|
+
10 73990099 73990221 ANAPC16
|
|
209
|
+
10 73992755 73992876 ANAPC16
|
|
210
|
+
10 89624204 89624326 PTEN
|
|
211
|
+
10 89653762 89653884 PTEN
|
|
212
|
+
10 89685230 89685352 PTEN
|
|
213
|
+
10 89690763 89690884 PTEN
|
|
214
|
+
10 89692768 89693008 PTEN
|
|
215
|
+
10 89711873 89712015 PTEN
|
|
216
|
+
10 89717608 89717776 PTEN
|
|
217
|
+
10 89720649 89720874 PTEN
|
|
218
|
+
10 89725042 89725228 PTEN
|
|
219
|
+
10 90750587 90750707 FAS
|
|
220
|
+
10 90762784 90762950 FAS
|
|
221
|
+
10 90767455 90767593 FAS
|
|
222
|
+
10 90768638 90768760 FAS
|
|
223
|
+
10 90770265 90770386 FAS
|
|
224
|
+
10 90770475 90770601 FAS
|
|
225
|
+
10 90771735 90771857 FAS
|
|
226
|
+
10 90773051 90773171 FAS
|
|
227
|
+
10 90773855 90774205 FAS
|
|
228
|
+
11 108098326 108098447 ATM
|
|
229
|
+
11 108098497 108098619 ATM
|
|
230
|
+
11 108099903 108100049 ATM
|
|
231
|
+
11 108106395 108106561 ATM
|
|
232
|
+
11 108114678 108114844 ATM
|
|
233
|
+
11 108115513 108115753 ATM
|
|
234
|
+
11 108117689 108117853 ATM
|
|
235
|
+
11 108119658 108119828 ATM
|
|
236
|
+
11 108121426 108121798 ATM
|
|
237
|
+
11 108122562 108122757 ATM
|
|
238
|
+
11 108123530 108123651 ATM
|
|
239
|
+
11 108124539 108124764 ATM
|
|
240
|
+
11 108126940 108127066 ATM
|
|
241
|
+
11 108128206 108128332 ATM
|
|
242
|
+
11 108129696 108129817 ATM
|
|
243
|
+
11 108137896 108138068 ATM
|
|
244
|
+
11 108139134 108139335 ATM
|
|
245
|
+
11 108141770 108141892 ATM
|
|
246
|
+
11 108141976 108142132 ATM
|
|
247
|
+
11 108143235 108143356 ATM
|
|
248
|
+
11 108143447 108143579 ATM
|
|
249
|
+
11 108150215 108150336 ATM
|
|
250
|
+
11 108151720 108151894 ATM
|
|
251
|
+
11 108153435 108153605 ATM
|
|
252
|
+
11 108154952 108155200 ATM
|
|
253
|
+
11 108158323 108158469 ATM
|
|
254
|
+
11 108159702 108159830 ATM
|
|
255
|
+
11 108160327 108160528 ATM
|
|
256
|
+
11 108163344 108163520 ATM
|
|
257
|
+
11 108164038 108164204 ATM
|
|
258
|
+
11 108165652 108165786 ATM
|
|
259
|
+
11 108167998 108168118 ATM
|
|
260
|
+
11 108170439 108170611 ATM
|
|
261
|
+
11 108172373 108172515 ATM
|
|
262
|
+
11 108173578 108173756 ATM
|
|
263
|
+
11 108175400 108175578 ATM
|
|
264
|
+
11 108178606 108178727 ATM
|
|
265
|
+
11 108180885 108181041 ATM
|
|
266
|
+
11 108183120 108183241 ATM
|
|
267
|
+
11 108186532 108186654 ATM
|
|
268
|
+
11 108186727 108186849 ATM
|
|
269
|
+
11 108188098 108188248 ATM
|
|
270
|
+
11 108190671 108190793 ATM
|
|
271
|
+
11 108192026 108192147 ATM
|
|
272
|
+
11 108196035 108196269 ATM
|
|
273
|
+
11 108196783 108196951 ATM
|
|
274
|
+
11 108198367 108198488 ATM
|
|
275
|
+
11 108199746 108199965 ATM
|
|
276
|
+
11 108200939 108201146 ATM
|
|
277
|
+
11 108202166 108202287 ATM
|
|
278
|
+
11 108202604 108202764 ATM
|
|
279
|
+
11 108203487 108203627 ATM
|
|
280
|
+
11 108204592 108204714 ATM
|
|
281
|
+
11 108205694 108205836 ATM
|
|
282
|
+
11 108206568 108206690 ATM
|
|
283
|
+
11 108213947 108214097 ATM
|
|
284
|
+
11 108216468 108216634 ATM
|
|
285
|
+
11 108217987 108218109 ATM
|
|
286
|
+
11 108224488 108224610 ATM
|
|
287
|
+
11 108225508 108225629 ATM
|
|
288
|
+
11 108235807 108235945 ATM
|
|
289
|
+
11 108236050 108236233 ATM
|
|
290
|
+
11 128805492 128805618 TP53AIP1
|
|
291
|
+
11 128806427 128806548 TP53AIP1
|
|
292
|
+
11 128807385 128807710 TP53AIP1
|
|
293
|
+
11 74977201 74977322 ARRB1
|
|
294
|
+
11 74978660 74978781 ARRB1
|
|
295
|
+
11 74979906 74980028 ARRB1
|
|
296
|
+
11 74982695 74982816 ARRB1
|
|
297
|
+
11 74983919 74984040 ARRB1
|
|
298
|
+
11 74985116 74985254 ARRB1
|
|
299
|
+
11 74987857 74987979 ARRB1
|
|
300
|
+
11 74988388 74988510 ARRB1
|
|
301
|
+
11 74989600 74989840 ARRB1
|
|
302
|
+
11 74992091 74992212 ARRB1
|
|
303
|
+
11 74992974 74993095 ARRB1
|
|
304
|
+
11 74994278 74994548 ARRB1
|
|
305
|
+
11 74995239 74995361 ARRB1
|
|
306
|
+
11 74998327 74998449 ARRB1
|
|
307
|
+
11 75001008 75001128 ARRB1
|
|
308
|
+
11 75062603 75062723 ARRB1
|
|
309
|
+
12 110811947 110812136 ANAPC7
|
|
310
|
+
12 110813865 110814021 ANAPC7
|
|
311
|
+
12 110815196 110815421 ANAPC7
|
|
312
|
+
12 110819555 110819753 ANAPC7
|
|
313
|
+
12 110820645 110820766 ANAPC7
|
|
314
|
+
12 110824130 110824274 ANAPC7
|
|
315
|
+
12 110825542 110825696 ANAPC7
|
|
316
|
+
12 110826311 110826432 ANAPC7
|
|
317
|
+
12 110832904 110833025 ANAPC7
|
|
318
|
+
12 110834069 110834255 ANAPC7
|
|
319
|
+
12 110841320 110841552 ANAPC7
|
|
320
|
+
12 121746281 121746494 ANAPC5
|
|
321
|
+
12 121747502 121747666 ANAPC5
|
|
322
|
+
12 121756078 121756226 ANAPC5
|
|
323
|
+
12 121756296 121756417 ANAPC5
|
|
324
|
+
12 121757498 121757621 ANAPC5
|
|
325
|
+
12 121758163 121758285 ANAPC5
|
|
326
|
+
12 121764816 121765086 ANAPC5
|
|
327
|
+
12 121766117 121766324 ANAPC5
|
|
328
|
+
12 121768369 121768490 ANAPC5
|
|
329
|
+
12 121769129 121769250 ANAPC5
|
|
330
|
+
12 121773334 121773526 ANAPC5
|
|
331
|
+
12 121775083 121775204 ANAPC5
|
|
332
|
+
12 121779777 121779899 ANAPC5
|
|
333
|
+
12 121783640 121783868 ANAPC5
|
|
334
|
+
12 121784687 121784813 ANAPC5
|
|
335
|
+
12 121785583 121785704 ANAPC5
|
|
336
|
+
12 121789889 121790159 ANAPC5
|
|
337
|
+
13 32890569 32890691 BRCA2
|
|
338
|
+
13 32893212 32893460 BRCA2
|
|
339
|
+
13 32899205 32899327 BRCA2
|
|
340
|
+
13 32900201 32900322 BRCA2
|
|
341
|
+
13 32900337 32900459 BRCA2
|
|
342
|
+
13 32900631 32900753 BRCA2
|
|
343
|
+
13 32903543 32903664 BRCA2
|
|
344
|
+
13 32905050 32905171 BRCA2
|
|
345
|
+
13 32906407 32907517 BRCA2
|
|
346
|
+
13 32910400 32915276 BRCA2
|
|
347
|
+
13 32918681 32918802 BRCA2
|
|
348
|
+
13 32920937 32921058 BRCA2
|
|
349
|
+
13 32928996 32929424 BRCA2
|
|
350
|
+
13 32930563 32930746 BRCA2
|
|
351
|
+
13 32931877 32932066 BRCA2
|
|
352
|
+
13 32936658 32936830 BRCA2
|
|
353
|
+
13 32937314 32937669 BRCA2
|
|
354
|
+
13 32944537 32944693 BRCA2
|
|
355
|
+
13 32945091 32945237 BRCA2
|
|
356
|
+
13 32950805 32950928 BRCA2
|
|
357
|
+
13 32953452 32953650 BRCA2
|
|
358
|
+
13 32953885 32954049 BRCA2
|
|
359
|
+
13 32954142 32954282 BRCA2
|
|
360
|
+
13 32968824 32969068 BRCA2
|
|
361
|
+
13 32971033 32971181 BRCA2
|
|
362
|
+
13 32972297 32972907 BRCA2
|
|
363
|
+
13 48877954 48878074 RB1
|
|
364
|
+
13 48878128 48878248 RB1
|
|
365
|
+
13 48881414 48881542 RB1
|
|
366
|
+
13 48916731 48916852 RB1
|
|
367
|
+
13 48919214 48919335 RB1
|
|
368
|
+
13 48921919 48922039 RB1
|
|
369
|
+
13 48923064 48923185 RB1
|
|
370
|
+
13 48934146 48934268 RB1
|
|
371
|
+
13 48936949 48937093 RB1
|
|
372
|
+
13 48939007 48939128 RB1
|
|
373
|
+
13 48941623 48941744 RB1
|
|
374
|
+
13 48942638 48942758 RB1
|
|
375
|
+
13 48947523 48947644 RB1
|
|
376
|
+
13 48951050 48951172 RB1
|
|
377
|
+
13 48953694 48953816 RB1
|
|
378
|
+
13 48954119 48954239 RB1
|
|
379
|
+
13 48954293 48954413 RB1
|
|
380
|
+
13 48955381 48955579 RB1
|
|
381
|
+
13 49027126 49027248 RB1
|
|
382
|
+
13 49030338 49030484 RB1
|
|
383
|
+
13 49033822 49033968 RB1
|
|
384
|
+
13 49037857 49037979 RB1
|
|
385
|
+
13 49039129 49039250 RB1
|
|
386
|
+
13 49039339 49039503 RB1
|
|
387
|
+
13 49047450 49047570 RB1
|
|
388
|
+
13 49050835 49050979 RB1
|
|
389
|
+
13 49051454 49051575 RB1
|
|
390
|
+
13 49054109 49054230 RB1
|
|
391
|
+
15 43699579 43699768 TP53BP1
|
|
392
|
+
15 43700139 43700285 TP53BP1
|
|
393
|
+
15 43701093 43701309 TP53BP1
|
|
394
|
+
15 43701830 43701952 TP53BP1
|
|
395
|
+
15 43704856 43704977 TP53BP1
|
|
396
|
+
15 43705315 43705531 TP53BP1
|
|
397
|
+
15 43707790 43708006 TP53BP1
|
|
398
|
+
15 43708421 43708613 TP53BP1
|
|
399
|
+
15 43712476 43712932 TP53BP1
|
|
400
|
+
15 43713221 43713371 TP53BP1
|
|
401
|
+
15 43714051 43714323 TP53BP1
|
|
402
|
+
15 43720212 43720395 TP53BP1
|
|
403
|
+
15 43724390 43724870 TP53BP1
|
|
404
|
+
15 43730502 43730628 TP53BP1
|
|
405
|
+
15 43733691 43733812 TP53BP1
|
|
406
|
+
15 43738583 43738787 TP53BP1
|
|
407
|
+
15 43739043 43739163 TP53BP1
|
|
408
|
+
15 43739554 43739682 TP53BP1
|
|
409
|
+
15 43748088 43749396 TP53BP1
|
|
410
|
+
15 43762054 43762264 TP53BP1
|
|
411
|
+
15 43766856 43766978 TP53BP1
|
|
412
|
+
15 43767761 43767891 TP53BP1
|
|
413
|
+
15 43769789 43769957 TP53BP1
|
|
414
|
+
15 43771593 43771723 TP53BP1
|
|
415
|
+
15 43772055 43772215 TP53BP1
|
|
416
|
+
15 43773009 43773129 TP53BP1
|
|
417
|
+
15 43773184 43773304 TP53BP1
|
|
418
|
+
15 43783847 43783969 TP53BP1
|
|
419
|
+
15 43784185 43784306 TP53BP1
|
|
420
|
+
15 43784480 43784666 TP53BP1
|
|
421
|
+
15 43785177 43785297 TP53BP1
|
|
422
|
+
16 23614778 23614988 PALB2
|
|
423
|
+
16 23619183 23619333 PALB2
|
|
424
|
+
16 23625307 23625428 PALB2
|
|
425
|
+
16 23632683 23632803 PALB2
|
|
426
|
+
16 23634288 23634450 PALB2
|
|
427
|
+
16 23635311 23635432 PALB2
|
|
428
|
+
16 23637555 23637717 PALB2
|
|
429
|
+
16 23640499 23640620 PALB2
|
|
430
|
+
16 23640959 23641781 PALB2
|
|
431
|
+
16 23646181 23647645 PALB2
|
|
432
|
+
16 23649160 23649282 PALB2
|
|
433
|
+
16 23649359 23649480 PALB2
|
|
434
|
+
16 23652393 23652514 PALB2
|
|
435
|
+
16 68771304 68771424 CDH1
|
|
436
|
+
16 68772136 68772376 CDH1
|
|
437
|
+
16 68835570 68835795 CDH1
|
|
438
|
+
16 68842325 68842469 CDH1
|
|
439
|
+
16 68842594 68842750 CDH1
|
|
440
|
+
16 68844098 68844244 CDH1
|
|
441
|
+
16 68845585 68845761 CDH1
|
|
442
|
+
16 68846036 68846166 CDH1
|
|
443
|
+
16 68847214 68847494 CDH1
|
|
444
|
+
16 68849416 68849660 CDH1
|
|
445
|
+
16 68853181 68853327 CDH1
|
|
446
|
+
16 68855902 68856127 CDH1
|
|
447
|
+
16 68857300 68857528 CDH1
|
|
448
|
+
16 68862075 68862207 CDH1
|
|
449
|
+
16 68863555 68863699 CDH1
|
|
450
|
+
16 68867191 68867401 CDH1
|
|
451
|
+
17 41197693 41197819 BRCA1
|
|
452
|
+
17 41199628 41199750 BRCA1
|
|
453
|
+
17 41201113 41201234 BRCA1
|
|
454
|
+
17 41203045 41203167 BRCA1
|
|
455
|
+
17 41209049 41209170 BRCA1
|
|
456
|
+
17 41215308 41215430 BRCA1
|
|
457
|
+
17 41215868 41215989 BRCA1
|
|
458
|
+
17 41219607 41219728 BRCA1
|
|
459
|
+
17 41222943 41223253 BRCA1
|
|
460
|
+
17 41226346 41226538 BRCA1
|
|
461
|
+
17 41228503 41228651 BRCA1
|
|
462
|
+
17 41231322 41231443 BRCA1
|
|
463
|
+
17 41234419 41234591 BRCA1
|
|
464
|
+
17 41242943 41243065 BRCA1
|
|
465
|
+
17 41243450 41246876 BRCA1
|
|
466
|
+
17 41247839 41247961 BRCA1
|
|
467
|
+
17 41249222 41249343 BRCA1
|
|
468
|
+
17 41251781 41251904 BRCA1
|
|
469
|
+
17 41256137 41256301 BRCA1
|
|
470
|
+
17 41256847 41256989 BRCA1
|
|
471
|
+
17 41258446 41258582 BRCA1
|
|
472
|
+
17 41267708 41267829 BRCA1
|
|
473
|
+
17 41276012 41276133 BRCA1
|
|
474
|
+
17 59760655 59761489 BRIP1
|
|
475
|
+
17 59763115 59763523 BRIP1
|
|
476
|
+
17 59770770 59770892 BRIP1
|
|
477
|
+
17 59793305 59793425 BRIP1
|
|
478
|
+
17 59820372 59820495 BRIP1
|
|
479
|
+
17 59821791 59821951 BRIP1
|
|
480
|
+
17 59853760 59853922 BRIP1
|
|
481
|
+
17 59857620 59857762 BRIP1
|
|
482
|
+
17 59858199 59858365 BRIP1
|
|
483
|
+
17 59861629 59861785 BRIP1
|
|
484
|
+
17 59870956 59871090 BRIP1
|
|
485
|
+
17 59876459 59876660 BRIP1
|
|
486
|
+
17 59878612 59878834 BRIP1
|
|
487
|
+
17 59885826 59886118 BRIP1
|
|
488
|
+
17 59924460 59924581 BRIP1
|
|
489
|
+
17 59926488 59926616 BRIP1
|
|
490
|
+
17 59934417 59934591 BRIP1
|
|
491
|
+
17 59937151 59937272 BRIP1
|
|
492
|
+
17 59938792 59938914 BRIP1
|
|
493
|
+
17 7572906 7573027 TP53
|
|
494
|
+
17 7573918 7574040 TP53
|
|
495
|
+
17 7576580 7576707 TP53
|
|
496
|
+
17 7576828 7576949 TP53
|
|
497
|
+
17 7577017 7577155 TP53
|
|
498
|
+
17 7577492 7577630 TP53
|
|
499
|
+
17 7578136 7578292 TP53
|
|
500
|
+
17 7578369 7578552 TP53
|
|
501
|
+
17 7579310 7579610 TP53
|
|
502
|
+
17 7579654 7579804 TP53
|
|
503
|
+
17 7579814 7579935 TP53
|
|
504
|
+
17 79852346 79852468 ANAPC11
|
|
505
|
+
17 79857116 79857416 ANAPC11
|
|
506
|
+
17 79857765 79858005 ANAPC11
|
|
507
|
+
17 80036949 80037538 FASN
|
|
508
|
+
17 80038003 80038125 FASN
|
|
509
|
+
17 80038235 80038475 FASN
|
|
510
|
+
17 80038562 80038802 FASN
|
|
511
|
+
17 80039013 80039253 FASN
|
|
512
|
+
17 80039387 80039723 FASN
|
|
513
|
+
17 80039883 80040035 FASN
|
|
514
|
+
17 80040154 80040304 FASN
|
|
515
|
+
17 80040328 80040598 FASN
|
|
516
|
+
17 80040788 80040989 FASN
|
|
517
|
+
17 80041076 80041301 FASN
|
|
518
|
+
17 80041391 80041515 FASN
|
|
519
|
+
17 80041587 80042304 FASN
|
|
520
|
+
17 80042340 80042610 FASN
|
|
521
|
+
17 80042631 80043792 FASN
|
|
522
|
+
17 80044101 80044461 FASN
|
|
523
|
+
17 80044877 80045147 FASN
|
|
524
|
+
17 80045170 80045410 FASN
|
|
525
|
+
17 80045498 80045930 FASN
|
|
526
|
+
17 80045937 80046207 FASN
|
|
527
|
+
17 80046231 80046471 FASN
|
|
528
|
+
17 80046574 80047066 FASN
|
|
529
|
+
17 80047124 80047260 FASN
|
|
530
|
+
17 80047493 80047615 FASN
|
|
531
|
+
17 80048225 80048465 FASN
|
|
532
|
+
17 80048756 80048945 FASN
|
|
533
|
+
17 80049088 80049568 FASN
|
|
534
|
+
17 80050277 80050690 FASN
|
|
535
|
+
17 80050713 80050953 FASN
|
|
536
|
+
17 80051074 80051314 FASN
|
|
537
|
+
17 80051440 80051680 FASN
|
|
538
|
+
17 80053121 80053391 FASN
|
|
539
|
+
17 80054193 80054321 FASN
|
|
540
|
+
19 1206877 1207237 STK11
|
|
541
|
+
19 1218395 1218517 STK11
|
|
542
|
+
19 1219305 1219427 STK11
|
|
543
|
+
19 1220370 1220504 STK11
|
|
544
|
+
19 1220527 1220767 STK11
|
|
545
|
+
19 1221210 1221338 STK11
|
|
546
|
+
19 1221915 1222036 STK11
|
|
547
|
+
19 1222957 1223197 STK11
|
|
548
|
+
19 1226429 1226669 STK11
|
|
549
|
+
19 1452950 1453190 APC2
|
|
550
|
+
19 1453229 1453351 APC2
|
|
551
|
+
19 1453399 1453639 APC2
|
|
552
|
+
19 1455136 1455262 APC2
|
|
553
|
+
19 1455320 1455560 APC2
|
|
554
|
+
19 1456052 1456173 APC2
|
|
555
|
+
19 1456292 1456414 APC2
|
|
556
|
+
19 1456809 1457008 APC2
|
|
557
|
+
19 1457055 1457269 APC2
|
|
558
|
+
19 1457950 1458071 APC2
|
|
559
|
+
19 1460129 1460369 APC2
|
|
560
|
+
19 1460727 1460877 APC2
|
|
561
|
+
19 1460943 1461213 APC2
|
|
562
|
+
19 1461918 1462188 APC2
|
|
563
|
+
19 1465099 1467207 APC2
|
|
564
|
+
19 1467237 1469148 APC2
|
|
565
|
+
19 1469208 1469356 APC2
|
|
566
|
+
19 1469580 1469826 APC2
|
|
567
|
+
19 1469964 1470269 APC2
|
|
568
|
+
19 18170360 18170480 IL12RB1
|
|
569
|
+
19 18170699 18170894 IL12RB1
|
|
570
|
+
19 18171908 18172029 IL12RB1
|
|
571
|
+
19 18172977 18173099 IL12RB1
|
|
572
|
+
19 18174632 18174872 IL12RB1
|
|
573
|
+
19 18177350 18177506 IL12RB1
|
|
574
|
+
19 18179197 18179335 IL12RB1
|
|
575
|
+
19 18180319 18180559 IL12RB1
|
|
576
|
+
19 18182920 18183157 IL12RB1
|
|
577
|
+
19 18184306 18184428 IL12RB1
|
|
578
|
+
19 18186505 18186734 IL12RB1
|
|
579
|
+
19 18187061 18187181 IL12RB1
|
|
580
|
+
19 18188324 18188464 IL12RB1
|
|
581
|
+
19 18191640 18191810 IL12RB1
|
|
582
|
+
19 18192955 18193077 IL12RB1
|
|
583
|
+
19 18194210 18194331 IL12RB1
|
|
584
|
+
19 18197540 18197661 IL12RB1
|
|
585
|
+
20 39766269 39766509 PLCG1
|
|
586
|
+
20 39788244 39788398 PLCG1
|
|
587
|
+
20 39788495 39788616 PLCG1
|
|
588
|
+
20 39788708 39788829 PLCG1
|
|
589
|
+
20 39791072 39791194 PLCG1
|
|
590
|
+
20 39791233 39791383 PLCG1
|
|
591
|
+
20 39791524 39791674 PLCG1
|
|
592
|
+
20 39791817 39791939 PLCG1
|
|
593
|
+
20 39791978 39792128 PLCG1
|
|
594
|
+
20 39792352 39792474 PLCG1
|
|
595
|
+
20 39792542 39792663 PLCG1
|
|
596
|
+
20 39792719 39792841 PLCG1
|
|
597
|
+
20 39793571 39793741 PLCG1
|
|
598
|
+
20 39793883 39794007 PLCG1
|
|
599
|
+
20 39794079 39794200 PLCG1
|
|
600
|
+
20 39794277 39794466 PLCG1
|
|
601
|
+
20 39794832 39795033 PLCG1
|
|
602
|
+
20 39795114 39795235 PLCG1
|
|
603
|
+
20 39795317 39795497 PLCG1
|
|
604
|
+
20 39796469 39796590 PLCG1
|
|
605
|
+
20 39797397 39797518 PLCG1
|
|
606
|
+
20 39797705 39797827 PLCG1
|
|
607
|
+
20 39798070 39798191 PLCG1
|
|
608
|
+
20 39798710 39798950 PLCG1
|
|
609
|
+
20 39800819 39800941 PLCG1
|
|
610
|
+
20 39801059 39801284 PLCG1
|
|
611
|
+
20 39801367 39801517 PLCG1
|
|
612
|
+
20 39802055 39802177 PLCG1
|
|
613
|
+
20 39802290 39802452 PLCG1
|
|
614
|
+
20 39802545 39802667 PLCG1
|
|
615
|
+
20 39802762 39802951 PLCG1
|
|
616
|
+
20 39803066 39803188 PLCG1
|
|
617
|
+
20 45315390 45315886 TP53RK
|
|
618
|
+
20 45317731 45318091 TP53RK
|
|
619
|
+
22 29083868 29083989 CHEK2
|
|
620
|
+
22 29085101 29085312 CHEK2
|
|
621
|
+
22 29090001 29090122 CHEK2
|
|
622
|
+
22 29091094 29091232 CHEK2
|
|
623
|
+
22 29091677 29091860 CHEK2
|
|
624
|
+
22 29092869 29092992 CHEK2
|
|
625
|
+
22 29095814 29095935 CHEK2
|
|
626
|
+
22 29099462 29099583 CHEK2
|
|
627
|
+
22 29105959 29106080 CHEK2
|
|
628
|
+
22 29107858 29108010 CHEK2
|
|
629
|
+
22 29115366 29115488 CHEK2
|
|
630
|
+
22 29120963 29121149 CHEK2
|
|
631
|
+
22 29121229 29121389 CHEK2
|
|
632
|
+
22 29130389 29130714 CHEK2
|