Mercurial > repos > iuc > bcftools_plugin_missing2ref

comparison test-data/cnv_baf_only.vcf @ 9:a9fe9aa253fe draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit e648d86d550ddf2eb67237752320c390b3a780e5
author iuc
date Wed, 05 Jun 2019 12:46:03 -0400
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8:d43b5e0cbf74 9:a9fe9aa253fe
1 ##fileformat=VCFv4.2
2 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
3 ##FORMAT=<ID=BAF,Number=1,Type=Float,Description="B Allele Frequency">
4 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT test
5 10 135656 rs10904561 T G . . . GT:BAF 0/1:0.5176
6 10 135708 rs7917054 G A . . . GT:BAF 1/0:0.501
7 10 178434 rs7089889 T G . . . GT:BAF 0/1:0.4833
8 10 188805 rs12146291 A G . . . GT:BAF 0/1:0.4715
9 10 203471 rs10903451 A G . . . GT:BAF 0/0:0.0000
10 10 252693 rs2379078 T C . . . GT:BAF 0/0:0.0068
11 10 273344 rs2448378 A C . . . GT:BAF 0/0:0.0000
12 10 279248 rs2496278 C A . . . GT:BAF 1/0:0.6268
13 10 291134 rs10508201 T C . . . GT:BAF 0/1:0.4723
14 10 293358 exm2249181 A C . . . GT:BAF 0/0:0.0044
15 10 313504 rs4880568 C T . . . GT:BAF 1/1:0.9803
16 10 317501 rs2018975 C T . . . GT:BAF 0/0:0
17 10 323283 rs3740304 A G . . . GT:BAF 0/1:0.5588
18 10 326894 rs3125027 T C . . . GT:BAF 0/0:0.0005
19 10 327162 exm805022 C T . . . GT:BAF 0/0:0
20 10 329493 rs3815985 C A . . . GT:BAF 1/0:0.5187
21 10 338553 rs3125031 C T . . . GT:BAF 1/0:0.4696
22 10 354301 rs35198327 C T . . . GT:BAF 1/0:0.4929
23 10 375475 variant.11341 C T . . . GT:BAF 0/0:0.000199999999999978
24 10 377161 rs7070654 C T . . . GT:BAF 0/0:0
25 10 387060 rs7904155 G A . . . GT:BAF 1/1:0.9945
26 10 390962 exm805090 G A . . . GT:BAF 0/0:9.9999999999989e-05
27 10 390983 exm805091 G A . . . GT:BAF 0/0:0
28 10 394615 exm805105 G A . . . GT:BAF 0/0:0
29 10 402390 exm805131 G C . . . GT:BAF 0/0:0.0000
30 10 403792 exm805136 G C . . . GT:BAF 0/0:0.0000
31 10 410501 exm805166 C T . . . GT:BAF 0/0:0
32 10 413010 rs9787422 C T . . . GT:BAF 1/0:0.5334
33 10 423555 rs12245012 G A . . . GT:BAF 0/0:0.00149999999999995
34 10 423671 rs10904067 C T . . . GT:BAF 1/0:0.5566
35 10 431161 exm2271240 C T . . . GT:BAF 1/0:0.4838
36 10 435971 exm2249233 T C . . . GT:BAF 0/0:0.0000
37 10 435990 exm805214 G A . . . GT:BAF 0/0:0
38 10 453567 rs4881254 C T . . . GT:BAF 1/0:0.5079
39 10 462885 rs10904173 G A . . . GT:BAF 1/0:0.4819
40 10 465046 exm805254 G A . . . GT:BAF 0/0:0
41 10 468599 rs12415961 T C . . . GT:BAF 0/1:0.5021
42 10 486935 exm805280 G C . . . GT:BAF 0/0:0.0186
43 10 487973 rs4881313 T C . . . GT:BAF 0/1:0.5628
44 10 521431 exm2271370 C T . . . GT:BAF 1/1:0.9952
45 10 521723 rs4881336 C T . . . GT:BAF 1/1:1
46 10 547567 rs816599 A G . . . GT:BAF 1/1:1.0000
47 10 554186 rs12251997 C T . . . GT:BAF 0/0:0.00309999999999999
48 10 556129 rs10466270 A G . . . GT:BAF 0/1:0.5142
49 10 566379 rs11252926 C T . . . GT:BAF 1/0:0.5024
50 10 588406 rs10904450 A G . . . GT:BAF 0/0:0.0006
51 10 592283 rs816646 G A . . . GT:BAF 1/0:0.5006
52 10 601089 rs816650 C T . . . GT:BAF 0/0:0
53 10 615782 rs17221309 G A . . . GT:BAF 0/0:0.00319999999999998
54 10 635857 rs7069611 T C . . . GT:BAF 0/0:0.0013
55 10 669358 rs7898821 G A . . . GT:BAF 0/0:0
56 10 673037 rs816563 C T . . . GT:BAF 1/1:0.9065
57 10 680428 rs2124585 G A . . . GT:BAF 1/0:0.5212
58 10 712617 rs17136372 A C . . . GT:BAF 1/1:0.9992
59 10 738630 rs1750792 C T . . . GT:BAF 0/0:0
60 10 749238 rs553326 G T . . . GT:BAF 0/0:0.00229999999999997
61 10 754033 rs2265090 C A . . . GT:BAF 0/0:0
62 10 757222 rs10904546 A G . . . GT:BAF 0/0:0.0000
63 10 766105 rs7906313 T C . . . GT:BAF 0/0:0.0116
64 10 776027 rs11253377 C T . . . GT:BAF 1/1:0.9964
65 10 787896 rs1769242 T C . . . GT:BAF 0/0:0.0000
66 10 800213 rs2254501 G A . . . GT:BAF 1/1:0.9918
67 10 802445 rs1769215 C T . . . GT:BAF 0/0:0.00370000000000004
68 10 803721 rs2790381 C T . . . GT:BAF 1/1:0.9798
69 10 811876 rs12414585 G A . . . GT:BAF 1/0:0.516
70 10 813426 rs11253424 C T . . . GT:BAF 0/0:0
71 10 815149 rs7084027 A G . . . GT:BAF 1/1:0.9944
72 10 820868 rs10752019 C T . . . GT:BAF 0/0:0.0118
73 10 833528 exm2271241 T G . . . GT:BAF 0/1:0.4896
74 10 834736 rs4881530 G A . . . GT:BAF 0/0:0.00249999999999995
75 10 836115 rs11253444 A G . . . GT:BAF 0/1:0.5199
76 10 838179 rs1536337 T C . . . GT:BAF 0/0:0.0000
77 10 858022 rs9124 C T . . . GT:BAF 0/0:0
78 10 858924 exm805329 G A . . . GT:BAF 0/0:0
79 10 859047 exm805338 C A . . . GT:BAF 0/0:0
80 10 860687 exm805350 C T . . . GT:BAF 0/0:0
81 10 860726 exm805354 T C . . . GT:BAF 0/0:0.0000
82 10 860970 exm805360 A G . . . GT:BAF 0/0:0.0000
83 10 871110 exm805378 G C . . . GT:BAF 0/0:0.0000
84 10 871746 exm805386 G A . . . GT:BAF 0/0:0.00239999999999996
85 10 875350 exm805392 G A . . . GT:BAF 0/0:0
86 10 888899 exm805400 C T . . . GT:BAF 0/0:0.00470000000000004
87 10 888916 exm805401 T C . . . GT:BAF 0/0:0.0000
88 10 894838 rs12249828 C T . . . GT:BAF 1/0:0.4839
89 10 903950 rs11253471 A G . . . GT:BAF 0/1:0.4747
90 10 909757 exm805413 G A . . . GT:BAF 0/0:0
91 10 909766 exm805415 G A . . . GT:BAF 0/0:0
92 10 910074 exm805420 C T . . . GT:BAF 0/0:0.0071
93 10 910081 exm805421 C T . . . GT:BAF 0/0:0.002
94 10 927331 rs11253489 G A . . . GT:BAF 1/0:0.5325
95 10 931618 exm805430 G A . . . GT:BAF 0/0:0
96 10 931631 exm805431 C T . . . GT:BAF 0/0:0.00390000000000001
97 11 135656 rs10904561 T G . . . GT:BAF 0/1:0.5176
98 11 135708 rs7917054 G A . . . GT:BAF 1/0:0.501
99 11 178434 rs7089889 T G . . . GT:BAF 0/1:0.4833
100 11 188805 rs12146291 A G . . . GT:BAF 0/1:0.4715
101 11 203471 rs10903451 A G . . . GT:BAF 0/0:0.0000
102 11 252693 rs2379078 T C . . . GT:BAF 0/0:0.0068
103 11 273344 rs2448378 A C . . . GT:BAF 0/0:0.0000
104 11 279248 rs2496278 C A . . . GT:BAF 1/0:0.6268
105 11 291134 rs10508201 T C . . . GT:BAF 0/1:0.4723
106 11 293358 exm2249181 A C . . . GT:BAF 0/0:0.0044
107 11 313504 rs4880568 C T . . . GT:BAF 1/1:0.9803
108 11 317501 rs2018975 C T . . . GT:BAF 0/0:0
109 11 323283 rs3740304 A G . . . GT:BAF 0/1:0.5588
110 11 326894 rs3125027 T C . . . GT:BAF 0/0:0.0005
111 11 327162 exm805022 C T . . . GT:BAF 0/0:0
112 11 329493 rs3815985 C A . . . GT:BAF 1/0:0.5187
113 11 338553 rs3125031 C T . . . GT:BAF 1/0:0.4696
114 11 354301 rs35198327 C T . . . GT:BAF 1/0:0.4929
115 11 375475 variant.11341 C T . . . GT:BAF 0/0:0.000199999999999978
116 11 377161 rs7070654 C T . . . GT:BAF 0/0:0
117 11 387060 rs7904155 G A . . . GT:BAF 1/1:0.9945
118 11 390962 exm805090 G A . . . GT:BAF 0/0:9.9999999999989e-05
119 11 390983 exm805091 G A . . . GT:BAF 0/0:0
120 11 394615 exm805105 G A . . . GT:BAF 0/0:0
121 11 402390 exm805131 G C . . . GT:BAF 0/0:0.0000
122 11 403792 exm805136 G C . . . GT:BAF 0/0:0.0000
123 11 410501 exm805166 C T . . . GT:BAF 0/0:0
124 11 413010 rs9787422 C T . . . GT:BAF 1/0:0.5334
125 11 423555 rs12245012 G A . . . GT:BAF 0/0:0.00149999999999995
126 11 423671 rs10904067 C T . . . GT:BAF 1/0:0.5566
127 11 431161 exm2271240 C T . . . GT:BAF 1/0:0.4838
128 11 435971 exm2249233 T C . . . GT:BAF 0/0:0.0000
129 11 435990 exm805214 G A . . . GT:BAF 0/0:0
130 11 453567 rs4881254 C T . . . GT:BAF 1/0:0.5079
131 11 462885 rs10904173 G A . . . GT:BAF 1/0:0.4819
132 11 465046 exm805254 G A . . . GT:BAF 0/0:0
133 11 468599 rs12415961 T C . . . GT:BAF 0/1:0.5021
134 11 486935 exm805280 G C . . . GT:BAF 0/0:0.0186
135 11 487973 rs4881313 T C . . . GT:BAF 0/1:0.5628
136 11 521431 exm2271370 C T . . . GT:BAF 1/1:0.9952
137 11 521723 rs4881336 C T . . . GT:BAF 1/1:1
138 11 547567 rs816599 A G . . . GT:BAF 1/1:1.0000
139 11 554186 rs12251997 C T . . . GT:BAF 0/0:0.00309999999999999
140 11 556129 rs10466270 A G . . . GT:BAF 0/1:0.5142
141 11 566379 rs11252926 C T . . . GT:BAF 1/0:0.5024
142 11 588406 rs10904450 A G . . . GT:BAF 0/0:0.0006
143 11 592283 rs816646 G A . . . GT:BAF 1/0:0.5006
144 11 601089 rs816650 C T . . . GT:BAF 0/0:0
145 11 615782 rs17221309 G A . . . GT:BAF 0/0:0.00319999999999998
146 11 635857 rs7069611 T C . . . GT:BAF 0/0:0.0013
147 11 669358 rs7898821 G A . . . GT:BAF 0/0:0
148 11 673037 rs816563 C T . . . GT:BAF 1/1:0.9065
149 11 680428 rs2124585 G A . . . GT:BAF 1/0:0.5212
150 11 712617 rs17136372 A C . . . GT:BAF 1/1:0.9992
151 11 738630 rs1750792 C T . . . GT:BAF 0/0:0
152 11 749238 rs553326 G T . . . GT:BAF 0/0:0.00229999999999997
153 11 754033 rs2265090 C A . . . GT:BAF 0/0:0
154 11 757222 rs10904546 A G . . . GT:BAF 0/0:0.0000
155 11 766105 rs7906313 T C . . . GT:BAF 0/0:0.0116
156 11 776027 rs11253377 C T . . . GT:BAF 1/1:0.9964
157 11 787896 rs1769242 T C . . . GT:BAF 0/0:0.0000
158 11 800213 rs2254501 G A . . . GT:BAF 1/1:0.9918
159 11 802445 rs1769215 C T . . . GT:BAF 0/0:0.00370000000000004
160 11 803721 rs2790381 C T . . . GT:BAF 1/1:0.9798
161 11 811876 rs12414585 G A . . . GT:BAF 1/0:0.516
162 11 813426 rs11253424 C T . . . GT:BAF 0/0:0
163 11 815149 rs7084027 A G . . . GT:BAF 1/1:0.9944
164 11 820868 rs10752019 C T . . . GT:BAF 0/0:0.0118
165 11 833528 exm2271241 T G . . . GT:BAF 0/1:0.4896
166 11 834736 rs4881530 G A . . . GT:BAF 0/0:0.00249999999999995
167 11 836115 rs11253444 A G . . . GT:BAF 0/1:0.5199
168 11 838179 rs1536337 T C . . . GT:BAF 0/0:0.0000
169 11 858022 rs9124 C T . . . GT:BAF 0/0:0
170 11 858924 exm805329 G A . . . GT:BAF 0/0:0
171 11 859047 exm805338 C A . . . GT:BAF 0/0:0
172 11 860687 exm805350 C T . . . GT:BAF 0/0:0
173 11 860726 exm805354 T C . . . GT:BAF 0/0:0.0000
174 11 860970 exm805360 A G . . . GT:BAF 0/0:0.0000
175 11 871110 exm805378 G C . . . GT:BAF 0/0:0.0000
176 11 871746 exm805386 G A . . . GT:BAF 0/0:0.00239999999999996
177 11 875350 exm805392 G A . . . GT:BAF 0/0:0
178 11 888899 exm805400 C T . . . GT:BAF 0/0:0.00470000000000004
179 11 888916 exm805401 T C . . . GT:BAF 0/0:0.0000
180 11 894838 rs12249828 C T . . . GT:BAF 1/0:0.4839
181 11 903950 rs11253471 A G . . . GT:BAF 0/1:0.4747
182 11 909757 exm805413 G A . . . GT:BAF 0/0:0
183 11 909766 exm805415 G A . . . GT:BAF 0/0:0
184 11 910074 exm805420 C T . . . GT:BAF 0/0:0.0071
185 11 910081 exm805421 C T . . . GT:BAF 0/0:0.002
186 11 927331 rs11253489 G A . . . GT:BAF 1/0:0.5325
187 11 931618 exm805430 G A . . . GT:BAF 0/0:0
188 11 931631 exm805431 C T . . . GT:BAF 0/0:0.00390000000000001