Reference allele is: Minor
P-values for top 5 SNPs
| Position | JointP | 68_specificP | 1012_sepecificP | 24_specificP |
|---|
| 15051623 | 3.16065757161953e-09 | 0.76085233701349 | 0.0722634505806264 | 0.227946028684907 |
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| 15051591 | 3.43786102774081e-07 | 0.709515760853154 | 0.134074490337627 | 0.744302681366672 |
|---|
| 15051686 | 1.12858885238413e-06 | 0.539021627918383 | 0.0557532532754018 | 0.599832919653133 |
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| 15051613 | 3.19756800901231e-06 | 0.837489731746813 | 0.0448399151669837 | 0.0394119977029481 |
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| 15051766 | 7.25579731240433e-06 | 0.454032624653757 | 0.0145231484507052 | 0.3010107227841 |
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Genotype info for top 5 SNPs
| #CHROM | POS | ID | REF | ALT | QUAL | FILTER | INFO | FORMAT | DGRP-021 | DGRP-026 | DGRP-028 | DGRP-031 | DGRP-032 | DGRP-038 | DGRP-040 | DGRP-041 | DGRP-042 | DGRP-045 | DGRP-048 | DGRP-049 | DGRP-057 | DGRP-059 | DGRP-069 | DGRP-073 | DGRP-075 | DGRP-083 | DGRP-085 | DGRP-088 | DGRP-091 | DGRP-093 | DGRP-100 | DGRP-101 | DGRP-105 | DGRP-109 | DGRP-129 | DGRP-136 | DGRP-138 | DGRP-142 | DGRP-149 | DGRP-153 | DGRP-158 | DGRP-161 | DGRP-176 | DGRP-177 | DGRP-181 | DGRP-189 | DGRP-195 | DGRP-208 | DGRP-217 | DGRP-223 | DGRP-227 | DGRP-228 | DGRP-229 | DGRP-233 | DGRP-235 | DGRP-237 | DGRP-239 | DGRP-256 | DGRP-280 | DGRP-287 | DGRP-301 | DGRP-303 | DGRP-304 | DGRP-306 | DGRP-307 | DGRP-309 | DGRP-310 | DGRP-313 | DGRP-315 | DGRP-317 | DGRP-318 | DGRP-319 | DGRP-320 | DGRP-321 | DGRP-324 | DGRP-325 | DGRP-332 | DGRP-335 | DGRP-336 | DGRP-338 | DGRP-340 | DGRP-348 | DGRP-350 | DGRP-352 | DGRP-354 | DGRP-355 | DGRP-356 | DGRP-357 | DGRP-358 | DGRP-359 | DGRP-360 | DGRP-361 | DGRP-362 | DGRP-365 | DGRP-367 | DGRP-370 | DGRP-371 | DGRP-373 | DGRP-374 | DGRP-375 | DGRP-377 | DGRP-379 | DGRP-380 | DGRP-381 | DGRP-382 | DGRP-383 | DGRP-385 | DGRP-386 | DGRP-390 | DGRP-391 | DGRP-392 | DGRP-395 | DGRP-397 | DGRP-399 | DGRP-405 | DGRP-406 | DGRP-409 | DGRP-426 | DGRP-427 | DGRP-437 | DGRP-439 | DGRP-440 | DGRP-441 | DGRP-443 | DGRP-461 | DGRP-486 | DGRP-491 | DGRP-492 | DGRP-502 | DGRP-505 | DGRP-508 | DGRP-509 | DGRP-513 | DGRP-517 | DGRP-528 | DGRP-530 | DGRP-531 | DGRP-535 | DGRP-551 | DGRP-555 | DGRP-559 | DGRP-563 | DGRP-566 | DGRP-584 | DGRP-589 | DGRP-595 | DGRP-596 | DGRP-627 | DGRP-630 | DGRP-634 | DGRP-639 | DGRP-642 | DGRP-646 | DGRP-703 | DGRP-705 | DGRP-707 | DGRP-712 | DGRP-714 | DGRP-716 | DGRP-721 | DGRP-727 | DGRP-730 | DGRP-732 | DGRP-737 | DGRP-738 | DGRP-748 | DGRP-757 | DGRP-761 | DGRP-765 | DGRP-774 | DGRP-776 | DGRP-783 | DGRP-786 | DGRP-787 | DGRP-790 | DGRP-796 | DGRP-799 | DGRP-801 | DGRP-802 | DGRP-804 | DGRP-805 | DGRP-808 | DGRP-810 | DGRP-812 | DGRP-818 | DGRP-819 | DGRP-820 | DGRP-821 | DGRP-822 | DGRP-832 | DGRP-837 | DGRP-843 | DGRP-849 | DGRP-850 | DGRP-852 | DGRP-853 | DGRP-855 | DGRP-857 | DGRP-859 | DGRP-861 | DGRP-879 | DGRP-882 | DGRP-884 | DGRP-887 | DGRP-890 | DGRP-892 | DGRP-894 | DGRP-897 | DGRP-900 | DGRP-907 | DGRP-908 | DGRP-911 | DGRP-913 |
|---|
| chr2R | 15051623 | . | C | T | . | PASS | AC=125 | GT | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 0/1 | 1/1 | 1/1 | 0/0 | 1/1 | 1/1 | 1/1 | 0/0 | 0/0 | 1/1 | 1/1 | 0/0 | 0/0 | 1/1 | 1/1 | 1/1 | 1/1 | 1/1 | 1/1 | 1/1 | 0/0 | 1/1 | 1/1 | 0/0 | 0/0 | 1/1 | 0/0 | 1/1 | 1/1 | 0/0 | 0/0 | 0/0 | 1/1 | 1/1 | 0/0 | 1/1 | 0/0 | 0/0 | 1/1 | 1/1 | 0/0 | 1/1 | 0/0 | 1/1 | 1/1 | 1/1 | 1/1 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 1/1 | 1/1 | 0/0 | 1/1 | 0/1 | 1/1 | 1/1 | 1/1 | 0/0 | 1/1 | 1/1 | 0/0 | 0/1 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 0/0 | 0/0 | 0/0 | 1/1 | 1/1 | 0/0 | 1/1 | 1/1 | 1/1 | 1/1 | 0/0 | 1/1 | 1/1 | 0/0 | 0/0 | 1/1 | 1/1 | 1/1 | 0/0 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 0/0 | 0/0 | 0/0 | 1/1 | 1/1 | 0/0 | 1/0 | 1/1 | 0/0 | 1/1 | 0/0 | 0/0 | 1/1 | 1/1 | 0/0 | 1/1 | 1/1 | 0/0 | 1/1 | 1/1 | 1/1 | 1/1 | 1/1 | 0/0 | 1/1 | 1/1 | 1/1 | 0/0 | 0/0 | 1/1 | 0/0 | 1/1 | 1/1 | 1/1 | 1/1 | 1/1 | 1/0 | 0/1 | 1/1 | 1/1 | 0/0 | 1/1 | 0/0 | 1/1 | 1/1 | 1/1 | 0/0 | 0/0 | 0/0 | 0/0 | 1/1 | 1/1 | 1/1 | 0/0 | 1/1 | 1/1 | 0/0 | 0/0 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 0/0 | 1/1 | 1/1 | 1/1 | 1/1 | 0/0 | 1/1 | 0/0 | 1/1 | 1/1 | 1/1 | 0/0 | 1/1 | 1/1 | 0/0 | 1/1 | 1/1 | 1/1 | 0/0 | 1/1 | 0/0 | 1/0 | 1/1 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 0/0 | 1/1 | 1/1 | 1/1 | 0/0 | 1/1 | 1/1 | 1/1 | 1/1 |
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| chr2R | 15051591 | . | A | G | . | PASS | AC=88 | GT | 0/0 | 0/0 | 0/0 | 1/1 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 1/1 | 0/0 | 1/1 | 1/1 | 1/1 | 0/0 | 0/0 | 1/1 | 1/1 | 1/1 | 0/0 | 0/0 | 0/0 | 1/1 | 1/1 | 1/1 | 1/1 | 1/1 | 0/0 | 1/1 | 1/0 | 0/0 | 0/0 | 1/1 | 0/0 | 1/1 | 1/1 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 1/1 | 1/1 | 0/0 | 0/0 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 0/0 | 0/0 | 0/0 | 1/1 | 0/0 | 1/1 | 1/1 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 1/1 | 1/1 | 0/0 | 0/1 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 1/1 | 0/0 | 0/0 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 1/1 | 1/1 | 0/0 | 1/1 | 1/1 | 0/0 | 0/0 | 1/1 | 1/1 | 0/0 | 0/0 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 0/0 | 0/0 | 0/0 | 1/1 | 1/1 | 0/0 | 1/0 | 0/0 | 0/0 | 1/1 | 0/0 | 0/0 | 1/1 | 1/1 | 0/0 | 0/0 | 1/1 | 0/0 | 1/1 | 1/1 | 0/0 | 1/1 | 0/0 | 0/0 | 0/0 | 1/1 | 1/1 | 0/0 | 0/0 | 1/1 | 0/0 | 0/0 | 1/1 | 1/1 | 0/0 | 0/0 | 0/0 | 0/0 | 1/1 | 1/1 | 0/0 | 0/0 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 0/0 | 0/0 | 0/0 | 1/1 | 1/1 | 1/1 | 0/0 | 1/1 | 0/0 | 0/0 | 0/0 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 0/0 | 1/1 | 1/1 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 1/1 | 1/1 | 1/1 | 0/0 | 0/0 | 0/0 | 0/0 | 1/1 | 1/1 | 1/1 | 0/0 | 1/1 | 0/0 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 0/0 | 1/1 | 1/1 | 1/1 | 0/0 | 0/0 | 1/0 | 0/0 | 1/1 |
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| chr2R | 15051686 | . | TG | T,TT | . | PASS | AC=3,102 | GT | 0/0 | 0/0 | 2/2 | 1/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 2/2 | 0/0 | 2/0 | 2/2 | 2/2 | 2/2 | 0/0 | 2/2 | 2/2 | 2/2 | 0/0 | 0/0 | 0/0 | 2/2 | 2/2 | 2/2 | 2/2 | 2/2 | 0/0 | 2/0 | 2/0 | 0/0 | 0/0 | 2/2 | 0/0 | 2/2 | 2/2 | 0/0 | 0/0 | 0/0 | 0/2 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 2/2 | 2/2 | 2/0 | 0/0 | 0/0 | 2/2 | 0/0 | 2/2 | 0/0 | 2/2 | 0/0 | 0/0 | 2/2 | 0/0 | 2/2 | 1/0 | 0/0 | 2/2 | 0/0 | 2/2 | 0/0 | 2/2 | 2/0 | 2/2 | 2/2 | 0/2 | 2/2 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 2/2 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 2/2 | 0/0 | 2/2 | 0/0 | 2/2 | 2/2 | 0/0 | 2/2 | 2/2 | 2/2 | 0/0 | 2/2 | 2/2 | 0/0 | 0/0 | 0/0 | 2/2 | 0/0 | 2/2 | 0/0 | 0/0 | 0/0 | 0/0 | 2/2 | 2/2 | 2/2 | 2/2 | 0/0 | 0/0 | 2/2 | 0/0 | 0/0 | 2/0 | 2/2 | 0/0 | 0/0 | 2/2 | 0/0 | 2/2 | 2/2 | 0/0 | 2/2 | 0/0 | 0/2 | 0/0 | 2/2 | 2/2 | 0/0 | 0/0 | 2/2 | 0/2 | 0/0 | 2/2 | 2/2 | 0/0 | 0/0 | 0/0 | 0/0 | 2/2 | 2/2 | 2/2 | 0/0 | 0/0 | 2/2 | 0/0 | 2/2 | 0/0 | 0/0 | 0/0 | 0/0 | 2/2 | 2/2 | 2/2 | 0/0 | 2/2 | 0/0 | 0/0 | 0/0 | 0/0 | 2/2 | 0/0 | 2/2 | 0/0 | 2/2 | 0/0 | 0/0 | 2/2 | 2/2 | 0/0 | 2/2 | 2/2 | 2/1 | 2/2 | 2/2 | 2/2 | 2/2 | 0/2 | 0/0 | 0/0 | 0/0 | 2/2 | 2/2 | 2/2 | 2/2 | 2/2 | 0/0 | 0/2 | 2/2 | 0/0 | 2/2 | 0/0 | 2/2 | 0/0 | 0/0 | 2/2 | 2/2 | 2/2 | 0/0 | 0/0 | 2/0 | 0/0 | 2/2 |
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| chr2R | 15051613 | . | T | C,GCCATGTTCAC | . | PASS | AC=55,89 | GT | 0/0 | 1/1 | 1/1 | 2/0 | 0/0 | 1/1 | 0/0 | 0/2 | 1/1 | 2/2 | 0/0 | 2/2 | 2/0 | 2/2 | 1/1 | 0/0 | 2/2 | 2/2 | 2/2 | 0/0 | 1/1 | 1/1 | 2/0 | 2/0 | 2/2 | 2/0 | 2/2 | 0/0 | 2/0 | 2/1 | 0/0 | 0/0 | 2/2 | 0/0 | 2/0 | 2/2 | 0/0 | 0/0 | 0/0 | 1/1 | 1/1 | 0/0 | 1/1 | 0/0 | 0/0 | 2/2 | 2/2 | 1/1 | 1/1 | 0/0 | 2/0 | 1/1 | 2/0 | 1/1 | 1/1 | 1/1 | 0/0 | 2/2 | 0/0 | 2/2 | 2/0 | 0/0 | 2/0 | 1/1 | 2/2 | 1/1 | 2/2 | 1/0 | 2/2 | 2/0 | 1/0 | 1/2 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 2/2 | 0/0 | 0/0 | 0/0 | 0/0 | 1/1 | 2/0 | 0/0 | 2/0 | 1/1 | 2/2 | 2/0 | 0/0 | 2/2 | 2/0 | 1/1 | 0/0 | 2/0 | 2/0 | 1/1 | 0/0 | 0/0 | 2/2 | 0/0 | 2/2 | 0/0 | 0/0 | 0/0 | 0/0 | 2/0 | 2/2 | 1/1 | 2/1 | 1/1 | 0/0 | 2/2 | 0/0 | 0/0 | 2/2 | 2/2 | 0/0 | 1/1 | 2/0 | 0/0 | 2/0 | 2/2 | 1/1 | 2/2 | 1/1 | 0/1 | 1/1 | 2/2 | 2/2 | 0/0 | 0/0 | 2/0 | 0/0 | 1/1 | 2/2 | 2/2 | 0/0 | 1/1 | 1/0 | 0/1 | 2/0 | 2/2 | 1/1 | 1/0 | 0/0 | 2/0 | 1/1 | 2/2 | 0/0 | 0/0 | 0/0 | 0/0 | 2/2 | 2/0 | 2/0 | 0/0 | 2/2 | 1/1 | 0/0 | 0/0 | 0/0 | 2/2 | 0/0 | 2/2 | 0/0 | 2/2 | 0/0 | 0/0 | 2/0 | 2/0 | 1/1 | 2/0 | 1/1 | 2/2 | 1/1 | 2/2 | 2/2 | 2/2 | 0/1 | 1/1 | 1/1 | 0/0 | 2/0 | 2/2 | 2/0 | 1/1 | 2/0 | 0/0 | 2/1 | 2/0 | 0/0 | 2/0 | 0/0 | 2/0 | 0/0 | 0/0 | 2/2 | 2/2 | 2/2 | 1/1 | 1/1 | 2/0 | 1/1 | 2/0 |
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| chr2R | 15051613 | . | T | TCCATGTTCAC | . | PASS | AC=6 | GT | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 1/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 1/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 1/1 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 1/1 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 1/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 1/1 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 |
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| chr2R | 15051766 | . | AGA | A,AA,AAA,ATAA | . | PASS | AC=51,86,45,5 | GT | 0/0 | 1/1 | 2/2 | 3/3 | 0/0 | 0/3 | 0/0 | 0/0 | 1/3 | 3/3 | 0/0 | 0/0 | 1/0 | 0/0 | 0/1 | 0/0 | 2/2 | 2/2 | 1/1 | 0/0 | 0/0 | 1/0 | 2/3 | 0/2 | 2/2 | 2/3 | 2/2 | 2/0 | 1/3 | 0/1 | 0/0 | 0/0 | 2/2 | 0/0 | 2/0 | 2/3 | 0/0 | 1/0 | 1/2 | 0/0 | 1/1 | 0/0 | 1/1 | 0/0 | 0/0 | 0/0 | 2/2 | 0/2 | 1/1 | 0/0 | 2/0 | 1/0 | 2/0 | 1/0 | 1/0 | 0/0 | 2/3 | 2/0 | 0/0 | 2/0 | 2/3 | 0/0 | 2/0 | 0/2 | 2/1 | 0/0 | 2/1 | 1/0 | 2/3 | 0/2 | 0/0 | 2/2 | 0/0 | 1/0 | 0/0 | 1/1 | 0/0 | 1/3 | 0/0 | 0/0 | 0/0 | 2/3 | 1/0 | 2/0 | 0/0 | 2/0 | 1/1 | 2/3 | 2/3 | 0/0 | 1/3 | 2/3 | 1/2 | 1/0 | 2/3 | 0/1 | 0/0 | 0/0 | 0/0 | 0/0 | 0/0 | 2/1 | 0/0 | 0/0 | 0/0 | 0/0 | 2/3 | 2/3 | 2/0 | 2/3 | 1/0 | 0/0 | 2/2 | 0/0 | 0/0 | 2/3 | 2/1 | 0/1 | 1/0 | 0/2 | 0/3 | 2/3 | 2/2 | 0/1 | 2/3 | 1/0 | 0/2 | 1/2 | 2/0 | 2/2 | 1/2 | 2/3 | 1/3 | 2/0 | 1/1 | 2/0 | 4/4 | 1/0 | 1/1 | 0/0 | 0/0 | 2/3 | 2/2 | 2/2 | 2/0 | 0/0 | 2/3 | 0/0 | 4/4 | 0/0 | 0/0 | 0/0 | 0/0 | 4/4 | 2/3 | 1/0 | 0/0 | 4/4 | 2/1 | 0/0 | 0/0 | 0/0 | 2/3 | 0/3 | 2/0 | 0/0 | 2/3 | 0/0 | 0/0 | 2/3 | 2/3 | 1/1 | 2/1 | 2/0 | 2/0 | 2/2 | 3/1 | 2/3 | 2/2 | 0/2 | 0/3 | 0/0 | 0/3 | 2/3 | 1/0 | 2/3 | 1/0 | 2/3 | 0/0 | 2/1 | 2/3 | 0/0 | 2/2 | 0/0 | 2/0 | 0/0 | 0/0 | 2/2 | 2/3 | 2/0 | 0/0 | 1/1 | 1/0 | 0/3 | 4/2 |
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Sequences and list of disrupted MOTIFs around top 5 SNPs
| Chr | Position | Sequence | Motifs |
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| chr2R | 15051623 | AATATCGATAATTTTTCTTCTACTCTTTTAACATTAATGTTATGAGCGAAT | |
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| chr2R | 15051591 | GCCTAAACATGGCTATCGATACCAAGACGACAAATATCGATAATTTTTCTT | |
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| chr2R | 15051686 | TTGACATTCAACGAGTAAGGTTGGTGTTCGTTTCGTTCGCGGATGAAAAAT | |
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| chr2R | 15051613 | CAAGACGACAAATATCGATAATTTTTCTTCTACTCTTTTAACATTAATGTT | |
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| chr2R | 15051613 | CAAGACGACAAATATCGATAATTTTTCTTCTACTCTTTTAACATTAATGTT | |
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| chr2R | 15051766 | TTCCTAGTGCTCAACAGAAAAAAAAGAACATAAAATAAAGAAACAAAATGA | NA |
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