chrom arm snp pos alleles strand avgDepth maf percMiss percHet
1A s S1A_PART1_1197644 1197644 A/C + 4.37651941891491 0.162 0.112 0.016
1A s S1A_PART1_1238021 1238021 T/C + 3.91313370886451 0.022 0.131 0.01
1A s S1A_PART1_2991302 2991302 G/C + 3.97954343314557 0.032 0.105 0.022
1A s S1A_PART1_3486021 3486021 G/A + 1.78920841980433 0.035 0.217 0.002
1A s S1A_PART1_3943497 3943497 A/G + 1.45834568633264 0.276 0.294 0.012
1A s S1A_PART1_3982866 3982866 C/T + 2.7803142603024 0.131 0.256 0.006
1A s S1A_PART1_3982878 3982878 C/A + 2.7803142603024 0.018 0.256 0.001
1A s S1A_PART1_4260312 4260312 T/C + 1.55825674473762 0.25 0.292 0.01
1A s S1A_PART1_4260334 4260334 G/C + 1.55825674473762 0.164 0.292 0.007
1A s S1A_PART1_4500097 4500097 A/G + 2.20426919656092 0.014 0.24 0.002
1A s S1A_PART1_4662351 4662351 T/G + 4.47227986955233 0.015 0.135 0.006
1A s S1A_PART1_5100794 5100794 C/G + 3.71864808775571 0.093 0.148 0.01
1A s S1A_PART1_5149752 5149752 C/A + 2.40913133708864 0.09 0.223 0.011
1A s S1A_PART1_5149784 5149784 C/T + 2.40913133708864 0.126 0.223 0.012
1A s S1A_PART1_5190275 5190275 T/A + 2.01986362288764 0.068 0.296 0.007
1A s S1A_PART1_5491804 5491804 C/T + 3.10020753038838 0.064 0.277 0.017
1A s S1A_PART1_5491807 5491807 A/G + 3.10020753038838 0.117 0.277 0.065
1A s S1A_PART1_5492475 5492475 T/G + 1.49155054847317 0.031 0.296 0.002
1A s S1A_PART1_7274964 7274964 C/T + 4.79750963533946 0.106 0.089 0.025
1A s S1A_PART1_7285692 7285692 T/G + 3.88407945449155 0.036 0.095 0.005
1A s S1A_PART1_7812599 7812599 C/T + 4.12659353691076 0.03 0.1 0.018
1A s S1A_PART1_8047177 8047177 C/T + 1.78742958790394 0.048 0.221 0.049
1A s S1A_PART1_8152172 8152172 G/T + 2.28935665579603 0.021 0.249 0.006
1A s S1A_PART1_8226620 8226620 A/G + 4.35991698784465 0.084 0.103 0.02
1A s S1A_PART1_8226643 8226643 T/C + 4.35991698784465 0.017 0.103 0.002
1A s S1A_PART1_8295817 8295817 C/T + 3.02016009487103 0.204 0.131 0.024
1A s S1A_PART1_8435431 8435431 C/G + 3.75985769344797 0.017 0.098 0.002
1A s S1A_PART1_8704353 8704353 C/T + 3.64541950785651 0.017 0.098 0.004
1A s S1A_PART1_8717080 8717080 A/G + 2.40083012155351 0.039 0.205 0.047
1A s S1A_PART1_9565863 9565863 G/A + 2.44767269493033 0.293 0.232 0.023
1A s S1A_PART1_9973314 9973314 A/G + 6.79484138748888 0.091 0.111 0.016
1A s S1A_PART1_10122159 10122159 G/A + 3.3652534835458 0.019 0.133 0.004
1A s S1A_PART1_10122169 10122169 G/A + 3.3652534835458 0.318 0.133 0.021
1A s S1A_PART1_10132784 10132784 G/A + 4.47198339756893 0.379 0.18 0.028
1A s S1A_PART1_10132856 10132856 G/A + 10.5143788911948 0.102 0.091 0.022
1A s S1A_PART1_10135876 10135876 C/T + 6.88022531870738 0.08 0.096 0.062
1A s S1A_PART1_10135900 10135900 A/G + 6.88022531870738 0.399 0.096 0.037
1A s S1A_PART1_10174978 10174978 C/T + 2.24162466646902 0.376 0.276 0.015
1A s S1A_PART1_10175016 10175016 A/G + 2.24162466646902 0.33 0.276 0.011
1A s S1A_PART1_10210891 10210891 A/C + 2.9392232434035 0.018 0.245 0.003
1A s S1A_PART1_10214692 10214692 T/A + 2.2555588496887 0.097 0.225 0.01
1A s S1A_PART1_10607227 10607227 C/T + 2.77438482063445 0.092 0.173 0.017
1A s S1A_PART1_10607256 10607256 C/T + 2.77438482063445 0.041 0.173 0.002
1A s S1A_PART1_10607278 10607278 C/T + 2.77438482063445 0.219 0.173 0.022
1A s S1A_PART1_10743206 10743206 G/A + 4.40557367328787 0.095 0.1 0.018
1A s S1A_PART1_11160656 11160656 T/C + 2.42780907204269 0.375 0.18 0.02
1A s S1A_PART1_11207645 11207645 G/A + 2.11680996145864 0.01 0.164 0.002
1A s S1A_PART1_11207693 11207693 C/T + 2.11680996145864 0.094 0.164 0.012
1A s S1A_PART1_11567950 11567950 T/C + 2.76015416543137 0.022 0.221 0.005
1A s S1A_PART1_11810975 11810975 C/G + 2.82508152979543 0.015 0.144 0.002
1A s S1A_PART1_12092096 12092096 G/A + 2.86184405573673 0.203 0.154 0.02
1A s S1A_PART1_12130376 12130376 T/C + 3.54817669730211 0.258 0.129 0.022
1A s S1A_PART1_12132078 12132078 C/T + 2.2686036169582 0.034 0.279 0.001
1A s S1A_PART1_12132120 12132120 A/G + 2.2686036169582 0.252 0.279 0.011
1A s S1A_PART1_12192364 12192364 T/C + 1.90097835754521 0.191 0.284 0.011
1A s S1A_PART1_12311091 12311091 A/C + 2.91609842869849 0.133 0.205 0.016
1A s S1A_PART1_12502801 12502801 C/A + 3.0243107026386 0.013 0.116 0.005
1A s S1A_PART1_12863632 12863632 C/G + 4.02075303883783 0.445 0.184 0.019
1A s S1A_PART1_13806164 13806164 C/A + 2.35606285206048 0.014 0.218 0.082
1A s S1A_PART1_13860080 13860080 C/T + 2.54313667358435 0.012 0.17 0.004
1A s S1A_PART1_13861936 13861936 C/T + 3.83219685739698 0.178 0.099 0.019
1A s S1A_PART1_13861969 13861969 G/C + 3.83219685739698 0.012 0.099 0.002
1A s S1A_PART1_13940761 13940761 T/G + 3.85591461606878 0.166 0.115 0.019
1A s S1A_PART1_13940776 13940776 C/G + 3.85591461606878 0.18 0.115 0.02
1A s S1A_PART1_13940881 13940881 G/C + 2.18766676549066 0.27 0.21 0.024
1A s S1A_PART1_14144869 14144869 C/T + 1.53038837829825 0.051 0.285 0.002
1A s S1A_PART1_14430191 14430191 C/T + 2.62288763711829 0.012 0.169 0.002
1A s S1A_PART1_14468560 14468560 A/C + 1.8781500148236 0.1 0.272 0.072
1A s S1A_PART1_14468568 14468568 C/A + 1.8781500148236 0.015 0.272 0
1A s S1A_PART1_14840437 14840437 C/T + 4.23480581085087 0.093 0.102 0.015
1A s S1A_PART1_14840452 14840452 C/T + 4.23480581085087 0.016 0.102 0.005
1A s S1A_PART1_15182246 15182246 G/C + 6.9273643640676 0.014 0.234 0.004
1A s S1A_PART1_15182249 15182249 C/T + 6.9273643640676 0.091 0.234 0.015
1A s S1A_PART1_15182260 15182260 T/C + 6.9273643640676 0.108 0.234 0.017
1A s S1A_PART1_15474230 15474230 A/G + 4.62614882893567 0.331 0.093 0.029
1A s S1A_PART1_16914205 16914205 T/C + 3.90127482952861 0.07 0.121 0.035
1A s S1A_PART1_17008840 17008840 A/G + 2.53720723391639 0.012 0.235 0.003
1A s S1A_PART1_18461833 18461833 C/T + 2.59501927067892 0.208 0.114 0.024
1A s S1A_PART1_20460782 20460782 G/A + 3.62614882893567 0.145 0.212 0.013
1A s S1A_PART1_20697903 20697903 C/T + 2.37444411503113 0.128 0.245 0.01
1A s S1A_PART1_20886731 20886731 A/G + 3.05217906907797 0.265 0.147 0.024
1A s S1A_PART1_21638626 21638626 G/A + 3.36258523569523 0.33 0.151 0.03
1A s S1A_PART1_21638637 21638637 G/A + 3.36258523569523 0.33 0.151 0.031
1A s S1A_PART1_22330352 22330352 C/T + 2.75452119774681 0.348 0.227 0.035
1A s S1A_PART1_22331367 22331367 A/C + 5.1224429291432 0.342 0.144 0.039
1A s S1A_PART1_22463454 22463454 C/T + 1.93092202786837 0.334 0.235 0.02
1A s S1A_PART1_23155865 23155865 A/G + 1.86125111176994 0.032 0.248 0.07
1A s S1A_PART1_23164133 23164133 A/G + 3.14823599169878 0.319 0.142 0.029
1A s S1A_PART1_23164162 23164162 G/A + 3.14823599169878 0.209 0.142 0.017
1A s S1A_PART1_23167002 23167002 A/G + 2.74533056626149 0.314 0.139 0.026
1A s S1A_PART1_23442329 23442329 C/T + 1.87370293507264 0.178 0.225 0.015
1A s S1A_PART1_23850918 23850918 T/G + 1.61844055736733 0.034 0.276 0.01
1A s S1A_PART1_24344738 24344738 A/G + 3.37088645123036 0.272 0.097 0.028
1A s S1A_PART1_24352636 24352636 C/G + 2.39430773791877 0.111 0.171 0.011
1A s S1A_PART1_25289518 25289518 A/G + 5.13163356062852 0.3 0.027 0.067
1A s S1A_PART1_25289557 25289557 C/G + 5.13163356062852 0.188 0.027 0.064
1A s S1A_PART1_25545567 25545567 G/T + 3.32463682182034 0.106 0.09 0.023
1A s S1A_PART1_25807483 25807483 C/T + 3.48176697302105 0.331 0.109 0.038
1A s S1A_PART1_25938292 25938292 C/T + 4.28609546397865 0.22 0.079 0.037
1A s S1A_PART1_26318712 26318712 A/C + 2.89979246961162 0.34 0.158 0.031
1A s S1A_PART1_27133038 27133038 C/T + 2.34924399644234 0.112 0.202 0.014
1A s S1A_PART1_27186404 27186404 C/T + 1.4761340053365 0.176 0.254 0.011
1A s S1A_PART1_27257601 27257601 T/A + 1.93210791580196 0.063 0.217 0.009
1A s S1A_PART1_28717259 28717259 C/G + 3.07648977171657 0.03 0.045 0.064
1A s S1A_PART1_28762153 28762153 C/G + 3.44915505484732 0.39 0.095 0.032
1A s S1A_PART1_28766642 28766642 C/T + 3.32522976578713 0.463 0.178 0.033
1A s S1A_PART1_29796514 29796514 G/A + 4.42069374444115 0.013 0.187 0.085
1A s S1A_PART1_30015422 30015422 A/G + 4.10791580195672 0.189 0.062 0.029
1A s S1A_PART1_30190358 30190358 T/G + 2.15742662318411 0.271 0.195 0.03
1A s S1A_PART1_30307305 30307305 T/A + 2.89831010969463 0.194 0.121 0.018
1A s S1A_PART1_30403864 30403864 C/G + 2.09991105840498 0.013 0.189 0.028
1A s S1A_PART1_31676428 31676428 G/A + 1.82330269789505 0.017 0.221 0.091
1A s S1A_PART1_31891186 31891186 C/T + 2.42128668840795 0.083 0.18 0.008
1A s S1A_PART1_31900176 31900176 T/C + 2.45538096649867 0.084 0.171 0.013
1A s S1A_PART1_31918093 31918093 G/A + 3.74473762229469 0.082 0.096 0.014
1A s S1A_PART1_31918096 31918096 T/C + 3.74473762229469 0.269 0.096 0.029
1A s S1A_PART1_31974179 31974179 G/A + 4.76282241328194 0.475 0.068 0.045
1A s S1A_PART1_31974210 31974210 G/A + 4.76282241328194 0.199 0.068 0.024
1A s S1A_PART1_32090446 32090446 G/A + 1.75244589386303 0.272 0.263 0.02
1A s S1A_PART1_32111338 32111338 A/G + 2.97865401719538 0.392 0.125 0.039
1A s S1A_PART1_32111351 32111351 C/T + 2.97865401719538 0.026 0.125 0.004
1A s S1A_PART1_32282119 32282119 T/C + 1.45893863029944 0.367 0.287 0.019
1A s S1A_PART1_32282191 32282191 A/G + 4.16928550252001 0.276 0.08 0.032
1A s S1A_PART1_32471115 32471115 G/A + 1.8295286095464 0.053 0.212 0.006
1A s S1A_PART1_32555040 32555040 C/T + 1.59828046249629 0.101 0.278 0.008
1A s S1A_PART1_33219502 33219502 C/A + 4.36821820337978 0.044 0.073 0.005
1A s S1A_PART1_33219514 33219514 C/T + 4.36821820337978 0.079 0.073 0.013
1A s S1A_PART1_34426139 34426139 G/T + 1.97213163356063 0.292 0.223 0.018
1A s S1A_PART1_34851632 34851632 T/G + 2.58286391935962 0.29 0.142 0.023
1A s S1A_PART1_34942089 34942089 G/A + 2.34212866884079 0.248 0.165 0.022
1A s S1A_PART1_35112952 35112952 A/G + 3.39964423361992 0.292 0.117 0.027
1A s S1A_PART1_35507346 35507346 G/A + 2.25466943373851 0.037 0.223 0.006
1A s S1A_PART1_35530415 35530415 C/T + 3.37296175511414 0.285 0.131 0.026
1A s S1A_PART1_36555142 36555142 A/T + 4.90839015713015 0.039 0.045 0.009
1A s S1A_PART1_36636549 36636549 T/C + 4.2439964423362 0.037 0.093 0.06
1A s S1A_PART1_37507495 37507495 C/G + 2.7435517343611 0.204 0.161 0.02
1A s S1A_PART1_39183276 39183276 T/C + 3.15920545508449 0.249 0.094 0.029
1A s S1A_PART1_39826353 39826353 C/A + 2.52090127482953 0.095 0.169 0.01
1A s S1A_PART1_40498587 40498587 C/T + 1.85739697598577 0.082 0.208 0.016
1A s S1A_PART1_40498720 40498720 A/C + 1.82656388971242 0.085 0.214 0.013
1A s S1A_PART1_40498821 40498821 G/A + 2.22828342721613 0.086 0.269 0.012
1A s S1A_PART1_41368108 41368108 G/T + 5.00266824785058 0.118 0.052 0.017
1A s S1A_PART1_41743747 41743747 T/C + 3.55825674473762 0.035 0.092 0.059
1A s S1A_PART1_41743751 41743751 G/A + 3.55825674473762 0.03 0.092 0.005
1A s S1A_PART1_41744193 41744193 G/T + 4.72843166320783 0.01 0.068 0.006
1A s S1A_PART1_44445131 44445131 G/C + 2.17847613400534 0.037 0.193 0.006
1A s S1A_PART1_44980981 44980981 T/C + 4.77734954046843 0.045 0.053 0.012
1A s S1A_PART1_45299952 45299952 C/T + 2.3044767269493 0.028 0.226 0.003
1A s S1A_PART1_45299969 45299969 G/A + 2.3044767269493 0.01 0.226 0.005
1A s S1A_PART1_45588946 45588946 C/T + 4.18885265342425 0.296 0.068 0.027
1A s S1A_PART1_45855336 45855336 C/T + 2.3418321968574 0.03 0.169 0
1A s S1A_PART1_46222311 46222311 C/A + 1.98487992884672 0.231 0.279 0.012
1A s S1A_PART1_46235206 46235206 C/T + 2.34746516454195 0.309 0.288 0.014
1A s S1A_PART1_46442544 46442544 G/A + 3.01334123925289 0.261 0.22 0.011
1A s S1A_PART1_47581359 47581359 T/A + 3.14942187963237 0.308 0.104 0.024
1A s S1A_PART1_48769407 48769407 T/A + 2.83545804921435 0.326 0.149 0.019
1A s S1A_PART1_49153543 49153543 T/G + 2.62555588496887 0.392 0.138 0.049
1A s S1A_PART1_49245431 49245431 A/G + 2.25170471390454 0.433 0.144 0.033
1A s S1A_PART1_49245501 49245501 A/C + 2.23865994663504 0.338 0.22 0.025
1A s S1A_PART1_49281757 49281757 T/C + 1.77794248443522 0.191 0.263 0.017
1A s S1A_PART1_49324685 49324685 C/T + 2.22027868366439 0.034 0.191 0.034
1A s S1A_PART1_49347009 49347009 A/G + 5.12362881707679 0.012 0.053 0.003
1A s S1A_PART1_49354003 49354003 G/A + 3.30922027868366 0.015 0.212 0.004
1A s S1A_PART1_49361488 49361488 G/A + 5.77349540468426 0.033 0.022 0.059
1A s S1A_PART1_49530708 49530708 G/A + 5.16750667061963 0.037 0.028 0.054
1A s S1A_PART1_50105421 50105421 G/T + 2.1099911058405 0.012 0.182 0.003
1A s S1A_PART1_50267551 50267551 C/T + 1.96560924992588 0.017 0.191 0.007
1A s S1A_PART1_50776308 50776308 G/A + 1.62733471686926 0.038 0.263 0.005
1A s S1A_PART1_51681656 51681656 C/T + 1.46812926178476 0.055 0.294 0.006
1A s S1A_PART1_52540963 52540963 T/C + 3.01778831900385 0.031 0.132 0.007
1A s S1A_PART1_53455793 53455793 A/G + 3.17640083012155 0.032 0.125 0.021
1A s S1A_PART1_57212799 57212799 T/C + 2.66884079454492 0.023 0.095 0.004
1A s S1A_PART1_57292910 57292910 G/A + 4.28224132819449 0.024 0.07 0.002
1A s S1A_PART1_57640015 57640015 C/T + 4.59679810257931 0.025 0.057 0.003
1A s S1A_PART1_58168238 58168238 C/G + 2.69670916098429 0.03 0.093 0.004
1A s S1A_PART1_58188157 58188157 G/A + 5.06344500444708 0.023 0.054 0.006
1A s S1A_PART1_58713669 58713669 G/T + 3.37889119478209 0.03 0.092 0.004
1A s S1A_PART1_61088948 61088948 T/C + 1.96679513785947 0.029 0.227 0.005
1A s S1A_PART1_62010115 62010115 C/G + 4.2929143195968 0.035 0.085 0.06
1A s S1A_PART1_65267838 65267838 T/C + 4.92469611621702 0.033 0.054 0.059
1A s S1A_PART1_67467736 67467736 G/C + 4.04713904536021 0.035 0.055 0.058
1A s S1A_PART1_73310721 73310721 C/T + 1.5973910465461 0.053 0.267 0.007
1A s S1A_PART1_78964544 78964544 G/C + 1.5487696412689 0.035 0.27 0.047
1A s S1A_PART1_80676673 80676673 C/T + 3.47227986955233 0.032 0.111 0.038
1A s S1A_PART1_85337461 85337461 A/C + 3.08004743551734 0.032 0.072 0.052
1A s S1A_PART1_90768285 90768285 A/C + 1.40764897717166 0.022 0.287 0.005
1A s S1A_PART1_95064600 95064600 T/C + 2.00978357545212 0.026 0.194 0.004
1A s S1A_PART1_95313767 95313767 C/G + 2.55292024903647 0.036 0.13 0.054
1A s S1A_PART1_95833703 95833703 G/A + 5.878446486807 0.03 0.017 0.005
1A s S1A_PART1_96361540 96361540 G/A + 2.39163949006819 0.029 0.144 0.039
1A s S1A_PART1_99017949 99017949 G/A + 4.32018974206937 0.029 0.043 0.005
1A s S1A_PART1_100272316 100272316 G/T + 3.50904239549363 0.032 0.077 0.038
1A s S1A_PART1_103220103 103220103 C/T + 3.76400830121554 0.032 0.076 0.052
1A s S1A_PART1_118848487 118848487 C/A + 1.65490661132523 0.041 0.269 0.048
1A s S1A_PART1_118849867 118849867 A/G + 4.29558256744738 0.03 0.048 0.003
1A s S1A_PART1_124476104 124476104 C/T + 3.87044174325526 0.27 0.084 0.051
1A s S1A_PART1_124476146 124476146 G/A + 3.87044174325526 0.033 0.084 0.007
1A s S1A_PART1_124479544 124479544 C/T + 3.41535724873999 0.032 0.095 0.035
1A s S1A_PART1_146630788 146630788 A/G + 2.00770827156834 0.039 0.202 0.042
1A s S1A_PART1_148267693 148267693 C/T + 2.05128965312778 0.039 0.205 0.044
1A s S1A_PART1_153338838 153338838 T/C + 2.80314260302401 0.039 0.153 0.053
1A s S1A_PART1_155086347 155086347 T/C + 1.97361399347762 0.031 0.22 0.017
1A s S1A_PART1_155141296 155141296 C/T + 1.68188556181441 0.032 0.271 0.023
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