Table 4 Pairwise comparison of homozygous different genotypes between 14 resequenced samples using BCFtools command gtcheck
G. hirsutum
TM-1Sealand 542PD-1Paymaster HS-26M-240 RNRFibermax 832Coker 312SureGrow 747Stoneville 474Tamcot SphinxAcala MaxxaTX0231G. barbadense 3-79G. longicalyx F1-1
TM-115,75520,14116,17717,98318,40519,41818,83716,10329,05225,71088,174232,669444,358
Sealand 54215,75511,965906210,21611,71112,28313,93811,27521,30517,91794,229231,726442,608
PD-120,14111,965911311,67213,31913,16314,43513,18720,01518,48892,151229,962442,294
Paymaster HS-2616,177906291136937556279749948882513,096882185,791224,848440,842
M-240 RNR17,98310,21611,6726937886513,59912,77910,92917,72616,28389,815228,074442,033
Fibermax 83218,40511,71113,31955628,86513,46213,50711,66815,29014,31089,910226,029441,551
Coker 31219,41812,28313,163797413,59913,46212,83411,89121,66318,36594,397231,818442,483
SureGrow 74718,83713,93814,435994812,77913,50712,834704621,91917,91394,752232,196443,104
Stoneville 47416,10311,27513,187882510,92911,66811,891704622,23517,73994,936232,169442,949
Tamcot Sphinx29,05221,30520,01513,09617,72615,29021,66321,91922,23520,07898,814228,004442,364
Acala Maxxa25,71017,91718,488882116,28314,31018,36517,91317,73920,07894,015231,328445,417
TX023188,17494,22992,15185,79189,81589,91094,39794,75294,93698,81494,015230,410442,605
3-79232,669231,726229,962224,848228,074226,029231,818232,196232,169228,004231,328230,410429,140
F1-1444,358442,608442,294440,842442,033441,551442,483443,104442,949442,364445,417442,605429,140