Table S2 Accuracy of SNP calling and missing genotype imputation validated by
RiceSNP50 array
Acc No
Name
S11E0343
S11E0348
S11E0349
S11E0201
S11E0175
S11E0265
S11E0205
S11E0026
S11E0167
S11E0307
S11E0227
S11E0076
S11E0301
S11E0059
S11E0043
S11E0113
S11E0225
S11E0292
S11E0075
S11E0103
S11E0192
S11E0109
S11E0093
S11E0135
Means
TAINUNG 67
CYPRESS
M 202
DULAR
N 22
AIJIAONANTE
BENBANGGU
XIAOHONGGU
XIBAINIAN
ZHONG 413
LUHAN 1
MOWANGGU
IRAT 109
BICO PRETO
IAC 1246
CICA 4
LAC 23
ZHENSHAN 97B
ZHONGHAN 3
IAC 1
TRES MESES
QINGSIZHAN 1
PR 325
IR 30358-084-1-1
Missing
SNPs
105
355
344
748
768
570
549
589
540
742
801
692
607
808
657
649
618
499
833
867
1172
1825
2538
1180
794
Common
SNPs
10746
10496
10507
10103
10083
10281
10302
10262
10311
10109
10050
10159
10244
10043
10194
10202
10233
10352
10018
9984
9679
9026
8313
9671
10057
Consistent
SNPs
10695
10436
10440
10026
10005
10198
10216
10171
10189
9982
9904
9992
10071
9869
10016
10019
10047
10152
9788
9752
9408
8769
8065
9382
9899.67
Accuracy
(%)
99.53
99.43
99.36
99.24
99.23
99.19
99.17
99.11
98.82
98.74
98.55
98.36
98.31
98.27
98.25
98.21
98.18
98.07
97.70
97.68
97.20
97.15
97.02
97.01
98.41