Table 1 Tukey HSD for SNPs, InDels, SVs, and CNVs in S. bicolor vs. S. bicolor × S. halepense results.

From: Whole-genome resequencing of Sorghum bicolor and S. bicolor × S. halepense lines provides new insights for improving plant agroecological characteristics

SNPs

Total SNPs

Homozygous

Heterozygous

Syn_CDS

Nonsyn_CDS

Exon

Gene

Intron

mRNA

Pseudogene

Transcript

tRNA

Sb-SNP

2,740,707.91 b

1,568,460.64 a

1,172,247.27 b

51,930.82 b

53,090.27 b

259,126.96 b

367,089.86 b

0.28 b

502,355.61 b

24,551.5 b

66,349.91 b

47.39 b

SbxSh-SNP

7,774,659.53 a

266,261.84 b

7,508,397.68 a

224,011.11 a

192,976.26 a

1,039,206.53 a

1,487,971.84 a

0.79 a

2,098,316.74 a

72,998.58 a

248,660 a

97.89 a

CNVs, SV, InDels

CDS

cDNA match

Direct repeat

Exon

Gene

Intron

Lnc RNA

mRNA

Pseudogene

rRNA

tRNA

Transcript

Sb-CNV

220,969.2 a

813.5 b

11.71 a

299,489.67 b

35,240.17 b

6.01 a

6870.76 b

44,166.06 b

1481.2 b

11.03 a

569.77 a

3868.22 b

SbxSh-CNV

220,873.05 a

816 a

12.42 a

299,802.58 a

35,634.95 a

6:00 AM

7426.47 a

44,819.11 a

1565 a

11.05 a

569.74 a

4134.21 a

Sb-SV

613,211.95 b

2270.12 a

6459.33 a

831,108.19 b

89,783.18 b

293.41 a

12,531.91 b

1616.44 a

3531.11 a

212.8 a

1615.27 a

5385.1 b

SbxSh-SV

714,082.79 a

2530.32 a

19.68 a

976,566.21 a

104,589.79 a

18.79 a

15,119.68 a

1739.21 a

3927.74 a

18.63 a

1640.47 a

6678.53 a

Sb-InDels

12,638.73 b

205.48 b

48,117.67 a

88,723.88 b

27,024.42 b

NA

74,829.22 b

361,489.41 b

345,870.29 a

NA

6755.33 a

1708.89 b

SbxSh-InDels

36,324.74 a

604.53 a

65,756.26 a

262,396.16 a

268,724.05 a

NA

134,405.79 a

662,402.89 a

419,384.79 a

NA

8914.84 a

20,483.42 a

  1. *Numbers followed by same letter within a column and for same variant, are not statistically different at the 5% probability level.
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