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Table 2 Comparison of NUMT and NUPT content between grapevine whole-genome and segmentally duplicated regions

From: Analysis of high-identity segmental duplications in the grapevine genome

  Whole chromosome Segmental duplications
chr NUMTs NUPTs NUMTs NUPTs
  bp percentage bp percentage bp percentage bp percentage
chr1 35,148 0.15% 31,915 0.14% 7,942 0.29% 2,216 0.08%
chr2 23,352 0.12% 37,460 0.20% 5,029 0.17% 16,919 0.56%
chr3 46,530 0.24% 21,546 0.11% 3,746 0.10% 1,888 0.05%
chr4 40,855 0.17% 26,304 0.11% 8,651 0.26% 2,803 0.08%
chr5 36,974 0.15% 25,890 0.10% 6,936 0.19% 2,263 0.06%
chr6 42,918 0.20% 35,543 0.17% 14,186 0.50% 10,820 0.38%
chr7 29,780 0.14% 29,239 0.14% 1,282 0.05% 2,409 0.10%
chr8 52,538 0.23% 38,971 0.17% 16,355 0.81% 10,005 0.49%
chr9 40,017 0.17% 41,931 0.18% 12,529 0.22% 13,459 0.24%
chr10 40,034 0.22% 29,263 0.16% 6,255 0.18% 9,896 0.29%
chr11 32,762 0.17% 40,550 0.20% 8,227 0.38% 8,354 0.39%
chr12 79,290 0.35% 42,133 0.19% 46,728 1.07% 11,608 0.27%
chr13 59,784 0.25% 40,806 0.17% 22,390 0.49% 12,465 0.27%
chr14 59,292 0.20% 32,831 0.11% 12,094 0.27% 5,976 0.13%
chr15 25,964 0.13% 25,086 0.12% 5,899 0.13% 4,076 0.09%
chr16 55,547 0.25% 41,895 0.19% 21,245 0.38% 10,531 0.19%
chr17 26,574 0.16% 28,029 0.16% 3,702 0.15% 2,812 0.11%
chr18 60,444 0.21% 40,038 0.14% 22,523 0.49% 8,360 0.18%
chr19 39,838 0.17% 30,991 0.13% 12,876 0.22% 6,879 0.12%
Tot_nonrandom 827,641 0.19% 640,421 0.15% 238,595 0.33% 143,739 0.20%
chr1_random 1,763 0.31% 2,762 0.49% 78 0.06% 33 0.02%
chr3_random 872 0.07% 1,082 0.09% 0 0.00% 0 0.00%
chr4_random 0 0.00% 0 0.00% - - - -
chr5_random 642 0.15% 366 0.09% - - - -
chr7_random 2,355 0.16% 2,195 0.15% 352 0.25% 55 0.04%
chr9_random 525 0.11% 81 0.02% 93 0.07% 0 0.00%
chr10_random 111 0.01% 1,096 0.14% 0 0.00% 0 0.00%
chr11_random 667 0.24% 191 0.07% - - - -
chr12_random 1,522 0.10% 2,588 0.17% 674 0.17% 1,756 0.43%
chr13_random 8,607 0.26% 5,168 0.16% 4,914 0.46% 2,903 0.27%
chr16_random 636 0.09% 977 0.13% 636 0.09% 977 0.15%
chr17_random 94 0.01% 770 0.09% 0 0.00% 0 0.00%
chr18_random 5,302 0.10% 3,476 0.07% 2,709 0.20% 509 0.04%
Tot_random 23,096 0.14% 20,752 0.12% 9,456 0.20% 6,233 0.13%
Tot_placed 850,737 0.19% 661,173 0.15% 248,051 0.33% 149,972 0.20%
chrUn 417,301 0.97% 69,457 0.16% 159,039 1.79% 21,834 0.25%
Tot_whole 1,268,038 0.26% 730,630 0.15% 407,090 0.48% 171,806 0.20%