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Table 6 The m-HMM segmentation result for chromosome 6 from 35.3 Mb to 57.0 Mb

From: Copy number variation detection using next generation sequencing read counts

Start Position End Position Mo17 Read counts B73 Read counts Mo17/B73
35,274,511 36,847,009 1,511 2291 1.33
36,847,028 36,986,070 81 242 0.67
36,988,155 39,227,681 2,375 3850 1.21
39,227,711 39,392,612 53 294 0.36
39,392,816 39,998,180 605 810 1.51
39,998,210 40,070,876 114 95 2.43
40,071,001 42,219,831 1,978 2751 1.45
42,221,884 42,272,394 3 305 0.01
42,273,061 42,279,935 0 37 0.00
42,281,369 42,467,432 6 484 0.02
42,467,722 42,510,527 0 199 0.00
42,520,362 42,588,228 10 134 0.15
42,589,445 42,592,668 0 16 0.00
42,600,850 42,949,605 41 734 0.11
42,957,788 43,020,977 0 213 0.00
43,021,808 43,021,808 1 0 50.00
43,021,875 43,034,674 0 20 0.00
43,050,012 43,156,464 7 214 0.06
43,159,602 43,239,996 0 110 0.00
43,240,069 43,240,069 4 1 8.11
43,240,496 43,253,531 0 25 0.00
43,270,468 43,367,135 27 396 0.13
43,382,243 43,436,720 0 211 0.00
43,437,634 43,437,634 1 0 50.00
43,437,664 43,438,342 0 19 0.00
43,440,089 43,466,314 8 146 0.11
43,466,499 43,502,281 0 183 0.00
43,502,441 43,502,441 1 0 50.00
43,504,419 43,516,326 0 3 0.00
43,532,757 43,802,344 29 815 0.077
43,802,387 43,809,486 0 214 0.00
43,809,952 43,809,952 4 0 50.00
43,809,982 43,811,684 0 47 0.00
43,812,791 43,828,685 1 128 0.01
43,833,620 43,862,804 0 121 0.00
43,863,025 43,863,025 1 0 50.00
43,866,525 43,959,900 0 164 0.00
43,959,976 43,960,274 2 10 0.40
43,960,449 43,984,663 0 95 0.00
43,991,670 44,242,537 24 498 0.09
44,247,904 44,297,744 0 50 0.00
44,297,961 44,297,961 1 0 50.00
44,299,769 44,341,066 0 252 0.00
44,341,857 46,215,928 371 2308 0.32
46,215,958 46,834,832 572 895 1.29
46,835,472 47,130,192 74 545 0.27
47,130,202 47,668,306 642 833 1.56
47,681,491 47,739,876 18 72 0.50
47,740,273 47,740,273 0 2 0.00
47,746,723 48,880,371 283 1356 0.42
48,880,568 48,923,056 0 51 0.00
48,923,160 49,722,664 213 1128 0.38
49,722,844 50,132,724 231 298 1.57
50,132,929 50,239,093 28 119 0.47
50,260,756 52,852,085 2,487 3567 1.41
52,852,089 52,958,397 155 130 2.41
52,958,403 53,950,690 918 1453 1.28
53,951,899 56,137,418 895 3196 0.56
56,142,451 56,472,218 296 570 1.05
56,472,614 56,863,324 102 570 0.36
56,866,117 57,022,366 123 212 1.17
  1. The first two columns are the start position and the end position of each of the CNV segments. Column 3 and column 4 are the read counts for Mo17 and B73 between the start position and the end position, respectively. The last column is the normalized read count ratio between Mo17 and B73, i.e., log Mo17 c 0 · B73 for that CNV segment.
  2. *The last column Mo17/B73 represents the normalized ratio of read counts between Mo17 and B73 for the genomic region between the start position and the end position. The normalization factor c0 = 0.493.