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Table 1 Suspicious regions in the human chromosome 1 alignment

From: Measuring the accuracy of genome-size multiple alignments

Species Aligned residues Residues in suspicious regions Suspicious regions Residues with high phastCons score in suspicious regions
Chimp 211,636,048 (86%) 7,722 (0.004%) 103 174 (2.3%)
Rhesus 198,482,753 (80%) 32,789 (0.02%) 358 214 (0.7%)
Rabbit 87,544,213 (35%) 2,053,030 (2.3%) 24,210 24,037 (1.2%)
Mouse 92,668,918 (37%) 3,033,524 (3.3%) 36,594 25,175 (0.8%)
Rat 87,532,024 (35%) 3,141,584 (3.6%) 37,231 34,373 (1.1%)
Dog 132,538,114 (54%) 1,661,141 (1.3%) 19,277 8,383 (0.5%)
Cow 124,582,989 (50%) 1,524,553 (1.2%) 18,020 6,563 (0.4%)
Armadillo 81,991,879 (33%) 1,451,731 (1.8%) 17,306 25,172 (1.7%)
Elephant 88,888,989 (36%) 2,047,450 (2.3%) 23,089 30,143 (1.5%)
Tenrec 67,619,223 (27%) 2,495,171 (3.7%) 26,697 26,611 (1.1%)
Opossum 31,534,309 (13%) 4,657,853 (14.8%) 41,302 120,445 (2.6%)
Chicken 9,106,790 (4%) 2,363,996 (26.0%) 18,397 235,152 (9.9%)
Frog 5,916,044 (2%) 1,432,427 (24.2%) 10,947 219,613 (15.3%)
Tetraodon 5,167,534 (2%) 1,765,895 (34.2%) 9,508 240,568 (13.6%)
Fugu 4,630,234 (2%) 1,167,357 (25.2%) 8,437 169,851 (14.6%)
Zebrafish 5,855,213 (2%) 1,669,490 (28.5%) 10,963 324,159 (19.4%)
All species 219,711,964 (89%) 21,334,060 (9.7%) 185,452 1,127,826 (5.3%)
  1. Aligned portions of the 247 Mbp of human chromosome 1 with respect to each of the other 16 vertebrates. Column 2 shows the total number of residues of human chromosome 1 that are aligned to the other species, together with its percentage of 247 Mbp, the size of human chromosome 1. Column 3 shows the total number of residues that are in suspicious regions, together with its percentage of the corresponding number in column 2. The number of suspicious regions is shown in column 4. Column 5 shows the total number of residues that are in suspicious regions and have a phastCons score greater than 0.5, together with its percentage of the corresponding number in column 3.