Table 4 Repeat characteristics of TR classes with a unit size of 1 to 50 bp for Daphnia pulex, Drosophila melanogaster, and Apis mellifera.
From: Genome-wide analysis of tandem repeats in Daphnia pulex - a comparative approach
| Â | Daphnia pulex | Drosophila melanogaster | Apis mellifera | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
repeat class [bp] | total counts | mean TR length [bp] | sd | longest TR [bp] | density [bp/Mbp] | total counts | mean TR length [bp] | sd | longest TR [bp] | density [bp/Mbp] | total counts | mean TR length [bp] | sd | longest TR [bp] | density [bp/Mbp] |
1 | 17161 | 16.2 | 4.1 | 100 | 1747.1 | 15701 | 17.0 | 10.1 | 974 | 1639.0 | 54104 | 17.8 | 6.0 | 335 | 4166.4 |
2 | 16104 | 18.6 | 5.5 | 117 | 1884.8 | 14511 | 22.0 | 13.3 | 820 | 1961.6 | 69036 | 26.3 | 17.1 | 630 | 7860.8 |
3 | 21458 | 19.7 | 6.4 | 174 | 2662.0 | 9622 | 26.1 | 31.0 | 710 | 1543.7 | 28005 | 26.3 | 24.1 | 932 | 3181.9 |
4 | 4630 | 21.7 | 11.2 | 336 | 632.9 | 4770 | 32.1 | 65.3 | 863 | 939.2 | 16755 | 24.1 | 18.0 | 943 | 1742.1 |
5 | 3476 | 24.5 | 20.2 | 379 | 534.8 | 5984 | 89.3 | 189.5 | 9308 | 3253.7 | 11528 | 26.5 | 29.6 | 1348 | 1313.4 |
6 | 2382 | 27.8 | 22.9 | 536 | 418.0 | 8220 | 30.6 | 52.8 | 1969 | 1538.1 | 8673 | 27.0 | 55.0 | 4290 | 1008.6 |
7 | 1664 | 23.5 | 8.9 | 239 | 246.4 | 5133 | 41.3 | 73.0 | 973 | 1291.0 | 7810 | 27.1 | 16.7 | 593 | 914.7 |
8 | 1591 | 24.5 | 17.0 | 582 | 245.3 | 3204 | 43.4 | 89.7 | 1540 | 846.5 | 8585 | 27.0 | 15.4 | 774 | 1003.3 |
9 | 2213 | 27.4 | 10.0 | 191 | 380.1 | 2386 | 39.6 | 93.9 | 3013 | 577.7 | 8557 | 28.5 | 16.8 | 496 | 1054.9 |
10 | 2041 | 45.2 | 89.2 | 1459 | 572.3 | 1535 | 50.2 | 86.6 | 929 | 473.8 | 9572 | 32.7 | 62.9 | 2548 | 1351.8 |
11 | 1336 | 27.8 | 8.2 | 161 | 234.0 | 2776 | 369.6 | 953.0 | 33316 | 6269.0 | 7884 | 29.3 | 14.0 | 592 | 997.5 |
12 | 1814 | 35.7 | 41.9 | 906 | 404.9 | 2310 | 161.4 | 628.0 | 23884 | 2272.4 | 8313 | 31.2 | 20.1 | 1023 | 1120.6 |
13 | 786 | 35.3 | 20.3 | 234 | 174.7 | 530 | 34.6 | 34.7 | 567 | 113.0 | 4001 | 34.4 | 22.2 | 595 | 596.0 |
14 | 459 | 37.9 | 19.2 | 247 | 109.7 | 419 | 57.1 | 59.9 | 589 | 147.3 | 2383 | 37.4 | 19.7 | 385 | 385.0 |
15 | 780 | 50.9 | 35.3 | 491 | 249.8 | 415 | 63.5 | 70.7 | 607 | 161.1 | 1421 | 48.8 | 69.0 | 1084 | 299.4 |
16 | 177 | 68.9 | 96.9 | 915 | 76.9 | 179 | 56.5 | 51.6 | 538 | 62.2 | 852 | 49.2 | 47.3 | 785 | 181.2 |
17 | 389 | 270.2 | 386.6 | 3259 | 650.4 | 92 | 60.1 | 78.2 | 632 | 34.1 | 558 | 50.6 | 50.2 | 850 | 121.9 |
18 | 366 | 85.9 | 158.0 | 2317 | 196.1 | 212 | 68.0 | 100.7 | 1311 | 88.5 | 509 | 67.1 | 89.4 | 1124 | 147.1 |
19 | 284 | 59.4 | 45.9 | 605 | 106.1 | 110 | 63.5 | 76.3 | 538 | 43.0 | 309 | 58.1 | 43.3 | 673 | 77.7 |
20 | 155 | 85.2 | 81.6 | 663 | 83.2 | 89 | 98.7 | 127.4 | 684 | 54.1 | 279 | 90.7 | 204.1 | 2150 | 109.5 |
21 | 363 | 70.9 | 33.4 | 401 | 162.3 | 89 | 204.7 | 577.3 | 5404 | 111.7 | 221 | 78.7 | 71.8 | 587 | 75.2 |
22 | 91 | 72.3 | 47.9 | 298 | 40.7 | 45 | 443.2 | 1638.9 | 11089 | 122.8 | 150 | 72.8 | 69.5 | 576 | 47.3 |
23 | 77 | 97.7 | 136.1 | 1192 | 47.3 | 175 | 553.9 | 838.9 | 6227 | 553.7 | 118 | 108.7 | 155.0 | 1134 | 55.5 |
24 | 350 | 152.9 | 139.0 | 931 | 337.0 | 130 | 110.7 | 117.4 | 699 | 88.4 | 169 | 127.7 | 254.0 | 2621 | 93.4 |
25 | 43 | 83.4 | 74.0 | 437 | 22.6 | 23 | 248.4 | 219.9 | 747 | 31.1 | 84 | 131.0 | 275.9 | 2531 | 47.6 |
26 | 62 | 95.7 | 74.7 | 499 | 37.4 | 45 | 125.0 | 164.5 | 842 | 34.7 | 214 | 226.1 | 212.0 | 1673 | 200.9 |
27 | 128 | 107.9 | 69.1 | 475 | 87.0 | 85 | 93.9 | 59.1 | 416 | 46.7 | 98 | 138.6 | 134.3 | 700 | 58.8 |
28 | 42 | 84.6 | 32.1 | 231 | 22.4 | 46 | 134.1 | 129.5 | 551 | 38.0 | 106 | 167.0 | 191.0 | 1261 | 75.7 |
29 | 29 | 85.1 | 37.1 | 201 | 15.6 | 14 | 163.7 | 183.3 | 680 | 14.1 | 64 | 144.4 | 146.0 | 1052 | 40.0 |
30 | 119 | 152.5 | 161.9 | 1141 | 110.5 | 89 | 146.9 | 134.2 | 1085 | 80.5 | 136 | 150.7 | 194.4 | 1995 | 87.5 |
31 | 95 | 94.6 | 36.0 | 261 | 56.6 | 55 | 581.4 | 503.9 | 2320 | 181.7 | 44 | 167.0 | 154.4 | 879 | 31.8 |
32 | 70 | 93.1 | 51.7 | 330 | 39.9 | 56 | 196.7 | 174.1 | 744 | 67.9 | 56 | 148.3 | 133.6 | 769 | 35.9 |
33 | 85 | 152.2 | 159.2 | 1349 | 80.9 | 112 | 457.9 | 2864.8 | 30381 | 315.8 | 69 | 146.4 | 93.7 | 487 | 43.6 |
34 | 61 | 210.2 | 256.8 | 1552 | 80.8 | 51 | 444.4 | 607.3 | 2944 | 139.6 | 77 | 161.8 | 125.8 | 862 | 53.9 |
35 | 94 | 140.0 | 106.1 | 675 | 82.9 | 25 | 849.3 | 1816.1 | 9031 | 130.8 | 81 | 164.5 | 121.1 | 760 | 57.2 |
36 | 81 | 155.4 | 94.6 | 447 | 79.3 | 61 | 231.1 | 129.7 | 569 | 85.3 | 360 | 183.8 | 94.3 | 805 | 285.9 |
37 | 25 | 156.7 | 163.8 | 880 | 24.7 | 21 | 150.3 | 70.2 | 347 | 19.4 | 60 | 173.1 | 112.1 | 557 | 45.0 |
38 | 55 | 112.7 | 29.1 | 260 | 39.1 | 20 | 189.8 | 162.6 | 638 | 23.4 | 47 | 137.5 | 74.6 | 428 | 28.0 |
39 | 39 | 153.7 | 115.3 | 674 | 37.8 | 69 | 361.5 | 1153.3 | 9681 | 153.5 | 54 | 162.5 | 133.9 | 816 | 38.0 |
40 | 14 | 105.4 | 38.1 | 234 | 9.3 | 10 | 322.4 | 277.9 | 972 | 19.9 | 47 | 231.0 | 306.6 | 1984 | 47.0 |
41 | 31 | 105.8 | 21.6 | 158 | 20.7 | 3 | 247.7 | 230.3 | 513 | 4.6 | 38 | 160.3 | 108.1 | 683 | 26.3 |
42 | 70 | 139.9 | 54.9 | 428 | 61.6 | 26 | 189.9 | 205.4 | 980 | 30.4 | 32 | 186.1 | 158.6 | 862 | 25.8 |
43 | 38 | 130.9 | 35.7 | 203 | 31.4 | 10 | 364.4 | 339.9 | 1045 | 22.5 | 17 | 236.7 | 218.7 | 969 | 17.4 |
44 | 10 | 183.0 | 95.8 | 344 | 11.5 | 4 | 915.3 | 1379.3 | 2979 | 22.6 | 34 | 200.8 | 205.5 | 1288 | 29.6 |
45 | 56 | 208.9 | 241.5 | 1442 | 73.8 | 32 | 409.6 | 630.3 | 3489 | 80.7 | 41 | 243.3 | 288.7 | 1875 | 43.2 |
46 | 11 | 363.9 | 701.5 | 2475 | 25.2 | 12 | 2057.9 | 3322.3 | 11248 | 152.1 | 40 | 180.0 | 96.8 | 524 | 31.2 |
47 | 12 | 313.5 | 339.9 | 1263 | 23.7 | 12 | 619.6 | 611.0 | 1987 | 36.0 | 20 | 233.1 | 152.4 | 561 | 20.2 |
48 | 39 | 335.3 | 225.0 | 857 | 82.4 | 12 | 1126.3 | 2226.0 | 7791 | 83.3 | 19 | 253.2 | 148.5 | 615 | 20.8 |
49 | 15 | 218.5 | 155.7 | 620 | 20.7 | 19 | 174.5 | 151.6 | 700 | 20.4 | 32 | 227.0 | 204.5 | 926 | 30.6 |
50 | 37 | 172.1 | 60.3 | 350 | 40.1 | 10 | 245.5 | 129.0 | 469 | 15.1 | 40 | 252.0 | 219.2 | 1200 | 43.6 |
total | 81508 | 26.2 | Â | 3259 | 13254 | 79559 | 53.6 | Â | 33316 | 24199 | 251702 | 27.0 | Â | 4290 | 28698 |