Table 2 Main characteristics of STRs in the genome of Daphnia pulex and 11 other taxa.
From: Genome-wide analysis of tandem repeats in Daphnia pulex - a comparative approach
| Â | Mono | Di | Tri | Tetra | Penta | Hexa | total |
|---|---|---|---|---|---|---|---|
D. pulex | Â | Â | Â | Â | Â | Â | Â |
total counts | 17161 | 16104 | 21458 | 4630 | 3476 | 2382 | 65211 |
density [bp/Mbp] | 1747.1 | 1884.8 | 2662.0 | 632.9 | 534.8 | 418.0 | 7866.0 |
density [%] | 22.2 | 23.9 | 33.8 | 8.0 | 6.8 | 5.3 | 100.0 |
mean length | 16.2 | 18.6 | 19.7 | 21.7 | 24.5 | 27.8 | 19.2 |
standard deviation | 4.1 | 5.5 | 6.4 | 11.2 | 20.2 | 22.9 | Â |
D. melanogaster | Â | Â | Â | Â | Â | Â | Â |
total counts | 15701 | 14511 | 9622 | 4770 | 5984 | 8220 | 58808 |
density [bp/Mbp] | 1639.0 | 1961.6 | 1543.7 | 939.2 | 3253.7 | 1538.1 | 10876.0 |
density [%] | 15.1 | 18.0 | 14.2 | 8.6 | 29.9 | 14.1 | 100.0 |
Mean length | 17.0 | 22.0 | 26.1 | 32.1 | 89.3 | 30.6 | 30.2 |
standard deviation | 10.1 | 13.3 | 31.0 | 65.3 | 189.5 | 52.8 | Â |
A. mellifera | Â | Â | Â | Â | Â | Â | Â |
total counts | 54104 | 69036 | 28005 | 16755 | 11528 | 8673 | 188101.0 |
density [bp/Mbp] | 4166.4 | 7860.8 | 3181.9 | 1742.1 | 1313.4 | 1008.6 | 19184.1 |
density [%] | 21.6 | 40.8 | 16.5 | 9.0 | 6.8 | 5.2 | 100.0 |
mean length | 17.8 | 26.3 | 26.3 | 24.1 | 26.5 | 27.0 | 23.7 |
standard deviation | 6.0 | 17.1 | 24.1 | 18.0 | 29.6 | 55.0 | Â |
C. elegans | Â | Â | Â | Â | Â | Â | Â |
total counts | 4104 | 3004 | 2570 | 927 | 582 | 2430 | 13617 |
density [bp/Mbp] | 653.4 | 727.3 | 480.6 | 224.9 | 120.2 | 1373.0 | 3577.7 |
density [%] | 18.3 | 20.3 | 13.4 | 6.3 | 3.4 | 38.4 | 100.0 |
mean length | 16.0 | 24.3 | 18.8 | 24.3 | 20.7 | 56.8 | 26.4 |
standard deviation | 3.8 | 23.5 | 5.4 | 32.1 | 6.9 | 72.3 | Â |
H. sapiens | Â | Â | Â | Â | Â | Â | Â |
total counts | 591617 | 224459 | 77621 | 200797 | 105107 | 55324 | 1254925 |
density [bp/Mbp] | 3889.6 | 2267.4 | 658.7 | 2249.0 | 1032.1 | 511.5 | 10547.3 |
density [%] | 36.7 | 21.4 | 6.2 | 21.2 | 9.7 | 4.8 | 100.0 |
Mean length | 18.8 | 28.9 | 24.3 | 32.2 | 28.3 | 26.5 | 24.2 |
standard deviation | 5.7 | 20.7 | 28.9 | 53.4 | 84.7 | 24.7 | Â |
M. musculus | Â | Â | Â | Â | Â | Â | Â |
total counts | 286206 | 563483 | 127365 | 351575 | 140683 | 93653 | 1562965 |
density [bp/Mbp] | 2107.5 | 8913.8 | 1877.2 | 5360.1 | 1994.9 | 1517.1 | 21601.6 |
density [%] | 9.7 | 40.9 | 8.6 | 24.6 | 9.2 | 7.0 | 100.0 |
Mean length | 18.8 | 40.4 | 37.7 | 39.2 | 36.6 | 41.6 | 35.7 |
standard deviation | 7.4 | 31.7 | 45.3 | 40.4 | 36.4 | 49.3 | Â |
G. gallus | Â | Â | Â | Â | Â | Â | Â |
total counts | 142803 | 27674 | 21667 | 39190 | 24240 | 9382 | 264956 |
density [bp/Mbp] | 2617.8 | 625.8 | 450.1 | 1138.0 | 964.8 | 330.2 | 6094.5 |
density [%] | 42.7 | 10.2 | 7.3 | 18.6 | 15.7 | 5.4 | 100.0 |
Mean length | 18.1 | 22.3 | 20.5 | 28.8 | 39.5 | 35.0 | 22.8 |
standard deviation | 6.0 | 11.2 | 7.8 | 34.1 | 46.3 | 41.6 | Â |
A. thaliana | Â | Â | Â | Â | Â | Â | Â |
total counts | 10492 | 6471 | 6017 | 982 | 1540 | 1840 | 27342 |
density [bp/Mbp] | 1468.7 | 1264.9 | 1052.8 | 158.9 | 253.7 | 350.0 | 4544.2 |
density [%] | 32.3 | 27.8 | 23.1 | 3.5 | 5.6 | 7.7 | 100.0 |
Mean length | 16.7 | 23.3 | 20.8 | 19.3 | 19.6 | 22.7 | 19.8 |
standard deviation | 4.2 | 13.9 | 14.1 | 9.1 | 3.7 | 7.8 | Â |
T. pseudonana | Â | Â | Â | Â | Â | Â | Â |
total counts | 29 | 344 | 2222 | 237 | 101 | 202 | 3135 |
density [bp/Mbp] | 13.0 | 235.8 | 1457.0 | 188.0 | 66.4 | 385.3 | 2344.3 |
density [%] | 0.6 | 10.1 | 62.1 | 8.0 | 2.8 | 16.4 | 100.0 |
mean length | 14.0 | 21.4 | 20.5 | 24.7 | 20.5 | 59.5 | 23.4 |
standard deviation | 1.5 | 9.3 | 16.5 | 12.1 | 3.3 | 123.2 | Â |
O. lucimarinus | Â | Â | Â | Â | Â | Â | Â |
total counts | 5 | 2051 | 2208 | 285 | 610 | 1124 | 6283 |
density [bp/Mbp] | 5.0 | 3075.5 | 3980.7 | 553.7 | 1160.2 | 2223.8 | 10941.6 |
density [%] | 0.0 | 28.0 | 36.2 | 5.0 | 10.5 | 20.2 | 100.0 |
Mean length | 13.2 | 19.8 | 23.8 | 25.7 | 25.2 | 26.2 | 23.1 |
standard deviation | 0.5 | 8.2 | 11.0 | 9.6 | 9.3 | 9.9 | Â |
N. crassa | Â | Â | Â | Â | Â | Â | Â |
total counts | 3216 | 915 | 4484 | 1788 | 1000 | 1889 | 13292 |
density [bp/Mbp] | 1971.0 | 535.5 | 2752.7 | 1095.2 | 619.3 | 1250.6 | 8207.7 |
density [%] | 24.0 | 6.5 | 33.5 | 13.3 | 7.5 | 15.2 | 100.0 |
Mean length | 24.0 | 23.0 | 24.1 | 24.0 | 24.4 | 26.1 | 24.3 |
standard deviation | 11.7 | 14.4 | 17.6 | 14.4 | 10.7 | 14.7 | Â |
S. cerevisiae | Â | Â | Â | Â | Â | Â | Â |
total counts | 810 | 335 | 414 | 67 | 71 | 256 | 1953 |
density [bp/Mbp] | 1157.7 | 646.7 | 900.4 | 118.6 | 133.4 | 639.1 | 3563.5 |
density [%] | 32.2 | 18.0 | 25.0 | 3.3 | 3.7 | 17.8 | 100.0 |
mean length | 17.3 | 23.3 | 26.5 | 21.4 | 22.7 | 30.2 | 22.3 |
standard deviation | 5.5 | 10.8 | 15.4 | 8.0 | 5.4 | 27.7 | Â |