Table 1. Total occurrence of repeats in Korean water deer genomes and the number of primers designed.
Repeat types | No. of repeating units | Total | Primers designed | |||||||||||||||||||||||
4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 | 21 | 22 | 23 | 24 | 25 | 26 | 27 | |||
Total | 14036 | 2925 | 1190 | 637 | 341 | 176 | 148 | 110 | 82 | 72 | 68 | 67 | 44 | 46 | 38 | 40 | 28 | 18 | 17 | 8 | 5 | 2 | 1 | 2 | 20101 | 14738 |
Di-nucleotide | 11919 | 2446 | 1002 | 575 | 310 | 168 | 144 | 105 | 81 | 72 | 68 | 67 | 44 | 46 | 38 | 40 | 28 | 18 | 17 | 8 | 5 | 2 | 1 | 2 | 17206 | 12471 |
AT/TA | 3390 | 577 | 238 | 133 | 83 | 45 | 35 | 23 | 19 | 18 | 9 | 15 | 7 | 9 | 13 | 12 | 10 | 8 | 3 | 3 | 3 | 1 | - | 2 | 4656 | 3144 |
CT/TC/GA/AG | 3688 | 527 | 159 | 80 | 46 | 21 | 7 | 5 | 1 | 4 | 1 | - | 5 | 1 | - | - | - | - | 2 | - | - | - | - | - | 4547 | 3605 |
CA/AC/GT/TG | 4698 | 1,314 | 594 | 358 | 178 | 101 | 102 | 77 | 61 | 50 | 58 | 52 | 32 | 36 | 25 | 28 | 18 | 10 | 12 | 5 | 2 | 1 | 1 | - | 7813 | 5601 |
GC/CG | 143 | 28 | 11 | 4 | 3 | 1 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 190 | 121 |
Tri-nucleotide | 2117 | 479 | 188 | 62 | 31 | 8 | 4 | 5 | 1 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 2895 | 2267 |
AAT/ATA/TAA/TTA/TAT/ATT | 476 | 106 | 27 | 12 | 4 | 3 | 3 | 3 | 1 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 635 | 498 |
AAC/ACA/CAA/TTG/TGT/GTT | 494 | 105 | 43 | 17 | 11 | 2 | 1 | 2 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 675 | 544 |
ATG/TGA//GAT/TAC/ACT/CTA | 90 | 6 | 5 | 5 | 1 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 107 | 78 |
AAG/AGA/TTC/TTC/TCT/CTT | 160 | 21 | 16 | 1 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 198 | 152 |
AGT/GTA/TAG/TCA/CAT/ATC | 45 | 11 | 4 | - | - | 2 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 62 | 42 |
AGG/GAG/GGA/TCC/CTC/TCC | 263 | 48 | 12 | 3 | 1 | 1 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 328 | 260 |
ACC/CAC/CCA/TGG/GTG/GGA | 226 | 45 | 11 | 2 | 2 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 286 | 241 |
AGC/CAG/GCA/TCG/CGT/GTC | 213 | 97 | 42 | 15 | 4 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 371 | 284 |
ACG/CGA/GAC/TGC/GCT/CTG | 83 | 19 | 18 | 3 | 3 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 126 | 97 |
GGC/GCG/CGG/CCG/CGC/GCC | 67 | 21 | 10 | 4 | 5 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 107 | 71 |
Ratio of Di- to Tri- nucleotides | 5.6 | 5.1 | 5.3 | 9.3 | 10.0 | 21.0 | 36.0 | 21.0 | 81.0 | 5.9 | 5.5 |