Table 3. Development and utility assessment of unique SSR primer pairs in the Zunla-1 genome.
| Total | Size filtering (%b) | Primer pairs isolation |
Utility assessment |
Average PIC | |||||
|---|---|---|---|---|---|---|---|---|---|
| SSR type | Total (%c) | Unique (%d) | Selected | Specific | Polymorphic (%e) | ||||
| Perfect | Mono- | 302,209 | 139,351 (46.11%) | 132,118 (94.81%) | 32,804 (23.54%) | 20 | 11 | 7 (35.00%) | 0.21 |
| Di- | 132,938 | 132,802 (99.90%) | 123,621 (93.09%) | 26,967 (20.31%) | 20 | 8 | 5 (25.00%) | 0.22 | |
| Tri- | 182,359 | 181,411 (99.48%) | 175,945 (96.99%) | 38,195 (21.05%) | 20 | 15 | 4 (20.00%) | 0.16 | |
| Tetra- | 18,958 | 18,910 (99.75%) | 17,935 (94.84%) | 4,192 (22.17%) | 20 | 12 | 8 (40.00%) | 0.21 | |
| Penta- | 5,065 | 5,018 (99.07%) | 4,839 (96.43%) | 1,125 (22.42%) | 20 | 11 | 11 (55.00%) | 0.23 | |
| Hexa- | 4,180 | 4,122 (98.61%) | 3,793 (92.02%) | 836 (20.28%) | 20 | 12 | 12 (60.00%) | 0.30 | |
| C | 88,729 | 40,559 (45.71%) | 36,789 (90.70%) | 8,647 (21.32%) | 20 | 10 | 10 (50.00%) | 0.27 | |
| C*a | 5,285 | 3,390 (64.14%) | 3,119 (92.01%) | 734 (21.65%) | 20 | 9 | 8 (40.00%) | 0.30 | |
| Total | 739,723 | 525,563 (71.05%) | 498,159 (94.79%) | 113,500 (21.60%) | 160 | 88 | 65 (40.63%) | 0.25 | |
aC with an asterisk means that the number of bases interrupting two adjacent SSR motifs within a compound microsatellite is 0.
bThe ratio of size filtering to the total number of SSR units.
cThe ratio of successful isolation to the remainder after size filtering.
dThe ratio of unique primer pairs to total primer pairs.
eThe ratio of polymorphic number to number selected.