SSR motif | SSRs detected in the library (% of total SSRs) | Mean no. of repeats/SSR (Range of repeat iterations in the SSR core) | Estimated number/distance of SSRs in the robusta coffee genome | ||
---|---|---|---|---|---|
 |  |  | Total SSRs/genome (X = n.a/b)* | SSRs/Mb genome (Y = X/a) | SSR spacing in the genome@ (Z = 1000/Y) |
Targeted SSRs (DNRsT + TNRsT) | |||||
AG | 31(26.7) | 10.0 (6 to 29) | 2057 | 2.5 | 393 |
AC | 15 (12.9) | 8.4 (6 to 14) | 995 | 1.2 | 812 |
DNRs T | 46 (39.7) | 9.6 (6 to 29) | 3053 | 3.8 | 265 |
AGC | 9 (7.8) | 6.8 (5 to 10) | 597 | 0.7 | 1354 |
ATC | 4 (3.5) | 5.0 (5) | 265 | 0.3 | 3048 |
ACG | 3 (2.6) | 6.7 (5 to 9) | 199 | 0.3 | 4063 |
ACC | 3 (2.6) | 5.7 (5 to 7) | 199 | 0.3 | 4063 |
AAT | 3 (2.6) | 5.3 (5 to 6) | 199 | 0.3 | 4063 |
AAC | 3 (2.6) | 5.0 (5) | 199 | 0.3 | 4063 |
AGG | 2 (1.7) | 6.0 (5 to 7) | 133 | 0.7 | 6095 |
AAG | 2 (1.7) | 5.5 (5 to 6) | 133 | 0.7 | 6095 |
CCG | 1 (0.9) | 6.0 (6) | 66 | 0.1 | 12190 |
ACT | 0 | -- | -- | -- | -- |
TNRs T | 30 (25.9) | 5.9 (5 to 10) | 1991 | 2.5 | 406 |
SSRs T | 76 (65.5) | 8.3 (5 to 29) | 5044 | 6.2 | 160 |
Non-targeted DNRs (DNRsNT) | |||||
AT/AT | 10 (8.6) | 10.3 (6 to 23) | 50563# | 62.50 | 16 |
Miscellaneous non-targted SSRs | |||||
A/T | 21 (18.1) | nc | |||
C/G | 3 (2.6) | Â | Â | Â | Â |
Note: Three of these MNRs were detected as part of the compound SSR motifs | |||||
AAAT | 2 (1.7) | Nc | Â | Â | Â |
AAGTGG | 2 (1.7) | Â | Â | Â | Â |
AATT | 1 (0.7) | Â | Â | Â | Â |
AAAAAT | 1 (0.7) | Â | Â | Â | Â |
DNRs T+NT | 56 (48.3) | 11.5 (6 to 29) | 53616 | 66.3 | 15 |
DNRs T+NT & TNRs T | 86 (74.1) | 9.5 (5 to 29) | 55607 | 68.7 | 15 |