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Table 2 Summary statistics of distribution and abundance of detected SSRs in the tested genomic library and SSR frequency estimates for robusta coffee genome

From: Development of new genomic microsatellite markers from robusta coffee (Coffea canephoraPierre ex A. Froehner) showing broad cross-species transferability and utility in genetic studies

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)     
Note: Three of these MNRs were detected as part of the compound SSR motifs
AAAT 2 (1.7) Nc    
AAGTGG 2 (1.7)     
AATT 1 (0.7)     
AAAAAT 1 (0.7)     
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
  1. nc: Not calculated
  2. *: X = estimated number of SSRs in genome; n = No. of detected SSRs in the library; a = 809 Mb -size of the haploid robusta genome [13]; b = 12.19 Mb- size of the screened robusta genome (see table 1)
  3. #: b = 0.16 Mb -size of genome sequenced
  4. @: Distance (in Kb) between two consecutive SSRs
  5. T: Targeted SSRs; NT: Non-targeted SSRs