Skip to main content

Advertisement

Table 1 Use of the criterion "total length ≥ 80 bp and %matches ≥ 80%" on 4 species for which 3 strains or more were compared. The number of monomorphic, polymorphic (2 alleles or more) and highly polymorphic (3 alleles or more) TRs in whole set, and positive and negative groups are listed. (a) "criterion" refers to the selection of TRs with L ≥ 80 bp and %M ≥ 80%

From: Identification of polymorphic tandem repeats by direct comparison of genome sequence from different bacterial strains : a web-based resource

Comparison (total number of TRs) Whole set (proportion of total number) Tandem repeats with L≥80 bp AND %M≥80% (proportion among the set) Tandem repeats with L<80 bp OR %M<80% (proportion among the set) % of the polymorphic TRs (2 alleles or more) that were detected by criteriona % of the TRs with 3 alleles or more that were detected by criteriona % of all TRs that fulfil the criteriona
  1 allele 2 alleles or more 3 alleles or more 1 allele 2 alleles 3 alleles or more 1 allele 2 alleles or more 3 alleles or more    
S aureus (833 TRs) 762 (91.5%) 71 (8.5%) 38 (4.5%) 5 (13%) 8 (20%) 25 (66%) 757 (95%) 25 (3.5%) 13 (1.5%) 46% 66% 7.23%
E coli (790 TRs) 739 (93.5%) 51 (6.5%) 12 (1.5 %) 12 (38%) 13 (40%) 7 (22%) 727 (96%) 26 (3.5%) 5 (0.5%) 39% 58% 4.86%
S typhi / typhimurium (641 TRs) 625 (97.5%) 16 (2.5%) 2 (0.3%) 13 (68%) 4 (22%) 2 (10%) 612 (98%) 10 (2%) 0 (0%) 37.5% 100% 3.27%
S pyogenes (292 TRs) 276 (94.5%) 16 (5.5%) 3 (1%) 4 (67%) 0 (0%) 2 (33%) 272 (95%) 14 (4.7%) 1 (0.3%) 12.5% 67% 2.71%