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Table 1 Preprocessed MLST databases

From: BacTag - a pipeline for fast and accurate gene and allele typing in bacterial sequencing data based on database preprocessing

MLST database Genes including number of alleles per gene Number of alleles (per gene) in the low similarity group Strain and reference sequence we used for flanking region construction
E. coli adk (623), fumC (933), gyrB (606), Icd (823), mdh (614), purA (563), recA (512) fumC (11), gyrB (3), mdh (8) UMN026, NC_011751.1
K. pneumoniae gapA (184), infB (141), mdh (245), pgi (221), phoE (365), rpoB (189), tonB (472) gapA (6), mdh (3), tonB (29) Kp52.145, FO834906.1
S. pseudintermedius ack (46), cpn60 (96), fdh (26), pta (70), purA (77), sar (38), tuf (24) ED99, NC_017568.1
M. bovis adh1 (15), gltX (17), gpsA (14), gyrB (25), pta2 (23), tdk (15), tkt (26) PG45, NC_014760.1.
P. gingivalis ftsQ (40), gpdxJ (37), hagB (37), mcmA (30), pepO (37) pga (27), recA (14) ATCC 33277, NC_010729.1
Borrelia spp. clpA (296), clpX (258), nifS (230), pepX (261), pyrG (269), recG (285), rplB (250), uvrA (261) clpA (58), clpX (51), nifS (54), pepX (57), pyrG (51), recG (55), rplB (54), uvrA (45) B. hermsii DAH, NC_010673.1
Streptomyces spp. atpD (183), gyrB (179), recA (184), rpoB (183), trpB (200) atpD (72), gyrB (147), recA (2), rpoB (6), trpB (69) S. coelicolor A3(2), NC_003888.3