Pan-genome de Bruijn graph using the bidirectional FM-index

BMC Bioinformatics

Table 12 Overview of the candidate putative compensatory mutations in rpoA, rpoC and the non-RRDR regions rpoB

Coordinate	Mutation name	Node identifier	RRDR mutation	Nr. of strains
761246	I480V	97472	S450L	2
761549	V581M	55246	S450L	4
762199		111083	S450L	2
762279	R824L	105067	S450L	2
762287	R827C	109947	S450L	8
762733	Q975H	108299	S450L	5
762891	H1028R	82684	L452P	6
763125	I1106T	61206	L452P, D435G	50
764365	G332S	50267	S450L	2
764819	V483G	96203	S450L	2
765621	E750D		S450L	2
766487	V1039A	56977	S450L	9
766489	P1040S	105810	S450L	18
766490	P1040R	92909	S450L	3
767125	V1252L	115316	S450L	5
3878138	V183G		S450L	3

We report the coordinate with respect to the reference H37Rv strain; the name of the mutation (if it is reported in [54]); the node identifier in the graph (\(k=19\)) of the candidate (if it is reported by our pipeline); the co-mutated RRDR polymorphism, i.e., the mutation from Table 11 which is also carried by all strains that pass through this candidate; and the number of strains in the dataset that correspond to this candidate

ISSN: 1471-2105