Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,851,887	G→A	R479H (CGT→CAT)	mutS →	DNA mismatch repair protein MutS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,851,887	0	G	A	100.0%	16.1 / NA	9	R479H (CGT→CAT)	mutS	DNA mismatch repair protein MutS
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (4/5);  total (4/5)

CCGCGAGCGTGAACGTACCGGCCTGGACACGCTGAAAGTTGGCTTTAATGCGGTGCACGGCTACTACATTCAAATCAGCCGTGGGCAAAGCCATCTGGCACCCATCAACTACATGCGTCGCCAGACGCTGAAAAACGCCGAGCGCTACATCATTCCA  >  NZ_CP009273/2851807‑2851963                                                                                 |                                                                             ccGCGAGCGTGAACGTACCGGCCTGGACACGCTGAAAGTTGGCTTTAATGCGGTGCACGGCTACTACATTCAAATCAGCCATGGGCAAAg                                                                     >  1:96652/1‑90 (MQ=255)             aCGTACCGGCCTGGACACGCTTAAAGTTGGCTTTAATGCGGTGCACGGCTACTACATTCAAATCAGCCATTGGCAAAGCCATCTGGCAcc                                                         <  1:105956/90‑1 (MQ=255)               gTACCGGCCTGGACACGCTGAAAGTTGGCTTTAATGCGGTGCACGGCTACTACATTCAAATCAGCCATGGGCAAAGCCATCTGGCACCCa                                                       <  2:85559/90‑1 (MQ=255)                     gCCTGGACACGCTGAAAGTTGGCTTTAATGCGGTGCACGGCTACTACATTCAAATCAGCCATGGGCAAAGCCATCTGGCACCCATCAACt                                                 >  2:381045/1‑90 (MQ=255)                                                    ggTGCACGGCTACTACATTCAAATCAGCCATGGGCAAAGCCATCTGGCACCCATCAACTACATGCGTCGCCAGACGCTGAAAAACGCCGa                  >  1:194734/1‑90 (MQ=255)                                                      tGCACGGCTACTACATTCAAATCAGCCATGGGCAAAGCCATCTGGCACCCATCAACTACATGCGTCGCCAGACGCTGAAAAACGCCGAgc                <  1:17829/90‑1 (MQ=255)                                                                    aTTCAAATCAGCCATGGGCAAAGCCATCTGGCACCCATCAACTACATGCGTCGCCAGACGCTGAAAAACGCCGAGCGCTACATCATTCCa  <  2:96652/90‑1 (MQ=255)                                                                      tCAAATCAGCCATGGGCAAAGCCATCTGGCACCCATCAACTACATGCGTCGCCAGACGCTGAAAAACGCCGa                  <  1:445104/72‑1 (MQ=255)                                                                      tCAAATCAGCCATGGGCAAAGCCATCTGGCACCCATCAACTACATGCGTCGCCAGACGCTGAAAAACGCCGa                  >  2:445104/1‑72 (MQ=255)                                                                                 |                                                                             CCGCGAGCGTGAACGTACCGGCCTGGACACGCTGAAAGTTGGCTTTAATGCGGTGCACGGCTACTACATTCAAATCAGCCGTGGGCAAAGCCATCTGGCACCCATCAACTACATGCGTCGCCAGACGCTGAAAAACGCCGAGCGCTACATCATTCCA  >  NZ_CP009273/2851807‑2851963

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑