Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	354,025	T→C	E126G (GAA→GGA)	cynR ←	transcriptional regulator CynR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	354,025	0	T	C	100.0%	35.3 / NA	12	E126G (GAA→GGA)	cynR	transcriptional regulator CynR
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (5/7);  total (5/7)

ATGCACAGGCGCGAAGGCAATCCCAACGTCCAACTCGTCGCGGCAAAGCATATCCTCGATTTTCTCCTGCGACATTTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGGGCC  >  NZ_CP009273/353949‑354083                                                                             |                                                           aTGCACAGGCGCGAAGGCAATCCCAACGTCCAACTCGTCGCGGCAAAGCATATCCTCGATTTTCTCCTGCGACATTCCCt                                                         <  1:503161/80‑1 (MQ=255) aTGCACAGGCGCGAAGGCAATCCCAACGTCCAACTCGTCGCGGCAAAGCATATCCTCGATTTTCTCCTGCGACATTCCCt                                                         >  2:503161/1‑80 (MQ=255)      caGGCGCGAAGGCAATCCCAACGTCCAACTCGTCGCGGCAAAGCATATCCTCGATTTTCTCCTGCGACATTCCCt                                                         >  1:280279/1‑75 (MQ=255)      caGGCGCGAAGGCAATCCCAACGTCCAACTCGTCGCGGCAAAGCATATCCTCGATTTTCTCCTGCGACATTCCCt                                                         <  2:280279/75‑1 (MQ=255)                          aCGTCCAACTCGTCGCGGCAAAGCATATCCTCGATTTTCTCCTGCGACATTCCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAg                      >  2:320475/1‑90 (MQ=255)                                            cAAAGCATATCCTCGATTTTCTCCTGCGACATTCCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAgggg    <  1:1563/90‑1 (MQ=255)                                            cAAAGCATATCCTCGATTTTCCCCTGCGACATTCCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAgggg    <  1:338696/90‑1 (MQ=255)                                              aaGCATATCCTCGATTTTCTCCTGCGACATTCCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGGGcc  <  1:158339/90‑1 (MQ=255)                                                         cGATTTTCTCCTGCGACATTCCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGGAATCCGCCATTAAGGGGcc  <  1:186371/79‑1 (MQ=255)                                                         cGATTTTCTCCTGCGACATTCCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGGAATCCGCCATTAAGGGGcc  >  2:186371/1‑79 (MQ=255)                                                              ttCTCCTGCGACATTCCCTGTAGCTGGAGCGTGAt                                         >  1:451018/1‑35 (MQ=39)                                                              ttCTCCTGCGACATTCCCTGTAGCTGGAGCGTGAt                                         <  2:451018/35‑1 (MQ=39)                                                                             |                                                           ATGCACAGGCGCGAAGGCAATCCCAACGTCCAACTCGTCGCGGCAAAGCATATCCTCGATTTTCTCCTGCGACATTTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGGGCC  >  NZ_CP009273/353949‑354083

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑