Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,849,315	A→C	Y540S (TAC→TCC)	flhA →	formate hydrogenlyase transcriptional activator FlhA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,849,315	0	A	C	100.0%	41.8 / NA	13	Y540S (TAC→TCC)	flhA	formate hydrogenlyase transcriptional activator FlhA
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base C (5/8);  total (5/8)

GACGGACGTGCGTCTAATCGCCGCGACTAACCGCGATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTACCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGCGTCCGGAAGATATTCCGCTGCTGGCGAAAGCCTTTA  >  NZ_CP009273/2849232‑2849395                                                                                    |                                                                                 gacggacgTGCGTCTAATCGCCGCGACTAACCGCGATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTCCCGCCt                                                                            >  1:197229/1‑90 (MQ=255)           cGTCTAATCGCCGCGACTAACCGCGATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTCCCGCCTGAACGTATTc                                                                  <  2:533324/90‑1 (MQ=255)                    gccgcGACTAACCGCGATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCAc                                                         <  1:85539/90‑1 (MQ=255)                    gccgcGACTAACCGCGATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCAc                                                         <  2:370203/90‑1 (MQ=255)                     ccgcGACTAACCGCGATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCAcc                                                        >  1:56286/1‑90 (MQ=255)                          aCTACCCGCGATCTGAAAAAAATGGTCCCCGCCCGTGAGTTCCGTAGCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCACCTgccg                                                   <  1:158374/90‑1 (MQ=255)                                       tGAAAAAAATGGCCGCCGCCCGGGGGTCCCGCGGCGATCTTTTTCCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGc                                      <  1:271355/90‑1 (MQ=255)                                                             tGAGTCCCGTAGCGTTTTTTTTTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGCGTCCGGAAGATATTCCgctgct                <  2:366539/90‑1 (MQ=38)                                                                  tCCGTAGCGTTCTCTTTTCCCGCCTGAACGTATTCCCGATTCCCCTGCCGCCACTACGCGAGCGTCCGGAAGATATTCCGCTGCTGGCGa           <  1:222463/90‑1 (MQ=38)                                                                   ccGTAGCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGCGTCCGGAAGATATTCCGCTGCTGGCGaa          >  1:245286/1‑90 (MQ=255)                                                                          gATCTCTATTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGCGTCCGGAAGATATTCCGCTGCTGGCGAAAGCCttt   >  1:359069/1‑90 (MQ=255)                                                                          gATCTCTATTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGCGTCCGGAAGATATTCCGCTGCTGGCGAAAGCCttt   >  1:493847/1‑90 (MQ=255)                                                                           aTCTCTATTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGCGTCCGGAAGATATTCCGCTGCTGGCGAAAGCCTTTa  <  2:56286/90‑1 (MQ=255)                                                                                    |                                                                                 GACGGACGTGCGTCTAATCGCCGCGACTAACCGCGATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTACCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGCGTCCGGAAGATATTCCGCTGCTGGCGAAAGCCTTTA  >  NZ_CP009273/2849232‑2849395

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑