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%	99.5 / NA	30	Y540S (TAC→TCC)	flhA	formate hydrogenlyase transcriptional activator FlhA
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base C (13/17);  total (13/17)

TTCAGACGGACGTGCGTCTAATCGCCGCGACTAACCGCGATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTACCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGCGTCCGGAAGATATTCCGCTGCTGGCGAAAGCCTTTACCTTC  >  NZ_CP009273/2849228‑2849400                                                                                        |                                                                                      ttCAGACGGACGTGCGTCTAATCGCCGCGACTAACCGCGATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTccc                                                                                     <  2:982271/90‑1 (MQ=255)     gacggacgTGCGTCTAATCGCCGCGACTAACCGCGATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTCCCGCCt                                                                                 <  2:471775/90‑1 (MQ=255)      acggacgTGCGTCTAATCGCCGCGACTAACCGCGATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTCCCGCCTg                                                                                <  2:544477/90‑1 (MQ=255)       cggacgTGCGTCTAATCGCCGCGACTAACCGCGATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTCCCGCCTGa                                                                               <  2:997268/90‑1 (MQ=255)       cggacgTGCGTCTAATCGCCGCGACTAACCGCGATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTCCCGCCTGa                                                                               >  2:70596/1‑90 (MQ=255)              gCGTCTAATCGCCGCGACTAACCGCGATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTCCCGCCTGAACGTAtt                                                                        >  2:286525/1‑90 (MQ=255)                         ccgcGACTAACCGCGATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCAcc                                                             >  2:273641/1‑90 (MQ=255)                         ccgcGACTAACCGCGATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCAcc                                                             >  1:394620/1‑90 (MQ=255)                              aCTACCCGCGTTCTGAAAAAAATGGCCGCCGCCCGGGATTCCCGTAGCGATCTTTATTCCCGCCTAAACGTATCCCCGATTCCCCTgccg                                                        <  1:500798/90‑1 (MQ=255)                              aCTAACCGCGATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCACCTgccg                                                        <  2:122603/90‑1 (MQ=255)                                tAACCGCGATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCACCTgccgcc                                                      <  2:48658/90‑1 (MQ=255)                                  cccGCAATCAAAAAAAAAGGGTCCCCGCCCGTGATTCCCGTAGCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCAc                                                    <  1:331964/89‑1 (MQ=255)                                   ccGCGATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACt                                                   >  1:130988/1‑90 (MQ=255)                                       gATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTAcgc                                               >  1:628248/1‑90 (MQ=255)                                       gATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTAcgc                                               >  2:287110/1‑90 (MQ=255)                                          ctaaaaaaaaGGGTCGCCGCCGGTGAGTCCCGTGGCGATCTCTATCCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAg                                            <  1:431659/87‑1 (MQ=255)                                          cTGAAAAAAAGGGTCGCCGCCCGTGAGTTCCGTAGCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAg                                            <  2:554043/90‑1 (MQ=255)                                           tGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGc                                           >  1:527964/1‑90 (MQ=255)                                           ccaaaaaaaGGGTCGCCACCCGTGAGTCCCGGGGAATTCTTTTTCCCCGCCTGAAAGTATTCCCGATTCCCCTGCCGCCACTACGCGAGc                                           <  1:438397/88‑1 (MQ=255)                                            gAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGCg                                          >  2:721594/1‑90 (MQ=255)                                                aaaaTGGTCGCCGCCCGTGAGTTCCGTAGCGATCTCTTTTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGCGTCCg                                      <  2:880363/90‑1 (MQ=255)                                                                gTGAGTTCCGTAGCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGCGTCCGGAAGATATTCCgctgc                      >  1:226557/1‑90 (MQ=255)                                                                gTGAGTCCCGTAGCGATCTCTTTCCCCGCCTGAACGTTTTCCCGATTCCCCTGCCGCCACTACGCGAGCGTCCGGAAGATATTCCgctgc                      <  1:774721/90‑1 (MQ=37)                                                                 tGAGTTCCGTAGCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGCGTCCGGAAGATATTCCgctgct                     <  2:394620/90‑1 (MQ=255)                                                                       ccGTAGCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGCGTCCGGAAGATATTCCGCTGCTGGCGaa               <  2:950230/90‑1 (MQ=255)                                                                       ccGTAGCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGCGTCCGGAAGATATCCCGCTGCTGGCGaa               <  2:624346/90‑1 (MQ=255)                                                                            gCGATCTCTATTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGCGTCCGGAAGATATTCCGCTGCTGGCGAAAGCCt          >  1:805104/1‑90 (MQ=255)                                                                              gATCTCTATTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGCGTCCGGAAGATATTCCGCTGCTGGCGAAAGCCttt        >  1:401487/1‑90 (MQ=255)                                                                               acctctTTTCCCGCCTGAACGTATTCCCGATTCCCCTGCCGCCACTACGCGAGCGTCCGGAAGATATTCCGCTGCTGGCGAAAGCCTTTa       <  1:255605/88‑1 (MQ=39)                                                                                 ctctATTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGCGTCCGGAAGATATTCCGCTGCTGGCGAAAGCCTTTAcc     >  1:860410/1‑90 (MQ=255)                                                                                    tATTCCCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGCGTCCGGAAGATATTCCGCTGCTGGCGAAAGCCTTTACCTTc  <  2:823252/90‑1 (MQ=255)                                                                                        |                                                                                      TTCAGACGGACGTGCGTCTAATCGCCGCGACTAACCGCGATCTGAAAAAAATGGTCGCCGACCGTGAGTTCCGTAGCGATCTCTATTACCGCCTGAACGTATTCCCGATTCACCTGCCGCCACTACGCGAGCGTCCGGAAGATATTCCGCTGCTGGCGAAAGCCTTTACCTTC  >  NZ_CP009273/2849228‑2849400

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑