Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,974,824	C→T	L167L (CTG→CTA)	cheA ←	fused chemotactic sensory histidine kinase in two‑component regulatory system with CheB and CheY: sensory histidine kinase/signal sensing protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,974,824	0	C	T	100.0%	174.0 / NA	53	L167L (CTG→CTA)	cheA	fused chemotactic sensory histidine kinase in two‑component regulatory system with CheB and CheY: sensory histidine kinase/signal sensing protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (30/23);  total (30/23)

TGATGTCATCTTCGGCGATGTCGCCCGGTAATATTGCCGAGAGCGAATCCGCCCCTTTCACCACGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTCAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTAATCGGGTCACTGCGGATGGCGTTTCGCCTTTCGCTTCTAATGCCAGTTGACGCA  >  NC_000913/1974700‑1974957                                                                                                                             |                                                                                                                                      tgATGTCATCTTCGGCGATGTCGCCCGGTAATATTGCCGAGAGCGAATCCGCCCCTTTCACCACGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGa                                                                                                                               <  1:1169449/133‑1 (MQ=255) tgATGTCATCTTCGGCGATGTCGCCCGGTAATATTGCCGAGAGCGAATCCGCCCCTTTCACCACGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGa                                                                                                                               >  2:1169449/1‑133 (MQ=255) tgATGTCATCTTCGGCGATGTCGCCCGGTAATATTGCCGAGAGCGAATCCGCCCCTTTCACCACGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGAt                                                                                                                         >  2:575246/1‑139 (MQ=255)   aTGTCATCTTCGGCGATGTCGCCCGGTAATATTGCCGAGAGCGAATCCGCCCCTTTCACCACGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATaa                                                                                                                       >  2:2056152/1‑139 (MQ=255)       cATCTTCGGCGATGTCGCCCGGTAATATTGCCGAGAGCGAATCCGCCCCTTTCACCACGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATtcg                                                                                                                   <  1:1317390/139‑1 (MQ=255)                   tGTCGCCCGGTAATATTGCCGAGAGCGAATCCGCCCCTTTCACCACGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGa                                                                                                                               <  1:1036378/115‑1 (MQ=255)                   tGTCGCCCGGTAATATTGCCGAGAGCGAATCCGCCCCTTTCACCACGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGa                                                                                                                               >  2:1036378/1‑115 (MQ=255)                          cGGTAATATTGCCGAGAGCGAATCCGCCCCTTTCACCACGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGa                                                                                                <  1:643845/139‑1 (MQ=255)                                       gagaGCGAATCCGCCCCTTTCACCACGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCtt                                                                                   >  2:934325/1‑139 (MQ=255)                                        agagCGAATCCGCCCCTTTCACCACGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATtcgtcg                                                                                                                <  2:984119/109‑1 (MQ=255)                                        agagCGAATCCGCCCCTTTCACCACGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATtcgtcg                                                                                                                >  1:984119/1‑109 (MQ=255)                                         gagCGAATCCGCCCCTTTCACCACGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCgact                                                                                                        <  1:1796053/116‑1 (MQ=255)                                         gagCGAATCCGCCCCTTTCACCACGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCgact                                                                                                        >  2:1796053/1‑116 (MQ=255)                                               aTCCGCCCCTTTCACCACGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCa                                                                           >  1:693726/1‑139 (MQ=255)                                                    ccccTTTCACCACGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACtttt                                                                      >  2:660776/1‑139 (MQ=255)                                                         ttCACCACGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCaa                                                                 >  1:545758/1‑139 (MQ=255)                                                          tCACCACGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAAc                                                                <  2:1649814/139‑1 (MQ=255)                                                              cacGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACcaca                                                            >  2:680771/1‑139 (MQ=255)                                                               acGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGAc                                                                                               >  2:189702/1‑103 (MQ=255)                                                               acGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGAc                                                                                               <  1:189702/103‑1 (MQ=255)                                                                   cAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTaa                                                       >  2:426894/1‑139 (MQ=255)                                                                   cAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTaa                                                       >  1:930397/1‑139 (MQ=255)                                                                               tCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTAATCGGGTCACTGc                                           >  1:2028819/1‑139 (MQ=255)                                                                                   aTGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTAATCGGGTCACTGCGGAt                                       <  2:545758/139‑1 (MQ=255)                                                                                      tCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGcgcg                                                                                                                                >  2:1923080/1‑47 (MQ=255)                                                                                      tCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGcgcg                                                                                                                                <  1:1923080/47‑1 (MQ=255)                                                                                      tCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTAATCGGGTCACTGCGGATGGc                                    >  1:325292/1‑139 (MQ=255)                                                                                         cAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGt                                                                              <  2:310960/94‑1 (MQ=255)                                                                                         cAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGt                                                                              >  1:310960/1‑94 (MQ=255)                                                                                                 cttcCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGAc                                                                                               >  1:1673691/1‑69 (MQ=255)                                                                                                 cttcCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGAc                                                                                               <  2:1673691/69‑1 (MQ=255)                                                                                                 cttcCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTAATCGGGTCACTGCGGATGGCGTTTCGCCttt                         >  1:1030590/1‑139 (MQ=255)                                                                                                 cttcCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTAATCGGGTCACTGCGGATGGCGTTTCGCCttt                         >  1:729728/1‑139 (MQ=255)                                                                                                   tcCAGCAGGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTAATCGGGTCACTGCGGATGGCGTTTCGCCTTTCg                       <  2:729728/139‑1 (MQ=255)                                                                                                      agcagGTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTAATCGGGTCACTGCGGATGGCGTTTCGCCTTTCGCtt                    >  2:1629053/1‑139 (MQ=255)                                                                                                           gTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGt                                                                              >  1:167853/1‑76 (MQ=255)                                                                                                           gTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGt                                                                              <  2:167853/76‑1 (MQ=255)                                                                                                           gTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTAATCGGGTCACTGCGGAt                                       <  1:582507/115‑1 (MQ=255)                                                                                                           gTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTAATCGGGTCACTGCGGAt                                       >  2:582507/1‑115 (MQ=255)                                                                                                           gTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTAATCGGGTCACTGCGGATGGCGTTTCGCCTTTCGCTTCTAAt               >  2:1406999/1‑139 (MQ=255)                                                                                                           gTCGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTAATCGGGTCACTGCGGATGGCGTTTCGCCTTTCGCTTCTAAt               >  1:1941928/1‑139 (MQ=255)                                                                                                             cGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTAATCGGGTCACTGCGGATGGCGTTTCGCCTTTCGCTTCTAATGc             <  2:2028819/139‑1 (MQ=255)                                                                                                             cGACTTCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTAATCGGGTCACTGCGGATGGCGTTTCGCCTTTCGCTTCTAATGc             <  1:680771/139‑1 (MQ=255)                                                                                                                 ttCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTAATCGGGTCACTGCGGATGGCGTTTCGCCTTTCGCTTCTAATGCCAGt         >  2:191221/1‑139 (MQ=255)                                                                                                                 ttCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTAATCGGGTCACTGCGGATGGCGTTTCGCCTTTCGCTTCTAATGCCAGt         <  2:930397/139‑1 (MQ=255)                                                                                                                  tCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGtt                                                                             >  1:1429405/1‑70 (MQ=255)                                                                                                                  tCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGtt                                                                             <  2:1429405/70‑1 (MQ=255)                                                                                                                  tCCCCGGCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTAATCGGGTCACTGCGGATGGCGTTTCGCCTTTCGCTTCTAATGCCAGtt        <  1:934325/139‑1 (MQ=255)                                                                                                                       ggCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAAc                                                                <  1:527106/78‑1 (MQ=255)                                                                                                                       ggCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAAc                                                                <  1:1992756/78‑1 (MQ=255)                                                                                                                       ggCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAAc                                                                >  2:527106/1‑78 (MQ=255)                                                                                                                       ggCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAAc                                                                >  2:1992756/1‑78 (MQ=255)                                                                                                                        gCCTTTAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTAATCGGGTCACTGCGGATGGCGTTTCGCCTTTCGCTTCTAATGCCAGTTGACGCa  <  1:1629053/139‑1 (MQ=255)                                                                                                                             |                                                                                                                                      TGATGTCATCTTCGGCGATGTCGCCCGGTAATATTGCCGAGAGCGAATCCGCCCCTTTCACCACGTCAGTTAACGTTGTCAGATGTCCCAGTTCTTCTTCCAGCAGGTCGACTTCCCCGGCCTTCAGGCGCGAAAGGATAATTCGTCGCGGCGACTGACTGCGACTCTGCTCATCTTGCGGTTCACTTTTGGCAACCACACTTAATCGGGTCACTGCGGATGGCGTTTCGCCTTTCGCTTCTAATGCCAGTTGACGCA  >  NC_000913/1974700‑1974957

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑