Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,638,120	G→A	*475* (TAG→TAA)	creC →	sensory histidine kinase in two‑component regulatory system with CreB or PhoB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,638,120	0	G	A	100.0%	140.0 / NA	44	*475* (TAG→TAA)	creC	sensory histidine kinase in two‑component regulatory system with CreB or PhoB
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (17/27);  total (17/27)

CAAAAAAGCAGCGGTCTGGGGTTGGCGTTCGTCAGTGAGGTCGCCCGTTTGTTTAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAGCTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGAGAAGACTATGTTGAAATCCCCCCTGTTCTGGAAAATGACTAGCCTGTTTGGTGCAGTATTGCTGTTGTTGATTCCGATAAT  >  NC_000913/4637989‑4638251                                                                                                                                    |                                                                                                                                    cAAAAAAGCAGCGGTCTGGGGTTGGCGTTCGTCAGTGAGGTCGCCCGTTTGTTTAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCaaa                                                                                                                              <  2:73774/139‑1 (MQ=255)  aaaaaaGCAGCGGTCTGGGGTTGGCGTTCGTCAGTGAGGTCGCCCGTTTGTTTAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAAt                                                                                                                             <  2:1102880/139‑1 (MQ=255)    aaaaGCAGCGGTCTGGGGTTGGCGTTCGTCAGTGAGGTCGCCCGTTTGTTTAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAAttc                                                                                                                           <  1:1080334/139‑1 (MQ=255)         cagcGGTCTGGGGTTGGCGTTCGTCAGTGAGGTCGCCCGTTTGTTTAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAAt                                                                                                                             <  2:918015/132‑1 (MQ=255)         cagcGGTCTGGGGTTGGCGTTCGTCAGTGAGGTCGCCCGTTTGTTTAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAAt                                                                                                                             >  1:918015/1‑132 (MQ=255)            cGGTCTGGGGTTGGCGTTCGTCAGTGAGGTCGCCCGTTTGTTTAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCcaca                                                                                                                   <  2:752151/139‑1 (MQ=255)            cGGTCTGGGGTTGGCGTTCGTCAGTGAGGTCGCCCGTTTGTTTAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCcaca                                                                                                                   <  1:893777/139‑1 (MQ=255)            cGGTCTGGGGTTGGCGTTCGTCAGTGAGGTCGCCCGTTTGTTTAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCcaca                                                                                                                   <  1:454991/139‑1 (MQ=255)             ggTCTGGGGTTGGCGTTCGTCAGTGAGGTCGCCCGTTTGTTTAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACAt                                                                                                                  <  2:559666/139‑1 (MQ=255)               tCTGGGGTTGGCGTTCGTCAGTGAGGTCGCCCGTTTGTTTAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAg                                                                                                                <  1:1262228/139‑1 (MQ=255)                        ggCGTTCGTCAGTGAGGTCGCCCGTTTGTTTAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATa                                                                                                                 <  2:1169904/129‑1 (MQ=255)                        ggCGTTCGTCAGTGAGGTCGCCCGTTTGTTTAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTAt                                                                                                       >  1:1057783/1‑139 (MQ=255)                        ggCGTTCGTCAGTGAGGTCGCCCGTTTGTTTAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTAGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATa                                                                                                                 >  1:1169904/1‑129 (MQ=255)                                    tGAGGTCGCCCGTTTGTTTAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCAtt                                                                                           >  2:321285/1‑139 (MQ=255)                                       ggTCGCCCGTTTGTTTAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCa                                                                                        <  2:1553475/139‑1 (MQ=255)                                       ggTCGCCCGTTTGTTTAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCa                                                                                        <  1:1553068/139‑1 (MQ=255)                                           gCCCGTTTGTTTAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATa                                                                                                                 >  2:1460413/1‑110 (MQ=255)                                           gCCCGTTTGTTTAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATa                                                                                                                 <  1:1460413/110‑1 (MQ=255)                                                 ttgtttAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGagaaga                                                                              <  2:1496482/139‑1 (MQ=255)                                                       aaCGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGagaaga                                                                              >  1:868281/1‑133 (MQ=255)                                                       aaCGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGagaaga                                                                              <  2:868281/133‑1 (MQ=255)                                                           gCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGAGAAGACTATGTTGaa                                                                    >  2:1244058/1‑139 (MQ=255)                                                             gAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGAGAAGACTATGTTGAAAt                                                                  <  2:595930/139‑1 (MQ=255)                                                                  cACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGAGAAGACTATGTTGAAATccccc                                                             <  1:321285/139‑1 (MQ=255)                                                                  cACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGAGAAGACTATGTTGAAATccccc                                                             <  1:54179/139‑1 (MQ=255)                                                                                  cAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGAGAAGACTATGTTGAAATCCCCCCTGTTCTGGAAAATGa                                             <  1:216475/139‑1 (MQ=255)                                                                                          tGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGAGAAGACTATGTTGAAATCCCCCCTGTTCTGGAAAATGACTAGCCTg                                     >  1:1592062/1‑139 (MQ=255)                                                                                            gCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGGCATTGCAAAGGAGAAGACt                                                                            <  1:858870/98‑1 (MQ=255)                                                                                            gCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGAGAAGACt                                                                            >  2:858870/1‑98 (MQ=255)                                                                                                 cTGGCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGAGAAGACTATGTTGAAATCCCCCCTGTTCTGGAAAATGACTAGCCTGTTTGGTg                              >  2:408908/1‑139 (MQ=255)                                                                                                    gCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTg                                                                                          >  2:1429691/1‑76 (MQ=255)                                                                                                    gCCTCGCTTCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTg                                                                                          <  1:1429691/76‑1 (MQ=255)                                                                                                           ttCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGAGAAGACTATGTTGAAATCCCCCCTGTTCTGGaa                                                  >  1:606351/1‑109 (MQ=255)                                                                                                           ttCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGAGAAGACTATGTTGAAATCCCCCCTGTTCTGGaa                                                  <  2:606351/109‑1 (MQ=255)                                                                                                           ttCGACTTCACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGAGAAGACTATGTTGAAATCCCCCCTGTTCTGGAAAATGACTAGCCTGTTTGGTGCAGTATTGCt                    <  2:1592062/139‑1 (MQ=255)                                                                                                                   cACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGAGAAGACTATGTTGAAATccccc                                                             <  2:1272129/90‑1 (MQ=255)                                                                                                                   cACCGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGAGAAGACTATGTTGAAATccccc                                                             >  1:1272129/1‑90 (MQ=255)                                                                                                                     ccGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCa                                                                                        >  2:1155940/1‑61 (MQ=255)                                                                                                                     ccGTCACTTCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCa                                                                                        <  1:1155940/61‑1 (MQ=255)                                                                                                                             tCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGAGAAGACTATGTTGAAATccccc                                                             >  2:1059563/1‑80 (MQ=255)                                                                                                                             tCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGAGAAGACTATGTTGAAATccccc                                                             <  1:1059563/80‑1 (MQ=255)                                                                                                                             tCACATAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGAGAAGACTATGTTGAAATCCCCCCTGTTCTGGAAAATGACTAGCCTGTTTGGTGCAGTATTGCTGTTGTTGATTCCGATAAt  >  1:1082399/1‑139 (MQ=255)                                                                                                                                caTAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGAGAAGACTATGTTGAAATCCCCCCTGTTCTGGAAAATGACTAGc                                        <  2:1584131/98‑1 (MQ=255)                                                                                                                                caTAACTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGAGAAGACTATGTTGAAATCCCCCCTGTTCTGGAAAATGACTAGc                                        >  1:1584131/1‑98 (MQ=255)                                                                                                                                    |                                                                                                                                    CAAAAAAGCAGCGGTCTGGGGTTGGCGTTCGTCAGTGAGGTCGCCCGTTTGTTTAACGGCGAAGTCACGCTGCGCAACGTGCAGGAAGGTGGCGTGCTGGCCTCGCTTCGACTTCACCGTCACTTCACATAGCTTCAAATTCTTCCCACATAGTCTTCGTATCCTGCTGCCATTGCAAAGGAGAAGACTATGTTGAAATCCCCCCTGTTCTGGAAAATGACTAGCCTGTTTGGTGCAGTATTGCTGTTGTTGATTCCGATAAT  >  NC_000913/4637989‑4638251

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑