Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,319,449	T→C	N143S (AAC→AGC)	rcsC ←	sensory histidine kinase RcsC

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,319,449	0	T	C	100.0%	172.0 / NA	47	N143S (AAC→AGC)	rcsC	sensory histidine kinase RcsC
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (25/22);  total (25/22)

CTTGTGGTGCATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGTTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGACTCCAGAGAACCTCGCCAGGTGTTACTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAA  >  NC_000913/2319318‑2319573                                                                                                                                    |                                                                                                                             cTTGTGGTGCATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCg                                                                                                                      >  2:564700/1‑140 (MQ=255) cTTGTGGTGCATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCg                                                                                                                      >  1:796338/1‑140 (MQ=255)    gtggtgCATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTaa                                                                                                                   >  2:324275/1‑140 (MQ=255)     tggtgCATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAg                                                                                                                  <  2:343072/140‑1 (MQ=255)       gtgCATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGctt                                                                                                                            >  1:589794/1‑128 (MQ=255)       gtgCATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGcc                                                                                                                >  1:575784/1‑140 (MQ=255)         gCATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGc                                                                                                              <  1:817283/140‑1 (MQ=255)          cATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCa                                                                                                             >  2:171533/1‑140 (MQ=255)          cATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCa                                                                                                             >  1:1007076/1‑140 (MQ=255)            tttCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGa                                                                                                           >  2:60739/1‑140 (MQ=255)                      tattGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATcg                                                                                                 <  1:1093480/140‑1 (MQ=255)                      tattGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATcg                                                                                                 <  1:1093481/140‑1 (MQ=255)                         tGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCgcgc                                                                                              >  1:949596/1‑140 (MQ=255)                         tGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCgcgc                                                                                              <  1:418825/140‑1 (MQ=255)                           aTGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCa                                                                                            >  2:99597/1‑140 (MQ=255)                            tGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAg                                                                                           >  2:69484/1‑140 (MQ=255)                             gCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGt                                                                                          <  1:99597/140‑1 (MQ=255)                             gCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGt                                                                                          <  2:1007076/140‑1 (MQ=255)                             gCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGt                                                                                          <  1:983392/140‑1 (MQ=255)                              cGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTa                                                                                         <  2:127081/140‑1 (MQ=255)                              cGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTa                                                                                         <  2:800368/140‑1 (MQ=255)                                ttCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAgc                                                                                       >  2:658456/1‑140 (MQ=255)                                ttCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAgc                                                                                       >  1:470855/1‑140 (MQ=255)                                        aaGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAAc                                                                               >  2:771917/1‑140 (MQ=255)                                         aGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAAcc                                                                              >  2:191514/1‑140 (MQ=255)                                            tttCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACg                                                                           <  1:191514/140‑1 (MQ=255)                                                aaCGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTACCGCGCCAGTAGCGCATAAACCACGCCaa                                                                       <  1:324275/140‑1 (MQ=255)                                                 aCGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAAt                                                                      <  1:658456/140‑1 (MQ=255)                                                 aCGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAAt                                                                      <  2:172171/140‑1 (MQ=255)                                                   gcgGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGa                                                                    <  1:60739/140‑1 (MQ=255)                                                       tATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGACTcc                                                                >  2:1140653/1‑140 (MQ=255)                                                              ttCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGACTCCAGAGAAc                                                         <  2:575784/140‑1 (MQ=255)                                                                 cACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGACTCCAGAGAACCTc                                                      >  1:416257/1‑140 (MQ=255)                                                                   cTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGACTCCAGAGAACCTCGc                                                    >  2:277426/1‑140 (MQ=255)                                                                    tGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGACTCCAGAGAACCTCGcc                                                   <  2:594662/140‑1 (MQ=255)                                                                    tGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGACTCCAGAGAACCTCGcc                                                   <  1:771917/140‑1 (MQ=255)                                                                    tGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGACTCCAGAGAACCTCGcc                                                   <  1:787942/140‑1 (MQ=255)                                                                    tGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGACTCCAGAGAACCTCGcc                                                   <  2:470855/140‑1 (MQ=255)                                                                       cATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGACTCCAGAGAACCTCGCCAgg                                                >  2:263475/1‑140 (MQ=255)                                                                               gCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGACTCCAGAGAACCTCGCCAGGTGTTACTc                                        >  1:790726/1‑140 (MQ=255)                                                                                cAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGACTCCAGAGAACCTCGCCAGGTGTTACTCa                                       >  2:430899/1‑140 (MQ=255)                                                                                cAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGACTCCAGAGAACCTCGCCAGGTGTTACTCa                                       >  2:135662/1‑140 (MQ=255)                                                                                cAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGACTCCAGAGAACCTCGCCAGGTGTTACTCa                                       >  1:1083187/1‑140 (MQ=255)                                                                                      gAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGACTCCAGAGAACCTCGCCAGGTGTTACTCATTGCgg                                 <  2:949596/140‑1 (MQ=255)                                                                                                  gCAGAGGTTATCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGACTCCAGAGAACCTCGCCAGGTGTTACTCATTGCGGAACAATCGGAgg                     >  2:131131/1‑139 (MQ=255)                                                                                                           aTCGCTGCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGACTCCAGAGAACCTCGCCAGGTGTTACTCATTGCGGAACAATCGGAGTCGGCAAACa            >  1:895009/1‑140 (MQ=255)                                                                                                                 gCCGATTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGACTCCAGAGAACCTCGCCAGGTGTTACTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGtt      <  1:277426/140‑1 (MQ=255)                                                                                                                     aTTAAAAATACCCGGCTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGACTCCAGAGAACCTCGCCAGGTGTTACTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGTTCaaa  >  2:644797/1‑140 (MQ=255)                                                                                                                                    |                                                                                                                             CTTGTGGTGCATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGCTGCCGATTAAAAATACCCGGTTTAGATCGTAAGCCGCAGAAAAATTATCGCGCCAGTAGCGCATAAACCACGCCAATGACTCCAGAGAACCTCGCCAGGTGTTACTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAA  >  NC_000913/2319318‑2319573

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑