Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,189,451	A→G	I109T (ATC→ACC)	phoQ ←	sensory histidine kinase PhoQ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,189,451	0	A	G	100.0%	197.0 / NA	52	I109T (ATC→ACC)	phoQ	sensory histidine kinase PhoQ
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (29/23);  total (29/23)

TCCGCGTCGTCATCATCTTCCCGCACTTCCTGCAACTGTTGCTGTATCGAATGATCTCCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGATCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTGTCGATATTTTCGGGTAACTCGACATGCAACTTATTGTTTTCCCA  >  NC_000913/1189316‑1189584                                                                                                                                        |                                                                                                                                      tcCGCGTCGTCATCATCTTCCCGCACTTCCTGCAACTGTTGCTGTATCGAATGATCTCCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGgtcat                                                                                                                                   <  2:402044/140‑1 (MQ=255)         gtcATCATCTTCCCGCACTTCCTGCAACTGTTGCTGTATCGAATGATCTCCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTtcatca                                                                                                                           >  2:641279/1‑140 (MQ=255)                     ccGCACTTCCTGCAACTGTTGCTGTATCGAATGATCTCCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGcacgt                                                                                                               <  2:395385/140‑1 (MQ=255)                     ccGCACTTCCTGCAACTGTTGCTGTATCGAATGATCTCCACCCAGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGcacgt                                                                                                               <  2:215654/140‑1 (MQ=255)                              cTGCAACTGTTGCTGTATCGAATGATCTCCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTgcg                                                                                                      <  1:272626/140‑1 (MQ=255)                                     tGTTGCTGTATCGAATGATCTCCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATaa                                                                                               >  1:154319/1‑140 (MQ=255)                                       ttGCTGTATCGAATGATCTCCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATaaaa                                                                                             >  1:692215/1‑140 (MQ=255)                                       ttGCTGTATCGAATGATCTCCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATaaaa                                                                                             >  2:35144/1‑140 (MQ=255)                                       ttGCTGTATCGAATGATCTCCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATaaaa                                                                                             <  2:154319/140‑1 (MQ=255)                                       ttGCTGTATCGAATGATCTCCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATaaaa                                                                                             >  2:157169/1‑140 (MQ=255)                                       ttGCTGTATCGAATGATCTCCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATaaaa                                                                                             >  1:24802/1‑140 (MQ=255)                                        tGCTGTATCGAATGATCTCCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAg                                                                                            <  1:157169/140‑1 (MQ=255)                                            gTATCGAATGATCTCCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGc                                                                                        >  1:971160/1‑140 (MQ=255)                                              aTCGAATGATCTCCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGccc                                                                                      >  2:386988/1‑140 (MQ=255)                                                 gAATGATCTCCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGtt                                                                                   >  1:557325/1‑140 (MQ=255)                                                 gAATGATCTCCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTAAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGtt                                                                                   >  1:317016/1‑140 (MQ=255)                                                   aTGATCTCCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTAAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTtct                                                                                 <  2:317016/140‑1 (MQ=255)                                                       tctcCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCtcatc                                                                             <  2:557325/140‑1 (MQ=255)                                                         tcCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTcatcat                                                                           >  1:510146/1‑140 (MQ=255)                                                         tcCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTcatcat                                                                           >  1:109102/1‑140 (MQ=255)                                                                aGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTtct                                                                                 >  1:70704/1‑127 (MQ=255)                                                                aGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTtct                                                                                 >  1:642770/1‑127 (MQ=255)                                                                aGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTtct                                                                                 <  2:642770/127‑1 (MQ=255)                                                                aGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTtct                                                                                 <  2:70704/127‑1 (MQ=255)                                                                aGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAg                                                                    >  1:656657/1‑140 (MQ=255)                                                                aGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAg                                                                    >  1:906709/1‑140 (MQ=255)                                                                aGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAg                                                                    >  2:175632/1‑140 (MQ=255)                                                                 gCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGc                                                                   >  1:776050/1‑140 (MQ=255)                                                                  cAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCg                                                                  <  2:776050/140‑1 (MQ=255)                                                                  cAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCg                                                                  >  2:891899/1‑140 (MQ=255)                                                                    agagGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTc                                                                <  1:35144/140‑1 (MQ=255)                                                                     gagGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCa                                                               >  1:278436/1‑140 (MQ=255)                                                                         cTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCAtggt                                                           <  2:971160/140‑1 (MQ=255)                                                                                     aCATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCtt                                               <  2:278436/140‑1 (MQ=255)                                                                                      cATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTg                                              <  2:144296/140‑1 (MQ=255)                                                                                       aTCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTGt                                             >  2:836794/1‑140 (MQ=255)                                                                                         ccGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTGTCg                                           >  2:929458/1‑140 (MQ=255)                                                                                         ccGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTGTCg                                           >  2:148699/1‑140 (MQ=255)                                                                                         ccGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTGTCg                                           >  2:553165/1‑140 (MQ=255)                                                                                          cGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTGTCGa                                          <  2:808644/140‑1 (MQ=255)                                                                                          cGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTGTCGa                                          >  1:485689/1‑140 (MQ=255)                                                                                               cAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTGTCGATAttt                                     <  2:510146/140‑1 (MQ=255)                                                                                                     cATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTGTCGATATTTTCGGGt                               <  1:386988/140‑1 (MQ=255)                                                                                                         aaaaCCATTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTGTCGATATTTTCGGGTAACt                           >  2:542019/1‑140 (MQ=255)                                                                                                               aTTCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTGTCGATATTTTCGGGTAACTCGACAt                     <  1:175632/140‑1 (MQ=255)                                                                                                                ttCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTGTCGATATTTTCGGGTAACTCGACATg                    <  1:891899/140‑1 (MQ=255)                                                                                                                ttCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTGTCGATATTTTCGGGTAACTCGACATg                    <  1:929458/140‑1 (MQ=255)                                                                                                                ttCGATTTCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTGTCGATATTTTCGGGTAACTCGACATg                    <  2:24802/140‑1 (MQ=255)                                                                                                                      ttCAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTGTCGATATTTTCGGGTAACTCGACATGCAACtt              >  1:481432/1‑140 (MQ=255)                                                                                                                        cAGCCAGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTGTCGATATTTTCGGGTAACTCGACATGCAACTTAt            <  1:641279/140‑1 (MQ=255)                                                                                                                             aGTCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTGTCGATATTTTCGGGTAACTCGACATGCAACTTATTGttt       >  1:950060/1‑140 (MQ=255)                                                                                                                               tCAGGCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTGTCGATATTTTCGGGTAACTCGACATGCAACTTATTGTTTTc     >  2:221967/1‑140 (MQ=255)                                                                                                                                  ggCTGGGTCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTGTCGATATTTTCGGGTAACTCGACATGCAACTTATTGTTTTCCCa  <  1:836794/140‑1 (MQ=255)                                                                                                                                        |                                                                                                                                      TCCGCGTCGTCATCATCTTCCCGCACTTCCTGCAACTGTTGCTGTATCGAATGATCTCCACTCAGCAAGAGGCTGGTATCGTTAACATCCGCTTCAATTTCATGAAAACCATTCGATTTCAGCCAGTCAGGCTGGATCATCTTCATCAGCCAGGGCACGTCACGTTGCGCCCATAAAAGCTGCCCGTTCTCATCATAAATTAGCGTCATGGTGGGGCTTTGCTTGTCGATATTTTCGGGTAACTCGACATGCAACTTATTGTTTTCCCA  >  NC_000913/1189316‑1189584

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑