Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,535,733	A→C	F46V (TTT→GTT)	envZ ←	sensory histidine kinase EnvZ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,535,733	0	A	C	100.0%	194.4 / NA	65	F46V (TTT→GTT)	envZ	sensory histidine kinase EnvZ
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base C (37/28);  total (37/28)

GACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAAACTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTA  >  NC_000913/3535637‑3535827                                                                                                 |                                                                                               gACGGAAAGCGGGAGGCACAACCAATTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACct                                                                                              <  2:2349896/99‑1 (MQ=255)  aCGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACctg                                                                                             >  2:2164800/1‑99 (MQ=255)   cGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACctgc                                                                                            >  2:1615304/1‑99 (MQ=255)    ggAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACctgct                                                                                           >  2:2012013/1‑99 (MQ=255)     gAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACctgctg                                                                                          <  2:201776/99‑1 (MQ=255)     gAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACctgctg                                                                                          <  1:523931/99‑1 (MQ=255)      aaaGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTgg                                                                                         <  1:670824/99‑1 (MQ=255)        aGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAg                                                                                       <  2:222052/99‑1 (MQ=255)          cGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGc                                                                                     <  1:566993/99‑1 (MQ=255)          cGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGc                                                                                     <  2:1084493/99‑1 (MQ=255)           gggAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCt                                                                                    >  2:1972887/1‑99 (MQ=255)            ggAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTc                                                                                   >  2:1019253/1‑99 (MQ=255)             gAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACGTTATTAACCTGCTGGAGGCTCg                                                                                  <  1:704937/99‑1 (MQ=255)                gCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCa                                                                               >  2:786267/1‑99 (MQ=255)                    aaccaacTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAAt                                                                           >  1:350541/1‑99 (MQ=255)                    aaccaacTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAAt                                                                           <  1:961186/99‑1 (MQ=255)                        aacTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATcgcg                                                                       <  1:2199212/99‑1 (MQ=255)                          cTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGaa                                                                     >  1:390073/1‑99 (MQ=255)                           tGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAg                                                                    <  2:2013729/99‑1 (MQ=255)                            gCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGt                                                                   <  1:1781617/99‑1 (MQ=255)                             cGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGtt                                                                  <  2:1331443/99‑1 (MQ=255)                             cGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGtt                                                                  >  1:1575598/1‑99 (MQ=255)                               tGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCa                                                                <  1:2253586/99‑1 (MQ=255)                               tGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCa                                                                >  2:1043329/1‑99 (MQ=255)                               tGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCa                                                                >  2:201488/1‑99 (MQ=255)                                 ccGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGc                                                              >  2:1345906/1‑99 (MQ=255)                                  cGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGca                                                             >  2:1007685/1‑99 (MQ=255)                                  cGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGca                                                             <  2:2378443/99‑1 (MQ=255)                                    tcctccAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGcacc                                                           <  1:918920/99‑1 (MQ=255)                                    tcctccAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGcacc                                                           >  2:985257/1‑99 (MQ=255)                                     cctccAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGcacca                                                          <  2:1166885/99‑1 (MQ=255)                                      ctccAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGcaccac                                                         >  1:1225746/1‑99 (MQ=255)                                      ctccAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGcaccac                                                         >  2:2374912/1‑99 (MQ=255)                                      ctccAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGcaccac                                                         <  1:1170028/99‑1 (MQ=255)                                        ccAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCAccacca                                                       <  2:1864215/99‑1 (MQ=255)                                         cAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAg                                                      >  2:1872434/1‑99 (MQ=255)                                           gTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGAt                                                    >  2:676455/1‑99 (MQ=255)                                           gTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGAt                                                    <  2:1518923/99‑1 (MQ=255)                                             tGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATaa                                                  >  2:109944/1‑99 (MQ=255)                                              gCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAg                                                 >  1:40961/1‑99 (MQ=255)                                                aGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAgtc                                               <  1:459074/99‑1 (MQ=255)                                                  tttGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACGACCAGACAAgtcgt                                             >  2:1071204/1‑99 (MQ=255)                                                  tttGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAgtcgt                                             >  1:1532344/1‑99 (MQ=255)                                                    tGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCa                                           <  2:459889/99‑1 (MQ=255)                                                          tcatcaACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGc                                     >  1:2132832/1‑99 (MQ=255)                                                          tcatcaACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGc                                     >  1:2115298/1‑99 (MQ=255)                                                            atcaACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTg                                   >  1:2180091/1‑99 (MQ=255)                                                            atcaACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTg                                   >  1:869662/1‑99 (MQ=255)                                                             tcaACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTgg                                  <  2:2406979/99‑1 (MQ=255)                                                              caACATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTGGc                                 <  1:1670043/99‑1 (MQ=255)                                                               aaCATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTGGCg                                >  2:412602/1‑99 (MQ=255)                                                                aCATACGCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTGGCGa                               >  1:1180464/1‑99 (MQ=255)                                                                      gCACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTGGCGAACAGCa                         >  1:472502/1‑99 (MQ=255)                                                                       cACTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTGGCGAACAGCaa                        >  1:38895/1‑99 (MQ=255)                                                                         cTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTGGCGAACAGCAAgg                      >  1:1049340/1‑99 (MQ=255)                                                                         cTTCGTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTGGCGAACAGCAAgg                      >  1:2470652/1‑99 (MQ=255)                                                                             gTACGCGAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGAc                  <  1:14825/99‑1 (MQ=255)                                                                                  cgAGGACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGa             >  1:1587703/1‑99 (MQ=255)                                                                                     ggACTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCa          >  1:1431629/1‑99 (MQ=255)                                                                                       aCTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAAt        >  1:1833539/1‑99 (MQ=255)                                                                                       aCTTTATTAACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAAt        <  1:671981/99‑1 (MQ=255)                                                                                          ttattaACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAAc     >  1:2504738/1‑99 (MQ=255)                                                                                            attaACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGt   <  2:1419669/99‑1 (MQ=255)                                                                                             ttaACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTa  >  2:2393612/1‑99 (MQ=255)                                                                                             ttaACCTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTa  <  2:1802850/99‑1 (MQ=255)                                                                                                 |                                                                                               GACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAAACTGCTGGAGGCTCGGCAAAATCGCGAAGTTCAGCACCACCAGATAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTA  >  NC_000913/3535637‑3535827

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑