Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	321,564	(G)7→6	intergenic (+483/‑44)	rclR → / → ykgE	reactive chlorine species (RCS)‑specific activator of the rcl genes/cysteine‑rich LutA family protein, putative electron transport chain YkgEFG component

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	321,558	0	G	.	100.0%	283.5 / NA	69	intergenic (+477/‑50)	rclR/ykgE	reactive chlorine species (RCS)‑specific activator of the rcl genes/cysteine‑rich LutA family protein, putative electron transport chain YkgEFG component
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base . (36/33);  total (36/33)

CGATGCCGAAAGAAATAAAATTAGTTATTGCATTTGACGTTTGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGTGGGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCTTTGTCACCTGTATTGGTGACGCCCTGAAATCAAGAATGGCACGAGACTCCGTGCTGCTACTGGA  >  NC_000913/321420‑321687                                                                                                                                           |                                                                                                                                  cGATGCCGAAAGAAATAAAATTAGTTATTGCATTTGACGTTTGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGTg                                                                                                                                   <  1:148204/139‑1 (MQ=255)   aTGCCGAAAGAAATAAAATTAGTTATTGCATTTGACGTTTGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGTggg                                                                                                                                 >  1:102047/1‑139 (MQ=255)    tGCCGAAAGAAATAAAATTAGTTATTGCATTTGACGTTTGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGTgggg                                                                                                                                >  1:1192487/1‑139 (MQ=255)       cGAAAGAAATAAAATTAGTTATTGCATTTGACGTTTGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGTgggggga                                                                                                                             <  1:1764869/139‑2 (MQ=255)                       aGTTATTGCATTTGACGTTTGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACAt                                                                                                                       <  1:1010890/128‑1 (MQ=255)                       aGTTATTGCATTTGACGTTTGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACAt                                                                                                                       >  2:1010890/1‑128 (MQ=255)                          tATTGCATTTGACGTTTGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATggg                                                                                                         <  2:102047/139‑1 (MQ=255)                             tGCATTTGACGTTTGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACa                                                                                                                        >  2:148671/1‑121 (MQ=255)                             tGCATTTGACGTTTGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACa                                                                                                                        <  1:148671/121‑1 (MQ=255)                                  ttGACGTTTGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGt                                                                                                 >  2:1466873/1‑139 (MQ=255)                                   tGACGTTTGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCa                                                                                                       <  2:312691/132‑1 (MQ=255)                                   tGACGTTTGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCa                                                                                                       >  1:312691/1‑132 (MQ=255)                                   tGACGTTTGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTa                                                                                                <  2:5859/139‑1 (MQ=255)                                   tGACGTTTGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTa                                                                                                <  2:1057635/139‑1 (MQ=255)                                     aCGTTTGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAAt                                                                                              <  2:1192487/139‑1 (MQ=255)                                         ttGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGTg                                                                                                                                   <  1:1234567/99‑1 (MQ=255)                                         ttGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGTg                                                                                                                                   >  2:1234567/1‑99 (MQ=255)                                         ttGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAg                                                                                          <  1:1466873/139‑1 (MQ=255)                                         ttGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAg                                                                                          >  1:830865/1‑139 (MQ=255)                                                              gTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTAt                                                                                       <  1:617064/121‑1 (MQ=255)                                                              gTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTAt                                                                                       >  2:617064/1‑121 (MQ=255)                                                                  tACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAAtt                                                                     <  2:678491/135‑1 (MQ=255)                                                                  tACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAAtt                                                                     >  1:678491/1‑135 (MQ=255)                                                                   aCAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCttt                                                                <  2:1795269/139‑1 (MQ=255)                                                                       aTGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCTTTGTCa                                                            <  2:830865/139‑1 (MQ=255)                                                                         gAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCTTTGTCAcc                                                          >  2:987369/1‑139 (MQ=255)                                                                            gggTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCTTTGTCAc                                                           >  1:35591/1‑135 (MQ=255)                                                                            gggTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCTTTGTCAc                                                           <  2:35591/135‑1 (MQ=255)                                                                               tggtATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCgg                                                                                                                    >  1:367902/1‑75 (MQ=255)                                                                               tggtATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCgg                                                                                                                    <  2:367902/75‑1 (MQ=255)                                                                               tggtATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCTTTGTCACCTGTAtt                                                    >  2:220600/1‑139 (MQ=255)                                                                                 gtATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATc                                                                                                                      >  1:1561424/1‑71 (MQ=255)                                                                                 gtATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATc                                                                                                                      <  2:1561424/71‑1 (MQ=255)                                                                                 gtATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTaa                                                                                               <  2:1172119/94‑1 (MQ=255)                                                                                 gtATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTaa                                                                                               >  1:1172119/1‑94 (MQ=255)                                                                                 gtATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTa                                                                                                >  1:564067/1‑93 (MQ=255)                                                                                 gtATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTa                                                                                                <  2:564067/93‑1 (MQ=255)                                                                                 gtATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAg                                                                                          >  1:1554084/1‑99 (MQ=255)                                                                                 gtATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAg                                                                                          <  2:1554084/99‑1 (MQ=255)                                                                                 gtATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCttt                                                                <  1:222964/125‑1 (MQ=255)                                                                                 gtATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCttt                                                                >  2:222964/1‑125 (MQ=255)                                                                                          tAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCTTTGTCACCTGTATTGGTGACGCCCt                                         <  1:220600/139‑1 (MQ=255)                                                                                           aGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACa                                                                                                                        <  1:1535616/59‑1 (MQ=255)                                                                                           aGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACa                                                                                                                        >  2:1535616/1‑59 (MQ=255)                                                                                           aGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACa                                                                                                                        <  2:1247091/59‑1 (MQ=255)                                                                                           aGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACa                                                                                                                        >  1:1247091/1‑59 (MQ=255)                                                                                            gCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTaa                                                                                               <  2:465509/83‑1 (MQ=255)                                                                                            gCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTaa                                                                                               >  1:465509/1‑83 (MQ=255)                                                                                              cAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCa                                                                                                       <  1:296203/73‑1 (MQ=255)                                                                                              cAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCa                                                                                                       >  2:296203/1‑73 (MQ=255)                                                                                                 ttAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAAt                                                                                              <  1:944242/79‑1 (MQ=255)                                                                                                 ttAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAAt                                                                                              >  2:944242/1‑79 (MQ=255)                                                                                                                         gatgatTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATg                                                                                                     <  1:275182/48‑1 (MQ=255)                                                                                                                         gatgatTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATg                                                                                                     >  2:275182/1‑48 (MQ=255)                                                                                                                         gatgatTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCTTTGTCACCTGTATTGGTGACGCCCt                                         >  2:774119/1‑108 (MQ=255)                                                                                                                         gatgatTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCTTTGTCACCTGTATTGGTGACGCCCt                                         <  1:774119/108‑1 (MQ=255)                                                                                                                         gatgatTGATCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCTTTGTCACCTGTATTGGTGACGCCCTGAAATCAAGAATGGCACGAGACTCCGtgctg          >  2:1283299/1‑139 (MQ=255)                                                                                                                           tgattgatCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGATTGTCAATTTCTTTGTCACCTGTATTGGTGACGCCCTGAAATc                                   <  2:1176208/112‑1 (MQ=255)                                                                                                                           tgattgaaCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTACTTGTGAATGTCAATTTCTTTGTCACCTGTATTGGTGACGCCCTGAAATc                                   >  1:1176208/1‑112 (MQ=255)                                                                                                                             attgatCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAAtt                                                                     <  2:90358/76‑1 (MQ=255)                                                                                                                             attgatCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAAtt                                                                     >  1:90358/1‑76 (MQ=255)                                                                                                                             attgatCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCttt                                                                >  1:1003263/1‑81 (MQ=255)                                                                                                                             attgatCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCttt                                                                <  2:1003263/81‑1 (MQ=255)                                                                                                                             attgatCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCTTTGTCAc                                                           <  2:1164712/86‑1 (MQ=255)                                                                                                                             attgatCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCTTTGTCAc                                                           >  1:1164712/1‑86 (MQ=255)                                                                                                                             attgatCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCTTTGTCACCTGTATTGGTGACGCCCTGAAATCAAGAATGGCACGAGACTCCGTGCTGCTAc      >  2:1328518/1‑139 (MQ=255)                                                                                                                             attgatCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCTTTGTCACCTGTATTGGTGACGCCCTGAAATCAAGAATGGCACGAGACTCCGTGCTGCTAc      >  1:1580196/1‑139 (MQ=255)                                                                                                                             attgatCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCTTTGTCACCTGTATTGGTGACGCCCTGAAATCAAGAATGGCACGAGACTCCGTGCTGCTAc      >  1:1032548/1‑139 (MQ=255)                                                                                                                               tgatCCCACGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCTTTGTCACCTGTATTGGTGACGCCCTGAAATCAAGAATGGCACGAGACTCCGTGCTGCTACTg    >  1:895411/1‑139 (MQ=255)                                                                                                                                 atCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCa                                                                                                       >  2:557243/1‑38 (MQ=255)                                                                                                                                 atCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCa                                                                                                       <  1:557243/38‑1 (MQ=255)                                                                                                                                 atCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCTTTGTCACCTGTATTGGTGACGCCCTGAAATCAAGAATGGCACGAGACTCCGTGCTGCTACTGGa  >  1:1325177/1‑139 (MQ=255)                                                                                                                                 atCCCCCGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCTTTGTCACCTGTATTGGTGACGCCCTGAAATCAAGAATGGCACGAGACTCCGTGCTGCTACTGGa  >  2:1426152/1‑139 (MQ=255)                                                                                                                                      ccGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATgg                                                                                            >  1:1263082/1‑44 (MQ=255)                                                                                                                                      ccGGT‑GGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATgg                                                                                            <  2:1263082/44‑1 (MQ=255)                                                                                                                                           |                                                                                                                                  CGATGCCGAAAGAAATAAAATTAGTTATTGCATTTGACGTTTGGATGAAAGATTATCATTTGTCATACAAATGAGGGGTGGTATGTTGCTAGCCAATTAAAAAAGAACGCCATATTTATTGATGATTGATCCCCCGGTGGGGGGGAAACATCGGGCATAAATGGGCATGAAGTAATGGAGTATTAGTTGTGAATGTCAATTTCTTTGTCACCTGTATTGGTGACGCCCTGAAATCAAGAATGGCACGAGACTCCGTGCTGCTACTGGA  >  NC_000913/321420‑321687

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑