Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,796,146	C→T	A158V (GCG→GTG)	csiR →	transcriptional repressor of csiD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,796,146	0	C	T	100.0%	191.9 / NA	60	A158V (GCG→GTG)	csiR	transcriptional repressor of csiD
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (34/26);  total (34/26)

GCTTGAGGCCTGTGACGCCAGCGAGAAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGCGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCGCGCGCGCCAGTGAGTTAATGCG  >  NC_000913/2796012‑2796281                                                                                                                                       |                                                                                                                                        gCTTGAGGCCTGTGACGCCAGCGAGAAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGgtggcg                                                                                                                                     >  1:1564396/1‑139 (MQ=255)      aGGCCTGTGACGCCAGCGAGAAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTCGATCTGGTGGCGCGTTa                                                                                                                                >  2:1563779/1‑139 (MQ=255)         ccTGTGACGCCAGCGAGAAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCg                                                                                                                             <  1:1613697/139‑1 (MQ=255)           tgtgATGCCAGCGAGAAAATGCTTGATTAGTGGGATCTGCTTCTTCAGGCGTTTAATACGGTAATTGTGGCGGGCTTTGGTTCTCACTATTTGCTTCAATTGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGAt                                                                                                                           <  1:1646536/139‑1 (MQ=255)                      cGAGAAAATGCTTGATGAGTGGGATCTGCATCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTg                                                                                                                >  2:1200970/1‑139 (MQ=255)                          aaaaTGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTgcggc                                                                                                            <  2:784610/139‑1 (MQ=255)                                 ttGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGTCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGt                                                                                                     <  1:1200970/139‑1 (MQ=255)                                        gTGGGATCTGCGTCATCATGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCg                                                                                              >  2:1182752/1‑139 (MQ=255)                                                 gCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTCGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATg                                                                                     <  1:1563779/139‑1 (MQ=255)                                                  cGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGc                                                                                    >  1:1791126/1‑139 (MQ=255)                                                   gTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCt                                                                                   >  1:956394/1‑139 (MQ=255)                                                   gTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTCGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCt                                                                                   >  1:619913/1‑139 (MQ=255)                                                    tcatcaGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTg                                                                                  <  2:1564396/139‑1 (MQ=255)                                                      atcaGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGaaa                                                                                       >  2:522188/1‑132 (MQ=255)                                                      atcaGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGaaa                                                                                       <  1:522188/132‑1 (MQ=255)                                                       tcaGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTggtggc                                                                                                                                      <  2:1666105/84‑1 (MQ=255)                                                       tcaGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTggtggc                                                                                                                                      >  1:1666105/1‑84 (MQ=255)                                                       tcaGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTgg                                                                                                                   <  2:964885/103‑1 (MQ=255)                                                       tcaGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTgg                                                                                                                   >  1:964885/1‑103 (MQ=255)                                                       tcaGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTggag                                                                               >  2:236203/1‑139 (MQ=255)                                                            cGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTc                                                                                               <  1:1444558/118‑1 (MQ=255)                                                            cGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTc                                                                                               >  2:1444558/1‑118 (MQ=255)                                                              tttCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGCACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAac                                                                        <  2:956394/139‑1 (MQ=255)                                                              tttCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAac                                                                        >  2:1551921/1‑139 (MQ=255)                                                                         aaTTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCAc                                                             >  1:1059400/1‑139 (MQ=255)                                                                           ttGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGAt                                                                   <  2:974379/131‑1 (MQ=255)                                                                           ttGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGAt                                                                   >  1:974379/1‑131 (MQ=255)                                                                           ttGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCa                                                           <  2:1791126/139‑1 (MQ=255)                                                                                gCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGa                                                                                         <  1:915130/104‑1 (MQ=255)                                                                                gCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGa                                                                                         >  2:915130/1‑104 (MQ=255)                                                                                  gggCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACg                                                                                                       <  2:151965/88‑1 (MQ=255)                                                                                  gggCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACg                                                                                                       >  1:151965/1‑88 (MQ=255)                                                                                    gCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACg                                                                                                       <  2:1567399/86‑1 (MQ=255)                                                                                    gCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACg                                                                                                       >  1:1567399/1‑86 (MQ=255)                                                                                     cTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGAt                                                                   <  1:1539082/121‑1 (MQ=255)                                                                                     cTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGAt                                                                   >  2:1539082/1‑121 (MQ=255)                                                                                        tgGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTgcg                                              >  1:282669/1‑139 (MQ=255)                                                                                                    tttGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCt                                                                                                                 <  1:1009076/60‑1 (MQ=255)                                                                                                    tttGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCt                                                                                                                 >  2:1009076/1‑60 (MQ=255)                                                                                                     ttGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTgcg                                                                                                              <  1:1320977/62‑1 (MQ=255)                                                                                                     ttGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTgcg                                                                                                              >  2:1320977/1‑62 (MQ=255)                                                                                                     ttGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGaa                                                                                        <  2:640877/84‑1 (MQ=255)                                                                                                     ttGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGaa                                                                                        >  1:640877/1‑84 (MQ=255)                                                                                                           cAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATa                           <  2:1059400/139‑1 (MQ=255)                                                                                                            aaaTGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTg                                                                                  <  2:816096/83‑1 (MQ=255)                                                                                                            aaaTGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTg                                                                                  >  1:816096/1‑83 (MQ=255)                                                                                                            aaaTGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATAc                          >  1:1710570/1‑139 (MQ=255)                                                                                                            aaaTGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTC‑GTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTgcgg                                             >  2:21384/1‑119 (MQ=255)                                                                                                            aaaTGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTC‑GTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTgcgg                                             <  1:21384/119‑1 (MQ=255)                                                                                                            aaaTGCGTGAACGGTTGTTTGATCTGGTGGCACGTTATCGATTTATCTGGCTGCGGCGAACGGTg                                                                                                    <  2:1682591/65‑1 (MQ=255)                                                                                                            aaaTGCGTGAACGGTTGTTTGATCTGGTGGCACGTTATCGATTTATCTGGCTGCGGCGAACGGTg                                                                                                    >  1:1682591/1‑65 (MQ=255)                                                                                                              aTGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACcg                        >  2:179713/1‑139 (MQ=255)                                                                                                                   tGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGAt                                                                   <  2:594362/91‑1 (MQ=255)                                                                                                                   tGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGAt                                                                   >  1:594362/1‑91 (MQ=255)                                                                                                                   tGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACcgcgcgc                   >  2:1720008/1‑139 (MQ=255)                                                                                                                     aaCGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGAt                                                                   >  2:506409/1‑89 (MQ=255)                                                                                                                     aaCGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGAt                                                                   <  1:506409/89‑1 (MQ=255)                                                                                                                            gttTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATg                                                                                     <  2:847653/64‑1 (MQ=255)                                                                                                                            gttTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATg                                                                                     >  1:847653/1‑64 (MQ=255)                                                                                                                            gttTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCGCGCGCGCCAGTGAg          >  2:954292/1‑139 (MQ=255)                                                                                                                               tGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGGTCAACACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCGCGCGCGCCAGTGAGTTa       <  1:1551921/139‑1 (MQ=255)                                                                                                                                  tCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCGCGCGCGCCAGTGAGTTAATg    >  2:380725/1‑139 (MQ=255)                                                                                                                                  tCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCGCGCGCGCCAGTGAGTTAATg    >  2:715543/1‑139 (MQ=255)                                                                                                                                  tCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCGCGCGCGCCAGTGAGTTAATg    >  2:1243963/1‑139 (MQ=255)                                                                                                                                    tggtggCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCGCGCGCGCCAGTGAGTTAATgcg  <  2:619913/139‑1 (MQ=255)                                                                                                                                       |                                                                                                                                        GCTTGAGGCCTGTGACGCCAGCGAGAAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGCGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCGCGCGCGCCAGTGAGTTAATGCG  >  NC_000913/2796012‑2796281

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑