Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,984,436 T→C 19.7% intergenic (+32/+57) PP_5242 → / ← ycaC‑II GAF domain‑containing sensor histidine kinase/putative hydrolase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,984,4360TC19.7% 85.1 / 16.4 47intergenic (+32/+57)PP_5242/ycaC‑IIGAF domain‑containing sensor histidine kinase/putative hydrolase
Reads supporting (aligned to +/- strand):  ref base T (16/20);  new base C (3/6);  total (21/26)
Fisher's exact test for biased strand distribution p-value = 7.12e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.03e-02

ATGGGCTTGGCGATCTGTAGTTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGT  >  NC_002947/5984288‑5984584
                                                                                                                                                    |                                                                                                                                                    
aTGGGCTTGGCGATCTGTAGTTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCt                                                                                                                                                      >  5:289797/1‑149 (MQ=255)
 tGGGCTTGGCGATCTGTAGTTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTc                                                                                                                                                     <  2:84404/149‑1 (MQ=255)
 tGGGCTTGGCGATCTGTAGTTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTc                                                                                                                                                     <  4:235843/149‑1 (MQ=255)
      ttGGCGATCTGTAGTTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGTTGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCCCCTAca                                                                                                                                                >  7:284218/1‑148 (MQ=255)
         gCGATCTGTAGTTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTc                                                                                                                                             <  6:176634/149‑1 (MQ=255)
           gATCTGTAGTTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTAGCGGGTTAAACCGCGCCTACgggggg                                                                                                                                           >  1:336901/1‑145 (MQ=255)
              cTGTAGTTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTAAGGTCGGCTg                                                                                                                                        >  5:300444/1‑149 (MQ=255)
                 tAGTTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTa                                                                                                                                      <  6:289797/148‑1 (MQ=255)
                 tAGTTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAg                                                                                                                                     <  7:209431/149‑1 (MQ=255)
                    ttCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTGCGGTCGGCTGTTgggg                                                                                                                                  >  6:141559/1‑149 (MQ=255)
                      cGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTAGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACTCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGc                                                                                                                                 <  4:247905/148‑1 (MQ=255)
                        gTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGTTGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCggg                                                                                                                              <  8:284218/149‑1 (MQ=37)
                        gTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCggg                                                                                                                              >  8:316342/1‑149 (MQ=255)
                         tGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGt                                                                                                                             >  8:219926/1‑149 (MQ=255)
                             tCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTTAACCCGCGACTACGGTCGGCTGTGGGGGCGGGgtttc                                                                                                                         >  8:101549/1‑147 (MQ=255)
                                  cccACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGAGGCCGGATTCGTGGCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCcgcg                                                                                                                    <  7:333759/149‑1 (MQ=255)
                                   ccACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCcgcg                                                                                                                    >  8:259581/1‑148 (MQ=255)
                                    cACGGCGGGCAGCTGCAGGCTCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGGAAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCGGGTTTACCCGCGaa                                                                                                                  <  7:73408/149‑1 (MQ=25)
                                         cggGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCGGGTTTACCCGCGAAGAGGc                                                                                                             <  7:98813/149‑1 (MQ=25)
                                           ggCAGCTGCAGGCGCTGGTGTCGCCGTTGGGTGGATGCCGGATGCGTGTCAGTCTGCCTTTGAATCACGCATCGCCTGTGCCGGCCTCTTCGCGGGTAACCCCGCTCCTACGGGCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCa                                                                                                           <  5:141559/149‑1 (MQ=38)
                                                  gCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGCAGGAGCGGGTTTACCCGCGaa                                                                                                                  <  1:170181/135‑1 (MQ=25)
                                                        gcTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTACTGGCCTCTTCGCTGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCgg                                                                                                                               <  1:337719/116‑1 (MQ=21)
                                                             tgtCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAgc                                                                                         <  7:101549/149‑1 (MQ=255)
                                                                 gCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCAAAGCCTGTGACGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCAGTAgg                                                                                                                                    >  5:367293/1‑102 (MQ=255)
                                                                   aGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTAGCGGGTAAAACCGCTCCTACGGTCGGCGGTTGGGGCGGGTTTAACCGCGAAGAGGCCAGTACAGGTTTAAATAAGCGCGAgg                                                                                   >  3:20492/1‑149 (MQ=255)
                                                                                  ggATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAgg                                                                                                              >  4:60078/1‑107 (MQ=255)
                                                                                  ggATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAgg                                                                                                              <  3:60078/107‑1 (MQ=255)
                                                                                         tgtCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGc                                                                                                                                 <  1:324812/81‑1 (MQ=17)
                                                                                         tgtCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGc                                                                                                                                 >  2:324812/1‑81 (MQ=17)
                                                                                          gtCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTtcat                                                             >  4:273111/1‑148 (MQ=255)
                                                                                          gtCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACACGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTtgat                                                             >  5:277667/1‑148 (MQ=255)
                                                                                           tCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTtcatca                                                           <  7:316342/149‑1 (MQ=255)
                                                                                              gTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCGACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTGATCAGGt                                                        >  4:78568/1‑149 (MQ=255)
                                                                                                   ccTTTGAATCCCGCATAGCCTGGGCCGGCGTCTTCGCGGGTAACCCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCgg                                                   <  6:300444/149‑1 (MQ=255)
                                                                                                   ccTTTGAATCACGCATCGCCGGTGCCGGCCTCTTCGCGGGTAACCCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCgg                                                   <  6:353521/149‑1 (MQ=255)
                                                                                                   ccTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTa                                                                                                                                      >  6:307908/1‑66 (MQ=255)
                                                                                                   ccTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTa                                                                                                                                      <  5:307908/66‑1 (MQ=255)
                                                                                                   ccTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTAAGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACAAAAGCGCGAGGCCAGCGCGGCGTAGCTGTTCATGAGGGTTCgg                                                   >  8:152665/1‑149 (MQ=37)
                                                                                                      ttGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTtc                                                               >  5:89058/1‑134 (MQ=255)
                                                                                                      ttGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGGCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTtc                                                               <  6:89058/134‑1 (MQ=255)
                                                                                                       tGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAg                                                <  7:259581/148‑1 (MQ=255)
                                                                                                          aTCACGCATAGCCTGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTgg                                            <  4:115304/149‑1 (MQ=255)
                                                                                                              cGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGAt                                        >  5:337289/1‑149 (MQ=255)
                                                                                                                                   ttCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTa                     <  6:337289/147‑1 (MQ=255)
                                                                                                                                      gcgGGAAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAg                <  4:20492/149‑1 (MQ=255)
                                                                                                                                          gTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCt            >  4:343296/1‑149 (MQ=255)
                                                                                                                                             aaCCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTc          <  3:273111/148‑1 (MQ=255)
                                                                                                                                              aCCCGCCCCTACAGCCGACCGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGa        >  7:127337/1‑149 (MQ=38)
                                                                                                                                                    tCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTTCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGt  >  8:272964/1‑149 (MQ=255)
                                                                                                                                                    |                                                                                                                                                    
ATGGGCTTGGCGATCTGTAGTTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGT  >  NC_002947/5984288‑5984584

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑