Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,984,436 T→C 10.0% 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_0029475,984,4360TC10.0% 100.7 / 2.7 40intergenic (+32/+57)PP_5242/ycaC‑IIGAF domain‑containing sensor histidine kinase/putative hydrolase
Reads supporting (aligned to +/- strand):  ref base T (18/18);  new base C (2/2);  total (20/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.49e-01

CTTGGCGATCTGTAGTTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATG  >  NC_002947/5984293‑5984580
                                                                                                                                               |                                                                                                                                                
cTTGGCGATCTGTAGTTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTAc                                                                                                                                             >  5:16979/1‑149 (MQ=255)
                  ggTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCgg                                                                                                                           <  6:16979/149‑1 (MQ=255)
                      gCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAATCCCGCTACTACGGGCGGCTGTAGGGGCGGGtt                                                                                                                        >  3:201325/1‑148 (MQ=255)
                        tCAGGCCCACGGTGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTAGCGGGTAAACCCGCTCCTACGGTCGGCGGTAGGGGCGGGGTTAc                                                                                                                     >  3:159229/1‑149 (MQ=255)
                        tCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCt                                                                                                                                     >  6:241766/1‑133 (MQ=255)
                        tCAGGCCCACGGCCGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCt                                                                                                                                     <  5:241766/133‑1 (MQ=255)
                          aGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTAcc                                                                                                                    <  1:88918/148‑1 (MQ=255)
                              ccACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCcgcg                                                                                                                >  5:88928/1‑148 (MQ=255)
                              ccACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCCCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCgg                                                                                                                           >  4:264177/1‑137 (MQ=37)
                              ccACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCCCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCgg                                                                                                                           <  3:264177/137‑1 (MQ=37)
                                           cTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTACTGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCgg                                                                                                                           >  1:122669/1‑124 (MQ=21)
                                           cTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTACTGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCgg                                                                                                                           <  2:122669/124‑1 (MQ=21)
                                               aGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGtt                                                                                              >  5:276897/1‑149 (MQ=255)
                                                 gcgcTGTTGTCGCAGTTGGGTGGATGCCGTATTCGTGTCAGTCTGCTTTTGAATCACGCATTGCCTGTGCCGGCGTCTTCGCGGGTAAACCCGGTCCTACGGTGGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTa                                                                                            <  6:88928/149‑1 (MQ=37)
                                                    cTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGGCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACAt                                                                                         <  5:238815/149‑1 (MQ=255)
                                                     tggttgcGCTGTTGGGTGTAGGCCGGTTTCGTGTCAGTCTGCCTTTTAATCACCCATAGCGTGTGCCGGCCTCTTGGCGGGTAAACCCGCTCCTAGGGGCGGCTGTAGGGGCGGTTTTACCCGCGAAGAGGc                                                                                                         <  6:106009/126‑1 (MQ=255)
                                                     tGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGc                                                                                                         >  5:106009/1‑132 (MQ=255)
                                                     tGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACAt                                                                                         >  6:261200/1‑148 (MQ=255)
                                                                             ggATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGc                                                                >  3:219164/1‑149 (MQ=255)
                                                                                   gtgtCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTtca                                                          >  1:170687/1‑149 (MQ=255)
                                                                                   gggtgaGTCTGCATTTGATTCACGCATTGCGTGTGCCGGCCTGTTCGCGGGAAAACCGGCTCCTCCGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGTGCGAGGCCAGCGCTGCGTAGCTGttga                                                          <  4:201325/144‑3 (MQ=37)
                                                                                         gTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCATCGCGAGGGCAGCGCTGCGTAGCTGTTGATCAGGt                                                    >  3:35676/1‑149 (MQ=255)
                                                                                              ccTTTGAATCACGAATTGAATTTTCCGGCCGTTTCGCTGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCgg                                               <  4:35676/149‑1 (MQ=38)
                                                                                               cTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACGCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGt                                                             >  1:56284/1‑134 (MQ=255)
                                                                                               cTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGt                                                             <  2:56284/134‑1 (MQ=255)
                                                                                               cTTTGAATCACGCATAGCCTGTGCCGGCCTCATCGCCGGTAAAACCCCTCCTACGGTCGGCAGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCCGCGCTGCCTAGCTGTTCAACACGTTGCgg                                               >  7:161692/1‑148 (MQ=38)
                                                                                                     aTCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTgg                                        <  2:57387/149‑1 (MQ=255)
                                                                                                      tCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCg                                                >  1:160176/1‑140 (MQ=255)
                                                                                                      tCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCg                                                <  2:160176/140‑1 (MQ=255)
                                                                                                       cACGCATAGCCTGTGCCGGCCTCTTCGCTGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTtcatca                                                       <  7:139721/132‑1 (MQ=255)
                                                                                                       cACGCATAGCCTGTGCCGGCCTCTTCGCCGGTTAAACCGCTACAAAGGTGGGCGGTAGGGGCGGGTTTAACCCCGAAGAGGCCACTAAAGGTTTAAATAAGCGCGAGGCCAGCGCAGCGTAACTGTtaataa                                                       >  8:139721/1‑130 (MQ=255)
                                                                                                                ccTGTGCCGGCCTCTTGGGGGGTAAACCCGCTCCTACGGTGGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTg                              <  8:161692/148‑1 (MQ=255)
                                                                                                                ccTGTGCCGGCCGCTTCGCGGTTAACCCCGCTCCTCCGGTCGGCTGTTGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGCAGCTGTTCATCAGGTTGCGGTAGTTg                                         <  1:144321/137‑1 (MQ=38)
                                                                                                                      ccGGCCTCTGCGCGGGCAACCCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTAACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGAcagc                       <  3:162086/149‑1 (MQ=255)
                                                                                                                         gCCTCTTCGCGGGTAAACCCGCTCCGACGGGGGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCCGTACAGGTTTTCATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATAAGGTTGCGGTAGTTGGGGGAACGCTGCGACAGCAgg                    >  2:54572/1‑149 (MQ=38)
                                                                                                                              ttCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTAcc               >  4:47097/1‑149 (MQ=255)
                                                                                                                              ttCGCGGGAAACCCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTa                 <  1:105890/147‑1 (MQ=255)
                                                                                                                                 gcgGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCa             <  5:261200/148‑1 (MQ=255)
                                                                                                                                  cgGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGc           <  6:276897/149‑1 (MQ=255)
                                                                                                                                           ccGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATg  >  6:121582/1‑149 (MQ=255)
                                                                                                                                               |                                                                                                                                                
CTTGGCGATCTGTAGTTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATG  >  NC_002947/5984293‑5984580

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: ‑