Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,418,816 T→C 11.5% intergenic (+87/‑34) PP_2119 → / → ctpH ABC transporter permease/ATP‑binding protein/methyl‑accepting chemotaxis protein CtpH

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,418,8160TC11.5% 131.3 / 7.6 52intergenic (+87/‑34)PP_2119/ctpHABC transporter permease/ATP‑binding protein/methyl‑accepting chemotaxis protein CtpH
Reads supporting (aligned to +/- strand):  ref base T (26/20);  new base C (3/3);  total (29/23)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.35e-01

GTTGATTGAGGACAGCCCGTTGTATGCGCGGCTGGCAGCGCTGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTGCGTAAATCCCTCAGAGTGCAAATTCTCTCGCTGCTCGGCGGCAGTGTGCTGGCGATG  >  NC_002947/2418669‑2418963
                                                                                                                                                   |                                                                                                                                                   
gTTGATTGAGGACAGCCCGTTGTATGCGCGGCTGGCAGCGCTGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTg                                                                                                                                                    >  6:23003/1‑149 (MQ=255)
    attgaGGACAGCCCGTTGTATGCGCGGCTGGCAGCGCTGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGt                                                                                                                                                 >  1:106971/1‑148 (MQ=255)
               cccGTTGTATGCGCGGCTGGCAGCGCTGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCttt                                                                                                                                     >  4:57760/1‑149 (MQ=255)
               cccGTTGTATGCGCGGCTGGCAGCGCTGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCttt                                                                                                                                     >  7:225523/1‑149 (MQ=255)
               cccGTTGTATGCGCGGCTGGCAGCGCTGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATCACGCAATGGCAGccag                                                                                                                                     <  2:108398/149‑4 (MQ=255)
                ccGTTGTATGCGCGGCTGGCAGCGCTGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCtttt                                                                                                                                    >  6:71657/1‑149 (MQ=255)
                 cGTTGTATGCGCGGCTGGCAGCGCTGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCttttt                                                                                                                                   >  3:285785/1‑149 (MQ=255)
                 cGTTGTATGCGCGGCTGGCAGCGCTGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATCACGCAATGGCAGccag                                                                                                                                     <  3:70355/147‑4 (MQ=255)
                 cGTTGTATGCGCGGCTGGCAGCGCTGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATCACGCAATGGCAGccag                                                                                                                                     >  4:70355/1‑144 (MQ=255)
                  gTTGTATGCGCGGCTGGCAGCGCTGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCtttttt                                                                                                                                  <  7:166145/149‑1 (MQ=255)
                      tATGCGCGGCTGGCAGCGCTGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTg                                                                                                                               <  6:65345/148‑1 (MQ=255)
                         gcgcGGCTGGCAGCGCTGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATCACGCAATGGCAg                                                                                                                                         >  3:6114/1‑135 (MQ=255)
                         gcgcGGCTGGCAGCGCTGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATCACGCAATGGCAg                                                                                                                                         <  4:6114/135‑1 (MQ=255)
                            cgGCTGGCAGCGCTGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGc                                                                                                                         >  6:154461/1‑148 (MQ=255)
                               cTGGCAGCGCTGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGt                                                                                                                     <  4:44020/149‑1 (MQ=255)
                                 ggCAGCGCTGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTg                                                                                                                                                    <  3:274046/116‑1 (MQ=255)
                                 ggCAGCGCTGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTg                                                                                                                                                    >  4:274046/1‑116 (MQ=255)
                                     gcgcTGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAg                                                                                                               <  5:71657/149‑1 (MQ=255)
                                         tGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTg                                                                                                           >  4:190170/1‑149 (MQ=255)
                                         tGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTg                                                                                                           >  8:194538/1‑149 (MQ=255)
                                           cAATTCACCACGTGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTg                                                                                                           <  6:208931/147‑1 (MQ=255)
                                           cAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTa                                                                                                         <  5:23003/149‑1 (MQ=255)
                                                 accacGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCg                                                                                                    <  5:154461/148‑1 (MQ=255)
                                                    acGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCt                                                                                                <  3:57760/149‑1 (MQ=255)
                                                      gggCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAACATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCa                                                                                              <  2:274220/149‑1 (MQ=255)
                                                        gCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGc                                                                                            <  7:194538/149‑1 (MQ=255)
                                                        gCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGc                                                                                            <  7:93053/149‑1 (MQ=255)
                                                            gCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTa                                                                                                         <  6:209909/132‑1 (MQ=255)
                                                            gCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTa                                                                                                         >  5:209909/1‑132 (MQ=255)
                                                                         ttGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGACATTGCGTGATGGCAGCTTTTTTTTGGCATGCCAGTAATGAGGCTGTACAGCGGCCTAAGCCTACTCCCTCTGGTTcc                                                                           >  3:34412/1‑149 (MQ=255)
                                                                            tAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTcc                                                                           >  5:68781/1‑146 (MQ=255)
                                                                                       tagtaATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGTGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGt                                                             >  3:246020/1‑149 (MQ=255)
                                                                                         gtaATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGtt                                                            <  8:225523/148‑1 (MQ=255)
                                                                                                   gagaAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTGCGTAAATccc                                                 >  8:76838/1‑149 (MQ=255)
                                                                                                    agaagaTTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTGCGTAAATCCCt                                                <  4:285785/149‑1 (MQ=255)
                                                                                                                tCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCTGAGACCCTCGATGTTGCGt                                                        >  4:44944/1‑129 (MQ=255)
                                                                                                                tCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCTGAGACCCTCGATGTTGCGt                                                        <  3:44944/129‑1 (MQ=255)
                                                                                                                tCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTGCGTAAATCCCTCAGAGTGCAAAt                                    >  1:118570/1‑149 (MQ=255)
                                                                                                                tCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTGCGTAAATCCCTCAGAGTGCAAAt                                    >  1:240710/1‑149 (MQ=255)
                                                                                                                tCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTGCGTAAATCCCTCAGAGTGCAAAt                                    >  6:141797/1‑149 (MQ=255)
                                                                                                                  aaCTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTGCGTAAATCCCTCAGAGTGCAAATtc                                  >  3:135485/1‑149 (MQ=255)
                                                                                                                     tGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTg                                                           >  6:24824/1‑121 (MQ=255)
                                                                                                                     tGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTg                                                           <  5:24824/121‑1 (MQ=255)
                                                                                                                                tGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTGCGTAAATCCCTCAGAGTGCAAATTCTCTCGCTGCTcggc                    <  3:190170/149‑1 (MQ=255)
                                                                                                                                 gCTCGACCTGGCTGCCAGTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTGCGTAAATCCCTCAGAGTGCAAATTCTCTCGCTGCTcggcg                   >  4:284262/1‑149 (MQ=255)
                                                                                                                                  cTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTGCGTAAATCCCTCAGAGTGCAAATTCTCTCGCTGCTcggcgg                  >  3:96489/1‑149 (MQ=255)
                                                                                                                                   tCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTGCGTAAATCCCTCAGAGTGCAAATTCTCTCGCTGCTcggcgg                  >  3:292707/1‑148 (MQ=255)
                                                                                                                                    aaaaaaagCTGCCATCACGCAATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTGCGTAAATCCCTCAGAGTGCAAATTCTCTCGCTGCTcggcgg                  >  5:280024/8‑147 (MQ=255)
                                                                                                                                      aCCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGATACCCTCGATGTTGCGTAAATCCCTCAGAGTGCAAATTCCCTCGCTGCTCGGCGGCAgt              <  7:76838/149‑1 (MQ=255)
                                                                                                                                                cATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGTGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTGCGTAAATCCCTCAGAGTGCAAATTCTCTCGCTGCTCGGCGGCAGTGTGCTGGCGa    <  4:246020/149‑1 (MQ=255)
                                                                                                                                                 aTTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTGCGTAAATCCCTCAGAGTGCAAATTCTCTCGCTGCTCGGCGGCAGTGTGCTGGCGAt   >  4:197218/1‑149 (MQ=255)
                                                                                                                                                 aTTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTGCGTAAATCCCTCAGAGTGCAAATTCTCTCGCTGCTCGGCGGCAGTGTGCTGGCGAt   >  1:143569/1‑149 (MQ=255)
                                                                                                                                                  ttGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTGCGTAAATCCCTCAGAGTGCAAATTCTCTCGCTGCTCGGCGGCAGTGTGCTGGCGAtg  >  5:129896/1‑149 (MQ=255)
                                                                                                                                                   tGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTGCGTAAATCCCTCAGAGTGCAAATTCTCTCGCTGCTCGGCGGCAGTGTGCTGGc      <  3:70717/144‑1 (MQ=255)
                                                                                                                                                   tGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTGCGTAAATCCCTCAGAGTGCAAATTCTCTCGCTGCTCGGCGGCAGTGTGCTGGc      >  4:70717/1‑144 (MQ=255)
                                                                                                                                                   |                                                                                                                                                   
GTTGATTGAGGACAGCCCGTTGTATGCGCGGCTGGCAGCGCTGCAATTCACCACGGGCTAGCGTGTCGTGGCCTTGTAACATTTCTGTAGTAATTGCCTGAGAAGATTTGCCTCAACTGTTGCGTAAGTGCTCGACCTGGCTGCCATTGCGTGATGGCAGCTTTTTTTTGGCCTGCCAGTAATGAGGCTGTACAGCGGCCTCAGCCTACTCCCTCTGGTTCCGAGACCCTCGATGTTGCGTAAATCCCTCAGAGTGCAAATTCTCTCGCTGCTCGGCGGCAGTGTGCTGGCGATG  >  NC_002947/2418669‑2418963

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑