Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 3,935,336 T→C 7.5% E26G (GAA→GGA)  PP_3467 ← sigma‑54 dependent transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029473,935,3360TC 7.5% 148.3 / 2.4 53E26G (GAA→GGA) PP_3467sigma‑54 dependent transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base T (24/25);  new base C (2/2);  total (26/27)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01

GCTCCAGCAGCAGGCGCAGGTCATGGCCCTGTTCCAGGCCCAGGCCGACCTGTTCGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTTATAAGTTGTCGCGCCATTTTCTACTCCGGCTGTGCCCCGCAATGTGACGGGGTACGGGCTTGGGAATTTTCCGCA  >  NC_002947/3935193‑3935470
                                                                                                                                                |                                                                                                                                      
gcTCCAGCAGCAGGCGCAGGTCATGGCCCTGTTCCAGGCCCAGGCCGACCTGTTCGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGcag                                                                                                                                   >  3:223117/1‑147 (MQ=255)
gcTCCAGCAGCAGGCGCAGGTCATGGCCCTGTTCCAGGCCCAGGCCGACCTGTTCGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCCGAAGGACGCCATCGCTg                                                                                                                                   >  6:259502/1‑149 (MQ=255)
    cagcagcagGCGCAGGTCATGGCCCTGTTCCAGGCCCAGGCCGACCTGTTCGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGcc                                                                                                                                <  7:109960/148‑1 (MQ=255)
    cagcagcagGCGCAGGTCATGGCCCTGTTCCAGGCCCAGGCCGACCTGTTCGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGc                                                                                                                                 >  7:15634/1‑147 (MQ=255)
          cagGCGCCGGGCATGGCCCTGTGCCAGGCCCAGGCCGACCTGTTCGCCCTGCA‑GGGAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTGCGCCTTCGCTGGCCAGCTGCa                                                                                                                         <  5:259502/149‑1 (MQ=255)
                cAGGTCATGGCCCTGTTCCAGGCCCAGGCCGACCTGTTCGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCggg                                                                                                                   <  4:223117/149‑1 (MQ=255)
                                     gcccaggccGACCTGTTCGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCg                                                                                              >  5:300759/1‑149 (MQ=255)
                                       ccaggccGACCTGTTCGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTGGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCggg                                                                                            <  8:27192/149‑1 (MQ=255)
                                       ccaggccGACCTGTTCGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCggg                                                                                            >  2:111143/1‑149 (MQ=255)
                                           gccGACCTGTTCGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCt                                                                                                                                    <  8:24829/105‑1 (MQ=255)
                                           gccGACCTGTTCGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCt                                                                                                                                    >  7:24829/1‑105 (MQ=255)
                                            ccGACCTGTTCGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCggg                                                                                       >  4:88916/1‑147 (MQ=255)
                                             cGACCTGTTCGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATTCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTgg                                                                                      <  7:71737/149‑1 (MQ=255)
                                             cGACCTGTTCGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTgg                                                                                      <  6:300759/149‑1 (MQ=255)
                                             cGACCTGTTCGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTgg                                                                                      <  4:106157/149‑1 (MQ=255)
                                               aCCTGTTCGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGc                                                                                    >  5:79674/1‑149 (MQ=255)
                                                ccTATTCGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCg                                                                                   >  2:8252/1‑149 (MQ=255)
                                                    ttCGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGttt                                                                                <  1:143461/148‑1 (MQ=255)
                                                    ttCGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGttt                                                                                <  1:8252/148‑1 (MQ=255)
                                                      cGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTCCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGtt                                                                                 <  3:80695/145‑1 (MQ=255)
                                                      cGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTCCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGtt                                                                                 <  3:75960/145‑1 (MQ=255)
                                                      cGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTCCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGtt                                                                                 >  4:80695/1‑145 (MQ=255)
                                                      cGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTCCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGtt                                                                                 >  4:75960/1‑145 (MQ=255)
                                                       gCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCCGCTTCAGGCGGGCCGCGCGGGATTCGGGCAGCGGGTCGTGGGCGTTTGTta                                                                            >  3:71662/1‑149 (MQ=255)
                                                        cccTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGTTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTtat                                                                           <  5:347455/149‑1 (MQ=255)
                                                         ccTGCAGGGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTta                                                                            >  6:158525/1‑148 (MQ=255)
                                                          cTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTTATaa                                                                         <  5:70940/149‑1 (MQ=255)
                                                          cTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTACCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTTATaa                                                                         <  1:111143/149‑1 (MQ=255)
                                                            gca‑ggcagTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGc                                                                                                                                 >  7:174888/1‑91 (MQ=255)
                                                            gca‑ggcagTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGc                                                                                                                                 <  8:174888/91‑1 (MQ=255)
                                                             cagggcagTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTTATaa                                                                         <  5:158525/144‑1 (MQ=255)
                                                             ca‑ggcagTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTTATAAg                                                                        <  3:88916/147‑1 (MQ=255)
                                                             ca‑ggcagTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTTATAAGtt                                                                      <  6:79674/149‑1 (MQ=255)
                                                             ca‑ggcagTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGAGTTTGTTATAAGtt                                                                      >  6:189221/1‑149 (MQ=255)
                                                                   agTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTTATAAGTTGTcgc                                                                 >  6:199553/1‑149 (MQ=255)
                                                                      ccAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTTATAAGTTGTCgcgc                                                               >  5:146812/1‑148 (MQ=255)
                                                                            cGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCATCAGGCGGGCCTCGCGGGATTCGTGAAGCGGGTCGTGGGGGTGTGTTATAAGTTATCGCGCCATTTTc                                                        >  4:186308/1‑149 (MQ=255)
                                                                                   cAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCggg                                                                                            >  2:24954/1‑106 (MQ=255)
                                                                                   cAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCggg                                                                                            <  1:24954/106‑1 (MQ=255)
                                                                                           ggcgCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTTATAAGTTGTCGCGCCATTTTCTACTCCGGCTGTGcc                                         <  6:146812/149‑1 (MQ=255)
                                                                                             cgcCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTg                                                                               >  4:145477/1‑109 (MQ=255)
                                                                                                   gaggCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTTATAAGTTGTCGCGCCATTTTCTACTCCGGCTGTGCCCCGCAAtg                                 >  3:205290/1‑149 (MQ=255)
                                                                                                        gTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTTATAAGTTGTCGCGCCATTTTCTACTCCGGCTGTGCCCCGCAATGTGACg                            <  5:199553/149‑1 (MQ=255)
                                                                                                           gATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTTATAAGTTGTCGCGCCATTTTCTACTCCGGCTGTGCCCCGCAATGTGACgggg                         >  3:184624/1‑149 (MQ=255)
                                                                                                             tctcGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGAATCGTGCAGCGGGTGGTGGGGGGTTTTTATAATTTGTAGCGCCAATTAAATATCCGGAAGTGCCCCGCAATGTGACgggggt                       >  6:242151/1‑147 (MQ=255)
                                                                                                               tcgtcgCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTTATAAGTTGTCGCGCCATTTTCTACTCCGGCTGTGCCCCGCAATGTGACGGGGTACg                     >  6:340289/1‑149 (MQ=255)
                                                                                                                    gcgcAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTTATAAGTTGTCGCGCCATTTTCTACTCCGGCTGTGCCCCGCAATGTGACGGGGTACGGGCtt                <  5:189221/149‑1 (MQ=255)
                                                                                                                    gcgcAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTTATAAGTTGTCGCGCCATTTTCTACTCCGGCTGTGCCCCGCAATGTGACGGGGTACGGGCtt                >  8:85494/1‑149 (MQ=255)
                                                                                                                         gcaTCCCTAGCGGTAGTTCTCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGGGTTTGTTATAAGTTGTCGCGCCATTTTCTACTCCGGCTGTGCCCCGCAATGTGACGGGGTACGGGCTTGGGaa           <  3:186308/149‑1 (MQ=255)
                                                                                                                         gcaTCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTTATAAGTTGTCGCGCCATTTTCTACTCCGGCTGTGCCCCGCAATGTGACGGGGTACGGGCTTGGGaa           <  4:205290/149‑1 (MQ=255)
                                                                                                                              ccTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTTATAAGTTGTCGCGCCATTTTCTACTCCGGCTGTGCCCCGCAATGTGACGGGGTACGGGCTTggg             >  7:200897/1‑142 (MQ=255)
                                                                                                                              ccTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTTATAAGTTGTCGCGCCATTTTCTACTCCGGCTGTGCCCCGCAATGTGACGGGGTACGGGCTTggg             <  8:200897/142‑1 (MQ=255)
                                                                                                                                  gCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTTATAAGTTGTCGCGCCATTTTCTACTCCGGCTGTGCCCCGCAATGTGACGGGGTACGGGCTTGGGAATTTTCCGCa  <  7:85494/149‑1 (MQ=255)
                                                                                                                                                |                                                                                                                                      
GCTCCAGCAGCAGGCGCAGGTCATGGCCCTGTTCCAGGCCCAGGCCGACCTGTTCGCCCTGCA‑GGCAGTCCAGGCCGTGGCCCAGGCTGCGGCGCCAGGAGGCGTCGATCTCGTCGCGCAGCATCCCTAGCGGTAGTTCGCCTTCGCTGGCCAGCTTCAGGCGGGCCTCGCGGGATTCGTGCAGCGGGTCGTGGGCGTTTGTTATAAGTTGTCGCGCCATTTTCTACTCCGGCTGTGCCCCGCAATGTGACGGGGTACGGGCTTGGGAATTTTCCGCA  >  NC_002947/3935193‑3935470

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: ‑