Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,639,581 T→C 10.0% intergenic (‑171/‑140) czcR‑III ← / → PP_1439 response regulator/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,639,5810TC10.0% 133.3 / 5.6 50intergenic (‑171/‑140)czcR‑III/PP_1439response regulator/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (23/22);  new base C (2/3);  total (25/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.72e-01

GACGATTCTTGACCCTGTAGTGACATCAGGGTCAAGCGCCCCAATGTTACGGCATG‑AAAAAAGGCCTGCGGTGCAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCGGTTATTACGAGGCAAACACGATGAACCT  >  NC_002947/1639435‑1639728
                                                                                                                                                    |                                                                                                                                                   
gACGATTCTTGACCCTGTAGTGACATCAGGGTCAAGCGCCCCAATGTTACGGCATG‑AAAAAAGGCCTGCGGTGCAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAg                                                                                                                                                   >  7:240175/1‑149 (MQ=255)
gACGATTCTTGACCCTGTAGTGACATCAGGGTCAAGCGCCCCAATGTTACGGCATG‑AAAAAAGGCCTGCGGTGCAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAg                                                                                                                                                   >  2:254418/1‑149 (MQ=255)
       cTTGACCCTGATGTCACTACAGGGTCAAGCGCCCCAATGTTACGGCATG‑AAAAAAGGCCTGCGGTGCAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACggg                                                                                                                                            >  5:198697/1‑149 (MQ=255)
        ttGACCCTGTAGTGACATCAGGGTCAAGCGCCCCAATGTTACGGCATG‑AAAAAAGGCCTGCGGTGCAGAT‑A‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGtt                                                                                                                                          >  7:106482/1‑149 (MQ=255)
          gACCCTGTAGTGACATCAGGGTCAAGCGCCCCAATGTTACGGCATGAAAAAAAGGCCTGCGGTGCAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGt                                                                                                                                           <  6:55884/148‑1 (MQ=255)
          gACCCTGTAGTGACATCAGGGTCAAGCGCCCCAATGTTACGGCATG‑AAAAAAGGCCTGCGGTGCAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTACGCGAGTAAACCCGCGCCTGTAGGAACggg                                                                                                                                            <  1:23019/146‑1 (MQ=255)
              cTGTAGTGACATCAGGGTCAAGCGCCCCAATGTTACGGCATG‑AAAAAAGGCCTGCGGTGCAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGGGTAAACCCGTTCCTACAGGCGCGGGTTTActc                                                                                                                                     <  8:96432/149‑3 (MQ=37)
              cTGTAGTGACATCAGGGTCAAGCGCCCCAATGTTACGGCATG‑AAAAAAGGCCTGCGGTGCAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTAccc                                                                                                                                     >  2:75646/1‑149 (MQ=255)
                 tAGTGACATCAGGGTCAAGCGCCCCAATGTTACGGCATG‑AAAAAAGGCCTGCGGTGCAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGGGTAAACCCGTTCCTACAGGCGCGGGTTTACTcg                                                                                                                                    <  5:222347/147‑1 (MQ=37)
                 tAGTGACATCAGGGTCAAGCGCCCCAATGTTACGGCATG‑AAAAAAGGCCTGCGGTGCAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCGGTAGGAACGGGTTTACCcgc                                                                                                                                   >  4:204315/1‑148 (MQ=255)
                      aCATCAGGGTCAAGCGCCCCAATGTTACGGCATG‑AAAAAAGGCCTGCGGTGCAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAagag                                                                                                                             <  1:254418/149‑1 (MQ=255)
                         tCAGGGTCAAGCGCCCCAATGTTACGGCATG‑AAAAAAGGCCTGCGGTGCAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGTTCCTACAGGCGCGGGTTTAc                                                                                                                                       >  7:239048/1‑136 (MQ=37)
                         tCAGGGTCAAGCGCCCCAATGTTACGGCATG‑AAAAAAGGCCTGCGGTGCAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGTTCCTACAGGCGCGGGTTTAc                                                                                                                                       <  8:239048/136‑1 (MQ=37)
                             ggTCACGCGCCCCAATGTTACGTCAGC‑AAAAAAGGCCTGCGGTGCAGATAA‑CGTTTTTGTAATTCTGCTTTTATCTGGCTGTCTGTGCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGaa                                                                                                                      <  8:217576/149‑1 (MQ=255)
                                         cAATGTTACGGCATG‑AAAAACGCCCGGCGGTGCATATAA‑CGGATTTGTAATTCTGCTGTTATCGGGCTGGCTGTGCGGGCCTCTTCGCGAGTAACCCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACaa                                                                                                          <  8:57892/149‑1 (MQ=255)
                                          aaTGTTACGGCATG‑AAAAAAGGCCTGCGGTGCAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGTCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGaa                                                                                                                                <  5:276582/126‑1 (MQ=255)
                                          aaTGTTACGGCATG‑AAAAAAGGCCTGCGGTGCAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGaa                                                                                                                                >  6:276582/1‑126 (MQ=255)
                                           aTGTTACGGCATG‑AAAAAAGGCCTGCGGTGCAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAgg                                                                                                        <  4:62765/149‑1 (MQ=255)
                                                  ggCATG‑AAAAAAGGCCTGCGGTGCAGATAANCGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCAACACAAGGc                                                                                                       >  1:24510/1‑144 (MQ=255)
                                                  ggCATG‑AAAAAAGGCCTGCGGTGCAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGc                                                                                                       <  2:24510/143‑1 (MQ=255)
                                                     aTG‑AAAAAAGGCCTGCGGTGCAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTg                                                                                                >  8:25208/1‑147 (MQ=255)
                                                                      ggTGCAGATAA‑CGGATTTGTAATTCGGGTGTTTTCTGGCTGTCTGTTCGGGCGTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTTCCCGCGAATAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGc                                                                              <  2:222205/149‑1 (MQ=255)
                                                                        tGCAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGc                                                                                               >  8:83525/1‑130 (MQ=255)
                                                                          cAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCa                                                                          <  8:240175/149‑1 (MQ=255)
                                                                           aGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGc                                                                                                                           >  6:140263/1‑99 (MQ=255)
                                                                           aGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGc                                                                                                                           <  5:140263/99‑1 (MQ=255)
                                                                           aGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCAc                                                                         >  7:80271/1‑149 (MQ=255)
                                                                              tAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCtt                                                                      >  3:94202/1‑149 (MQ=255)
                                                                                a‑CGGATTTGTAATGCTGCTGTAATCTGGCTGGCTGTTCGGGCCTCTGCGCGAGTAAACCCGCGCCTGTAGGACCGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGc                                                                    <  3:127047/149‑1 (MQ=255)
                                                                                   ggATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTAGCGAGTTAAACCGCGGCTGTAGGAACGGGTTTACACGCGAAGAGGCCCGAACAGTGCACACAAGGCCACAATGCAGGACAGTTATACCCGCCTAACCTTGCCg                                                                  >  6:26208/1‑149 (MQ=255)
                                                                                                   tgTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCACCGCCTCACCTTCCCGTTAGACAGCCCTCGc                                                   >  4:40207/1‑148 (MQ=255)
                                                                                                        tCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGAt                                             >  6:119273/1‑149 (MQ=255)
                                                                                                                tctgtTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCgtgt                                     <  7:25208/149‑1 (MQ=255)
                                                                                                                actgtTCGGGCCTCTTCGCGGGTAAACCCGTTCCTACAGGCGCGGGTTTACCCGCGAAGAGGCCCGCACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCACGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCgtgt                                     >  8:60964/2‑149 (MQ=21)
                                                                                                                    ttCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGGACGGGGTTACCCGCGAAGAGGCCCGAACAGTCCCCCCAAGGCCCCCTTGCAGGCCTGTAATCCCCGCCTCACCTTGCCGTTAGCCCGCCCTCGCGAGGCTGGCCGTGGCTGa                                 >  3:226205/1‑149 (MQ=37)
                                                                                                                      cGGCCCTCTACGCGAGTAAACCCCCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGAt                                <  3:204315/148‑1 (MQ=255)
                                                                                                                       gggCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCg                              <  4:94202/149‑1 (MQ=255)
                                                                                                                        ggCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCgg                             >  4:98602/1‑149 (MQ=255)
                                                                                                                           ctctTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCgtgt                                     <  3:88949/138‑1 (MQ=255)
                                                                                                                           ctctTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCgtgt                                     >  4:88949/1‑138 (MQ=255)
                                                                                                                             ctTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCGGttat                         >  1:127517/1‑148 (MQ=255)
                                                                                                                                 gcgAGTAAACCCGCGCCTGTAGGAAGGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCGGTTATTACGa                    <  4:226205/149‑1 (MQ=255)
                                                                                                                                  cgAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCGGTTATTACGAg                   <  3:98602/149‑1 (MQ=255)
                                                                                                                                       aaaCCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCGGTTATTACGAGGCaaa              >  4:53089/1‑149 (MQ=255)
                                                                                                                                           ccGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTagcca                                                           >  7:21344/1‑100 (MQ=255)
                                                                                                                                           ccGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTagcca                                                           <  8:21344/100‑1 (MQ=255)
                                                                                                                                           ccGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCGGTTATTACGAGGCAAACACg          <  5:119273/149‑1 (MQ=255)
                                                                                                                                             gcgcCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCGGTTATTACGAGGCAAACACGAt        <  1:75646/149‑1 (MQ=255)
                                                                                                                                               gcCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCGGTTATTACGAGGCAAACACGATGa      <  3:40207/149‑1 (MQ=255)
                                                                                                                                                   gTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCGGTTATTACGAGGCAAACACGATGAACCt  >  4:247093/1‑149 (MQ=255)
                                                                                                                                                    tAGGAACGGTTTTACCCGCTAAGAGGCACTAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCGGTTATTACGAGGCAAACACGATGAAcc   <  7:104966/147‑1 (MQ=255)
                                                                                                                                                    tAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCGGTTATTACGAGGCAAACACGATGAAcc   <  8:106482/147‑1 (MQ=255)
                                                                                                                                                    tAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCGGTTATTACGAGGCAAACACGATGAACCt  <  2:28078/148‑1 (MQ=255)
                                                                                                                                                    |                                                                                                                                                   
GACGATTCTTGACCCTGTAGTGACATCAGGGTCAAGCGCCCCAATGTTACGGCATG‑AAAAAAGGCCTGCGGTGCAGATAA‑CGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCGGTTATTACGAGGCAAACACGATGAACCT  >  NC_002947/1639435‑1639728

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: ‑