Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,639,575 C→T 7.5% intergenic (‑165/‑146) 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_0029471,639,5750CT 7.5% 152.1 / 2.1 54intergenic (‑165/‑146)czcR‑III/PP_1439response regulator/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (24/25);  new base T (2/2);  total (26/28)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AAAGGGGACGATTCTTGACCCTGTAGTGACATCAGGGTCAAGCGCCCCAATGTTACGG‑CATGAAAAAAGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCGGTTATTACGAGGC  >  NC_002947/1639429‑1639713
                                                                                                                                                   |                                                                                                                                           
aaaGGGGACGATTCTTGACCCTGTAGTGACATCAGGGTCAAGCGCCCCAATGTTACGG‑CATGAAAAAAGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCgcgc                                                                                                                                           >  5:270084/1‑149 (MQ=255)
     ggACGATTCTTGACCCTGTAGTGACATCAGGGTCAAGCGCCCCAATGTTACGG‑CATGAAAAAAGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTa                                                                                                                                      <  1:122458/149‑1 (MQ=255)
     ggACGATTCTTGACCCTGTAGTGACATCAGGGTCAAGCGCCCCAATGTTACGG‑CATGAAAAAAGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTa                                                                                                                                      <  3:58454/149‑1 (MQ=255)
      gACGATTCTTGACCCTGTAGTGACATCAGGGTCAAGCGCCCCAATGTTACGG‑CATGAAAAAAGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAg                                                                                                                                     <  8:73583/149‑1 (MQ=255)
             cTTGACCCTGTAGTGACATCAGGGTCAAGCGCCCCAATGTTACGG‑CATGAAAAAAGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACgg                                                                                                                               <  5:318241/148‑1 (MQ=255)
                   ccTGTAGTGACATCAGGGTCAAGCGCCCCAATGTTACGG‑CATGAAAAAAGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTAcc                                                                                                                        >  4:293516/1‑149 (MQ=255)
                    cTGTAGTGACATCAGGGTCAAGCGCCCCAATGTTACGG‑CATGAAAAAAGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGGGTAAACCCGTTCCTACAGGCGCGGGTTTActc                                                                                                                       <  3:15294/149‑3 (MQ=37)
                    cTGTAGTGACATCAGGGTCAAGCGCCCCAATGTTACGG‑CATGAAAAAAGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTAccc                                                                                                                       >  6:121930/1‑149 (MQ=255)
                            aCATCAGGGTCAAGCGCCCCAATGTTACGGTCATGAAAAAAGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAACCCCGTTCCTACAGGCGCGGGTTTACTCGCGaa                                                                                                                  >  1:189298/1‑147 (MQ=25)
                            aCATCAGGGTCAAGCGCCCCAATGTTACGG‑CATGAAAAAAGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAagag                                                                                                               >  2:4436/1‑149 (MQ=255)
                              aTCAGGGTCAAGCGCCCCAATGTTACGG‑CATGAAAAAAGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGc                                                                                                             >  4:215350/1‑149 (MQ=255)
                               tCAGGGTCAAGCGCCCCAATGTTACGG‑CATGAAAAAAGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGcc                                                                                                            >  2:36766/1‑149 (MQ=255)
                                             cccAATGTTACGG‑CATGAAAAAAGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCTGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGACCGAACAG‑TCcaca                                                                                              >  5:224142/1‑148 (MQ=255)
                                                 aTGTTACGG‑CATGAAAAAAGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAgg                                                                                         <  1:4436/149‑1 (MQ=255)
                                                    ttACGG‑CATGAAAAAAGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCca                                                                                      <  1:36766/149‑1 (MQ=255)
                                                    ttACGG‑CATGAAAAAAGGCCTGCGGTCCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGcc                                                                                       <  3:37696/148‑1 (MQ=255)
                                                           cATGAAAAAAGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTg                                                                                 >  2:237105/1‑148 (MQ=255)
                                                              gAAAAAAGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGTTCCTACAGGCGCGGGTTTACTCGCGAagag                                                                                                               >  7:1047/1‑116 (MQ=21)
                                                              gAAAAAAGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGTTCCTACAGGCGCGGGTTTACTCGCGAagag                                                                                                               <  8:1047/116‑1 (MQ=21)
                                                               aaaaaaGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGa                                                                            <  8:7377/149‑1 (MQ=255)
                                                                aaaaaGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGAc                                                                           >  3:69294/1‑149 (MQ=255)
                                                                    aGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGc                                                                                <  5:249010/140‑1 (MQ=255)
                                                                    aGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGc                                                                                >  6:249010/1‑140 (MQ=255)
                                                                        ttGCGGTGAATATAACGTTTTTTTATTTCTGTTGTTATGTGGCTGTCTTTTCGGGCCTCTGCGCTATTAACCCCGCGCCTGTAGCAAGGGTTTAACCCGCTAATTGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAAt                                                                     <  4:13717/146‑1 (MQ=255)
                                                                        cTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAAt                                                                     >  3:13717/1‑147 (MQ=255)
                                                                             gTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGcc                                                              >  7:248481/1‑149 (MQ=255)
                                                                                             tGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAGCTCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTa                                                <  1:237105/148‑1 (MQ=255)
                                                                                                     tgctgTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTc                                      >  3:88068/1‑149 (MQ=255)
                                                                                                       ctgTTATCTGGCTGTCTGTTCGGGCCTCTTCGAGACTAAAACCGCGCCTGTAGGAACGGGTTTACCCGCGAAGACGCCCGAAAAG‑TCCAAACAAGGCCACATTGCACGACAGAAATCCCCGCCTCACCATTCCGTTACCCAGCCCTCga                                    >  2:111286/1‑148 (MQ=255)
                                                                                                        tgTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGc                                    >  6:237604/1‑148 (MQ=255)
                                                                                                        tgTTATCTGGCTGTATGGTCGGGCCTCTTCGCGTGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCt                                   <  6:224142/149‑1 (MQ=255)
                                                                                                           tATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCTAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAg                                 <  3:215350/148‑1 (MQ=255)
                                                                                                            cgatgtctgtctgtTCGGGCCTCTTCGCCATTAAACCCGCGCCTGTAGTAAGGGTTTTACCCGCGAAGTGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGa                               <  7:254815/143‑1 (MQ=255)
                                                                                                            aTCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGcc                                                    <  5:323314/128‑1 (MQ=255)
                                                                                                                ggCTGTCTGTTCGGGCCTCTTAGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCCCATTGCAGGACTGTAATCCCCGCCTCCCCGTGCCGTTAGCCAGCCCTAGCTAGGAGGGc                           >  6:29091/1‑149 (MQ=255)
                                                                                                                 gCTGTCTGTTGTGTCCTCTTCGGTAGTAAACCCGGGCCTGTAGCACCGGGTTTACCCGCGATGTGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCATCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGcc                          <  4:69294/149‑1 (MQ=255)
                                                                                                                 gCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGcc                          <  5:237604/149‑1 (MQ=255)
                                                                                                                 gCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGcc                          >  8:280931/1‑149 (MQ=255)
                                                                                                                 gCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCACTAGGATGGcc                          <  3:293516/149‑1 (MQ=255)
                                                                                                                    gtctgtTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGACCgtg                       >  3:268994/1‑149 (MQ=255)
                                                                                                                     tctgtTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCgtgt                      <  6:270084/149‑1 (MQ=255)
                                                                                                                        gtTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAaga                                                                                                                >  5:304041/1‑57 (MQ=255)
                                                                                                                        gtTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAaga                                                                                                                <  6:304041/57‑1 (MQ=255)
                                                                                                                        gtTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTg                   >  8:83578/1‑149 (MQ=255)
                                                                                                                         ttCGGGCCTCTTCGCGCGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCGACATTGCGGGACTGTAATCCCCGCCTCCCCTTGc                                                     >  5:5845/1‑114 (MQ=37)
                                                                                                                         ttCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTc                     <  8:248481/146‑1 (MQ=255)
                                                                                                                         ttCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCAGTGTCTGa                  >  8:206691/1‑149 (MQ=255)
                                                                                                                           cGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGAt                 <  1:125803/148‑1 (MQ=255)
                                                                                                                              gCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCGGt             >  5:34695/1‑149 (MQ=255)
                                                                                                                                     cgcgAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCGGttatt         <  5:121930/146‑1 (MQ=255)
                                                                                                                                       cgATTAAACCGGCGCCTTTAGTACCGGGTTTACCCGCGATTAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCGGTTATTACGAg    <  1:111286/149‑1 (MQ=255)
                                                                                                                                       cgAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCGGTTATTACGAg    <  7:83578/149‑1 (MQ=255)
                                                                                                                                          gTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCGGTTATTACGAGGc  >  7:20166/1‑148 (MQ=255)
                                                                                                                                            aaaCCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGcc                          <  4:129172/122‑1 (MQ=255)
                                                                                                                                            aaaCCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGAAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGcc                          >  3:129172/1‑122 (MQ=255)
                                                                                                                                                   |                                                                                                                                           
AAAGGGGACGATTCTTGACCCTGTAGTGACATCAGGGTCAAGCGCCCCAATGTTACGG‑CATGAAAAAAGGCCTGCGGTGCAGATAACGGATTTGTAATTCTGCTGTTATCTGGCTGTCTGTTCGGGCCTCTTCGCGAGTAAACCCGCGCCTGTAGGAACGGGTTTACCCGCGAAGAGGCCCGAACAG‑TCCACACAAGGCCACATTGCAGGACTGTAATCCCCGCCTCACCTTGCCGTTAGCCAGCCCTCGCTAGGATGGCCGTGTCTGATCGGTTATTACGAGGC  >  NC_002947/1639429‑1639713

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: ‑