Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,273,109 A→T 13.7% intergenic (+31/+260) PP_2003 → / ← PP_2004 hypothetical protein/AraC family transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,273,1090AT13.7% 129.7 / 10.0 50intergenic (+31/+260)PP_2003/PP_2004hypothetical protein/AraC family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base A (22/21);  new base T (5/2);  total (27/23)
Fisher's exact test for biased strand distribution p-value = 4.30e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GGTGGATGACAGCCAGGGTTCGCAGCCTGTGGCCCCGCCGGCCGAAGCTGCACCCATTCAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCTTGTCATCATCCCTTCATCCCACCTGCTTAGGCTGAAGGCGATACCTACAAAG  >  NC_002947/2272970‑2273257
                                                                                                                                           |                                                                                                                                                    
ggtggATGACAGCCAGGGTTCGCAGCCTGTGGCCCCGCCGGCCGAAGCTGCACCCATTCAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGaaa                                                                                                                                            <  1:974875/150‑1 (MQ=255)
 gtggATGACAGCCAGGGTTCGCAGCCTGTGGCCCCGCCGGCCGAAGCTGCACCCATTCAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGGCCCTTTCGCGGGCTGCCGGCGAAAg                                                                                                                                           <  1:442468/150‑1 (MQ=39)
     aTGACAGCCAGGGTTCGCAGCCTGTGGCCCCGCCGGCCGAAGCTGCACCCATTCAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGGCCCTTTCGCGGGCTGCCGGCGAAAgggtc                                                                                                                                       <  1:121067/150‑3 (MQ=39)
     aTGACAGCCAGGGTTCGCAGCCTGTGGCCCCGCCGGCAGAAGCTGAACCCATTCAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGcc                                                                                                                                       <  2:401163/150‑1 (MQ=255)
        aCAGCCAGGGTTCGCAGCCTGTGGCCCCGCCGGCCGAAGCTGCACCCATTCAGGTGCAGCAGGATGGTATGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGt                                                                                                                                    <  1:619891/150‑1 (MQ=255)
         cAGCCAGGGTTCGCAGCCTGTGGCCCCGCCGGCCGAAGCTGCACCCATTCAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGtt                                                                                                                                   <  1:537419/150‑1 (MQ=255)
            ccAGGGTTCGCAGCCTGTGGCCCCGCCGGCCGAAGCTGCACCCATTCAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAg                                                                                                                                <  1:835800/150‑1 (MQ=255)
            ccAGGGTTCGCAGCCTGTGGCCCCGCCGGCCGAAGCTGCACCCATTCAGGGGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAg                                                                                                                                >  1:810643/1‑150 (MQ=255)
             cAGGGTTCGCAGCCTGTGGCCCCGCCGGCCGAAGCTGCACCCATTCAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAgg                                                                                                                               <  1:692978/150‑1 (MQ=255)
             cAGGGTTCGCAGCCTGTGGCCCCGCCGGCCGAAGCTGCACCCATTCAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAgg                                                                                                                               >  2:207361/1‑150 (MQ=255)
                   tCGCAGCCTGTGGCCCCGCCGGCCGAAGCTGCACCCATTCAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTaa                                                                                                                         <  1:207361/150‑1 (MQ=255)
                     gaaGCCTGTGGCGCCTCCGGCCGAAGCTGCACCCATTCAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAAc                                                                                                                       <  2:810643/148‑1 (MQ=255)
                           tgtgGCCCCGCCGGCCGAAGCTGCACCCATTCAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCGCCCATTCTGACGATGTCAGACGATTTTCTGTCTCCCGCAGCCCGCGAAAGGGCCGGTTCAAGCTGTAAACAGccgc                                                                                                                 >  1:407323/1‑148 (MQ=255)
                                  ccgccgGCCGAAGCTGCACCCATTCAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCAATGTTGTGTCGCCTGAAAAGACCCTTTCGGTCGTTCCCCTCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACa                                                                                                          >  1:519879/1‑150 (MQ=255)
                                       ggccgAAGCTGCACCCATTCAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGc                                                                                                     <  2:381442/150‑1 (MQ=255)
                                          cgAAGCTGCACCCATTCAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGcccc                                                                                                  >  1:818957/1‑150 (MQ=255)
                                            ctgCTGCACCCATTCAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCcgc                                                                                                >  1:309970/3‑150 (MQ=255)
                                              gCTGCACCCATTCAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGa                                                                                              >  1:152151/1‑150 (MQ=255)
                                                   aCCCATTCAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACt                                                                                         <  2:583646/150‑1 (MQ=255)
                                                       aTTCAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCt                                                                                     >  1:207269/1‑150 (MQ=255)
                                                          cAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGaa                                                                                  <  2:152151/150‑1 (MQ=255)
                                                            ggTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACATTCTGaaga                                                                                >  1:1065291/1‑148 (MQ=255)
                                                                  gcagGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCt                                                                          >  2:83105/1‑150 (MQ=255)
                                                                          cccAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTAc                                                                  <  1:705412/150‑1 (MQ=255)
                                                                                   ccgAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATaa                                                         >  1:216005/1‑150 (MQ=255)
                                                                                       ggCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCtt                                                     >  1:339605/1‑150 (MQ=255)
                                                                                        gccgccgccCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCt                                                                             <  1:743580/125‑1 (MQ=255)
                                                                                        gccgccgccCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCt                                                                             >  2:743580/1‑125 (MQ=255)
                                                                                         ccgccgccCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCTTGt                                                   <  1:709618/150‑1 (MQ=255)
                                                                                         ccgccgccCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCTTGt                                                   <  2:216005/150‑1 (MQ=255)
                                                                                                ccccTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCTTGTCatcatc                                            >  1:512941/1‑150 (MQ=255)
                                                                                                 ccctccctTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCTTGTCATCATcc                                           <  1:896601/150‑1 (MQ=255)
                                                                                                 ccctccctTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCTTGTCATCATcc                                           >  1:835835/1‑150 (MQ=255)
                                                                                                  cctccctTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCTTGTCATCATccc                                          >  1:623118/1‑150 (MQ=255)
                                                                                                  cctccctTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTAAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTAcc                                                                 <  1:246817/127‑1 (MQ=255)
                                                                                                  cctccctTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTAAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTAcc                                                                 >  2:246817/1‑127 (MQ=255)
                                                                                                            aTGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCTTGTCATCATCCCTTCATCCCAc                                >  1:134957/1‑150 (MQ=255)
                                                                                                                   gCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCTTGTCATCATCCCTTCATCCCACCTGCTTa                         <  1:83105/150‑1 (MQ=255)
                                                                                                                     cTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCTTGTCATCATCCCTTCATCCCACCTGCTTAgg                       >  1:226975/1‑150 (MQ=255)
                                                                                                                      tGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCTTGTCATCATCCCTTCATCCCACCTGCTTAGGc                      >  1:490091/1‑150 (MQ=255)
                                                                                                                          cccacgcTTTCGCCGGCAGCCCGCGGACGGGCCGGGTCAGCCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTGTCTGACCACCTGCTACGTTTACCACTCATAAGCTTGTCATCATCCCGTCATCCCCCCTGCTTAGGCTGaa                  <  2:407323/144‑1 (MQ=255)
                                                                                                                          ccGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCTTGTCATCATCCCTTCATCCCACCTGCTTAGGCTGaa                  <  2:309970/150‑1 (MQ=255)
                                                                                                                            ggcccTTTCGCGGGCTGCCGGCGAAAGGGTCGGTTCAGGCTGTAAACATCCCCTGTGCCAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATACGCTTGTCATCATCCCTTCATACCACCTGCCTAGGCTGAAgg                >  2:250336/3‑150 (MQ=37)
                                                                                                                               ccTTTCGCGGGCTGCCGGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCTTGTCATCATCCCTTCATCCCACCTGCTTAGGCTGAAGGCGa             >  2:843510/1‑150 (MQ=255)
                                                                                                                               ccTTTCGCGGGCTGCCGGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCTTGTCATCATCCCTTCATCCCACCTGCTTAGGCTGAAGGCGa             >  1:122573/1‑150 (MQ=255)
                                                                                                                                cTTTCGCGGGCTGCCGGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCTTGTCATCATCCCTTCATCCCACCTGCTTAGGCTGAAGGCGAt            >  1:930172/1‑150 (MQ=255)
                                                                                                                                cTTTCGCCGGCAGCCCGTGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCTTGTCATCATCCCTTCATCCCACCTGCTTAGGCTGAAGGCGAt            >  1:1057720/1‑150 (MQ=255)
                                                                                                                                cTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCTTGTCATCATCCCTTCATCCCACCTGCTTAGGCTGAAGGCGAt            >  2:362806/1‑150 (MQ=255)
                                                                                                                                 tttCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCTTGTCATCATCCCTTCATCCCACCTGCTTAGGCTGAAGGCGATa           >  1:937052/1‑150 (MQ=255)
                                                                                                                                          cAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCTTGTCATCATCCCTTCATCCCACCTGCTTAGGCTGAAGGCGATACCTACAAAg  <  2:818957/150‑1 (MQ=255)
                                                                                                                                           |                                                                                                                                                    
GGTGGATGACAGCCAGGGTTCGCAGCCTGTGGCCCCGCCGGCCGAAGCTGCACCCATTCAGGTGCAGCAGGATGCCCAGCCGGCCGAGGCCGCCGCCCCCTCCCTTTGATGGGTCGCCTGAACCGACCCTTTCGCCGGCAGCCCGCGAAAGGGCCGGTTCAGGCTGTAAACATCCCCTGTTACAGACGCCCCGCGATAACTTTCTGAACACCTGCTACGTTTACCACTCATAAGCTTGTCATCATCCCTTCATCCCACCTGCTTAGGCTGAAGGCGATACCTACAAAG  >  NC_002947/2272970‑2273257

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑