Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 4,988,362 G→C 13.1% intergenic (+32/+62) ycgR → / ← PP_4398 flagellar brake protein YcgR/MFS transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029474,988,3620GC13.1% 116.0 / 10.8 46intergenic (+32/+62)ycgR/PP_4398flagellar brake protein YcgR/MFS transporter
Reads supporting (aligned to +/- strand):  ref base G (18/22);  new base C (2/4);  total (20/26)
Fisher's exact test for biased strand distribution p-value = 6.84e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.36e-01

ACCACCTTTGCCGGCGTGCGTTTCCACAACCTGAGCGGGCAGGCGCAGCGCAAGATCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGCTCCTACACCGACTTGCTGACCTCTTCAGGCGCCTGTTGCTGCGCGCCCTTCTCTTCATCCTCGGTGTCTTCAGCCGCCACCGGC  >  NC_002947/4988214‑4988505
                                                                                                                                                     |                                                                                                                                               
accaccTTTGCCGGCGTGCGTTTCCACAACCTGAGCGGGCAGGCGCAGCGCAAGATCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACctg                                                                                                                                                 >  3:118422/1‑149 (MQ=255)
 ccaccTTTGCCGGCGTGCGTTTCCACAACCTGAGCGGGCAGGCGCAGCGCAAGATCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACctgc                                                                                                                                                <  5:184754/149‑1 (MQ=255)
  caccTTTGCCGGCGTGCGTTTCCACAACCTGAGCGGGCAGGCGCAGCGCAAGATCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACctgct                                                                                                                                               <  6:250600/149‑1 (MQ=255)
      tttGCCGGCGTGCGTTTCCACAGAATGAGCGGGCAGGCGCAGCGCAAGATCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAgg                                                                                                                                           >  7:49031/1‑149 (MQ=255)
          ccGGCGTGCGTTTCCACAACCTGAGCGGGCAGGCGCAGCGCAAGATCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGc                                                                                                                                       <  1:27305/149‑1 (MQ=255)
              cgtgcgtTTCCACAACCTGAGCGGGCAGGCGCAGCGCAAGATCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTCAGCAGGTGGCGttt                                                                                                                                   <  8:210219/149‑1 (MQ=255)
               gtgcgtTTCCACAACCTGAGCGGGCAGGCGCAGCGCAAGATCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGtttt                                                                                                                                  >  1:297974/1‑149 (MQ=255)
                tgcgtTTCCACAACCTGAGCGGGCAGGCGCAGCGCAAGATCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTCAGCAGGTGGCGTTTTc                                                                                                                                 <  6:88252/149‑1 (MQ=255)
                tgcgtTTCCACAACCTGAGCGGGCAGGCGCAGCGCAAGATCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTCAGCAGGTGGCGTTTTc                                                                                                                                 <  4:282883/149‑1 (MQ=255)
                  cgtTTCCACAACCTGAGCGGGCAGGCGCAGCGCAAGATCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCAt                                                                                                                               <  4:233651/149‑1 (MQ=255)
                    tttCCACAACCTGAGCGGGCAGGCGCAGCGCAAGATCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCAttt                                                                                                                             <  1:235996/149‑1 (MQ=255)
                    tttCCACAACCTGAGCGGGCAGGCGCAGCGCAAGATCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCAttt                                                                                                                             <  2:44673/149‑1 (MQ=255)
                     ttCCACAACCTGAGCGGGCAGGCGCAGCGCAAGATCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTtg                                                                                                                            >  3:142419/1‑149 (MQ=255)
                       ccACAACCTGAGCGGGCAGGCGCAGCGCAAGATCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTtgt                                                                                                                           <  4:142419/148‑1 (MQ=255)
                             ccTGAGCGGGCAGGCGCAGCGCAAGATCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTctg                                                                                                                    >  1:295273/1‑149 (MQ=255)
                              cTGAGCGGGCAGGCGCAGCGCAAGATCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTctgc                                                                                                                   <  6:42264/149‑1 (MQ=255)
                               tGAGCGGGCAGGCGCAGCGCAAGATCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTctgct                                                                                                                  >  5:60888/1‑149 (MQ=255)
                                                   aaGATCGAGATTTTCGTGTACCAGCTGCAGCGTGAGGCGCTGCGGTTCGACAAGGA‑CGATTAATGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGt                                                                                              <  4:226467/149‑1 (MQ=255)
                                                   aaGATCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCggg                                                                                               >  4:215281/1‑148 (MQ=255)
                                                       tCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAAc                                                                                          >  7:276568/1‑149 (MQ=255)
                                                          agagTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTgctgggc                                                                                                              >  7:16049/1‑126 (MQ=255)
                                                          agagTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTgctgggc                                                                                                              <  8:16049/126‑1 (MQ=255)
                                                           gagTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGc                                                                                      <  6:60888/149‑1 (MQ=255)
                                                              tttCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACctgct                                                                                                                                               <  8:42781/89‑1 (MQ=255)
                                                              tttCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACctgct                                                                                                                                               >  7:42781/1‑89 (MQ=255)
                                                                    gtACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTgctgggct                                                                                                             <  5:206477/117‑1 (MQ=255)
                                                                    gtACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTgctgggct                                                                                                             >  6:206477/1‑117 (MQ=255)
                                                                     tACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGCTCCTACAcc                                                                             >  3:124605/1‑148 (MQ=255)
                                                                       ccAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGCTCCTACACCGAc                                                                          >  2:74064/1‑149 (MQ=255)
                                                                        cAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGAGCGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGCTCCTACACCGAc                                                                          >  1:215772/1‑149 (MQ=255)
                                                                          gCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAACCCCGCTCCTACACCGACTTg                                                                       >  1:96758/1‑149 (MQ=255)
                                                                             gCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTcgc                                                                                                  <  8:296056/119‑1 (MQ=255)
                                                                                gCGTGAGGCGCGGCGGTTCGACAAAGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGCTCCTACACCGACTTGCTGAcc                                                                 >  5:44683/1‑149 (MQ=255)
                                                                                  gTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGCTCCTACACCGACTTGCTGACctc                                                               <  8:49031/149‑1 (MQ=255)
                                                                                     aGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGCTCCTACACCGACTTGCTGACCTCTTc                                                            <  4:124605/149‑1 (MQ=255)
                                                                                         gcggcgGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGc                                                                                      >  6:247145/1‑119 (MQ=255)
                                                                                         gcggcgGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGc                                                                                      <  5:247145/119‑1 (MQ=255)
                                                                                             cggTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGCTCCTACACCGACTTGCTGACCTCTTCAGGCGCCt                                                    <  3:215281/149‑1 (MQ=255)
                                                                                                   gACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGAGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGCTCCTACACCGACTTGCTGACCTCTTCAGGCGCCTGTtgct                                              >  3:210660/1‑149 (MQ=255)
                                                                                                      aaGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGATTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGCTCCTACACCGACTTGCTGACCTCTTCAGGCGCCTGTTGCTgcg                                           >  2:174068/1‑149 (MQ=255)
                                                                                                       aagA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGCTCCTACACCGACTTGCTGACCTCTTCAGGCGCCTGTTGCTgcgc                                          <  6:44683/147‑1 (MQ=255)
                                                                                                        ggA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGCTCCTACACCGACTTGCTGACCTCTTCAGGCGCCTg                                                   <  8:127817/139‑1 (MQ=255)
                                                                                                        ggA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGAGGGTAAACCCGCTCCTACACCGACTTGCTGACCTCTTCAGGCGCCTg                                                   >  7:127817/1‑139 (MQ=255)
                                                                                                            cGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGCTCCTACACCGACTTGCTGACCTCTTCAGGCGCCTGTTGCTGCGCGccc                                      <  1:74064/149‑1 (MQ=255)
                                                                                                                  ttGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGCTCCTACACCGACTTGCTGACCTCTTCAGGCGCCTGTTGCTGCGCGCCCTtctc                                 <  1:174068/148‑1 (MQ=255)
                                                                                                                     aTCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGCTCCTACACCGACTTGCTGACCTCTTCAGGCGCCTGTTGCTGCGCGCCCTTCTCTTc                              <  4:118422/148‑1 (MQ=255)
                                                                                                                        gtcggtcgGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGCTCCTACACCGACTTGCTGACCTCTTCAGGCGCCTGTTGCTGCGCGCCCTTCTCTTCATc                           <  2:297974/148‑1 (MQ=255)
                                                                                                                           ggtcggtAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGCTCCTACACCGACTTGCTGACCTCTTCAGGCGCCTGTTGCTGCGCGCCCTTCTCTTCATCCTCg                       <  8:276568/149‑1 (MQ=255)
                                                                                                                                        gAAAACGCCACCTCAGCAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGCAAACCCGCTCCTACACCGACTTGCTGACCTCTTCAGGCGCCTGTTGCTGCGCGCCCTTCTCTTCATCCTCGGTGTCTTCAgccg          >  1:92744/1‑149 (MQ=255)
                                                                                                                                          aaaCGCCACCTCAGCAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGCTCCTACACCGACTTGCTGACCTCTTCAGGCGCCTGTTGCTGCGCGCCCTTCTCTTCATCCTCGGTGTCTTc               <  5:952/142‑1 (MQ=255)
                                                                                                                                          aaaCGCCACCTCAGCAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGCTCCTACACCGACTTGCTGACCTCTTCAGGCGCCTGTTGCTGCGCGCCCTTCTCTTCATCCTCGGTGTCTTc               >  6:952/1‑142 (MQ=255)
                                                                                                                                                ctgctgctgATGTGTCGTTTTCATTTGTGTTTCTGCTGGGCTTGCCGCTTCGCGGGTAAACCCGCTCCTACAGCGACTTGCTGACCTCTTCAGGCGCGTGTTGCTGCGCGACCTTCTCTTCATCCTCGGTGTATTCAGCCGCCAGCgtc  <  2:96758/146‑3 (MQ=255)
                                                                                                                                                     |                                                                                                                                               
ACCACCTTTGCCGGCGTGCGTTTCCACAACCTGAGCGGGCAGGCGCAGCGCAAGATCGAGAGTTTCGTGTACCAGCTGCAGCGTGAGGCGCGGCGGTTCGACAAGGA‑CGATTATTGATCGTCGGTCGGTAAAACAGAAAACGCCACCTGCTGAGGTGGCGTTTTCATTTGTGTTTCTGCTGGGCTGGCCGCTTCGCGGGTAAACCCGCTCCTACACCGACTTGCTGACCTCTTCAGGCGCCTGTTGCTGCGCGCCCTTCTCTTCATCCTCGGTGTCTTCAGCCGCCACCGGC  >  NC_002947/4988214‑4988505

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: ‑