Predicted mutation
evidence seq id position mutation annotation gene description
RA CP006881 3,725,237 A→G intergenic (‑69/‑460) U712_19205 ← / → U712_19210 Uncharacterized protein ywcI/Minor extracellular protease vpr

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0068813,725,2370AG85.2% 116.9 / ‑0.7 54intergenic (‑69/‑460)U712_19205/U712_19210Uncharacterized protein ywcI/Minor extracellular protease vpr
Reads supporting (aligned to +/- strand):  ref base A (0/0);  major base G (31/15);  minor base C (2/6);  total (33/21)
Fisher's exact test for biased strand distribution p-value = 4.48e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑T‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAACTAGTTTTTAG  >  CP006881/3725114‑3725363
                                                                                                                                 |                                                                                                                              
cccAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGc                                                                                                                  >  8:65191/1‑139 (MQ=255)
     ttCATCAAAAAGACCATCCCCACCCGGAAAGATACAAGCAACCGTTTCATAGAAAAACATCCCTCCGCGTCTTTTTGGCAGGCAGC‑C‑TGT‑TT‑C‑TCAGCCAGTTTTCTGATCCGCAGCCCGCCAGAAAATCCGGCCGAtt                                                                                                             >  1:303664/1‑139 (MQ=255)
     ttCATCAAAAAGACCATCCACCCCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCGTTTTGGCCGGCCGCGT‑T‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGCAAAGCCGGCCGagt                                                                                                             >  4:293500/1‑137 (MQ=255)
     ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCCGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAtt                                                                                                             >  5:330023/1‑139 (MQ=255)
     ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGCCGGCCGAtt                                                                                                             >  4:185698/1‑139 (MQ=255)
             aaaGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑T‑GCAGCCCGTTTTCTCAGCCCCAGCCCCCAAGAAAAGACCGCCGAtttcttttct                                                                                                     >  1:244417/1‑139 (MQ=255)
               aGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCg                                                                                                   >  7:251157/1‑139 (MQ=255)
                       cacaCCCTTAAATAAACAACCAAACGTATCATACAAAAACATCCCGCCTCTTCTTTTTGCCCGGCAGC‑CTT‑T‑TT‑A‑GCCGCCCGTTTTCTCCGCCGCAGCCCGCAAGAAACGACGGCCGATTTCTTTTCTCGCAAACTAg                                                                                           <  7:203636/139‑1 (MQ=255)
                        acacCCGTAAAGATACACCCAAACGTTTCATACAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑T‑T‑TTAA‑GCCGCCCGTTTTCTCAGCCGCCCCCCCCAAGAAAACACGGCCGATTTCTTTTCTCGCAAACTAGc                                                                                          <  3:58609/139‑1 (MQ=255)
                               tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGctc                                                                                     >  4:442341/1‑137 (MQ=255)
                               tAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTAGCAAACTAGCGGctc                                                                                     >  7:295537/1‑137 (MQ=255)
                                aaaGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAg                                                                                  >  7:468831/1‑139 (MQ=255)
                                  acaTACAAGCAAACGTTTCATAGAAAAACACCCCTCCGCTTCTTTTGGGCCGGCAGC‑C‑T‑T‑TT‑ACGCAGCCCGTTTTCTCCGCCGCCCCCCCCAACAAAACACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCa                                                                                <  3:185698/137‑1 (MQ=255)
                                  aGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCa                                                                                <  7:151167/139‑1 (MQ=255)
                                    aTACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCGGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCTTTTCTCGCAAACTAGCCGCTCTAGCaa                                                                               >  3:144231/1‑138 (MQ=255)
                                      aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCCGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAAc                                                                            >  7:259278/1‑139 (MQ=255)
                                      aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTATCGGCTCTAGCaaaa                                                                             >  8:22989/1‑138 (MQ=255)
                                      aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACAAGCGGCTGTAGCAAAAc                                                                            >  5:97988/1‑139 (MQ=255)
                                      aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCCCAAGAAAAGACGGCCGATTTAGTTTATCGCCAACAAGCGGCACAAGCaaac                                                                             >  5:22486/1‑137 (MQ=255)
                                      aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCGTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCGCTAGCaaaa                                                                             >  4:70664/1‑138 (MQ=255)
                                       cAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCGCTGGCAAAACt                                                                           >  7:400756/1‑139 (MQ=255)
                                       cAAGCAAACGTTTCATAGAAAAACATCCCTCAGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCGTTTCTCGCAAACTAGCGGCTCTAGCAAAACt                                                                           >  7:463227/1‑139 (MQ=255)
                                        aaGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTATCAAAACt                                                                           >  8:61819/1‑138 (MQ=255)
                                          gaaaccGTTACATACAAAACCACCCCCCCGCTTTTTTTGGGCCGGCTGCGT‑T‑T‑TT‑A‑GCAGCCGTTTTTCACCGCCGCCGCCCCCAATAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt                                                                        <  7:214233/134‑1 (MQ=255)
                                          gCAAACGTTTCTATGAAAAACAACCATCGGCTTCTTTTTGCTATGAATA‑G‑T‑TGTT‑A‑GCACCCGGTTTTCTCAGCCGCACCCCCCAAGAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt                                                                        <  8:320721/139‑1 (MQ=255)
                                          gCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTAAt                                                                        >  6:435928/1‑139 (MQ=255)
                                          gCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CGT‑T‑TT‑A‑GCAGCCCGGTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTGTTTTATCGCAAACCAGCGGCGCGAGCaaaaagcat                                                                        >  2:317396/1‑134 (MQ=255)
                                          gCAAACGTTACATACAAAAACAACCCTCCGTTTATTTTGGGCTGGCCGCTT‑T‑T‑TT‑A‑GACGCCGGTTTTCACCCCCGCCCCCCCAAAGAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt                                                                        <  3:226059/139‑1 (MQ=255)
                                          ccAACCGTTTCATCAAAAAACATCCCTCCGCTGCTTTTTGCCCGCCAGCGT‑T‑T‑TT‑C‑CCACCCCGTTTTCCCCCCCGCCCCCCGCAACAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt                                                                        <  6:168702/138‑1 (MQ=255)
                                          ccAAACGATTCAAAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt                                                                        <  2:316150/138‑1 (MQ=255)
                                            aaaCGTTTCATACAAAAACTTCCCTCCGCTTCTTTTTGGAAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCGTTTTTCTCAGCCGCAGCCCGCAAGAAAACACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGa                                                                      <  7:71380/139‑1 (MQ=255)
                                            aaaCGTTTCATACAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGCGT‑T‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGa                                                                      <  7:61819/139‑1 (MQ=255)
                                              ccGTTTAATACAAAAACACCCCTCCGCTGCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑C‑GCAGCCCGTTTGCCCACCCGCAGCCCGCAACAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct                                                                    <  7:22989/138‑1 (MQ=255)
                                              ccGTTACAAACAAAAACACCCCCCCGCTTCTTTTGGCCAGGCCGC‑C‑T‑T‑TT‑ACGCACCCCGTTTACTCCGCCCCCCCCCCCAACAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct                                                                    <  6:219118/138‑1 (MQ=255)
                                              aggTTTCATAGAAAAACATCCCTCCGCTTATTTTTGGCTGGCAGC‑CTT‑T‑TT‑A‑GCAGCCGGTTTTCTCAGCCGCAGCCCGCAACAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct                                                                    <  3:442341/137‑1 (MQ=255)
                                              aggTTGCATAGAAAAACAGCCCTCCGCTTCTTTTTGGCAGCACGCTT‑T‑T‑TT‑A‑GCACCCCGTTTTATCAGCCGCCGCCCGAAATAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct                                                                    <  8:468831/137‑1 (MQ=255)
                                              aCGTTTCTAATAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCCGCCCGTTTTCTCAGCCGACGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct                                                                    <  2:270314/139‑1 (MQ=255)
                                              aCGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct                                                                    <  8:251157/139‑1 (MQ=255)
                                              aCGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct                                                                    >  3:286960/1‑139 (MQ=255)
                                              aCGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCACCCCGCAAAAAAACACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct                                                                    <  7:466143/139‑1 (MQ=255)
                                              aCGTTTCAAAGAAAACCATCCCTCCCCTGCTTTTTGGCCGGCCGC‑C‑T‑T‑TTAA‑GCAGCCCTTTTTCACCGCCGCAGCCAGCAACAAAACACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct                                                                    <  2:329053/139‑1 (MQ=255)
                                                  ttCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTATCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCATTTCTCGCAAACTAGAGGCTCTAGCAAAACTCATGACACTAt                                                                >  8:71380/1‑139 (MQ=255)
                                                         aaaaaCATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATATAc                                                         >  6:441374/1‑139 (MQ=255)
                                                                 cccTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTAGCAAACTAGCGGCTCTACGAAAACTAATGCCTCAATGATAGAACGTGGaaa                                                 >  1:314578/1‑139 (MQ=255)
                                                                            ttttgGGCAGGCGGCTT‑T‑T‑TT‑C‑GCAGCCGGTTTTCCCCCCCCCACCCCGCATAAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCt                                        <  6:180114/137‑1 (MQ=255)
                                                                               tgggcagcccGC‑G‑T‑T‑TT‑ACGCCGCCCGTTTGCGCCCCCGCCCCCCGCAAGAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGt                                    <  7:65191/136‑1 (MQ=255)
                                                                                      gcagC‑CTT‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATTGACCGTGGAAAGAGAATTCTTTGTCACAata                             >  5:180114/1‑138 (MQ=255)
                                                                                             tt‑t‑tt‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTg                       >  4:296938/2‑138 (MQ=255)
                                                                                                          gcCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGCCCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCaa             >  1:318248/1‑139 (MQ=255)
                                                                                                          gcCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAATTATTTTCACGCAAACTAGCGGCTCTAGCAAAACTCATGACGCATAGATAGCCCGTTGAAAGATAATTCTTTTTCACAATATGATTGAAAAAACCaa             >  6:430916/1‑139 (MQ=255)
                                                                                                           cccGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAAc            >  7:257262/1‑139 (MQ=255)
                                                                                                           cccGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAAc            >  1:247795/1‑139 (MQ=255)
                                                                                                                     cAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCCCAATATGAGTGAAAAAACCAACGAGtttt     >  7:407394/1‑136 (MQ=255)
                                                                                                                       gCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACACAAGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAAAATGAGAGAAAAAACCAACTAGTTATTAg  >  8:312383/1‑137 (MQ=255)
                                                                                                                                 |                                                                                                                              
CCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑T‑T‑TT‑A‑GCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAACTAGTTTTTAG  >  CP006881/3725114‑3725363

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑