Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,082,281 T→A 7.4% *318L (TAA→TTA)  PP_1861 ← LysR family transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,082,2810TA 7.4% 147.8 / 3.1 54*318L (TAA→TTA) PP_1861LysR family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base T (24/26);  new base A (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 = 7.65e-01

ATCAGCAACGAGGTGGAGTGCAGGGCGAAACAGACCTGGTTGTCCAGCAGCAGCTCGTCACAGGAGGCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTGCGAGAGTTCGTTTCATGTGCCAGGCGTAGCGCGTAAATGCCGCTGGTCTCAGCTTC  >  NC_002947/2082136‑2082423
                                                                                                                                                 |                                                                                                                                              
atcaGCAACGAGGTGGAGTGCAGGGCGAAACAGACCTGGTTGTCCAGCAGCAGCTCGTCACAGGAGGCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTaa                                                                                                                                              <  7:224497/148‑1 (MQ=255)
atcaGCAACGAGGTGGAGTGCAGGGCGAAACAGACCTGGTTGTCCAGCAGCAGCTCGTCACAGGAGGCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAAt                                                                                                                                             >  2:46868/1‑149 (MQ=255)
 tcaGCAACGAGGTGGAGTGCAGGGCGAAACAGACCTGGTTGTCCAGCAGCAGCTCGTCACAGGAGGCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATc                                                                                                                                            >  8:193481/1‑149 (MQ=255)
  caGCAACGAGGTGGAGTGCAGGGCGAAACAGACCTGGTTGTCCAGCAGCAGCTCGTCACAGGAGGCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATcg                                                                                                                                           >  5:15561/1‑149 (MQ=255)
      aaCGAGGTGGAGTGCAGGGCGAAACAGACCTGGTTGTCCAGCAGCAGCTCGTCACAGGAGGCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCgcgc                                                                                                                                        >  5:224735/1‑148 (MQ=255)
                    cAGGGCGAAACAGACCTGGTTGTCCAGCAGCAGCTCGTCACAGGAGGCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAg                                                                                                                         >  3:65678/1‑149 (MQ=255)
                     aggtctaaaCAGACCTTGTTTTCCAGCAGCAGCGAGTCACAGGAGGCTTGGGTGTCGGCGTTCATTCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAgg                                                                                                                        <  8:226728/143‑1 (MQ=255)
                        gCGAAACAGACCTGGTTGTCCAGCAGCAGCTCGTCACAGGAGGCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATAAATCGCGCAATTCACTGCGCAAGGCCa                                                                                                                     <  1:5638/149‑1 (MQ=255)
                                 aCCTGGTTGTCCAGCAGCAGCTCGTCACAGGAGGCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAgg                                                                                                            <  7:193481/149‑1 (MQ=255)
                                  ccTGGTTGTCCAGCAGCAGCTCGTCACAGGAGGCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAggg                                                                                                           >  6:176080/1‑149 (MQ=255)
                                   cTGGTTGTCCAGCAGCAGCTCGTCACAGGAGGCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGt                                                                                                          >  7:130325/1‑149 (MQ=255)
                                   cTGGTTGTCCAGCAGCAGCTCGTCACAGGAGGCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGt                                                                                                          <  1:46868/149‑1 (MQ=255)
                                    tGGTTGTCCAGCAGCAGCTCGTCACAGGAGGCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTg                                                                                                         >  4:125174/1‑149 (MQ=255)
                                      gTTGTCCAGCAGCAGCTCGTCACAGGAGGCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTg                                                                                                         <  8:39432/147‑1 (MQ=255)
                                           ccAGCAGCAGCTCGTCACAGGAGGCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCgg                                                                                                  >  1:5366/1‑149 (MQ=255)
                                                        gTCACAGGAGGCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGctc                                                                                     >  6:77929/1‑149 (MQ=255)
                                                        gTCACAGGAGGCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGctc                                                                                     <  7:130717/149‑1 (MQ=255)
                                                         tCACAGGAGGCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGctct                                                                                    <  2:184126/149‑1 (MQ=255)
                                                            caGGAGGCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGa                                                                                 <  2:5366/149‑1 (MQ=255)
                                                             aggaggCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAg                                                                                <  6:15561/149‑1 (MQ=255)
                                                             aggaggCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAg                                                                                >  7:114635/1‑149 (MQ=255)
                                                             aggaggCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATAATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAg                                                                                >  8:57292/1‑149 (MQ=255)
                                                                    ttGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTc                                                                          >  2:209506/1‑148 (MQ=255)
                                                                    ttGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTGGAGGAATTc                                                                          >  4:15694/1‑148 (MQ=255)
                                                                      gggTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCg                                                                         <  4:65678/147‑1 (MQ=255)
                                                                      gggTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGa                                                                        <  5:77929/148‑1 (MQ=255)
                                                                      gggTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGa                                                                        <  2:156659/148‑1 (MQ=255)
                                                                              gCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGAGCAAGTCCAGTTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTGGAGCAGaaacc                                                               >  7:125683/1‑147 (MQ=255)
                                                                                    aTGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGCTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTg                                                          <  8:114635/148‑1 (MQ=255)
                                                                                    aTGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCAATGCGCAAGGCCAGGTCCCAGGGTGGAATCGGTCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAGACGGCTGc                                                         >  8:223288/1‑149 (MQ=255)
                                                                                      gCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGa                                                                        <  5:244596/132‑1 (MQ=255)
                                                                                      gCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGa                                                                        >  6:244596/1‑132 (MQ=255)
                                                                                      gCAGGTCCTTGAAAGTCATCAATGGAAAATTCAGGCACGCTGCTCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTGGAGGAATTCGAGCAGCAAACGGCTGc                                                         >  6:230097/1‑147 (MQ=255)
                                                                                       cAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTGCga                                                       <  8:200474/148‑1 (MQ=255)
                                                                                          gTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTGCGAGAGt                                                   >  1:99964/1‑149 (MQ=255)
                                                                                               tGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGctc                                                                                     <  1:236320/110‑1 (MQ=255)
                                                                                               tGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGctc                                                                                     >  2:236320/1‑110 (MQ=255)
                                                                                                       atcaATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTGCGAGAGTTCGTTTCAtgt                                        <  3:15694/147‑1 (MQ=255)
                                                                                                          aaTGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTGCGAGAGTTCGTTTCATGTGCCAg                                   <  4:262588/149‑1 (MQ=255)
                                                                                                            tGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTGCGAGAGTTCGTTTCATGTGCCAGGc                                 <  5:176080/149‑1 (MQ=255)
                                                                                                              gAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTGCGAGAGTTCGTTTCATGTGCCAGGCGt                               <  3:125174/149‑1 (MQ=255)
                                                                                                               aaaaTTCTGGCACGCTGATGATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTGCGAGAGTTCGTTTCATGTGCCAGGCGTa                              <  6:224735/149‑1 (MQ=255)
                                                                                                                 aaTTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTGCGAGAGTTCGTTTCATGTGCCAGGCGTAgc                            >  8:71085/1‑149 (MQ=255)
                                                                                                                        gCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTGCGAGAGTTCGTTTCATGTGCCAGGCGTAGCGCGt                        <  8:130325/146‑1 (MQ=255)
                                                                                                                          aCGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTGCGAGAGTTCGTTTCATGTGCCAGGCGTAGCGCGTAAATg                   >  8:65768/1‑149 (MQ=255)
                                                                                                                                atcatcAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTGCGAGAGTTCGTTTCATGTGCCAGGCGTAGCGCGTAAATGCCGCt              <  5:230097/148‑1 (MQ=255)
                                                                                                                                   atcaGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTGCGAGAGTTCGTTTCATGTGCCAGGCGTAGCGCGt                        <  2:145387/135‑1 (MQ=255)
                                                                                                                                   atcaGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTGCGAGAGTTCGTTTCATGTGCCAGGCGTAGCGCGt                        >  1:145387/1‑135 (MQ=255)
                                                                                                                                      attGCGCGATTAATTCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTGCGAGAGTTCGTTTCATGTGCCAg                                   <  7:65048/119‑1 (MQ=255)
                                                                                                                                      attGCGCGATTAATTCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTGCGAGAGTTCGTTTCATGTGCCAg                                   >  8:65048/3‑121 (MQ=255)
                                                                                                                                      aGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTGCGAGAGTTCGTTTCATGTGCCAGGCGTAGCGCGTAAATGCCGCTGGTCTCa       <  7:57292/149‑1 (MQ=255)
                                                                                                                                       ttGCGCGATTAATTCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTGCGAGAGTTCGTTTCATGTGCCAGGCGTAGCGCGTAAATGCCGCTGGTCTCAg      >  5:58948/2‑149 (MQ=255)
                                                                                                                                          cgcgAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGTCTGCGAGAGTTCGTTTCATGTGCCAGGCGTAGCGCGTAAATGCCGCTGGTCTCAGCtt   >  5:166884/1‑149 (MQ=255)
                                                                                                                                           gcgAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTGCGAGAGTTCGTTTCATGTGCCAGGCGTAGCGCGTAAATGCCGCTGGTCTCAGCTTc  <  7:71085/149‑1 (MQ=255)
                                                                                                                                                 |                                                                                                                                              
ATCAGCAACGAGGTGGAGTGCAGGGCGAAACAGACCTGGTTGTCCAGCAGCAGCTCGTCACAGGAGGCTTGGGTGTCGGCGTTCATGCAGGTCCTTGAAAGTCATCAATGGAAAATTCTGGCACGCTGATCATCAGTGCGCGAATTAATCGCGCAATTCACTGCGCAAGGCCAGGTCCCAGGGTGGAATCGGGCTGAAGCGGCTCTTGAGGAATTCGAGCAGCAAACGGCTGCGAGAGTTCGTTTCATGTGCCAGGCGTAGCGCGTAAATGCCGCTGGTCTCAGCTTC  >  NC_002947/2082136‑2082423

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑