Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,742,972 C→A 8.8% L67L (CTG→CTT)  PP_1540 ← hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,742,9720CA 8.8% 164.2 / 4.6 53L67L (CTG→CTT) PP_1540hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (27/21);  new base A (2/3);  total (29/24)
Fisher's exact test for biased strand distribution p-value = 6.49e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TGTGTTGCTGGATCGGTTTTCTGTGGGCATGGGTAACTCCGGATCAGGCAGCCTTGTGGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACTGAGTTGCTTGACCCGTTCGCCAGCCATCGTGGCTTCGGCATGGCGCT  >  NC_002947/1742833‑1743120
                                                                                                                                           |                                                                                                                                                    
tgtgTTGCTGGATCGGTTTTCTGTGGGCATGGGTAACTCCGGATCAGGCAGCCTTGTGGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTGCTCGATGAGAAGGgcaag                                                                                                                                              >  6:281815/1‑145 (MQ=255)
tgtgTTGCTGGATCGGTTTTCTGTGGGCATGGGTAACTCCGGATCAGGCAGCCTTGTGGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTGCTCGATGAGAAGGgc                                                                                                                                                 <  4:313870/145‑1 (MQ=255)
  tgtTGCTGGATCGGTTTTCTGTGGGCATGGGTAACTCCGGATCAGGCAGCCTTGTGGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTGCTCGATGAGAAGGgcaagaa                                                                                                                                            <  4:145610/148‑6 (MQ=255)
    ttGCTGGATCGGTTTTCTGTGGGCATGGGTAACTCCGGATCAGGCAGCCTTGTGGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTGCTCGATGAGAAGGgcaagaaga                                                                                                                                          <  5:281815/148‑8 (MQ=255)
       cTGGATCGGTTTTCTGTGGGCATGGGTAACTCCGGATCAGGCAGCCTTGTGGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGCTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAg                                                                                                                                       <  4:261795/148‑1 (MQ=255)
             cGGTTTTCTGTGGGCATGGGTAACTCCGGATCAGGCAGCCTTGTGGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATc                                                                                                                                 <  2:102290/148‑1 (MQ=255)
               gTTTTCTGTGGGCATGGGTAACTCCGGATCAGGCAGCCTTGTGGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCg                                                                                                                                     <  3:96837/142‑1 (MQ=255)
               gTTTTCTGTGGGCATGGGTAACTCCGGATCAGGCAGCCTTGTGGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCg                                                                                                                                     >  4:96837/1‑142 (MQ=255)
               gTTTTCTGTGGGCATGGGTAACTCCGGATCAGGCAGCCTTGTGGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTg                                                                                                                              >  4:209580/1‑149 (MQ=255)
                ttttCTGTGGGCATGGGTAACTCCGGATCAGGCAGCCTTGTGGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGa                                                                                                                             <  1:21185/149‑1 (MQ=255)
                  ttCTGTGGGCATGGGTAACTCCGGATCAGGCAGCCTTGTGGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAg                                                                                                                            <  5:85782/148‑1 (MQ=255)
                    cTGTGGGCATGGGTAACTCCGGATCAGGCAGCCTTGTGGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGt                                                                                                                          >  7:251890/1‑148 (MQ=255)
                    cTGTGGGCATGGGTAACTCCGGATCAGGCAGCCTTGTGGCTTTCAGGGGTCCACTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTCGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGt                                                                                                                          <  5:196318/148‑1 (MQ=255)
                                     tCCGGATCAGGCAGCCTTGTGGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCTGCGGATCTTGAGGTCACGGCAGGCGCCGGCAc                                                                                                        >  8:227218/1‑149 (MQ=255)
                                        ggATCAGGCAGCCTTGTGGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCt                                                                                                     <  3:209580/149‑1 (MQ=255)
                                            cAGGCAGCCTTGTGGCTTTCAGGTGTCCAGTGGGCCCTGCCAATGAGGTGCTTCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGTGCAGTGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTgg                                                                                                  <  6:133484/148‑1 (MQ=255)
                                                cAGCCTTGTGGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGACGGCACGCTTGGCCAGc                                                                                             >  7:6216/1‑149 (MQ=255)
                                                    cTTGTGGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGa                                                                                         >  7:267968/1‑149 (MQ=255)
                                                     ttGTGGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGAt                                                                                        >  3:84871/1‑149 (MQ=255)
                                                        tgGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGaa                                                                                     >  3:17942/1‑149 (MQ=255)
                                                        tgGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGAAGGTCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGa                                                                                      >  4:293472/1‑148 (MQ=255)
                                                            tttCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTg                                                                                  >  6:37738/1‑148 (MQ=255)
                                                             ttCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTg                                                                                                   <  2:280813/130‑1 (MQ=255)
                                                             ttCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTg                                                                                                   >  1:280813/1‑130 (MQ=255)
                                                              tCAGGTGTCCAGTCTGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGTCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCa                                                                                <  3:293472/148‑1 (MQ=255)
                                                                   tgtCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGt                                                                          >  3:103347/1‑149 (MQ=255)
                                                                            ggCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCggg                                                                  <  4:103347/148‑1 (MQ=255)
                                                                            ggCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCggg                                                                  <  3:89269/148‑1 (MQ=255)
                                                                             gCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTACTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCgggg                                                                 >  8:194279/1‑148 (MQ=255)
                                                                                 aGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATc                                                             >  5:166734/1‑148 (MQ=255)
                                                                                   ccAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGaa                                                          >  4:304609/1‑149 (MQ=255)
                                                                                       tGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAgc                                                      <  8:251890/149‑1 (MQ=255)
                                                                                           gggCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAgcg                                                     <  1:153377/146‑1 (MQ=255)
                                                                                           gggCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAgcg                                                     >  2:153377/1‑146 (MQ=255)
                                                                                            ggCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTGCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACt                                                 <  7:194279/149‑1 (MQ=255)
                                                                                             gCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACt                                                 >  5:309293/1‑148 (MQ=255)
                                                                                             gCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACt                                                 >  1:243912/1‑148 (MQ=255)
                                                                                                        ttGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACTGAGTTGCTTGAc                                     <  6:166734/149‑1 (MQ=255)
                                                                                                          ggggTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACTGAGTTGCTTGAcc                                    <  4:196858/148‑1 (MQ=255)
                                                                                                          ggggTAGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACTGAGTTGCTTGAcc                                    <  2:319757/148‑1 (MQ=255)
                                                                                                            ggTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACTGAGTTGCTTGACCCGt                                 >  5:175080/1‑149 (MQ=255)
                                                                                                                   gATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACTGAGTTGCTTGACCCGTTCgccag                          >  2:146257/1‑149 (MQ=255)
                                                                                                                            gCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACTGAGTTGCTTGACCCGTTCGCCAGCCATCGTgg                 >  7:73434/1‑149 (MQ=255)
                                                                                                                              ccTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACTGAGTTGCTTGAc                                     <  8:7081/127‑1 (MQ=255)
                                                                                                                              ccTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACTGAGTTGCTTGAc                                     >  7:7081/1‑127 (MQ=255)
                                                                                                                              ccTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACTGAGTTGCTTGACCCGTTCGCCAGCCATCGTGGCt               >  4:132477/1‑149 (MQ=255)
                                                                                                                                  ctcATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACTGAGTTGCTTGACCCGTTCGCCAGCCATCGTGGCTTCgg           >  1:145609/1‑149 (MQ=255)
                                                                                                                                  ctcATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACTGAGTTGCTTGACCCGTTCGCCAGCCATCGTGGCTTCg            <  5:37738/148‑1 (MQ=255)
                                                                                                                                      tCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACTGAGTTGCTTGACCCGTTCGCCAGCCATCGt                   >  7:15277/1‑137 (MQ=255)
                                                                                                                                      tCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACTGAGTTGCTTGACCCGTTCGCCAGCCATCGt                   <  8:15277/137‑1 (MQ=255)
                                                                                                                                      tCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACTGAGTTGCTTGACCCGTTCGCCAGCCATCGTGGCTTCGGCATg       >  6:43923/1‑149 (MQ=255)
                                                                                                                                      tCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACTGAGTTGCTTGACCCGTTCGCCAGCCATCGTGGCTTCGGCATg       >  1:302047/1‑149 (MQ=255)
                                                                                                                                        gAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTAACGAATAGCGCACAGAGTTGCTTGACCCGTTCGCCAGCCATCGTGGCTTCGGCATGgc     >  3:189909/1‑149 (MQ=255)
                                                                                                                                           cAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACTGAGTTGCTTGACCCGTTCGCCAGCCATCGTGGCTTCGGCATGGCGCt  <  4:17942/149‑1 (MQ=255)
                                                                                                                                           |                                                                                                                                                    
TGTGTTGCTGGATCGGTTTTCTGTGGGCATGGGTAACTCCGGATCAGGCAGCCTTGTGGCTTTCAGGTGTCCAGTCGGCCCAGCCAATGAGGGGCATCCTGGTCTTGGGGTTGAGGATCTTCTTGCCCTTCTCATCGAGCAGGGCTGCTTTGCAGCGGATCTTGAGGTCACGGCAGGCGCCGGCACGCTTGGCCAGCTCGATGAACTGCATGGCGTGCTGCGGGGTATCGAATAGCGCACTGAGTTGCTTGACCCGTTCGCCAGCCATCGTGGCTTCGGCATGGCGCT  >  NC_002947/1742833‑1743120

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: ‑