Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,140,016 T→C 9.1% H36R (CAC→CGC)  PP_5481 ← hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,140,0160TC 9.1% 115.5 / 2.3 44H36R (CAC→CGC) PP_5481hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (23/17);  new base C (2/2);  total (25/19)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.00e-01

TCAGCCACACCAGGCTGACGGCGACCGGCAGGTTGCCGCGCACCGGGATCGCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCGGCATGTAGCGTTTGAAAAGTCGGCGCGGCATGTAGGCTCCCGGAGCGTTGACCCTGGCAGTATGCCCTTAA  >  NC_002947/2139870‑2140162
                                                                                                                                                  |                                                                                                                                                   
tCAGCCACACCAGGCTGACGGCGACCGGCAGGTTGCCGCGCACCGGGATCGCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGc                                                                                                                                                   >  1:228294/1‑149 (MQ=255)
tCAGCCACACCAGGCTGACGGCGACCGGCAGGTTGCCGCGCACCGGGATCGCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGc                                                                                                                                                   >  7:118564/1‑149 (MQ=255)
  aGCCACACCAGGCTGACGGCGACCGGCAGGTTGCCGCGCACCGGGATCGCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGc                                                                                                                                                   >  2:287231/1‑147 (MQ=255)
  aGCCACACCAGGCTGACGGCGACCGGCAGGTTGCCGCGCACCGGGATCGCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGc                                                                                                                                                   >  4:332617/1‑147 (MQ=255)
    ccACACCAGGCTGACGGCGACCGGCAGGTTGCCGCGCACCGGGATCGCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCa                                                                                                                                                 >  8:121279/1‑147 (MQ=255)
      acacCAGGCTGACGGCGACCGGCAGGTTGCCGCGCACCGGGATCGCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAgg                                                                                                                                             >  4:235512/1‑149 (MQ=255)
          cAGGCTGACGGCGACCGGCAGGTTGCCGCGCACCGGGATCGCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTgg                                                                                                                                         >  1:121091/1‑149 (MQ=255)
            ggCTGACGGCGACCGGCAGGTTGCCGCGCACCGGGATCGCCAGGGCCGCCGCCAGCAGCATCTGCATCGGTATGTGAATAAGCGCCTCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGTGa                                                                                                                                       <  2:124253/149‑1 (MQ=255)
                 aCGGCGACCGGCAGGTTGCCGCGCACCGGGATCGCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTg                                                                                                                                  <  5:261086/149‑1 (MQ=255)
                  cGGCGACCGGCAGGTTGCCGCGCACCGGGATCGCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTgc                                                                                                                                 <  8:118564/149‑1 (MQ=255)
                  cGGCGACCGGCAGGTTGCCGCGCACCGGGATCGCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTg                                                                                                                                  >  4:8687/1‑148 (MQ=255)
                            cAGGTTGCCGCGCACCGGGATCGCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTgc                                                                                                                                 <  4:38985/139‑1 (MQ=255)
                            cAGGTTGCCGCGCACCGGGATCGCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTgc                                                                                                                                 >  3:38985/1‑139 (MQ=255)
                                   ccGCGCACCGGGATCGCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTggg                                                                                                                                        >  8:57240/1‑125 (MQ=255)
                                   ccGCGCACCGGGATCGCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTggg                                                                                                                                        <  7:57240/125‑1 (MQ=255)
                                         aCCGGGATCGCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑aa                                                                                                         <  3:332617/149‑1 (MQ=255)
                                               aTCGCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGAttt                                                                                                   <  2:159650/149‑1 (MQ=255)
                                               aTCGCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGAttt                                                                                                   <  4:89448/149‑1 (MQ=255)
                                                  gCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑aa                                                                                                         >  8:172770/1‑140 (MQ=255)
                                                  gCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑aa                                                                                                         <  7:172770/140‑1 (MQ=255)
                                                   ccAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTgtgt                                                                                               >  4:66080/1‑149 (MQ=255)
                                                       ggCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTccc                                                                                           <  3:235512/149‑1 (MQ=255)
                                                                            cATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCg                                                                         <  8:24911/146‑1 (MQ=255)
                                                                            cATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCg                                                                         >  7:24911/1‑146 (MQ=255)
                                                                            cATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCGGCa                                                                      <  3:66080/149‑1 (MQ=255)
                                                                                      ggAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGGCGGGTCCGGCATGTAGCGtt                                                             <  2:121091/148‑1 (MQ=255)
                                                                                       gAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCGGCATGTAGCGttt                                                            >  4:203884/1‑148 (MQ=255)
                                                                                         aTAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCGGCATGTAGCGTTTGa                                                          >  6:5933/1‑148 (MQ=255)
                                                                                            aGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCGGCATGTAGCGTTTGaaaa                                                       <  7:121279/148‑1 (MQ=255)
                                                                                             gcgcCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGCGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCGGCATGTAGCGTTTGAAAAGt                                                     >  8:36257/1‑149 (MQ=255)
                                                                                             gcgcCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGCGCCAGAGCTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCGGCATGTAGCGTTTGAAAAGt                                                     >  8:30754/1‑149 (MQ=255)
                                                                                                         ggCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCGGCATGTAGCGTTTGAAAAGTCGGCGCGGCATg                                         >  3:107417/1‑149 (MQ=255)
                                                                                                                acCCATGGCTCTGGCCACCGAATGCCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGATGGTCGGGTCAGGCATGTAGCGTTTGAAAAGTAGGCCAGGCATGAAGGcgc                                  >  8:322902/1‑147 (MQ=255)
                                                                                                                   cATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATGTGTGTTCCCGAATGCTGGTCGGGTCCGGCATGTAGCGTTTGAAAAGTCGGCGCGGCATGTAGGCTCCCg                               <  3:8687/149‑1 (MQ=255)
                                                                                                                     tGGCTCTGGCCACCGAATGGCGGTTCAGGCGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCGGCATGTAGCGTTTGAAAAGTCGGCGCGGCATGTAGGCTCCCGGa                             <  7:30754/149‑1 (MQ=255)
                                                                                                                     tGGCTCTGGCCACCGAATGGCGGTTCAGGCGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCGGCATGTAGCGTTTGAAAAGTCGGCGCGGCATGTAGGCTCCCGGa                             <  7:36257/149‑1 (MQ=255)
                                                                                                                       gCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCGGCATGTAGCGTTTGAAAAGTCGGCGCGGCATGTAGGCTCCCGGAGc                           <  3:203884/149‑1 (MQ=255)
                                                                                                                        ctctGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCGGCATGTAGCGTTTGAAAAGTCGGCGCGGCATGTAGGCTCCCGGAGCg                          >  6:290584/1‑149 (MQ=255)
                                                                                                                              ccACCGAATGGAGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTACCGAATGCTGGTCGGGTCCGGCATGTAGCGTTTGAAAAGTCGGCGCGGCATGTAGGCTACCGGAGCGTTGAc                     >  7:244023/1‑148 (MQ=255)
                                                                                                                                aCCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCGGCATGTAGCGTTTGAAAAGTCGGCGCGGCATGTAGGCTCCCGGAGCGTTGACCCt                  >  1:253758/1‑149 (MQ=255)
                                                                                                                                aCCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCGGCATGTAGCGTTTGAAAAGTCGGCGCGGCATGTAGGCTCCCGGAGCGTTGACCCt                  >  3:80986/1‑149 (MQ=255)
                                                                                                                                     aTGGCGTTTGAGGTGCCATAGGTTGTGATCGTGCTGCAACTTGCCGATAAAGGGT‑AAGGATTTGTGTTCCCTAATGCTGGTCGGGTCCGGCATGTAGCGTTTGAAAAGTCGGCGCGGCATGTAGGCTCCCGGAGCGTTGACCCTGGCa              <  7:322902/148‑1 (MQ=255)
                                                                                                                                                ggTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCGGCATGTAGCGTTTGAAAAGTCGGCGCGGCATGTAGGCTCCCGGAGCGTTGACCCTGGCAGTATGCCCTTaa  >  2:98344/1‑149 (MQ=255)
                                                                                                                                                 gTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGTGAAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCGGCATGTAGCGTTTGAAAAGTCGGCGCGGCATGTAGGCTCCCGGAGCGTTGACCCTGGCAGTATGCCCTTaa  >  1:70049/1‑149 (MQ=255)
                                                                                                                                                  tGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCGGCATGTAGCGTTTGAAAAGTCGGCGCGGCATGTAGGCTCCCGGAGCGTTGACCCTGGCa              >  3:221781/1‑135 (MQ=255)
                                                                                                                                                  tGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCGGCATGTAGCGTTTGAAAAGTCGGCGCGGCATGTAGGCTCCCGGAGCGTTGACCCTGGCa              <  4:221781/135‑1 (MQ=255)
                                                                                                                                                  |                                                                                                                                                   
TCAGCCACACCAGGCTGACGGCGACCGGCAGGTTGCCGCGCACCGGGATCGCCAGGGCCGCCGCCAGCAGCATCTGCATCGGGATGGGAATAAGCGCCGCGAACAGGCCCACACCCATGGCTCTGGCCACCGAATGGCGGTTCAGGTGCCAGAGGTTGGGATCGTGCAGCAACTTGCCGAAAAAGCGT‑AAGGATTTGTGTTCCCGAATGCTGGTCGGGTCCGGCATGTAGCGTTTGAAAAGTCGGCGCGGCATGTAGGCTCCCGGAGCGTTGACCCTGGCAGTATGCCCTTAA  >  NC_002947/2139870‑2140162

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: ‑