Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 3,250,727 T→C 8.9% F56L (TTT→CTT)  yqjF → putative quinol oxidase subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,250,7270TC 8.9% 129.2 / 2.4 44F56L (TTT→CTT) yqjFputative quinol oxidase subunit
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 = 9.30e-01

TGGTGTACTGGTAGCGCGCATTTTAATGCCGATTCTGTTTATTACCGCTGGCTGGGGAAAAATTACTGGCTACGCGGGTACCCAACAATATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTCACAGCAACTTTGCTGAAGGCGTCAACTCGCTGATGTTCATGAAAAACCTGA  >  NC_000913/3250582‑3250871
                                                                                                                                                 |                                                                                                                                                
tGGTGTACTGGTAGCGCGCATTTTAATGCCGATTCTGTTTATTACCGCTGGCTGGGGAAAGATTACTGGCTACGCGGGTACCCAACAATATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGttt                                                                                                                                                <  4:379603/148‑1 (MQ=255)
tGGTGTACTGGTAGCGCGCATTTTAATGCCGATTCTGTTTATTACCGCTGGCTGGGGAAAAATTACTGGCTACGCGGGTACCCAACAATATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGttt                                                                                                                                                >  3:273817/1‑148 (MQ=255)
     tACTGGTAGCGCGCATTTTAATGCCGATTCTGTTTATTACCGCTGGCTGGGGAAAAATTACTGGCTACGCGGGTACCCAACAATATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTtggtggt                                                                                                                                          >  2:317136/1‑149 (MQ=255)
               gcgcATTTTAATGCCGATTCTGTTTATTACCGCTGGCTGGGGAAAAATTACTGGCTACGCGGGTACCCAACAATATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCa                                                                                                                                 <  3:368567/148‑1 (MQ=255)
                           gCCGATTCTGTTTATTACCGCTGGCTGGGGAAAAATTACTGGCTACGCGGGTACCCAACAATATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGtt                                                                                                                    >  2:298690/1‑149 (MQ=255)
                             cGATTCTGTTTATTACCGCTGGCTGGGGAAAAATTACTGGCTACGCGGGTACCCAACAATATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTc                                                                                                                  >  1:254691/1‑149 (MQ=255)
                                 tCTGTTTATTACCGCTGGCTGGGGAAAAATTACTGGCTACGCGGGTACCCAACAATATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTg                                                                                                               <  3:89042/148‑1 (MQ=255)
                                      ttattaCCGCTGGCTGGGGAAAAATTACTGGCTACGCGGGTACCCAACAATATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGCTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCg                                                                                                          >  3:69116/1‑148 (MQ=255)
                                                           aaaTTACTGGCTACGCGGGTACCCAACAATATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCg                                                                                    >  1:179417/1‑149 (MQ=255)
                                                             aTTACTGGCTACGCGGGTACCCAACAATATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGCTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCgg                                                                                   >  4:266853/1‑148 (MQ=255)
                                                              ttACTGGCTACGCGGGTACCCAACAATATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCggg                                                                                  <  4:289671/148‑1 (MQ=255)
                                                                   ggCTACGCGGGTACCCAACAATATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTa                                                                             >  4:59821/1‑148 (MQ=255)
                                                                    gCTACGCGGGTACCCAACAATATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTAc                                                                            >  4:10616/1‑148 (MQ=255)
                                                                         gcgGGTACCCAACAATATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACgctgc                                                                       <  4:275780/148‑1 (MQ=255)
                                                                             gTACCCAACAATATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACg                                                                  >  1:35290/1‑149 (MQ=255)
                                                                                 ccAACAATATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCa                                                               >  4:334429/1‑148 (MQ=255)
                                                                                 ccAACAATATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCAt                                                              >  1:237820/1‑149 (MQ=255)
                                                                                  caacaaTATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCAt                                                              >  3:4661/1‑148 (MQ=255)
                                                                                   aacaaTATATGGAAGCAATGGGCGTTCCGGGTTTTATGCTGCCACTGGTGGTTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCAttt                                                            >  1:76779/1‑149 (MQ=255)
                                                                                   aacaaTATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGTTGACGGCAtt                                                             <  3:349987/148‑1 (MQ=255)
                                                                                    acaaTATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCAttt                                                            >  4:40525/1‑148 (MQ=255)
                                                                                        tatatGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTAtt                                                       >  1:268111/1‑149 (MQ=255)
                                                                                           atGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTca                                                    >  1:347963/1‑149 (MQ=255)
                                                                                              gAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTcaca                                                  >  3:41525/1‑148 (MQ=255)
                                                                                                    aTGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTCACAGCAACtt                                           >  2:47176/1‑149 (MQ=255)
                                                                                                        gCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGCTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTCACGGCAACTTTGc                                        <  3:266853/148‑1 (MQ=255)
                                                                                                         cGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTCACAGCAACTTTGCt                                       <  3:226239/148‑1 (MQ=255)
                                                                                                           tCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTCACAGCAACTTTGCTGaa                                    >  2:34530/1‑149 (MQ=255)
                                                                                                            cccGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTCACAGCAACTTTGCTGAAg                                   <  1:298690/149‑1 (MQ=255)
                                                                                                              cGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGtt                                                                                           >  2:238321/1‑91 (MQ=255)
                                                                                                              cGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGtt                                                                                           <  1:238321/91‑1 (MQ=255)
                                                                                                              cGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTCACAGCAACTTTGCTGAAgg                                  <  4:4661/148‑1 (MQ=255)
                                                                                                                ggTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTCACAGCAACTTTGCTGAAGGCg                                >  4:176888/1‑148 (MQ=255)
                                                                                                                ggTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTCACAGCAACTTTGCTGAAGGCGt                               <  2:35290/149‑1 (MQ=255)
                                                                                                                 gTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTCACAGCAACTTTGCTGAAGGCGt                               <  4:41525/148‑1 (MQ=255)
                                                                                                                    ttATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTCACAGCAACTTTGCTGAAGGCGTCAAc                           <  2:268111/149‑1 (MQ=255)
                                                                                                                         ctgcCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTCACAGCAACTTTGCTGAAGGCGTCAACTCGc                       <  3:10616/148‑1 (MQ=255)
                                                                                                                         ctgcCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTCACAGCAACTTTGCTGAAGGCGTCAACTCGCt                      <  2:347963/149‑1 (MQ=255)
                                                                                                                                tGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTCACAGCAACTTTGCTGAAGGCGTCAACTCGCTGATGTTc               >  2:211095/1‑149 (MQ=255)
                                                                                                                                  gTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTCACAGCAACTTTGCTGAAGGCGTCAACTCGCTGATGTTCAt             >  1:223464/1‑149 (MQ=255)
                                                                                                                                     aTTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTCACAGCAACTTTGCTGAAGGCGTCAACTCGCTGATGTTCATGaa          <  2:169356/149‑1 (MQ=255)
                                                                                                                                       tCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTCACAGCAACTTTGCTGAAGGCGTCAACTCGCTGATGTTCATGaaa         >  3:170429/1‑148 (MQ=255)
                                                                                                                                             tGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTCACAGCAACTTTGCTGAAGGCGTCAACTCGCTGATGTTCATGAAAAACCTGa  <  2:179417/149‑1 (MQ=255)
                                                                                                                                             tGAGCTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTCACAGCAACTTTGCTGAAGGCGTCAACTCGCTGATGTTCATGAAAAACCTg   <  4:69116/148‑1 (MQ=255)
                                                                                                                                                gTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTca                                                    <  2:70499/96‑1 (MQ=255)
                                                                                                                                                gTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTca                                                    >  1:70499/1‑96 (MQ=255)
                                                                                                                                                 |                                                                                                                                                
TGGTGTACTGGTAGCGCGCATTTTAATGCCGATTCTGTTTATTACCGCTGGCTGGGGAAAAATTACTGGCTACGCGGGTACCCAACAATATATGGAAGCAATGGGCGTCCCGGGTTTTATGCTGCCACTGGTGATTCTGCTTGAGTTTGGTGGTGGTCTGGCAATCCTGTTCGGTTTCCTGACTCGCACCACAGCCCTGTTTACTGCGGGCTTTACGCTGCTGACGGCATTTTTATTTCACAGCAACTTTGCTGAAGGCGTCAACTCGCTGATGTTCATGAAAAACCTGA  >  NC_000913/3250582‑3250871

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑