Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,004,064 T→C I575V (ATC→GTC)  ygeV ← putative sigma(54)‑dependent transcriptional regulator YgeV

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,004,0640TC94.1% 102.9 / ‑2.1 35I575V (ATC→GTC) ygeVputative sigma(54)‑dependent transcriptional regulator YgeV
Reads supporting (aligned to +/- strand):  ref base T (1/1);  new base C (25/7);  total (27/8)
Fisher's exact test for biased strand distribution p-value = 4.21e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.43e-01

AAATACAGTTCTGGATTGCGAGAAAACGAAGTAAAAGGATATCCGGCCTGAATTCAGGCCGGATTCACTGAGGTTATGTGTTTAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGATGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTGCTTTTCCATCTCCTCCAGCGCCGTGCCGCCCGCATCATCGAGTGACAGGTGCGCCTCACTGACCT  >  NC_000913/3003935‑3004192
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aaaTACAGTTCTGGATTGCGAGAAAACGAAGTAAAAGGATATCCGGCCTGAATTCAGGCCGGATTCACTGAGGTTATGTGTTTAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGATGcc                                                                                                                               <  2:44701/133‑1 (MQ=255)
      aGTTCTGGATTGCGAGAAAACGAAGTAAAAGGATATCCGGCCTGAATTCAGGCCGGATTCACTGAGGTTATGTGTTTAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTtc                                                                                                                         >  2:445010/1‑133 (MQ=255)
       gTTCTGGATTGCGAGAAAACGAAGTAAAAGGATATCCGGCCTGAATTCAGGCCGGATTCACTGAGGTTATGTGTTTAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTtca                                                                                                                        >  1:313836/1‑133 (MQ=255)
        ttCTGGATTGCGAGAAAACGAAGTAAAAGGATATCCGGCCTGAATTCAGGCCGGATTCACTGAGGTTATGTGTTTAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTtcat                                                                                                                       >  1:406844/1‑133 (MQ=255)
           tGGATTGCGAGAAAACGAAGTAAAAGGATATCCGGCCTGAATTCAGGCCGGATTCACTGAGGTTATGTGTTTAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAg                                                                                                                    >  1:272064/1‑133 (MQ=255)
                tGCGAGAAAACGAAGTAAAAGGATATCCGGCCTGAATTCAGGCCGGATTCACTGAGGTTATGTGTTTAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAAc                                                                                                                <  2:454507/132‑1 (MQ=255)
                tGCGAGAAAACGAAGTAAAAGGATATCCGGCCTGAATTCAGGCCGGATTCACTGAGGTTATGTGTTTAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAAc                                                                                                                >  1:454507/1‑132 (MQ=255)
                  cGAGAAAACGAAGTAAAAGGATATCCGGCCTGAATTCAGGCCGGATTCACTGAGGTTATGTGTTTAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTg                                                                                                             >  1:329045/1‑133 (MQ=255)
                  cGAGAAAACGAAGTAAAAGGATATCCGGCCTGAATTCAGGCCGGATTCACTGAGGTTATGTGTTTAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTg                                                                                                             >  1:90017/1‑133 (MQ=255)
                  cGAGAAAACGAAGTAAAAGGATATCCGGCCTGAATTCAGGCCGGATTCACTGAGGTTATGTGTTTAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTg                                                                                                             >  2:24838/1‑133 (MQ=255)
                       aaaCGAAGTAAAAGGATATCCGGCCTGAATTCAGGCCGGATTCACTGAGGTTATGTGTTTAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGcttct                                                                                                        <  1:24838/133‑1 (MQ=255)
                                        atCCGGCCTGAATTCAGGCCGGATTCACTGAGGCTATGTGTTTAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGAAGCCCAGTTCATCAGCAACTTGCTTGTTCCTGTTAAGACgaaag                                                                                       >  1:224506/1‑129 (MQ=255)
                                         tCCGGCCTGAATTCAGGCCGGATTCACTGAGGTTATGTGTTTAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGaaa                                                                                      >  1:385397/1‑133 (MQ=255)
                                         tCCGGCCTGAATTCAGGCCGGATTCACTGAGGTTATGTGTTTAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGaaa                                                                                      >  1:492303/1‑133 (MQ=255)
                                         tCCGGCCTGAATTCAGGCCGGATTCACTGAGGTTATGTGTTTAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGaaa                                                                                      >  2:63360/1‑133 (MQ=255)
                                                 gAATTCAGGCCGGATTCACTGAGGTTATGTGTTTAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTcg                                                                              >  2:92706/1‑133 (MQ=255)
                                                            ggATTCACTGAGGTTATGTGTTTAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTg                                                                   >  2:290662/1‑133 (MQ=255)
                                                                                tttAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTGCTTTTCCATCTCCTCCAgcg                                               >  1:267944/1‑133 (MQ=255)
                                                                                  tAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTGCTTTTCCATCTCCTCCAGCGcc                                             >  1:329354/1‑133 (MQ=255)
                                                                                     caacTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTGCTTTTCCATCTCCTCCAGCGCCGTg                                          <  1:115978/133‑1 (MQ=255)
                                                                                            tatTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTGCTTTTCCATCTCCTCCAGCGCCGTGccgcccg                                   <  2:311851/133‑1 (MQ=255)
                                                                                                  ttAATCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTGCTTTTCCATCTCCTCCAGCGCCGTGCCGCCCGcatcat                             >  2:420759/1‑133 (MQ=255)
                                                                                                     aTCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTGCTTTTCCATCTCCTCCAGCGCCGTGCCGCCCGCATCATCGa                          >  2:487602/1‑133 (MQ=255)
                                                                                                      tCTTGCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTGCTTTTCCATCTCCTCCAGCGCCGTGCCGCCCGCATCATCGAg                         >  1:484098/1‑133 (MQ=255)
                                                                                                          gCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTGCTTTTCCATCTCCTCCAGCGCCGTGCCGCCCGCATCATCGAGTGAc                     >  2:315296/1‑133 (MQ=255)
                                                                                                          gCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTGCTTTTCCATCTCCTCCAGCGCCGTGCCGCCCGCATCATCGAGTGAc                     >  2:33523/1‑133 (MQ=255)
                                                                                                          gCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTGCTTTTCCATCTCCTCAAGCGCCGGGCCACCAGCATCACCGAGTGAc                     >  1:249798/1‑133 (MQ=255)
                                                                                                          gCGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTGCTTTTCCATCTCCCCCAGCGCCGTGCCGCCCGCATCATCGAGTGAc                     >  2:224909/1‑133 (MQ=255)
                                                                                                           cGATAGAGCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTGCTTTTCCATCTCCTCCAGCGCCGTGCCGCCCGCATCATCGAGTGACa                    >  1:213582/1‑133 (MQ=255)
                                                                                                                 agCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTGCTTTTCCATCTCCTCCAGCGCCGTGCCGCCCGCATCATCGAGTGACAGGTgcg              <  2:492303/133‑1 (MQ=255)
                                                                                                                 agCGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTGCTTTTCCATCTCCTCCAGCGCCGTGCCGCCCGCATCATCGAGTGACAGGTgcg              <  1:445010/133‑1 (MQ=255)
                                                                                                                   cGTAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTGCTTTTCCATCTCCTCCAGCGCCGTGCCGCCCGCATCATCGAGTGACAGGTGCGcc            >  2:13030/1‑133 (MQ=255)
                                                                                                                     tAGCAATGCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTGCTTTTCCATCTCCTCCAGCGCCGTGCCGCCCGCATCATCGAGTGACAGGTGCGCCTc          >  2:168859/1‑133 (MQ=255)
                                                                                                                            gCCGACGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTGCTTTTCCATCTCCTCCAGCGCCGTGCCGCCCGCATCATCGAGTGACAGGTGCGCCTCACTGAcc   <  2:272064/133‑1 (MQ=255)
                                                                                                                             ccGATGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTGCTTTTCCATCTCCTCCAGCGCCGTGCCGCCCGGATCGTCGTGTGACAGGTGCGCTTCACTGACct  >  2:210530/1‑133 (MQ=255)
                                                                                                                                 |                                                                                                                                
AAATACAGTTCTGGATTGCGAGAAAACGAAGTAAAAGGATATCCGGCCTGAATTCAGGCCGGATTCACTGAGGTTATGTGTTTAACAACTCATATTTCTTAATCTTGCGATAGAGCGTAGCAATGCCGATGCCCAGTTCATCAGCAACTTGCTTCTTGCTGTTATGACGTGAAAGCGCCTCGCGGATCATTTGCTTTTCCATCTCCTCCAGCGCCGTGCCGCCCGCATCATCGAGTGACAGGTGCGCCTCACTGACCT  >  NC_000913/3003935‑3004192

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑