Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 6,898 A→G L354L (CTT→CTC)  yaaJ ← putative transporter YaaJ

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009136,8980AG96.5% 82.5 / ‑6.1 30L354L (CTT→CTC) yaaJputative transporter YaaJ
Reads supporting (aligned to +/- strand):  ref base A (1/0);  new base G (19/9);  total (20/10)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01

CCACAGGCGAGAGCAGTAAAATGGCGGTCAAATTGGTAATAGCCATGCAGGCCATTATGATATCTGCCAGTTGCCACATCAGCGGAAGGCTTAGCAAGGTGCCGCCGATGACCGTTGCGAAGGTGCAGATCCGCAAACACCAGATCGCTTTAGGGTTG‑TTCAGGCGTAAAAAGAAGA‑GATTGTTTTCGGCATAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACAAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCAATCATCTGGACAATCCCTTGCGCTGCCGGATGCGGAGGCCAGGACGCCGCTGCCGCTGCCGCGTTTGGCGTCGAA  >  NC_000913/6660‑7132
                                                                                                                                                                                                                                                |                                                                                                                                                                                                                                           
ccACAGGCGAGAGCAGTAAAATGGCGGTCAAATTGGTAATAGCCATGCCGGCCATTATGATAACTGCCAGTTGCCACCTCAGCGGAAGACTTAGCCAGGTGCCGCCGATGACCGTTGCGAAGGTGCAGATCCGCAAACACCAGATCGCTTTAGGGTTG‑TTTAGGCGTAAAAAGAAGA‑GATTGTTTTCGGCGTAAATGTAGTTGTCAACGATGGAGCTGAAGGCAAACAGAATAACCACGAGGGTAAA‑AAAc                                                                                                                                                                                                                                >  2:119273/1‑251 (MQ=255)
                                  gggaaTAGCCATGCAGGCCATTATGATATCTGCCAGTTGCCACATCAGCGGAAGACTTAGCAAGGTGCCGCCGATGACCGTTGCGAAGGTGCAGATCCGCAAACACCAGATCGCTTTAGGGTTG‑TTCAGGCGTAAAAAGAAGA‑GATTGTTTTCGGCGTAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATc                                                                                                                                                                                               <  2:143890/247‑1 (MQ=255)
                                     aaTAGCCATGCAGGCCATTATGATATCTGCCAGTTGCCACATCAGCGGAAGACTTAGCAAGGTGCCGCCGATGACCGTTGCGAAGGTGCAGATCCGCAAACACCAGATCGCTTTAGGGTTG‑TTCAGGCGTAAAAAGAAGA‑GATTGTTTTCGGCGTAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCt                                                                                                                                                                                           <  2:341198/251‑1 (MQ=255)
                                         gCCATGCAGGCCATTATGATATCTGCCAGTTGCCACATCAGCGGAAGACTTAGCAAGGTGCCGCCGATGACCGTTGCGAAGGTGCAGATCCGCAAACACCAGATCGCTTTAGGGTTG‑TTCAGGCGTAAAAAGAAGA‑GATTGTTTTCGGCGTAAATGTAGTTAGCAACGATGGAGCTGAAGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCTTCTg                                                                                                                                                                                       <  1:47182/251‑1 (MQ=255)
                                               cAGGCCATTATGATATCTGCCAGTTGCCACATCAGCGGAAGACTTAGCAAGGTGCCGCCGATGACCGTTGCGAAGGTGCAGATCCGCAAACACCAGATCGCTTTAGGGTTG‑TTCAGGCGTAAAAAGAAGA‑GATTGTTTTCGGCGTAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCTTCTGGATa                                                                                                                                                                                   >  2:239314/1‑249 (MQ=255)
                                                                 gCCAGTTGCCACATTAGCGGAAGACTTAGCAAGGTGCCGCCGATGACCGTTGCGAAGGTGCAGATCCGCAAACACCAGATCGCTTTAGGGTTG‑TTCAGGCGTAAAAAGAAGA‑GATTGTTTGCGGCGTAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCgg                                                                                                                                                               <  2:134692/251‑1 (MQ=255)
                                                                     gTTGCCACATCAGCGGAAGACTTAGCAAGGTGCCGCCGATGACCGTTGCGAAGGTGCAGATCCGCAAACACCAGATCGCTTTAGGGTTG‑TTCAGGCGTAAAAAGAAGA‑GATTGTTTTCGGCGTAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATg                                                                                                                                                           >  1:70481/1‑251 (MQ=255)
                                                                         ccACATCAGCGGAAGACTTAGCAAGGTGCCGCCGATGACCGTTGCGAAGGTGCAGATCCGCAAACACCAGATCGCTTTAGGGTTG‑TTCAGGCGTAAAAAGAAGA‑GATTGTTTTCGGCGTAAATGTAGTTGGCAACGATGGAGCTGAAGGCAACCAGAATAACCACGAGGGAAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAgg                                                                                                                                                       >  2:152902/1‑251 (MQ=255)
                                                                           acaTCAGCGGAAGACTTAGCAAGGTGCCGCCGATGACCGTTGCGAAGGTGCAGATCCGCAAACACCAGATCGCTTTAGGGTTG‑TTCAGGCGTAAAAAGAAGA‑GATTGTTTTCGGCGTAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGtt                                                                                                                                                     <  1:239314/251‑1 (MQ=255)
                                                                           acaTCAGCGGAAGACTTAGCAAGGTGCCGCCGATGACCGTTGCGAAGGTGCAGATCCGCAAACACCAGATCGCTTTAGGGTTG‑TTCAGGCGTAAAAAGAAGA‑GATTGTTTTCGGCGTAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGtt                                                                                                                                                     >  1:239512/1‑251 (MQ=255)
                                                                                 gCGGAAGACTTAGCAAGGTGCCGCCGATGACCGTTGCGAAGGTGCAGATCCGCAAACACCAGATCGCTTTAGGGTTG‑TTCAGGCGTAAACAGAAGA‑GATTGTTTTCGGCGTAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCTTCTGGATAAGCTGAATACCTACCAGCGGCATGTAGGTTGTGCCg                                                                                                                                               >  2:10190/1‑251 (MQ=255)
                                                                                 gCGGAAGACTTAGCAAGGTGCCGCCGATGACCGTTGCGAAGGTGCAGATCCGCAAACACCAGATCGCTTTAGGGTTG‑TTCAGGCGTAAAAAGAAGA‑GATTGTTTTCGGCGTAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCg                                                                                                                                               <  1:181035/251‑1 (MQ=255)
                                                                                   ggAAGACTTAGCAAGGTGCCGCCGATGACCGTTGCGAAGGTGCAGATCCGCAAACACCAGATCGCTTTAGGGTTG‑TTCAGGCGTAAAAAGAAGA‑GATTGTTTTCGGCGTAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGtt                                                                                                                                             >  1:270644/1‑251 (MQ=255)
                                                                                      agacTTAGCAAGGTGCCGCCGATGACCGTTGCGAAGGGGCAGATCCGCAAACACCAGTTCGCTTTGGGGATG‑TTCAGGCGTAAAACGAAGA‑GATTGTTTTGGGCGTAGATGTAGTTGGCAACGATGAAGCTGAAGGCAAACAGAATAACCACAAGGGTACC‑AAACTCAGCACCCCCGGAACCCATTAACACCCGCATCACCTTCTGGATAAACTGAATAACTTCCAGCAACATGTAAGATATGCCGTTAcc                                                                                                                                          >  1:303297/4‑251 (MQ=255)
                                                                                       gacTTAGCAAGGTGCCGCCGATGACCGTTGCGAAGGTGCAGATCCGCAAACACCAGATCGCTTTAGGGTTG‑TTCAGGCGTAAAAAGAAGA‑GATTGTTTTCGGCGTAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTAccc                                                                                                                                         <  1:392950/249‑1 (MQ=255)
                                                                                                                               gATCCGCAATCACCAGATCGCTTTAGGGTTG‑TTCAGGCGTAAAAAGAAGA‑GATTGTTTTCGGCGTAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGAATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGGAGGTTGTGCCGTTACCCGCCAGTAATATCAGCAATGCGCTTGCCGTACAGATGAcc                                                                                                  >  2:346452/1‑250 (MQ=255)
                                                                                                                                 cccaaaaaCACCAGATCTCTTT‑GGGTTGGTTAGGGCG‑AAAAAAAAGAAGATGTTTTTCGGCGAAAATGTATTGGGCACCGATGGGGCAGAAGGAAAAAAAAAAAACCAGGAGGGAAAC‑AAACTCAGCCCCCAAGGACCCAATAAACCCCCGCATCCCCTTCTGGATAAGCTAAATCCCTCCCAGCGGCTTGTAGGTTGTGCCGTCCCCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAgg                                                                                               <  2:270644/246‑1 (MQ=255)
                                                                                                                                         cccaagaccgttttgggtttg‑ttAAGGCGAAAAAAGAAGA‑GTTTGTTTGCGGGGAAAATGTAGTTGGAAACGAGGGAGCGGAAGGAAAACAAAAAAACCAGGAGGGAAAC‑AACCTCAGCCCCCCAGGACCCAATAACCCCCCGCATCGCTTTCTGGAAAAGCTGAATCCCTCCCGGCGGAATGTAGGTGGGGCCGTTCCCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGAt                                                                                       <  1:223689/233‑1 (MQ=255)
                                                                                                                                                 cGCTTTAGGGTTG‑TTCAGGCGTAAAAAGAAGA‑GATTGTTTTCGGCGTAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGGGTCGATAAAAATGc                                                                               >  2:143587/1‑251 (MQ=255)
                                                                                                                                                               ttCAGGCGTAAAAAGAAGA‑GATTGTTTTCGGCGTAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCAATCATCTGGAc                                                                  >  1:233136/1‑251 (MQ=255)
                                                                                                                                                                        aaaaaGAAGA‑GATTGTTTTCGGCGTAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCAAACATCTGGACAATCCCTTg                                                         >  2:295091/1‑251 (MQ=255)
                                                                                                                                                                          aaaGAAGA‑GATTGTTTTCGGCGTAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCAATCATCTGGACAATCCCTTgcc                                                       >  2:84996/1‑250 (MQ=255)
                                                                                                                                                                             gaaga‑GATTGTTTTCGGCGTAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGCACCCATAAACACCCGCATCGCCTTCTGGATAAGCTGCATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGCCAGTAATATCAGCCTGGCGCtt                                                                                                                 >  2:35622/1‑190 (MQ=255)
                                                                                                                                                                                 gagttgtttttCGGCGAAAATTTAGTTGTAAACGAGGGAGCGGAAGGCAAACAAAAAAACC‑CCGGGGTAACCAACCCCACCCCCCCAGAACCCCATAACCCCCCGCATCCCCTTCGGAATAAGCTAAATCCCTCCCAGGGTCATGTGGGTTGTCCCTTTCCCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCAATCATCTGGACAATCCCTTGCGCTGCCg                                                 <  1:119273/244‑1 (MQ=255)
                                                                                                                                                                                        ttttCGGCGTAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGCGCCGTTACCCGCAAGCAATATCAACATGGCGCTTGCCGTACAGATGAACAGGGTGTCGATAAAAATGCCAATCATCTGGACAATCCCTTGCGCTGCCGGATGCgg                                          >  1:311649/1‑251 (MQ=255)
                                                                                                                                                                                                gtAAATGTAGTTGGCAACGATGGAGCTGAGGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCACCAGTAATATCAGCATGTCGCTTGCCGTACAGATGACCCGGGTGACGATAAAAATGCCAATCATCTGGACAATCCCTTGCGCTGCAGGATGCgagggacagg                                  >  2:128903/2‑242 (MQ=255)
                                                                                                                                                                                                    aTGTAGTTGGCCAAGATGGAGCTGAAGGAAAACAGCATACCCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCAAGCGGCATGTAGGTTGTGCCGTTACCCACCAGTAATATCAACATGGCGCTTGCCGAACAGTTGACCAGGGAGTCGATAAAAAAGCCAATCATCCGGACTATCCCTTGCACTGGCGGATGCGGCGGcccagcagc                              >  2:239638/1‑244 (MQ=255)
                                                                                                                                                                                                                       aGCTGAAGGCAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCAATCATCTGGACAATCCCTTGCGCTGCCGGATGCGGAGGCCAGGACGCCGCTGCCGCTGCCGCGttt           >  1:237657/1‑251 (MQ=255)
                                                                                                                                                                                                                                cAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTACCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCAATCATCTGGACACTCCCTTGCGCTGCCGGATGCGGAGGCCAGGACGCCGCTGCCGCTGCCGCGTTTGGCGTCGac  >  1:51707/1‑250 (MQ=255)
                                                                                                                                                                                                                                cAAACAGAATAACCACGAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAACACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCAATCATCTGGACAAACCCTTGCGCTGCCGGGTGCGGAGGCCAGGACGCCGCTGCCGCTGCCGCGTTTGGCGTCgcc  >  1:481707/1‑249 (MQ=255)
                                                                                                                                                                                                                                                |                                                                                                                                                                                                                                           
CCACAGGCGAGAGCAGTAAAATGGCGGTCAAATTGGTAATAGCCATGCAGGCCATTATGATATCTGCCAGTTGCCACATCAGCGGAAGGCTTAGCAAGGTGCCGCCGATGACCGTTGCGAAGGTGCAGATCCGCAAACACCAGATCGCTTTAGGGTTG‑TTCAGGCGTAAAAAGAAGA‑GATTGTTTTCGGCATAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACAAGGGTAAC‑AAACTCAGCACCCCAGGAACCCATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCAATCATCTGGACAATCCCTTGCGCTGCCGGATGCGGAGGCCAGGACGCCGCTGCCGCTGCCGCGTTTGGCGTCGAA  >  NC_000913/6660‑7132

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑