Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,623,656 T→C L154L (CTA→CTG)  lplA ← lipoate‑‑protein ligase A

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,623,6560TC87.1% 67.7 / 3.2 31L154L (CTA→CTG) lplAlipoate‑‑protein ligase A
Reads supporting (aligned to +/- strand):  ref base T (4/0);  new base C (17/10);  total (21/10)
Fisher's exact test for biased strand distribution p-value = 2.77e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.26e-01

CGGCGAAGTTTGGCAAGTCTGGCGTTTTGTTCGGGGAGATGATTTCCGCTTCCACGCGCTCGCCATAATGGGCGAAAAAGGCCTCGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAACAGCTCGGTGAGGTTGGTCACGCGGGAACGTACCGACGTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTGAGGTCGGCATTGAGTAGCAAGGTGCCGTGGTG‑GAAGCCGCGATCTTTGGTTTCGCGATAGGCCGAGCCTGAGACTTTGCGGTCGCCTTCGACGGTTTTCACCACCAGATCGTTACGTCCGGACGCTTCGGCGCTGACGCCGAGCGCGTTCAGCGCATTGAGCACAATCGACGTGGAGATAGTTTTATCGTACTCCGGCTTGCCAGCCATAAAGGTAAAGCAGGTATTGCCGAGATCGTGGAACACCGCGCCGCCACC  >  NC_000913/4623418‑4623898
                                                                                                                                                                                                                                              |                                                                                                                                                                                                                                                   
cGGCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATAATGGGCGAAAAAGGCCTTGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGTTGGTCACGCGGGAACGCACTGAGGTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTAAGGTCGGCATTGAGCAGCAAGGTGCCg                                                                                                                                                                                                                                         >  1:94662/1‑251 (MQ=255)
  gCGAAGTTTGGCAAGTCTGGCGTTTTGTCCGGGGAGATGATTTCCGCTTCTACACGCTCGCCATAATGGGCGAAAAAGGCCTTGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGTTGGTCACGCGGGAACGCACTGAGGTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTCAGGTCGGCATTGAGCAGCAAGGTGCCgtg                                                                                                                                                                                                                                       >  1:55998/1‑251 (MQ=255)
                   tGGCGTTTTGTTCGGGGAGATGATTTCCGCTTCCACACGCTCGCCATAATGGGCGAAAAAGGCCTCGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAACAGCTCGGTGAGGTTGGTCACGCGGGAACGTACCGACGTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTGAGGTCGGCATTGAGTAGCAAGGTGCCGTGGTG‑GAAGCCGCGATCtt                                                                                                                                                                                                                     >  1:188561/1‑251 (MQ=255)
                                           ttCCGCTTCTCCCCGCTCGCCATAAGGGGCGAAAAAGGCCTGGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGGGAGGTTGGTCACGCGGGAACGCACTGAGGTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGACAGGCGGCTAAGGTCGGCATTGAGCAGCAAGGTGCCGTGGTG‑GAAGCCACGATCTTTGGTTTCGCGATAGGcctatcct                                                                                                                                                                                              <  2:130535/250‑7 (MQ=255)
                                                  tctacacgcTCGCCATAATGGGCGAAAAAGGCCTTGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGTTGGTCACGCGGGAACGCACTGAGGTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTAAGGTCGGCATTGAGCAGCAAGGTGCCGTGGTG‑GAAGCCACGATCttt                                                                                                                                                                                                                    >  1:313807/7‑221 (MQ=255)
                                                  tctacacgcTCGCCATAAGGGGCGAAAAAGGCCTTGGTTATGGCCGCGCAAACCTGCTCATGTGTGATCCCCGGCAGCAGCTCGGTTAGGTTGGTCACGCGGGAACGCACTGAGGTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTAAGGTCGGCATTGAGCAGCAAGGTGCCGTGGTG‑GAAGCCACGATCttt                                                                                                                                                                                                                    <  2:313807/215‑1 (MQ=255)
                                                         gcTCGCCATAATGGGCGAAAAAGGCCTTGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGTTGGTCACGCGGGAACGCACTGAGGTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTAAGGTCGGCATTGAGCAGCAAGGTGCCGTGGTG‑GAAGCCACGATCTTTGGTTTCGCGATAGGCCGATCCTGAGACTTTGCGGTCg                                                                                                                                                                               >  1:348907/1‑251 (MQ=255)
                                                                    ggggCGAAAAAGGCCTTGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGGTGGTCACGCGGGAACGCACTGATGTAATGCCTTGCGCCGCCAGTTGCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTAAGGTCGGCATTTAGCAGCAAGGTGCCGTGGTG‑GAATCCACGATCTTTGGTTTCGCGATAGGCCGATCCTGAGACTTTGCGGTCGCCTTCGGCGGt                                                                                                                                                                    <  1:36970/250‑1 (MQ=255)
                                                                           aaaaGGCCTTGGTTATGGCCACGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGTTGGTCCCGCGGGAACGCACTGAGGTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGAAAGGTTGCCAGGCGCCTAGGGTCGGCATTGAGCAGCAAGGTGCCGTGGTG‑GGAGCCCCGATCTTTGGATTCGCGATAGGCCGCTCCTGAGACTTAGCGTTCGCCTTCGGCGGgttttatc                                                                                                                                                             >  2:128382/1‑247 (MQ=255)
                                                                                gCCTTGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGTTGGTCACGCGGGAACGCACTGAGGTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTAAGGTCGGCATTGAGCAGCAAGGTGCCGTGGTG‑GAAGCCACGATCTTTGGTTTCGCGATAGGCCGATCCTGAGACTTTGCGGTCGCCTTCGGCGGTTTTGaccacc                                                                                                                                                          >  1:201457/1‑249 (MQ=255)
                                                                                                 gCAAACCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGTTGGTCACTCGGGAACGCACTGAGGTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTAAGGTCGGCATTGAGCAGCAAGGTGCCGTGGTG‑GAAGCCACGATCTTTGGTTTCGCGATAGGCCGATCCTGAGACTTTGCGGTCGCCTTCGGCGGTTTTTACCCCCCGATCGTTACGCCCGGa                                                                                                                                         >  1:124009/1‑249 (MQ=255)
                                                                                                   aaaCCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGTTGGTCACGCGGGAACGCACTGAGGTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTAAGGTCGGCATTGAGCAACAAGGTGCCGTGGTG‑GAAGCCACGATCTTTGGTTTCGCGATAGGCCGATCCTGAGCCTTTGCGGTCGCCTTCGGCGGTTTTCCCCACCAGATCGTATCGTCCGGCCGcc                                                                                                                                     >  2:9489/1‑250 (MQ=255)
                                                                                                    aaCCTGCTCATGGGTGATCCCCGGCAGCAGCTCGGTGAGGTTGGTCACGCGGGAACGCACTGAGGTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTAAGGTCGGCATTGAGCAGCAAGGTGCCGTGGTG‑GAAGCCACGATCTTTGGTTTCGCGATAGGCCGATCCTGAGACTTTGCGGTCGCCTTCGGCGGTTTTCACCACACGATCGTTACGCCCGGACGCtt                                                                                                                                    >  1:5892/1‑251 (MQ=255)
                                                                                                            cATGGGTGATCCCCGGCAGCAGATCGGAGAGGTTGGTCACGCGGGAACGCACTGAGGTACTGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTAAGGTCGGCATTGAGCAGCAAGGTGACGTGGTG‑GAAGCCACGATCTTTGGTTTCGCGATAGGCCGATCCTGAGACTTTGCGGTCGCCTTCGGCGGTTTTTCCCACCAGATCGTTGCGCCCGGACGCTTCCGCGCTg                                                                                                                            >  2:191468/1‑251 (MQ=255)
                                                                                                            cATGGGTGATCCCCGGCAACAGCTCGGTGAGGTTGGTCACGCGGGAACGTACCGACGTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTGAGGTCGGCATTGAGTAGCAAGGTGCTGTGGTG‑GAAGCCGCGATCTTTGGTTTCGCGATAGGCCGAGCCTGAGACTTTGCGGTCGCCTTCGACGGTTTTCACCACCAGATCGTTACGTCCGGACGCTTCGGCGCTg                                                                                                                            >  1:72714/1‑251 (MQ=255)
                                                                                                                        ccGGCAGCAGCTCTGTGAGGTTGGTCACGCGTGCACGGACTGAGGTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGAGATGTTGCCAGGCGGCTAAGGTCGGCATTGAGCAGCAAGGTGCCGTGGTG‑GACGCCACGATCTTTGGTTTCGCGATAGGCCGATCCTGAGACGTTGCGGTCGCCTTCGGCGGTTGTCACCACCAGATCGTTACGCCCGGACGCTTCGGCGTTGACGCCAAGcgcg                                                                                                                <  2:205750/251‑1 (MQ=255)
                                                                                                                                                 cACGCGGGAACGCACTGAGGTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTAAGGTCGGCATTGAGCAGCAAGGTGCCGTGGTG‑GAAGCCACGATCTTTGGTTTCGCGATAGGCCGATCCTGAGACTTTGCGGTCGCCTTCGGCGGTTTTCACCACCAGATCGTTACGCCCGGACGCTTCGGCGCTGACGCCAAGCGCGTTCAGCGCATTGAGCACAATCGACg                                                                                       <  1:363643/251‑1 (MQ=255)
                                                                                                                                                         aacgcactgaggTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTAAGGTCGGCATTGAGCAGCAAGGTGCCGTGGTG‑GAAGCCACGATCTTTGGTTTCGCGATAGGCCGATCCTGAGACTTTGCGGTCGCCTTCGGCGGTTTTCAACCCCAGAACGTTACGCCCGGGCGCTTCGGCGCTTGCGCCAAGAGCGGTCAGCGCATTGAGCACCATCGGCGttgaagtg                                                                               >  1:270265/12‑244 (MQ=255)
                                                                                                                                                              actgaggTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTAAGGTCGGCATTGAGCAGCAAGGTGCCGTGGTG‑GAAGCCACGATCTTTGGTTTCGCGATAGGCCGATCCTGAGACTTTGCGGTCGCCTTCGGCGGTTTTCACCACCAGATCGTTACGCCCGGACGCTTCGGCGCTGACGCCAAGCGCGTTCAGCGCATTGAGCACAATCGACGTGGAGATGGtttt                                                                          <  1:97883/245‑1 (MQ=255)
                                                                                                                                                              aCCGACGTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTGAGGTCGGCATTGAGTAGCAAGGTGCCGTGGTG‑GAAGCCGCGATCTTTGGTTTCGCGATAGGCCGAGCCTGAGACTTTGCGGACGCCTTCGACGGTTTTCACCACCAGCTCGTTACGTCAGGACGCTTCGGCGCTGACGCCGAGCGCGTTCAGCGCATTTAGCCAAATCGACGAGGAGATAGtttt                                                                          >  2:162065/1‑251 (MQ=255)
                                                                                                                                                                tggggTAATGCCTTTCTCCTCCAGGTGCTTTTTATCCGGATTGCGATAGTTTGCCCGGCTGCTAAGGTCGGCATTGAGCATACAGGTGCCGTGGTG‑GAAGCCACGATCTTTGGTTTCGCGATAGGCCGTTCCTGAGACTTTGCGGTCGCCTTCGGCGGTTTTCACCACCAGATCGTTACGCCCGGACGCTTCGGCGCTGACGCCAAGCGCGTTCAGCGCATTGAGCACAATCGACGTTGAGATGGtttt                                                                          <  2:226441/245‑1 (MQ=255)
                                                                                                                                                                tgaggTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTAAGGTCGGCATTGAGCAGCAAGGTGCCGTGGTG‑GAAGCCACGATCTTTGGTTTCGCGATAGGCCGATCCTGAGACTTTGCGGTCGCCTTCGGCGGTTTTCACCACCAGATCGTTACGCCCGGCCGCTTCGGCGCTGACGCCAAGCGCGGTCAGCGCATTGAGCACAATCGACGTGGAGAtgggttttt                                                                        >  1:27255/5‑243 (MQ=255)
                                                                                                                                                                                    ccAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTAAGGTCGGCATTGAGCAGCAAGGTGCCGTGGTG‑GAAGCCACGATCTTTGGTTTCGCGATAGGCCGATCCTGAGACTTTGCGGTCGCCTTCGGCGGTTTTCACCACCAGATCGTTACGCCCGGACGCTTCGGCGCTGACGCCAAGCGCGTTCAGCGCATTGAGCACAATCGACGTGGAGATGGTTTTATCGTACTCCGGCTTgccagcc                                                    >  1:39410/1‑251 (MQ=255)
                                                                                                                                                                                      aGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTGAGGTCGGCATTGAGTAGCAAGGTGCCGTGGTG‑GAAGCCGCGATCTTTGGTTTCGCGATAGGCCGAGCCTGAGACTTTGCGGTCGCCTTCGACGGTTTTCACCACCAGATCGTTACGTCCGGACGCTTCGGCGCTGACGCCGAGCACGTTCAGCGCATTGAGCACAATCGCCGTGGAGATAGCTTTATCGTACTCCGGCTTgccagccc                                                   >  2:141610/1‑249 (MQ=255)
                                                                                                                                                                                                     ggATTGAGATAGTTTGCCAGGCGGCTAAGGTCGGCATTGAGCAGCAAGGTGCCGTGGTG‑GAAGCCACGATCTTTGGTTTCGCGATAGGCCGATCCTGAGACTTTGCGGTCGCCTTCGGCGGTTTTCACCACCAGATCGTTACGCCCGGACGCTTCGGCGCTGACGCCAAGCGCGTTCAGCGCATTTAGCACCATCGACGTGGAGATGGGTTTATCGTACTCCGGCTTGCCAGCCATAAAGGTAAAGCAggg                                   >  1:113825/1‑250 (MQ=255)
                                                                                                                                                                                                                  ttGCCAGGCGGCTAAGGTCGGCATTGAGCAGCAAGGTGCCGTGGTG‑GAAGCCACGATCTTTGGTTTCGCGATAGGCCGATCCTGAGACTTTGCGGTCGCCTTCGGCGGTTTTCACCACCAGATCGTTACGCCCGGACGCTTCGGCGCTGACGCCAAGCGCGTTCAGCGCATTGAGCACAATCGACGTGGAGATGGTTTTTTCGTACTCCGGCTTGCCAGCCATAAAGGTAAAGCAGGTATTGccc                            >  1:25167/1‑244 (MQ=255)
                                                                                                                                                                                                                    gCCAGGCGGCTAAGGTCGGCATTGAGCAGCAAGGTGCCGTGGTG‑GAAGCCACGATCTTTGGTTTCGCGATAGGCCGATCCTGAGACTTTGCGGTCGCCTTCGGCGGTTTTCACCACCAGATCGTTACGCCCGGACGCTTCGTCGCTGACGCCAAGCGCGTTCAGCGCATTGAGCACAATCGACGTGGAGATGGTTTTATCGTAATCCGGCTTGCCAGACATAAAGGTAAAGCAGGTATTTCCGAGATCGt                     <  1:90585/250‑1 (MQ=255)
                                                                                                                                                                                                                               aaGGTCGGCATTGAGCAGCAAGGTGCCGTGGTG‑GAAGCCACGATCTTTGGTTTCGCGATAGGCCGATCCTGAGACTTTGCGGTCGCCTTCGGCGGTTTTCACCACCAGATCGTTACGCCCGGACGCTTCGGCGCTGACGCCAAGCGCGTTCAGCGCATTGAGCACAATCGACGTGGAGATGGTTTTATCGTACTCCGGCTTGCCAGCCATAAAGGTAAAGCAGGTATTGCCGAGATCGTGGAACAcc             <  1:273479/246‑1 (MQ=255)
                                                                                                                                                                                                                               aaGGTCGGCATTGAGCAGCAAGGTGCCGTGGTG‑GAAGCCACGATCTTTGGTTTCGCGATAGGCCGATCCTGAGACTTTGCGGTCGCCTTCGGCGGTTTTCACCACCAGATCGTTACGCCCGGACGCTTCGGCGCTGACGCCAAGCGCGCTTAGGGCCTTGAGCACAAACGCCGTGGAGATGGGTTTATCGTACTCCGGCTTGCCAGCCATAAAGGTAAAACACGTATTGCCggagtcgtggaccaacagct         >  2:273479/2‑232 (MQ=255)
                                                                                                                                                                                                                                     ggCATTGAGCAGCAAGGTGCCGTGGTG‑GAAGCCACGATCTTTGGTTTCGCGATAGGCCGATCCTGAGACTTTGCGGTCGCCTTCGGCGCTTTTCACCACCAGATCGTTACGCCCGGACGCTTCCGCGCTGACGCCAAGCGCGTTCAGCGCCTTCAGAACCATCGACGTGGAGATGGTTTTATCGTACTCCGGCTTTCCAGCCATAAAGGTAAAGCAGGTATTGCCGAGATCGTGGAACAACGCGCCGCCAc   >  1:381936/1‑251 (MQ=255)
                                                                                                                                                                                                                                      gaaTTGAGCACCAAGGTGGCG‑GGTGTGAAGCCACGTTATTTGGTTTCGCGATAGGCCTATCCTGAGACTTTGCGGTCGCCGTCGGCGGTTTTCACCACCAGATCGTTACGCCCGGACTCTTCGGCGCGTACGACAAGCGCGTTCAGCGCATTGAGCACAATCGACGTGGAGATGGTTTTATCGTATTCTGTCTTGCCAGCCATAAAGGTAAAGCAGGTATTGCCGTGATCGTGGAACACCCCGCCGCCAcc  <  2:251072/249‑1 (MQ=255)
                                                                                                                                                                                                                                              |                                                                                                                                                                                                                                                   
CGGCGAAGTTTGGCAAGTCTGGCGTTTTGTTCGGGGAGATGATTTCCGCTTCCACGCGCTCGCCATAATGGGCGAAAAAGGCCTCGGTTATGGCCTCGCAAACCTGCTCATGGGTGATCCCCGGCAACAGCTCGGTGAGGTTGGTCACGCGGGAACGTACCGACGTAATGCCTTTCGCCGCCAGTTTCTTTTTATCCGGATTGAGATAGTTTGCCAGGCGGCTGAGGTCGGCATTGAGTAGCAAGGTGCCGTGGTG‑GAAGCCGCGATCTTTGGTTTCGCGATAGGCCGAGCCTGAGACTTTGCGGTCGCCTTCGACGGTTTTCACCACCAGATCGTTACGTCCGGACGCTTCGGCGCTGACGCCGAGCGCGTTCAGCGCATTGAGCACAATCGACGTGGAGATAGTTTTATCGTACTCCGGCTTGCCAGCCATAAAGGTAAAGCAGGTATTGCCGAGATCGTGGAACACCGCGCCGCCACC  >  NC_000913/4623418‑4623898

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑