Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092734,086,4990CA54.5% ‑0.9 / 11.6 11V100V (GTG→GTT) rhaML‑rhamnose mutarotase
Reads supporting (aligned to +/- strand):  ref base C (1/4);  new base A (6/0);  total (7/4)
Fisher's exact test for biased strand distribution p-value = 1.52e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.05e-02
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

TTTAATTTTTCAAATCGAAATTTAAAATATTGTGCCGGAGGCATCTCTGGCACATTGGGCAATTACGGCAGGTAAAACACTTCTTGCAGCTCGCTACTCACCGGGCTGTTATCCGGGTTAGCGGGCATAACATCGGTCATATATTTCCACCA  >  NZ_CP009273/4086422‑4086573
                                                                             |                                                                          
tttAATTTTTCAGATCGAAATTTAAAATATTGTGCCGGAGGCATCTCTGGCACATTGGGCAATTACGGCAGGGAAAAAACATCTTTCAGc                                                                >  2:117107/1‑90 (MQ=255)
tttAATTTTTCAAATCGAAATTTAAAATATTGTGCCGGAGGCATCTCTGGCACATTGGGCAATTACGGCAGGGAAAAAAATTTTTTCAGc                                                                >  2:3134/1‑90 (MQ=255)
      ttttCAGATCGAAATTTAAAATATTGTGCCGGAGGCATCTCTGGCACATTGGGCAATTACGGCAGGTAAAACACTTCTTGCAGCTCGCTa                                                          <  1:117107/90‑1 (MQ=255)
      ttttCAAATCGAAATTTAAAATATTGTGCCGGAGGCATCTCTGGCACATTGGGCAATTACGGCAGGTAAAACACTTCTTGCAGCTCGCTa                                                          <  1:3134/90‑1 (MQ=255)
                                         cATCTCTGGCACATTGGGCAATTACGGCAGGGGAAAAAATTCTTTCAGCTCCCTACTCACCCGGGCGTTTTTCGGGGTTGCGGGGATaaa                       >  2:170095/1‑89 (MQ=255)
                                                      ttGGGCAATTACGGCAGGGAAAAAACTTCTTTCAGCTCGCTACTCCCCCGGCTGTTTTTCGGGGTAGGGGGGATAACATCGGGCatatat          >  2:250803/1‑90 (MQ=255)
                                                      ttGGGCAATTACGGCAGGGAAAAAACTTCTTGCAGCTCGCTACTCACCCGGCTGTTTTCCGGGGTTGCGGGGATAACAACGGTCatatat          >  2:96358/1‑90 (MQ=255)
                                                       tGGGCAATTACGGCAGGTAAAACACTTCTTGCAGCTCGCTACTCACCGGGCTGTTATCCGGGTTAGCGGGCATAACATCGGTCATATAtt         <  2:280800/90‑1 (MQ=255)
                                                       tGGGCAATTACGGCAGGGAAAAAACTTCTTTCAGCTCGCTACTCACCCGGCTGTTTTCCGGGGTAGGGGGGATAACAACGGGCATAAAtt         >  1:296301/1‑90 (MQ=255)
                                                             aTTACGGCAGGGAAAACACTTCTTTCAGCTCGCTACTCACCGGGCTGTTTTCCGGGGTAGCGGGGATAAAATCGGGCATATATTTccccc   >  1:282579/1‑90 (MQ=255)
                                                              ttACGGCAGGTAAAACACTTCTTGCAGCTCGCTACTCACCGGGCTGTTATCCGGGTTAGCGGGCATAACATCGGTCATATATTTccacca  <  1:250803/90‑1 (MQ=255)
                                                                             |                                                                          
TTTAATTTTTCAAATCGAAATTTAAAATATTGTGCCGGAGGCATCTCTGGCACATTGGGCAATTACGGCAGGTAAAACACTTCTTGCAGCTCGCTACTCACCGGGCTGTTATCCGGGTTAGCGGGCATAACATCGGTCATATATTTCCACCA  >  NZ_CP009273/4086422‑4086573

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑