Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092734,086,4940TG54.5% 4.7 / 10.1 11Y102S (TAC→TCC) rhaML‑rhamnose mutarotase
Reads supporting (aligned to +/- strand):  ref base T (1/4);  new base G (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.

ATGTTTAATTTTTCAAATCGAAATTTAAAATATTGTGCCGGAGGCATCTCTGGCACATTGGGCAATTACGGCAGGTAAAACACTTCTTGCAGCTCGCTACTCACCGGGCTGTTATCCGGGTTAGCGGGCATAACATCGGTCATATAT  >  NZ_CP009273/4086419‑4086565
                                                                           |                                                                       
atGTTTAATTTTTCAAATCGAAATTTAAAATATTGTGCCGGAGGCATCTCTGGCACATTGGGCAATTACGGCAGGGGAAAAAattctttc                                                           >  2:252010/1‑88 (MQ=255)
 tGTTTAATTTTTCAAATCGAAATTTAAAATATTGTGCCGGAGGCATCTCTGGCACATTGGGCAATTACGGCAGGGAAAAAAACTCTTgta                                                          >  1:616401/1‑88 (MQ=255)
  gTTTAATTTTTCAAATCGAAATTTAAAATATTGTGCCGGAGGCATCTCTGGCACATTGGGCAATTACGGCAGGTAAAACACTTCTTGCAg                                                         <  2:404157/90‑1 (MQ=255)
  gTTTAATTTTTCAAATCGAAATTTAAAATATTGTGCCGGAGGCATCTCTGGCACATTGGGCAATTACGGCAGGGAAAAAACTTCTTTCAg                                                         >  1:321546/1‑90 (MQ=255)
   tttAATTTTTCAAATCGAAATTTAAAATATTGTGCCGGAGGCATCTCTGGCACATTGGGCAATTACGGCAGGGAAAAAACTTCTTTCAGc                                                        >  2:219572/1‑90 (MQ=255)
                aTCGAAATTTAAAATATTGTGCCGGAGGCATCTCTGGCACATTGGGCAATTACGGCAGGTAAAACACTTCTTGCAGCTCGCTACTCACCg                                           <  1:219572/90‑1 (MQ=255)
                                    gCCGGAGGCATCTCTGGCACATTGGGCAATTACGGCAGGTAAAACACTTCTTGCAGCTCGCTACTCACCGGGCTGTTATCCGGGTTAGCg                       <  1:252010/90‑1 (MQ=255)
                                    gCCGGAGGCATCTCTGGCACATTGGGCAATTACGGCAGGTAAAACACTTCTTGCAGCTCGCTACTCACCGGGCTGTTATCCGGGTTAGCg                       <  2:633895/90‑1 (MQ=255)
                                       ggAGGCATCTCTGGCACATTGGGCAATTACGGCAGGGAAAAAAATTCTTCCAACTCCCAACTCACCGGGGGGGTCTCCGGGTGTGCGGGc                    >  1:454754/1‑90 (MQ=255)
                                                   ggCACATTGGGCAATTACGGCAGGTAAAAAACTTCTTTCAGCTCCCTACTCACCCGGCTGTTATTCCGGGTATCGGGCAGAAAAACgggc        >  1:397520/1‑88 (MQ=255)
                                                         ttGGGCAATTACGGCAGGGAAAAAAATTCTTGCAGCTCGCTACTCACCGGGCTGTTATCCGGGTTTTCCGGGATAACATCGGTCctttat  >  1:385427/1‑90 (MQ=255)
                                                                           |                                                                       
ATGTTTAATTTTTCAAATCGAAATTTAAAATATTGTGCCGGAGGCATCTCTGGCACATTGGGCAATTACGGCAGGTAAAACACTTCTTGCAGCTCGCTACTCACCGGGCTGTTATCCGGGTTAGCGGGCATAACATCGGTCATATAT  >  NZ_CP009273/4086419‑4086565

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 6 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑