Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP00927369,9000AC57.1% 5.9 / 11.8 14V370G (GTG→GGG) thiPthiamine/thiamine pyrophosphate ABC transporter permease ThiP
Reads supporting (aligned to +/- strand):  ref base A (3/3);  new base C (0/8);  total (3/11)
Fisher's exact test for biased strand distribution p-value = 5.49e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.55e-03
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

GTTGAGCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCAC  >  NZ_CP009273/69824‑69977
                                                                            |                                                                             
gttgAGCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAg                                                                  <  1:337514/90‑1 (MQ=255)
           aaaaGAACCCGGTACCCACCACAACCCCCGGCATGGCGGGGACCAACATCCCGCTCATCCCCAGCCCCTGCCCCGCCAGCATTTTCTGcc                                                       <  2:375178/90‑1 (MQ=255)
             aagaagCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCcgc                                                     >  2:118729/1‑90 (MQ=255)
                  gCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCg                                                >  1:375178/1‑90 (MQ=255)
                        acccAGCACAACCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCCCCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTc                                          <  1:344191/88‑1 (MQ=255)
                              cacaATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCCCCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACt                                    <  1:48720/90‑1 (MQ=255)
                              cacaACCCCCGGCATGGGGAGGATCAACATGCCCCTCATCTCCAGCCCCTGCCCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACt                                    <  1:237343/90‑1 (MQ=255)
                                       cGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATag                           >  1:361202/1‑90 (MQ=255)
                                               ggAGGACCAACATGCCCCTCACCCCCAGCCCCTGCCCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGcatca                   <  2:319128/89‑1 (MQ=255)
                                               cGAGGATCAACAGGCCCCTCACCCCCACCCCCTGCCCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGcatca                   <  2:289884/90‑1 (MQ=255)
                                                         cttGCCCCTCATCCCCAGCCCCTGCCCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCAc         <  2:361202/88‑1 (MQ=255)
                                                           tGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTa       <  1:104466/90‑1 (MQ=255)
                                                              cGCTCATCCCCACCCCCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGc    <  1:72053/90‑1 (MQ=255)
                                                                cTCATCCCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGcac  <  1:214858/90‑1 (MQ=255)
                                                                            |                                                                             
GTTGAGCAGTAAAAAGAAGCCGGTAGCCAGCACAATCCCCGGCATGGCGAGGATCAACATGCCGCTCATCTCCAGCACCTGACCCGCCAGCATTTTCTGCCGCGCCCGCAGTTCGCGACTGCTCCATAGCAGCATCATGGTCAGCACTACGCAC  >  NZ_CP009273/69824‑69977

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑