Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092733,502,0210TA47.6% 12.1 / 13.1 21E384D (GAA→GAT) yhfWphosphopentomutase
Reads supporting (aligned to +/- strand):  ref base T (1/10);  new base A (10/0);  total (11/10)
Fisher's exact test for biased strand distribution p-value = 3.40e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

TCGGATCAAAACTCATAGGGTGTCTCCTGCAAACCGGAGGGAGGAAAGAAAAGAGCGACCATTTTGTGGCGGTGGCGCGCGGAAAAATTCACACACGGTAGCCCCCACATCAGAAAGCGTGGTGCGCACACCGAGCTGCGTAGCGATCATCCCTTGCTGATAAACCAGCA  >  NZ_CP009273/3501934‑3502103
                                                                                       |                                                                                  
tCGGATCAAAACTCATAGGGTGTCTCCTGCAAACCGGAGGGAGGAAAGAAAAGAGCGACCATTTTGTGGCGGGGGGGCGCGGGAAAAATc                                                                                  >  1:305709/1‑90 (MQ=255)
  ggATCAAAACTCATAGGGTGTCTCCTGCAAACCGGAGGGAGGAAAGAAAAGAGCGACCATTTTGTGGCGGTGGCGCGCGGAAAAATTcac                                                                                <  2:153763/90‑1 (MQ=255)
               tAGGGTGTCTCCTGCAAACCGGAGGGAGGAAAGAAAAGAGCGACCATTTTGTGGCGGTGGCGCGCGGAAAAATTCACACACGGTAGcccc                                                                   <  1:112612/90‑1 (MQ=255)
                    tgtCTCCTGCAAACCGGAGGGAGGAAAGAAAAGAGCGACCATTTTGTGGCGGTGGCGCGCGGGAAAATTCACACACGGTAGCCCCCCCAt                                                              >  1:111926/1‑90 (MQ=255)
                     gtCTCCTGCAAACCGGAGGGAGGAAAGAAAAGAGCGACCATTTTGTGGCGGTGGGGCGCGGGAAAAATTACACACGGGAGCCCCCCCATc                                                             >  1:56619/1‑90 (MQ=255)
                     gtCTCCTGCAAACCGGAGGGAGGAAAGAAAAGAGCGACCATTTTGTGGCGGTGGCGGGCGGGAAAAATTACACACGGGAGGCCCCCCATc                                                             >  1:226190/1‑90 (MQ=255)
                     gtCTCCTGCAAACCGGAGGGAGGAAAGAAAAGAGCGACCATTTTGTGGCGGTGGCGCGCGGGAAAAATCACACACGGGAGCCCCcccaac                                                             >  1:145665/1‑88 (MQ=255)
                     gtCTCCTGCAAACCGGAGGGAGGAAAGAAAAGAGCGACCATTTTGTGGCGGGGGGGGGCGGGAAAAATCACAAACCGGAGCCCCcccacc                                                             >  2:376972/1‑88 (MQ=255)
                             cAAACCGGAGGGAGGAAAGAAAAGAGCGACCATTTTGTGGCGGTGGCGCGCGGAAAAATTCACACACGGTAGCCCCCACATCAGAAAGCg                                                     <  2:175561/90‑1 (MQ=255)
                                           gaaagaaaAGAGCGACCATTTTGTGGCGGTGGGGCGCGGGAAAAATTACACAAGGGAGCCCCCCCCACACGAAACGTGGGGCGCCCAccc                                       >  2:242407/1‑89 (MQ=255)
                                             aagaaaagaGCGACCATTTTGTGGCGGTGGGGCGCGGGAAAAATAAAACACAGGAGCCCCCCCCCCAGAAAACGGGGGGGGCCCACCCAg                                     >  2:127048/1‑90 (MQ=255)
                                              agaaaagaGCGACCATTTTGTGGCGGTGGCGCGCGGAAAAATTCACACACGGTAGCCCCCACATCAGAAAGCGTGGTGCGCACACCGAGc                                    <  2:260622/90‑1 (MQ=255)
                                              agaaaagaGCGACCATTTTGTGGCGGTGGCGCGCGGAAAAATTCACACACGGTAGCCCCCACATCAGAAAGCGTGGTGCGCACACCGAGc                                    <  1:127048/90‑1 (MQ=255)
                                                  aagaGCGACCATTTTGTGGCGGTGGCGCGCGGGAAAAATTACACACCGTAGCCCCCCCCACACAAAACGGGGGGGGGGCCCCGAGCTGCg                                >  1:400248/1‑90 (MQ=255)
                                                    gagCGACCATTTTGTGGCGGTGGCGCGCGGAAAAATTCACACACGGTAGCCCCCACATCAGAAAGCGTGGTGCGCACACCGAGCTGCGTa                              <  2:350073/90‑1 (MQ=255)
                                                     agCGACCATTTTGTGGCGGTGGCGCGCGGAAAAATTCACACACGGTAGCCCCCACATCAGAAAGCGTGGTGCGCACACCGAGCTGCGTAg                             <  2:145665/90‑1 (MQ=255)
                                                      gCGACCATTTTGTGGCGGTGGGGCGCGGGAAAAATTACACACCGGAGCCCCCCCATCAGAAAACGGGGGGGGCACACCCCGCCGCGGAGc                            >  2:48373/1‑90 (MQ=255)
                                                      gCGACCATTTTGTGGCGGTGGCGCGCGGAAAAATTCACACACGGTAGCCCCCACATCAGAAAGCGTGGTGCGCACACCGAGCTGCGTAGc                            <  2:346977/90‑1 (MQ=255)
                                                         aCCATTTTGTGGCGGTGGCGCGCGGGAAAAATCACACACCGTAGCCCCCCCATCAGAAAACGGGGGGCGCACACCGAGCTGCGTAGCggt                         >  1:314144/1‑88 (MQ=255)
                                                                                ggAAAAATTCACACACGGTAGCCCCCACATCAGAAAGCGTGGTGCGCACACCGAGCTGCGTAGCGATCATCCCTTGCTGATAAACCAGCa  <  1:104703/90‑1 (MQ=255)
                                                                                ggAAAAATTCACACACGGTAGCCCCCACATCAGAAAGCGTGGTGCGCACACCGAGCTGCGTAGCGATCATCCCTTGCTGATAAACCAGCa  <  2:314144/90‑1 (MQ=255)
                                                                                       |                                                                                  
TCGGATCAAAACTCATAGGGTGTCTCCTGCAAACCGGAGGGAGGAAAGAAAAGAGCGACCATTTTGTGGCGGTGGCGCGCGGAAAAATTCACACACGGTAGCCCCCACATCAGAAAGCGTGGTGCGCACACCGAGCTGCGTAGCGATCATCCCTTGCTGATAAACCAGCA  >  NZ_CP009273/3501934‑3502103

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑