Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273349,9990TG61.5% 0.4 / 11.3 13V528G (GTG→GGG) prpEpropionate‑‑CoA ligase
Reads supporting (aligned to +/- strand):  ref base T (1/4);  new base G (8/0);  total (9/4)
Fisher's exact test for biased strand distribution p-value = 6.99e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.99e-03
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

ACGCGCGAGATTGAAGAGAGTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGTTGGGGTGAAAGATGCGCTGAAAGGGCAGGTGGCGGTGGCGTTTGTCATTCCGAAAGAGAGCGACAGTCTGGAAGATCGTGATGTGGCGCACT  >  NZ_CP009273/349935‑350085
                                                                |                                                                                      
aCGCGCGAGATTGAAGAGAGTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGTTGGGGTGAAAGATGCGCTGAAAGGGCAggtg                                                               <  1:56763/90‑1 (MQ=255)
    gcgAGATTGAAGAGAGTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGGGGGTGGGGGGGAAAAAGGGCTGGAAGGGGAgggggggg                                                           >  1:192947/1‑90 (MQ=255)
               gagagTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGGTGGGGGGAAAGATGCGCTGAAAGGGCAGGTGGCGGGGGCGTTTGTc                                                >  2:215435/1‑90 (MQ=255)
               aggagTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGTTGGGGTGAAAGATGCGCTGAAAGGGCAGGTGGCGGTGGCGTTTGTc                                                <  1:420208/88‑1 (MQ=255)
                 gagTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGTTGGGGGGGAAGAAACGCGGGAAGGGCAGGTGGGGGGGGGGGTTGTTAt                                              >  2:299063/1‑90 (MQ=255)
                 gagTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGGTGGGGGGAAAAAAGCGCTGAAAGGGGAGGGGGGGGGGGGGGTTGTTAt                                              >  1:67296/1‑90 (MQ=255)
                 gagTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGGGGGTGGGGGGAAAAAAGCGCTGAAAGGGGAGGGGGCGGGGGGGGTTGTCAt                                              >  1:186721/1‑90 (MQ=255)
                   gTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGGTGGGGGGAAAGATGCGCCGAAATGGGAGGGGGGGGGGGGGTTTTTGAttt                                            >  2:476747/1‑89 (MQ=255)
                           aGCCATCCGGGCGTTGCCGAAGTGGCGGTGGGTGGGGGGGAAGATGCGCTGAAAGGGCAGGTGGGGGGGGGGTTTTTCATTCCCaaaact                                    >  2:420208/1‑87 (MQ=255)
                           aGCCATCCGGGCGTTGCCGAAGTGGCGGTGGGTGGGGGGGAAGATGCGCCGGAAGGGGAGGGGGGGGGGGGGGTTGTCCTTTCGGAagag                                    >  1:36895/1‑90 (MQ=255)
                                           ccGAAGTGGCGGTGGTTGGGGTGAAAGATGCGCTGAAAGGGCAGGTGGCGGTGGCGTTTGTCATTCCGAAAGAGAGCGACAGTCTGGAAg                    <  1:18484/90‑1 (MQ=255)
                                             gAAGTGGCGGTGGTTGGGGTGAAAGATGCGCTGAAAGGGCAGGTGGCGGTGGCGTTTGTCATTCCGAAAGAGAGCGACAGTCTGGAAGAt                  <  1:215435/90‑1 (MQ=255)
                                                             gggTGAAAGATGCGCTGAAAGGGCAGGTGGCGGTGGCGTTTGTCATTCCGAAAGAGAGCGACAGTCTGGAAGATCGTGATGTGGCGCACt  >  2:510299/1‑90 (MQ=255)
                                                                |                                                                                      
ACGCGCGAGATTGAAGAGAGTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGTTGGGGTGAAAGATGCGCTGAAAGGGCAGGTGGCGGTGGCGTTTGTCATTCCGAAAGAGAGCGACAGTCTGGAAGATCGTGATGTGGCGCACT  >  NZ_CP009273/349935‑350085

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑