Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273646,2650TG58.3% ‑2.0 / 13.2 12T350P (ACC→CCC) citC[citrate (pro‑3S)‑lyase] ligase
Reads supporting (aligned to +/- strand):  ref base T (0/5);  new base G (7/0);  total (7/5)
Fisher's exact test for biased strand distribution p-value = 1.26e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.10e-02
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

TCCCCAGACTCAAGGGTGCCTGCAACGGCGGGCTGGTTTATTTTCATTTTTCACCTGTTTCTCATGCGGGGGTCTTTTGACGAGCTGCCGCGTCCTGGCGGGAGTGCTCAAGCAGGTTCTGCAAAT  >  NZ_CP009273/646193‑646318
                                                                        |                                                     
tCCCCAGACTCAAGGGTGCCTGCAACGGCGGGCTGGTTTATTTTCATTTTTCACCTGTTTCTCATGCGGGGGGCTTTTGACGAGCTGCcg                                      >  1:142077/1‑90 (MQ=255)
          cAAGGGTGCCTGCAACGGCGGGCTGGTTTTTTTTTATTTTTTCCCTTTTTTTTATGCGGGGGGCTTTTGACGAGCTGCCGCGTCCTGGCg                            >  2:298786/1‑90 (MQ=255)
            aGGGTGCCTGCAACGGCGGGCTGGTTTATTTTCATTTTTCACCTGTTTCTCATGCGGGGGTCTTTTGACGAGCTGCCGCGTCCTGGCggg                          <  1:387750/90‑1 (MQ=255)
               gTGCCTGCAACGGCGGGCTGGGTTTTTTTCATTTTTTACCCGTTTTTCCTGCGGGGGGGTTTTTGCGAGCTGCCGCGTCCTGGCgggggg                       >  2:430214/1‑87 (MQ=255)
                tGCCTGCAACGGCGGGCTGGTTTATTTTCATTTTTTACCTGTTTCTCATGCGGGGGGCTTTTGACGAGCTGCCGCGTCCTGGCggggggg                      >  2:192750/1‑86 (MQ=255)
                tGCCTGCAACGGCGGGCTGGGTTATTTTCATTTTTTACCTGTTTCTCATGCGGGGGGCTTTTGACGGGCTGCCGCGTCCTGGCggggggg                      >  1:481794/1‑86 (MQ=255)
                        aCGGCGGGCTGGTTTATTTTCATTTTTCACCTGTTTCTCATGCGGGGGTCTTTTGACGAGCTGCCGCGTCCTGGCGGGAGTGCTCAAGCa              <  1:393566/90‑1 (MQ=255)
                           gcggGCTGGTTTATTTTCATTTTTCACCTGTTTCTCATGCGGGGGGCTTTTGACGAGCTGCCGCGTCCTGGCGGGAGGGCTCAAGCAggg           >  1:187000/1‑89 (MQ=255)
                             gggCTGGTTTATTTTTATTTTTTACCTGTTTTTCATGCGGGGGGCTTTTGACGAGCTGCCGCGTCCTGGCGGGGGGGGTCCAGCAgggtt         >  2:393566/1‑87 (MQ=255)
                               gCTGGTTTATTTTCATTTTTCACCTGTTTCTCATGCGGGGGTCTTTTGACGAGCTGCCGCGTCCTGGCGGGAGTGCTCAAGCAGGTTCTg       <  1:437239/90‑1 (MQ=255)
                                    tttATTTTCATTTTTCACCTGTTTCTCATGCGGGGGTCTTTTGACGAGCTGCCGCGTCCTGGCGGGAGTGCTCAAGCAGGTTCTGCAaat  <  2:132605/90‑1 (MQ=255)
                                    tttATTTTCATTTTTCACCTGTTTCTCATGCGGGGGTCTTTTGACGAGCTGCCGCGTCCTGGCGGGAGTGCTCAAGCAGGTTCTGCAaat  <  2:481794/90‑1 (MQ=255)
                                                                        |                                                     
TCCCCAGACTCAAGGGTGCCTGCAACGGCGGGCTGGTTTATTTTCATTTTTCACCTGTTTCTCATGCGGGGGTCTTTTGACGAGCTGCCGCGTCCTGGCGGGAGTGCTCAAGCAGGTTCTGCAAAT  >  NZ_CP009273/646193‑646318

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑