Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	799,325	0	G	T	55.6%	4.1 / 12.7	9	V123L (GTG→TTG)	ybhJ	hydratase
Reads supporting (aligned to +/- strand):  ref base G (1/3);  new base T (5/0);  total (6/3)
Fisher's exact test for biased strand distribution p-value = 4.76e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.17e-02
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

GGCGGCACTATTAACGGTGATGACCATGTTTTTGGTTTATCGGCGGCCCAGCGTTATGGCGGTATTTTTGTGCCTCCGCATATTGCGGTCATCCATCAATATATGCGTGAGATGATGGCAGGCGGCGGCAAAA  >  NZ_CP009273/799256‑799388                                                                      |                                                                ggcggcACTATTAACGGTGATGACCATGTTTTTGGTTTATCGGCGGCCCAGCGTTATGGCGGTATTTTTGTGCCTCCGCATATTGCGGTc                                             <  2:338686/90‑1 (MQ=255)  gcggcACTATTAACGGTGATGACCATGTTTTTGGTTTATCGGCGGCCCAGCGTTATGGCGGTATTTTTGTGCCTCCGCATATTGCGGTca                                            <  1:95453/90‑1 (MQ=255)                  tgatgaCCATGTTTTTGGTTTATCGGCGGCCCAGCGTTATGGCGGTATTTTTTTGCCTCCCCCTATTTGGGGTATCCATCAAAATATggg                            >  1:260850/1‑88 (MQ=255)                  tgatgaCCATGTTTTTGGTTTATCGGCGGCCCAGCGTTATGGCGGGATTTTTTTGCCTCCGCCTATTTCGGGCATCCCTCAATATATTCg                            >  1:327751/1‑90 (MQ=255)                                    tttATCGGCGGCCCAGCGTTATGGCGGTATTTTTTTGCCTCCCCATATTGCGGGCATCCATCAATATATGCGTGGGATGATGGCAggggg          >  1:7101/1‑90 (MQ=255)                                      tATCGGCGGCCCAGCGTTATGGCGGGATTTTTTTGCCTCCCCCTATTGCGGGCATCCCTCAATATTTGCGGGGGGTGATGGGAggggggg        >  1:159939/1‑88 (MQ=255)                                            cggcCCAGCGTTATGGCGGGATTTTTTTGCCCCCCCATATTTCGGTCCTCCCTCAATATATGCGGGGGGTGGTGGCCGGGGGGGGCaaaa  >  2:10124/1‑90 (MQ=255)                                             ggcCCAGCGTTATGGCGGTATTTTTGTGCCTCCGCATATTGCGGTcatcca                                        >  1:69455/1‑51 (MQ=255)                                             ggcCCAGCGTTATGGCGGTATTTTTGTGCCTCCGCATATTGCGGTcatcca                                        <  2:69455/51‑1 (MQ=255)                                                                      |                                                                GGCGGCACTATTAACGGTGATGACCATGTTTTTGGTTTATCGGCGGCCCAGCGTTATGGCGGTATTTTTGTGCCTCCGCATATTGCGGTCATCCATCAATATATGCGTGAGATGATGGCAGGCGGCGGCAAAA  >  NZ_CP009273/799256‑799388

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑