Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,725,059	0	T	G	57.1%	9.0 / 15.5	14	G572G (GGT→GGG)	lhr	ATP‑dependent helicase
Reads supporting (aligned to +/- strand):  ref base T (0/6);  new base G (8/0);  total (8/6)
Fisher's exact test for biased strand distribution p-value = 3.33e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.05e-03
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

CACCATTCCGGATCGTGGCATGTATAGCGTGTTATTACCCGAAGGTGAAGAAAAGGCCGGTTCGCGGCGGGTGGGTGAACTGGATGAGGAGATGGTATATGAGTCGCGGGTGAACGACATTATCACTCTCGGCGCTACCTCATGGCGGATCCA  >  NZ_CP009273/1724984‑1725136                                                                            |                                                                              cACCATTCCGGATCGTGGCATGTATAGCGTGTTATTACCCGAAGGTGAAGAAAAGGCCGGTTCGCGGCGGGTGGGTGAACTGGATgagga                                                                 <  2:204888/90‑1 (MQ=255)    cATTCCGGATCGTGGCATGTATAGCGTGTTATTACCCGAAGGTGAAGAAAAGGCCGGTTCGCGGCGGGTGGGTGAACTGGATGAGGAGAt                                                              <  1:125935/90‑1 (MQ=255)          ggATCGTGGCATGTATAGCGTGTTATTACCCGAAGGTGAAGAAAAGGCCGGTTCGCGGCGGGGGGGGGAAATGGATGAGGGGATGGgata                                                        >  1:6888/1‑90 (MQ=255)               gTGGCATGTATAGCGTGTTATTACCCGAAGGTGAAGAAAAGGCCGGTTCGCGGCGGGTGGGGGAACTGGATGAGGAGATGGGATATGAgg                                                   >  1:83405/1‑89 (MQ=255)               gTGGCATGTATAGCGTGTTATTACCCGAAGGTGAAGAAAAGGCCGGTTCGCGGCGGGGGGGGGAACTGGGTGAGGAGAGGGGATATGAGt                                                   >  1:445378/1‑90 (MQ=255)               gTGGCATGTATAGCGTGTTATTACCCGAAGGTGAAGAAAAGGCCGGTTCGCGGCGGGGGGGGGAACTGGATGAGGGGATGGGATATGAgg                                                   >  1:205547/1‑89 (MQ=255)                                  attaCCCGAAGGTGAAGAAAAGGCCGGTTCGCGGCGGGGGGGGGAACTGGATGAGGAGAAGGGATATGAGGCGCGGGGGGAAGACATTAt                                >  2:15475/1‑90 (MQ=255)                                  attaCCCGAAGGTGAAGAAAAGGCCGGTTCGCGGCGGGGGGGGGAAATGGATGAGGAGATGGGATATGAGTCGCGGGGGGAAGACATTAt                                >  2:15474/1‑90 (MQ=255)                                     aCCCGAAGGTGAAGAAAAGGCCGGTTCGCGGCGGGGGGGGGAACTGGGTGAGGGGATGGGATATGAGTCGCGGGGGGAAGACATTATTAc                             >  2:249/1‑90 (MQ=255)                                       ccGAAGGTGAAGAAAAGGCCGGTTCGCGGCGGGGGGGGGAACTGGATGAGGAGATGGGATATGAGTCGCGGGGGGACGACATTATCActc                           >  2:15680/1‑90 (MQ=255)                                              tGAAGAAAAGGCCGGTTCGCGGCGGGTGGGTGAACTGGATGAGGAGATGGTATATGAGTCGCGGGTGAACGACATTATCACTCTCGgcgc                    <  2:314830/90‑1 (MQ=255)                                                        gCCGGTTCGCGGCGGGTGGGTGAACTGGATGAGGAGATGGTATATGAGTCGCGGGTGAACGACATTATCACTCTCGGCGCTACCTCATgg          <  1:15680/90‑1 (MQ=255)                                                             ttCGCGGCGGGTGGGTGAACTGGATGAGGAGATGGTATATGAGTCGCGGGTGAACGACATTATCACTCTCGGCGCTACCTCATGGCGGAt     <  1:218881/90‑1 (MQ=255)                                                                gcggcgGGTGGGTGAACTGGATGAGGAGATGGTATATGAGTCGCGGGTGAACGACATTATCACTCTCGGCGCTACCTCATGGCGGATCCa  <  1:291482/90‑1 (MQ=255)                                                                            |                                                                              CACCATTCCGGATCGTGGCATGTATAGCGTGTTATTACCCGAAGGTGAAGAAAAGGCCGGTTCGCGGCGGGTGGGTGAACTGGATGAGGAGATGGTATATGAGTCGCGGGTGAACGACATTATCACTCTCGGCGCTACCTCATGGCGGATCCA  >  NZ_CP009273/1724984‑1725136

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑