Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,503,780	0	C	A	54.5%	2.0 / 15.9	11	L224L (CTC→CTA)	yfeO	ion channel protein
Reads supporting (aligned to +/- strand):  ref base C (2/3);  new base A (3/3);  total (5/6)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.47e-01
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

CATCCTCATTTTTCACTGCCCATTGCTCATTACGGACAGATGGAAATGACCGATATTCTCAGCGGTGCAATTGTCGCGGCGATTGCCATCGCAGCAGGGATGGTCGCCGTATGGTGCTTACCACGGTTGCA  >  NZ_CP009273/2503721‑2503851                                                            |                                                                        cATCCTCATTTTTCACTGCCCATTGCTCATTACGGACAGATGAAAATGACCGATATTCTCAGCGGTGCAATTGTCGCGGCGATTGCCATc                                           <  2:166518/90‑1 (MQ=255)                   cccATTGCTCATTACGGACAGATGGAAATGACCGATATTCTCAGCGGTGCAATTGTCGCGGCGATTGCCATCGCAGCAGGGATGGTCGcc                         >  1:281298/1‑90 (MQ=255)                       ttGCTCATTACGGACAGATGGAAATGACCGATATTCTCAGCGGTGCAATTGTCGCGGCGATTGCCATCGCAGCAGGGATGGTCGCCGTAt                     <  1:356829/90‑1 (MQ=255)                            cATTACGGACAGATGGAAATGACCGATATTCTCAGCGGTGCAATTGTCGCGGCGATTGCCATCGCAGCAGGGATGGTAGCCGTATGGTGc                >  1:66698/1‑90 (MQ=255)                                   gACAGATGGAAATGACCGATATTCTAAGCGGTGCAATTGTCGCGGCGATTGCCATCGCAGCAGGGATGGTCGc                          >  1:343519/1‑73 (MQ=255)                                   gACAGATGGAAATGACCGATATTCTAAGCGGTGCAATTGTCGCGGCGATTGCCATCGCAGCAGGGATGGTCGc                          >  1:469160/1‑73 (MQ=255)                                   gACAGATGGAAATGACCGATATTCTAAGCGGTGCAATTGTCGCGGCGATTGCCATCGCAGCAGGGATGGTCGc                          >  1:68680/1‑73 (MQ=255)                                   gACAGATGGAAATGACCGATATTCTAAGCGGTGCAATTGTCGCGGCGATTGCCATCGCAGCAGGGATGGTCGc                          <  2:343519/73‑1 (MQ=255)                                   gACAGATGGAAATGACCGATATTCTAAGCGGTGCAATTGTCGCGGCGATTGCCATCGCAGCAGGGATGGTCGc                          <  2:469160/73‑1 (MQ=255)                                   gACAGATGGAAATGACCGATATTCTAAGCGGTGCAATTGTCGCGGCGATTGCCATCGCAGCAGGGATGGTCGc                          <  2:68680/73‑1 (MQ=255)                                          ggAAATGACCGATATTCTCAGCGGTGCAATTGTCGCGGCGATTGCCATCGCAGCAGGGATGGTAGCCGTATGGTGCTTACCACGGTTGCa  <  2:66698/90‑1 (MQ=255)                                                            |                                                                        CATCCTCATTTTTCACTGCCCATTGCTCATTACGGACAGATGGAAATGACCGATATTCTCAGCGGTGCAATTGTCGCGGCGATTGCCATCGCAGCAGGGATGGTCGCCGTATGGTGCTTACCACGGTTGCA  >  NZ_CP009273/2503721‑2503851

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑