Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,145,073	0	G	T	57.9%	‑2.0 / 22.7	19	L136F (TTG→TTT)	yegJ	DUF2314 domain‑containing protein
Reads supporting (aligned to +/- strand):  ref base G (3/5);  new base T (11/0);  total (14/5)
Fisher's exact test for biased strand distribution p-value = 4.82e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.03e-03
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

GACCCTGGTATTGTTACAAACGTAGAATATGGCCAGGAGTGGAAAATCAAGAAAGAAGATATTTCAGACTGGATGTATACGCGCGGGGATAAAATTTACGGCGGTTATACCA‑TTGATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGC‑GGTTGAATTGTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCCACA  >  NZ_CP009273/2144948‑2145205                                                                                                                               |                                                                                                                                      gACCCTGGTATTGTTACAAACGTAGAATATGGCCAGGAGTGGAAAATCAAGAAAGAAGATATTTCAGACTGGATGTATACGCGCGGGGATAAAATTTACGGCGGTTATACCA‑TTGATCCTTTATTGGTCACCTATCCaa                                                                                                                          <  1:7717/139‑1 (MQ=255)  aCCCTGGTATTGTTACAAACGTAGAATATGGCCAGGAGTGGAAAATCAAGAAAGAAGATATTTCAGACTGGATGTATACGCGCGGGGATAAAATTTACGGCGGTTATAACA‑TTTATCCTTTTTTTGTTAACTATCCaa                                                                                                                          >  1:15823/1‑138 (MQ=255)             gTTACAAACGTAGAATATGGCCAGGAGTGGAAAATCAAGAAAGAAGATATTTCAGACTGGATGTATACGCGCGGGGATAAAATTTACGGCGGTTATAACA‑TTGATTCTTTTTTTGTCATCCATTCAAaaaaagaaagcc                                                                                                              >  2:7717/1‑135 (MQ=255)              ttACAAACGTAGAATATGGCCAGGAGTGGAAAATCAAGAAAGAAGATATTTCAGACTGGATGTATACGCGCGGGGATAAAATTTACGGCGGTTTTAACA‑TTTATTCTTTTTTTGTCACCTATTCAAAAAAAAAAAcccc                                                                                                             >  1:81396/1‑137 (MQ=255)                        aGAATATGGCCAGGAGTGGAAAATCAAGAAAGAAGATATTTCAGACTGGATGTATACGCGCGGGGATAAAATTTACGGCGGTTATAACA‑ATTATCCCTTATTTGTGACCAATCCCAAAAAAGAAACAGAAGAGCTaa                                                                                                     >  2:678105/1‑137 (MQ=255)                         gAATATGGCCAGGAGTGGAAAATCAAGAAAGAAGATATTTCAGACTGGATGTATACGCGCGGGGATAAAATTTACGGCGGTTATACCA‑TTGATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAagag                                                                                                  <  1:490414/139‑1 (MQ=255)                              tGGCCAGGAGTGGAAAATCAAGAAAGAAGATATTTCAGACTGGATGTATACGCGCGGGGATAAAATTTACGGCGGTTATAACC‑TTTTTTCTTTTTTTGTTTCCTACCCCAAAAAAAAAAACGACCGGCGCAGAGCaaaa                                                                                             >  2:643581/1‑139 (MQ=255)                                          gAAAATCAAGAAAGAAGATATTTCAGACTGGATGTATACGCGCGGGGATAAAATTTACGGCGGTTATACCA‑TTTATTCTTTTTTTGTTACCTATCCACAAGAAGAAACCGACGAGCTAAAAGCAAAAATAAttttgtaa                                                                                 >  2:536815/1‑133 (MQ=255)                                          gAAAATCAAGAAAGAAGATATTTCAGACTGGATGTATACGCGCGGGGATAAAATTTACGGCGGTTATAACA‑TTTATCCTTTTTTTGTTACCTATCCAAAAAAAAAAACCGACGAGATAAAAGCAAAAATAGTTCGCtca                                                                                 >  2:201859/1‑137 (MQ=255)                                          gAAAATCAAGAAAGAAGATATTTCAGACTGGATGTATACGCGCGGGGATAAAATTTACGGCGGTTATAACA‑TTGTTTCTTTTTTTGTGACCTATTCCAAAGAAGAAGGCGAAAAGCAAAAAGCAAAAATAGGTTGCtta                                                                                 >  2:93446/1‑137 (MQ=255)                                                          gaTATTTCAGACTGGATGTATACGCGCGGGGATAAAATTTACGGCGGTTATACCA‑TTGATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTAtattta                                                                 <  1:678105/139‑1 (MQ=255)                                                                        gATGTATACGCGCGGGGATAAAATTTACGGCGGGTTAACCACTTCTTCTTTTTTTTGGCA‑CTCTCCCCAAAAAAAAGCCGGCGCACTAAGAGGAAAATTATTTTTCTTCTCATCCGCGATATTTTTTTTTTtaaaatgc                                                   >  2:535497/1‑134 (MQ=255)                                                                                     ggggATAAAATTTACGGCGGTTTTACCC‑TTTTTTCTTTTTTTTTCCCCCATCCCAAAAAAGAAGCCCCCGAGCCAAGAGCAAAATTAATTTTCTAATTAGCCGCTTTATTTTTTTTTTTAAATTGC‑GGGTGTAtttttt                                     >  1:42595/1‑138 (MQ=255)                                                                                        gATAAAATTTACGGCGGTTATACCA‑ATTATCCTTTTTTTGTGACCTATCCCAAAAAAAAAAACGACGAGCTAAGAGAAAAAATAATTTGCTAATCAGCCGGTATATTTATTTTTTTTAATGGCGGGTTGAAttttgttt                                   >  1:516712/1‑133 (MQ=255)                                                                                                                  ttGATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGC‑GGTTTAATTTTTGTCTTCAACCGCCATGAGAAACTCActct         >  2:588681/1‑139 (MQ=255)                                                                                                                   tGATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGC‑GGTTTAATTTTTTTCTTCAACCGCCATGAGAAACTCACTCTg        >  1:503444/1‑139 (MQ=255)                                                                                                                          ttATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCaaa                                                                                              <  2:159728/47‑1 (MQ=255)                                                                                                                          ttATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCaaa                                                                                              >  1:159728/1‑47 (MQ=255)                                                                                                                          ttATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGAAAAATTAGTTCGCTAATCAGCCGTTATATTTATTTTTTAACCGGGC‑GGTTGAATTGTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCcaca  <  1:536815/138‑1 (MQ=255)                                                                                                                               |                                                                                                                                      GACCCTGGTATTGTTACAAACGTAGAATATGGCCAGGAGTGGAAAATCAAGAAAGAAGATATTTCAGACTGGATGTATACGCGCGGGGATAAAATTTACGGCGGTTATACCA‑TTGATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGC‑GGTTGAATTGTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCCACA  >  NZ_CP009273/2144948‑2145205

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑