Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,613,753	(A)6→5	coding (377/435 nt)	marR →	multiple antibiotic resistance transcriptional regulator MarR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,613,748	0	A	.	92.3%	40.4 / ‑0.7	13	coding (372/435 nt)	marR	multiple antibiotic resistance transcriptional regulator MarR
Reads supporting (aligned to +/- strand):  ref base A (0/1);  new base . (8/4);  total (8/5)
Fisher's exact test for biased strand distribution p-value = 3.85e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.40e-01

AACTTACCACCGGCGGCGCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACAAAAAACCTGACGGCGGACGAAGTGGCAACACTTGAGTATTTGCTTAAGAAAGTCCTGCCGTAAACAAAAAAGAG  >  NZ_CP009273/1613672‑1613822                                                                             |                                                                           aaCTTACCACCGGCGGCGCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAAC‑AAAAACCTGAcggc                                                              >  2:36610/1‑90 (MQ=255)    ttACCACCGGCGGCGCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAAC‑AAAAACCTGACGGCGGa                                                           >  2:250454/1‑90 (MQ=255)      accaccGGCGGCGCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAAC‑AAAAACCTGACGGCGGACg                                                         >  1:363528/1‑90 (MQ=255)      accaccGGCGGCGCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAAC‑AAAAACCTGACGGCGGACg                                                         >  2:316769/1‑90 (MQ=255)             gcggcgcggcAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAAC‑AAAAACCTGACGGCGGACGAAGTGGc                                                  <  1:129172/90‑1 (MQ=255)               ggcgcggcAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACAAAAAACCTGACGGCGGACGAAGTGGCa                                                 <  1:3473/90‑1 (MQ=255)                gcgcggcAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAAC‑AAAAACCTGACGGCGGACGAAGTGGCAac                                               <  1:283998/90‑1 (MQ=255)                                   aTGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAAC‑AAAAACCTGACGGCGGACGAAGTGGCAACACTTGAGTAtt                                    >  1:300480/1‑82 (MQ=255)                                   aTGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAAC‑AAAAACCTGACGGCGGACGAAGTGGCAACACTTGAGTAtt                                    <  2:300480/82‑1 (MQ=255)                                        aTCAATTAGTTGGCCAGGACCTGCACCAAGAATTAAC‑AAAAACCTGACGGCGGACGAAGTGGCAACACTTGAGTATTTGCTTAAGAAAGt                       >  1:293272/1‑90 (MQ=255)                                               aGTTGGCCAGGACCTGCACCAAGAATTAAC‑AAAAACCTGACGGCGGACGAAGTGGCAACACTTGAGTATTTGCTTAAGAAAGTCCTGCCg                >  2:191228/1‑90 (MQ=255)                                                            cTGCACAAAGAATTAAC‑AAAACCCTGACGGCGGACGAAGTGGCAACACTTGAGTATTTGCTTAAGAAAGTCCTGCCGTAAACAAAAAaga   <  2:129000/90‑1 (MQ=255)                                                             tGCACCAAGAATTAAC‑AAAAACCTGACGGCGGACGAAGTGGCAACACTTGAGTATTTGCTTAAGAAAGTCCTGCCGTAAACAAAAAagag  >  2:252725/1‑90 (MQ=255)                                                                             |                                                                           AACTTACCACCGGCGGCGCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACAAAAAACCTGACGGCGGACGAAGTGGCAACACTTGAGTATTTGCTTAAGAAAGTCCTGCCGTAAACAAAAAAGAG  >  NZ_CP009273/1613672‑1613822

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑