Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	554,427	A→G	intergenic (+217/‑3)	fimA → / → fimC	type 1 fimbrial major subunit FimA/type 1 fimbria chaperone FimC

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	554,427	0	A	G	100.0%	21.2 / NA	8	intergenic (+217/‑3)	fimA/fimC	type 1 fimbrial major subunit FimA/type 1 fimbria chaperone FimC
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (4/4);  total (4/4)

AAGCAATCATTTCTTTATATTCCTTATTTTTGCCGTCAGGAATACACAAGGCGTATTAACTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCGGAGGGATC  >  NZ_CP009273/554369‑554510                                                           |                                                                                    aaGCAATCATTTCTTTATATTCCTTATTTTTGCCGTCAGGAATACACAAGGCGTATTAGCTATGATGACTAAAATAAAGTTATTGATGCt                                                      >  2:203564/1‑90 (MQ=255)         aTTTCTTTATATTCCTTATTTTTGCCGTCAGGAATACACAAGGCGTATTAGCTATGATGACTAAAATAAAGTTATTGATGCTCATTatat                                              <  1:203564/90‑1 (MQ=255)                       cTTATTTTTGCCGTCAGGAATACACAAGGCGTATTAGCTatgatg                                                                             <  1:61871/45‑1 (MQ=255)                       cTTATTTTTGCCGTCAGGAATACACAAGGCGTATTAGCTatgatg                                                                             >  2:61871/1‑45 (MQ=255)                                              acaAGGCGTATTAGCTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCgg         <  2:305599/90‑1 (MQ=255)                                                aaGGCGTATTAGCTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCGGAg       <  1:268815/90‑1 (MQ=255)                                                 aGGCGTATTAGCTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCGGAgg      >  1:243320/1‑90 (MQ=255)                                                     gTATTAGCTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCGGAGGGATc  >  2:38411/1‑90 (MQ=255)                                                           |                                                                                    AAGCAATCATTTCTTTATATTCCTTATTTTTGCCGTCAGGAATACACAAGGCGTATTAACTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCGGAGGGATC  >  NZ_CP009273/554369‑554510

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑