Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,336,062	A→G	intergenic (+78/‑116)	lapB → / → pyrF	lipopolysaccharide assembly protein LapB/orotidine‑5'‑phosphate decarboxylase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,336,062	0	A	G	100.0%	36.3 / NA	11	intergenic (+78/‑116)	lapB/pyrF	lipopolysaccharide assembly protein LapB/orotidine‑5'‑phosphate decarboxylase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (6/5);  total (6/5)

TTTTTAAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAATGCTCGCCGTTTACCTGTTTCGCGCCA  >  NZ_CP009273/1335985‑1336145                                                                              |                                                                                    tttttAAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGGAAAAGCCTGCCa                                                                         <  1:84354/90‑1 (MQ=255)                                      attattAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGGAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCAc                                     >  1:43390/1‑89 (MQ=255)                                      attattAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGGAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCAc                                     <  2:43390/89‑1 (MQ=255)                                      attattAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGGAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACg                                    <  1:355255/90‑1 (MQ=255)                                      attattAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGGAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACg                                    >  2:173737/1‑90 (MQ=255)                                        tattaATGTTCCATTGTGCTCCGGCAACGACGGCGCAGGAAAAGCCTGCCAGGTGAGAAATCGCAACTGTTAATTTTTTATTTCCACggg                                  >  2:140824/1‑90 (MQ=255)                                               gTTCCATTGTGCTCCGGCAACGACGGCGCAGGAAAAGCCTGCCAGGGGAGAAATCGCa                                                           <  1:217788/58‑1 (MQ=255)                                               gTTCCATTGTGCTCCGGCAACGACGGCGCAGGAAAAGCCTGCCAGGGGAGAAATCGCa                                                           >  2:217788/1‑58 (MQ=255)                                                  ccATTGTGCTCCGGCAACGACGGCGCAGGAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAATGCTc                        <  2:56015/90‑1 (MQ=255)                                                    aTTGTGCTCCGGCAACGACGGCGCAGGAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAATGCTCGc                      >  1:356431/1‑90 (MQ=255)                                                                        gcgcAGGAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAATGCTCGCCGTTTACCTGTTTCGCGCCa  >  1:345274/1‑90 (MQ=255)                                                                              |                                                                                    TTTTTAAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAATGCTCGCCGTTTACCTGTTTCGCGCCA  >  NZ_CP009273/1335985‑1336145

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑