Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,418,915	T→A	I161F (ATC→TTC)	hisQ ←	histidine ABC transporter permease HisQ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,418,915	0	T	A	100.0%	35.6 / NA	12	I161F (ATC→TTC)	hisQ	histidine ABC transporter permease HisQ
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (3/9);  total (3/9)

CAGGTACTTTTGCCTGCCAGTTGGGTGGCTTTGACCACATCTTCCAGGCCGAGTAACGAAACCAGTGCGGTAGATTTGAGGATCACCTGCCAGTTGTTGCCAATGCCTGGCAGGGCGTAACGCATCATCGACGGAAACATGATCCGCCGAAACACTTGCCCACGAGTAA  >  NZ_CP009273/2418833‑2419001                                                                                   |                                                                                       cAGGTACTTTTGCCTGCCAGTTGGGTGGCTTTGACCACATCTTCCAGGCCGAGTAACGAAACCAGTGCGGTAGATTTGAGGAACACCTGc                                                                                 >  2:428421/1‑90 (MQ=255)              ctgccAGTTGGGTGGCTTTGACCACATCTTCCAGGCCGAGTAACGAAACCAGTGCGGTAGATTTGAGGAACACCTGCCAGTTGTTGCCaa                                                                    <  2:239384/90‑1 (MQ=255)                      tGGGTGGCTTTGACCACACCTTCCAGGCCGAGTAACGAACCCAGTGCGGTAGATTTGAGGAACACCTGCCAGTTGTTGCCAATGCCTGGc                                                            <  1:276211/90‑1 (MQ=255)                        ggTGGCTTTGACCACATCTTCCAGGCCGAGTAACGAAACCAGTGCGGTAGATTTGAGGAACACCTGCCAGTTGTTGCCAATGCCTGGCAg                                                          <  2:501304/90‑1 (MQ=255)                         gTGGCTTTGACCACATCTTCCAGGCCGAGTAACGAAACCAGTGCGGTAGATTTGAGGAACACCTGCCAGTTGTTGCCAATGCCTGGCAgg                                                         <  1:432950/90‑1 (MQ=255)                                                gCCGAGTAACGAAACCAGTGCGGTAGATTTGAGGAACACCTGCCAGTTGTTGCCAATGCCTGGCAGGGCGTAACGCATCATCGACGGaaa                                  <  2:451254/90‑1 (MQ=255)                                                             aCCAGTGCGGTAGATTTGAGGAACACCTGCCAGTTGTTGCCAATGCCTGGCAGGGCGTAACGCATCATCGACGGAAACATGATCCGCCGa                     <  2:231441/90‑1 (MQ=255)                                                                 gTGCGGTAGATTTGAGGAACACCTGCCAGTTGTTGCCAATGCCTGGCAGGGCGTAACGCATCATCGACGGAAACATGATCCGCCGAAaca                 >  1:206698/1‑90 (MQ=255)                                                                    cGGTAGATTTGAGGAACACCTGCCAGTTGTTGCCAATGCCTGGCAGGGCGTAACGCATCATCGACGGAAACATGATCCGCCGAAACACtt              <  1:87109/90‑1 (MQ=255)                                                                         gATTTGAGGAACACCTGCCAGTTGTTGCCAATGCCTGGCAGGGCGTAACGCATCATCGACGGAAACATGATCCGCCGAAACACTTGCCCa         <  1:180431/90‑1 (MQ=255)                                                                           tttGAGGAACACCTGCCAGTTGTTGCCAATGCCTGGCAGGGCGTAACGCATCATCGACGGAAACATGATCCGCCGAAACACTTGCCCACg       >  2:272665/1‑90 (MQ=255)                                                                                ggAACACCTGCCAGTTGTTGCCAATGCCTGGCAGGGCGTAACGCATCATCGACGGAAACATGATCCGCCGAAACACTTGCCCACGAGTaa  <  1:272665/90‑1 (MQ=255)                                                                                   |                                                                                       CAGGTACTTTTGCCTGCCAGTTGGGTGGCTTTGACCACATCTTCCAGGCCGAGTAACGAAACCAGTGCGGTAGATTTGAGGATCACCTGCCAGTTGTTGCCAATGCCTGGCAGGGCGTAACGCATCATCGACGGAAACATGATCCGCCGAAACACTTGCCCACGAGTAA  >  NZ_CP009273/2418833‑2419001

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑