Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	3,579,168	T→C	E339G (GAA→GGA)	ggt ←	gamma‑glutamyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	3,579,168	0	T	C	100.0%	62.9 / NA	20	E339G (GAA→GGA)	ggt	gamma‑glutamyltransferase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (13/7);  total (13/7)

GATCGGCAATAGATTTGGCATAGGCTTTATTGGTCAGCGCCTGCCACGGTACTTTGACAAAATCCGGGTCGCCAAGATATTCCGAGCGGTCGGCGTAGGCGTATTTCTCCGCTTCTGCCATGATTTGCATCGCATCGGCGCTGCCAAAGC  >  NZ_CP009273/3579088‑3579237                                                                                 |                                                                      gATCGGCAATAGATTTGGCATAGGCTTTATTGGTCAGCGCCTGCCACGGTACTTTGACAAAATCCGGGTCGCCAAGATATCCCGAGCGGt                                                              >  2:90337/1‑90 (MQ=255) gATCGGCAATAGATTTGGCATAGGCTTTATTGGTCAGCGCCTGCCACGGTACTTTGACAAAATCCGGGTCGCCAAGATATCCCGAGCGGt                                                              >  2:195354/1‑90 (MQ=255)  aTCGGCAATAGATTTGGCATAGGCTTTATTGGTCAGCGCCTGCCACGGTACTTTGACAAAATCCGGGTCGCCAAGATATCCCGAGCGGTc                                                             <  1:245726/90‑1 (MQ=255)  aTCGGCAATAGATTTGGCATAGGCTTTATTGGTCAGCGCCTGCCACGGTACTTTGACAAAATCCGGGTCGCCAAGATATCCCGAGCGGTc                                                             <  2:79652/90‑1 (MQ=255)  aTCGGCAATAGATTTGGCATAGGCTTTATTGGTCAGCGCCTGCCACGGTACTTTGACAAAATCCGGGTCGCCAAGATATCCCGAGCGGTc                                                             <  2:533903/90‑1 (MQ=255)    cGGCAATAGATTTGGCATAGGCTTTATTGGTCAGCGCCTGCCACAGTACTTTGACAAAATCCGGGTCGCCAAGATATCCCGAGCGGTCgg                                                           <  1:560130/90‑1 (MQ=255)     ggCAATAGATTTGGCATAGGCTTTATTGGTCAGCGCCTGCCACGGTACTTTGACAAAATCCGGGTCGCCAAGATATCCCGAGCGGTCggc                                                          >  1:341663/1‑90 (MQ=255)                               tGGTCAGCGCCTGCCACGGTACTTTGACAAAATCCGGGTCGCCAAGATATCCCGAGCGGTCGGCGTAGGCGTATTTCTCCGCTTCTGCCa                                <  2:436305/90‑1 (MQ=255)                                  tCAGCGCCTGCCACGGTACTTTGACAAAATCCGGGTCGCCAAGATATCCCGAGCGGTCGGCGTAGGCGTATTTCTCCGCTTCTGCCATGa                             >  1:531177/1‑90 (MQ=255)                                  tCAGCGCCTGCCACGGTACTTTGACAAAATCCGGGTCGCCAAGATATCCCGAGCGGTCGGCGTAGGCGTATTTCTCCGCTTCTGCCATGa                             >  2:46030/1‑90 (MQ=255)                                     gcgcCTGCCACGGTACTTTGACAAAATCCGGGTCGCCAAGATATCCCGAGCGGTCGGCGTAGGCGTATTTCTCCGCTTCTGCCATGAttt                          >  2:94518/1‑90 (MQ=255)                                     gcgcCTGCCACGGTACTTTGACAAAATCCGGGTCGCCAAGATATCCCGAGCGGTCGGCGTAGGCGTATTTCTCCGCTTCTGCCATGAttt                          >  2:487690/1‑90 (MQ=255)                                          tGCCACGGTACTTTGACAAAATCCGGGTCGCCAAGATATCCCGAGCGGTCGGCGTAGGCGTATTTCTCCGCTTCTGCCATGATTTgcatc                     >  2:98420/1‑90 (MQ=255)                                              aCGGTACTTTGACAAAATCCGGGTCGCCAAGATATCCCGAGCGGTCGGCGTAGGCGTATTTCTCCGCTTCTGCCATGATTTgcatcgcat                 <  2:138879/90‑1 (MQ=255)                                                    cTTTGACAAAATCCGGGTCGCCAAGATATCCCGAGCGGTCGGCGTAGGCGTATTTCTCCGCTTCTGCCATGATTTGCATCGCATCGgcgc           <  2:421694/90‑1 (MQ=255)                                                      ttGACAAAATCCGGGTCGCCAAGATATCCCGAGCGGTCGGCGTAGGCGTATTTCTCCGCTTCTGCCATGATTTGCATCGCATCGGCGCTg         >  2:492953/1‑90 (MQ=255)                                                      ttGACAAAATCCGGGTCGCCAAGATATCCCGAGCGGTCGGCGTAGGCGTATTTCTCCGCTTCTGCCATGATTTGCATCGCATCGGCGCTg         >  1:409301/1‑90 (MQ=255)                                                             aaTCCGGGTCGCCAAGATATCCCGAGCGGTCGGTGTAGGCGTATTTCTCCGCTTCTGCCATGATTTGCATCGCATCGGCGCTGCCAAAGc  >  1:163411/1‑90 (MQ=255)                                                             aaTCCGGGTCGCCAAGATATCCCGAGCGGTCGGCGTAGGCGTATTTCTCCGCTTCTGCCATGATTTGCATCGCATCGGCGCTGCCAAAGc  >  1:112050/1‑90 (MQ=255)                                                             aaTCCGGGTCGCCAAGATATCCCGAGCGGTCGGCGTAGGCGTATTTCTCCGCTTCTGCCATGATTTGCATCGCATCGGCGCTGCCAAAGc  >  1:480555/1‑90 (MQ=255)                                                                                 |                                                                      GATCGGCAATAGATTTGGCATAGGCTTTATTGGTCAGCGCCTGCCACGGTACTTTGACAAAATCCGGGTCGCCAAGATATTCCGAGCGGTCGGCGTAGGCGTATTTCTCCGCTTCTGCCATGATTTGCATCGCATCGGCGCTGCCAAAGC  >  NZ_CP009273/3579088‑3579237

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑