Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	539,975	A→G	D258D (GAT→GAC)	allC ←	allantoate deiminase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	539,975	0	A	G	100.0%	57.4 / NA	19	D258D (GAT→GAC)	allC	allantoate deiminase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (11/8);  total (11/8)

ACAATCAATGGTGAACGTGGTTTTACCCGGCACCACATTTACCGTATTCGGGCGCGGCTCTACTTTGCCAAAGGTCAGAACCAGCGGATCGCCCATCCTTTTCGCTTTTTCGACCGACTGATGGCAAATGCGACTGAAAGCGTAAACTGTATCACGACGATAA  >  NZ_CP009273/539888‑540050                                                                                        |                                                                            acAATCAATGGTGAACGTGGTTTTACCCGGCACCACATTTACCGTATTCGGGCGCGGCTCTACTTTGCCAAAGGTCAGAACCAGCGGGTc                                                                           <  1:315979/90‑1 (MQ=255)   aatcaatGGTGAACGTGGTTTTACCCGGCACCACATTTACCGTATTCGGGCGCGGCTCTACTTTGCCAAAGGTCAGAACCAGCGGGTCGc                                                                         >  2:231476/1‑90 (MQ=255)             gAACGTGGTTTTACCCGGCACCACATTTACCGTATTCGGGCGCGGCTCTACTTTGCCAAAGGTCAGAACCAGCGGGTCGCCCATCCtttt                                                               >  2:97796/1‑90 (MQ=255)                                        tACCGTAGTCGTGCGCGGCTCTACTTGGCCAAAGGTCGGAACCATCGGGTCGCCCATCCTTTTAGCTTTTTCGACCGACTGATGGCAAAt                                    >  1:150234/1‑90 (MQ=255)                                              aTTCGGGCGCGGCTCTACTTTGCCAAAGGTCAGAACCAGCGGGTCGCCCATCCTTTTCGCTTTTTCGACCGACTGATGGCAAATGCGACt                              >  1:130518/1‑90 (MQ=255)                                              aTTCGGGCGCGGCTCTACTTTGCCAAAGGTCAGAACCAGCGGGTCGCCCATCCTTTTCGCTTTTTCGACCGACTGATGGCAAATGCGACt                              >  2:405180/1‑90 (MQ=255)                                                tCGGGCGCGGCTCTACTTTGCCAAAGGTCAGAACCAGCGGGTCGCCCATCCTTTTCGCTTTTTCGACCGACTGATGGCAAATGCGACTGa                            <  1:34295/90‑1 (MQ=255)                                                      gcgGCTCTACTTTGCCAAAGGTCAGAACCAGCGGGTCGCCCATCCTTTTCGCTTTTTCGACCGACTGATGGCAAATGCGACTGAAAGCGt                      >  1:221491/1‑90 (MQ=255)                                                        ggCTCTACTTTGCCAAAGGTCAGAACCAGCGGGTCGCCCATCCTTTTCGCTTTTTCGACCGACTGATGGCAAATGCGACTGAAAGCGTaa                    >  1:398137/1‑90 (MQ=255)                                                                 ttGCCAAAGGTCAGAACCAGCGGGTCGCCCATCCTTTTCGCTTTTTCGACCGACTGATGGCAAATGCGACTGAAAGCGTAAACTGTATCa           >  2:365120/1‑90 (MQ=255)                                                                  tGCCAAAGGTCAGAACCAGCGGGTCGCCCATCCTTTTCGCTTTTTCGACCGACTGATGGCAAATGCGACTGAAAGCGTAAACTGTATCac          <  1:332099/90‑1 (MQ=255)                                                                  tGCCAAAGGTCAGAACCAGCGGGTCGCCCATCCTTTTCGC‑TTTTCGACCGACTGATGGCAAATGCGACTGAAAGCGTAAACTGTATCacg         <  1:231476/90‑1 (MQ=255)                                                                   gCCAAAGGTCAGAACCAGCGGGTCGCCCATCCTTTTCGCTTTTTCGACCGACTGATGGCAAATGCGACTGAAAGCGTAAACTGTATCacg         <  1:58548/90‑1 (MQ=255)                                                                   gCCAAAGGTCAGAACCAGCGGGTCGCCCATCCTTTTCGCTTTTTCGACCGACTGATGGCAAATGCGACTGAAAGCGTAAACTGTATCacg         >  2:155675/1‑90 (MQ=255)                                                                      aagggTCAGAACCAGCGGGTCGCCCATCCTTTTCGCTTTTTCGACCGACTGATGGCAAATGCGACTGAAAGCGTAAACTGTATCacgacg      >  2:376709/4‑90 (MQ=255)                                                                      aaaGGTCAGAACCAGCGGGTCGCCCATCCTTTTCGCTTTTTCGACCGACTGATGGCAAATGCGACTGAAAGCGTAAACTGTATCacgacg      <  1:405180/90‑1 (MQ=255)                                                                        aGGTCAGAACCAGCGGGTCGCCCATCCTTTTCGCTTTTTCGACCGACTGATGGCAAATGCGACTGAAAGCGTAAACTGTGTCACGACGAt    >  1:11676/1‑90 (MQ=255)                                                                         ggTCAGAACCAGCGGGTCGCCCATCCTTTTCGCTTTTTCGACCGACTGATGGCAAATGCGACTGAAAGCGTAAACTGTATCACGACGATa   <  1:352208/90‑1 (MQ=255)                                                                          gTCAGAACCAGCGGGTCGCCCATCCTTTTCGCTTTTTCGACCGACTGATGGCAAATGCGACTGAAAGCGTAAACTGTATCACGACGATaa  <  1:145707/90‑1 (MQ=255)                                                                                        |                                                                            ACAATCAATGGTGAACGTGGTTTTACCCGGCACCACATTTACCGTATTCGGGCGCGGCTCTACTTTGCCAAAGGTCAGAACCAGCGGATCGCCCATCCTTTTCGCTTTTTCGACCGACTGATGGCAAATGCGACTGAAAGCGTAAACTGTATCACGACGATAA  >  NZ_CP009273/539888‑540050

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑