Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	209,716	T→C	I300T (ATC→ACC)	tilS →	tRNA lysidine(34) synthetase TilS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	209,716	0	T	C	100.0%	56.2 / NA	18	I300T (ATC→ACC)	tilS	tRNA lysidine(34) synthetase TilS
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (10/8);  total (10/8)

GCGTTGGTGAGGATCTGGCAGGAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAATCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGCAGACGTGGC  >  NZ_CP009273/209637‑209796                                                                                |                                                                                 gcgTTGGTGAGGATCTGGCAGGAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTAt                                                                        >  2:160944/1‑90 (MQ=255)      ggTGAGGATCTGGCAGGAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTc                                                                   <  2:537588/90‑1 (MQ=255)      ggTGAGGATCTGGCAGGAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTc                                                                   <  2:186084/90‑1 (MQ=255)           ggATCTGGCAGGAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAAc                                                              <  1:537395/90‑1 (MQ=255)                tGGCAGGAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTgtgg                                                         >  2:597118/1‑90 (MQ=255)                tGGCAGGAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTgtgg                                                         <  1:367331/90‑1 (MQ=255)                 ggCAGGAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTgtggt                                                        <  2:541859/90‑1 (MQ=255)                 ggCAGGAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTgtggt                                                        <  1:227834/90‑1 (MQ=255)                                       ggAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCa                                  <  2:489020/90‑1 (MQ=255)                                         aaGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCaaa                                <  2:237325/90‑1 (MQ=255)                                           gATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGc                              >  1:24348/1‑90 (MQ=255)                                                        gTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGc                 >  1:312159/1‑90 (MQ=255)                                                              gTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGc           >  2:369484/1‑90 (MQ=255)                                                                ttGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGCAg         >  2:294866/1‑90 (MQ=255)                                                                ttGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGCAg         >  1:66238/1‑90 (MQ=255)                                                                  gggCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGCAGAc       >  2:410059/1‑90 (MQ=255)                                                                  gggCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGCAGAc       >  1:63094/1‑90 (MQ=255)                                                                       cgTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGCAGACGTGGc  >  2:355719/1‑90 (MQ=255)                                                                                |                                                                                 GCGTTGGTGAGGATCTGGCAGGAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAATCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGCAGACGTGGC  >  NZ_CP009273/209637‑209796

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑