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%	139.4 / NA	41	I300T (ATC→ACC)	tilS	tRNA lysidine(34) synthetase TilS
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (26/15);  total (26/15)

GACGCGTTGGTGAGGATCTGGCAGGAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAATCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGCAGACGTGGC  >  NZ_CP009273/209634‑209796                                                                                   |                                                                                 gACGCGTTGGTGAGGATCTGGCAGGAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGc                                                                           >  2:169087/1‑90 (MQ=255)         ggTGAGGATCTGGCAGGAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTc                                                                   <  1:307109/90‑1 (MQ=255)              ggATCTGGCAGGAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAAc                                                              <  2:287906/90‑1 (MQ=255)              ggATCTGGCAGGAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAAc                                                              <  2:1038928/90‑1 (MQ=255)                   tGGCAGGAAGTGGCGCTGGCGCGGTAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTgtgg                                                         >  2:1132297/1‑90 (MQ=255)                   tGGCAGGAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTc                                                                   >  2:678226/1‑80 (MQ=255)                   tGGCAGGAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTc                                                                   <  1:678226/80‑1 (MQ=255)                    ggCAGGAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTgtggt                                                        <  2:1152079/90‑1 (MQ=255)                        ggAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGAt                                                    >  1:272981/1‑90 (MQ=255)                        ggAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGAt                                                    >  2:580211/1‑90 (MQ=255)                          aaGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTa                                                  <  2:531908/90‑1 (MQ=255)                           aGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTaa                                                 >  2:593185/1‑90 (MQ=255)                              ggcgctggcgcGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATc                                              >  1:717007/1‑90 (MQ=255)                                 gctggcgcGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGt                                           <  2:272981/90‑1 (MQ=255)                                     gcgcGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCAcc                                       <  2:1071433/90‑1 (MQ=255)                                            aaGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCaaa                                <  2:1046698/90‑1 (MQ=255)                                            aaGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCaaa                                <  1:593185/90‑1 (MQ=255)                                            aaGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCaaa                                <  1:522827/90‑1 (MQ=255)                                                    tCACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAAc                        >  2:1034723/1‑90 (MQ=255)                                                     cACCCTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACa                       >  2:1192725/1‑90 (MQ=255)                                                       cccTGTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACAtt                     >  2:512088/1‑90 (MQ=255)                                                           gTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACtg                                                            <  2:954683/47‑1 (MQ=255)                                                           gTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACtg                                                            >  1:954683/1‑47 (MQ=255)                                                           gTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCaaa                                >  2:894695/1‑75 (MQ=255)                                                           gTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCaaa                                <  1:894695/75‑1 (MQ=255)                                                           gTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGc                 >  2:237625/1‑90 (MQ=255)                                                           gTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGc                 >  2:267088/1‑90 (MQ=255)                                                           gTTTACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGc                 >  1:424228/1‑90 (MQ=255)                                                            tttACGTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGcc                >  2:1093513/1‑90 (MQ=255)                                                                 gTTTGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGc           >  2:125793/1‑90 (MQ=255)                                                                   ttGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGCAg         >  1:122069/1‑90 (MQ=255)                                                                   ttGGGCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGCAg         >  2:479496/1‑90 (MQ=255)                                                                     gggCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGCAGAc       >  2:556709/1‑90 (MQ=255)                                                                     gggCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGCAGAc       >  1:924273/1‑90 (MQ=255)                                                                     gggCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGCAGAc       >  2:883429/1‑90 (MQ=255)                                                                     gggCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGCAGAc       >  2:901784/1‑90 (MQ=255)                                                                     gggCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGCAGAc       >  2:927818/1‑90 (MQ=255)                                                                      ggCGCGTTTGAACCCCGACGCTATCAGTCGCACCTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGCAGACg      <  1:566531/90‑1 (MQ=255)                                                                      ggCGCGTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGCAGACg      <  2:122069/90‑1 (MQ=255)                                                                         gcgTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGCAGACGTgg   >  2:718445/1‑90 (MQ=255)                                                                          cgTTTGAAACCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGCAGACGTGGc  >  2:283720/1‑90 (MQ=255)                                                                                   |                                                                                 GACGCGTTGGTGAGGATCTGGCAGGAAGTGGCGCTGGCGCGGGAAGATGCCTCACCCTGTTTACGTTTGGGCGCGTTTGAAATCCGACGCTATCAGTCGCAACTGTGGTGGATTAAATCCGTCACCGGGCAAAGCGAAAACATTGTGCCGTGGCAGACGTGGC  >  NZ_CP009273/209634‑209796

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑