Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	115,628	A→C	T137P (ACG→CCG)	ampD →	1,6‑anhydro‑N‑acetylmuramyl‑L‑alanine amidase AmpD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	115,628	0	A	C	100.0%	60.6 / NA	22	T137P (ACG→CCG)	ampD	1,6‑anhydro‑N‑acetylmuramyl‑L‑alanine amidase AmpD
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base C (12/10);  total (12/10)

TGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAA  >  NZ_CP009273/115546‑115705                                                                                   |                                                                              tGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGc                                                                        <  2:250042/90‑1 (MQ=255)     ttttCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCACtg                                                                    >  2:227009/1‑90 (MQ=255)     ttttCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCACtg                                                                    >  1:399020/1‑90 (MQ=255)                                             cGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGcc                            <  2:71613/90‑1 (MQ=255)                                             cGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGcc                            <  1:479612/90‑1 (MQ=255)                                                 taCCGATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGGTTGATTTCTATCCGGATATCGCTAAAAACAAGACGGGGCATtg                        >  1:1366/1‑90 (MQ=255)                                                 taCCGATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAAc                                      <  1:293851/76‑1 (MQ=255)                                                 taCCGATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAAc                                      >  2:293851/1‑76 (MQ=255)                                                  aCCGATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATtgt                       <  1:227009/90‑1 (MQ=255)                                                     gATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGat                    >  2:403858/1‑90 (MQ=255)                                                       tgagcAGTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGatat                  <  1:223059/87‑1 (MQ=255)                                                               aTCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCgg          <  2:18504/90‑1 (MQ=255)                                                               aTCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCgg          <  2:433844/90‑1 (MQ=255)                                                                     aGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGa    >  1:133148/1‑90 (MQ=255)                                                                      gCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGaa   <  1:497310/90‑1 (MQ=255)                                                                       cTTGCGGCGGTTCCGCGGGCACTGGTTGATTTCTATCCGGATATCGCTAAAAAAATGACGGGGCCTTGTGATATTTCGCCGGATCGGgaa  >  1:286825/1‑90 (MQ=255)                                                                       cTTGCGGCGGTTCCGCGGGCACTGATTGATTTCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGaaa  >  2:365885/1‑90 (MQ=255)                                                                       cTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTTTGATATTGCGCCGGATCGGaaa  >  1:25168/1‑90 (MQ=255)                                                                       cTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGaaa  >  2:216743/1‑90 (MQ=255)                                                                       cTTGCGGCGGTTCCGCCGGGCCTGGTTGATTGCTATCCGGAAATCGCTAAAAAAATGACGGGCCATCGGGATATTGTGCCGGGTCGGaaa  >  1:159952/1‑90 (MQ=255)                                                                         tGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGAc                                 <  2:176076/57‑1 (MQ=255)                                                                         tGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGAc                                 >  1:176076/1‑57 (MQ=255)                                                                                   |                                                                              TGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAA  >  NZ_CP009273/115546‑115705

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 6 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑