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%	76.1 / NA	28	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 (18/10);  total (18/10)

CAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCC  >  NZ_CP009273/115543‑115714                                                                                      |                                                                                       cAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTCcgcg                                                                                    <  1:104536/90‑1 (MQ=255)                            tGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGatat                                                         <  1:502429/90‑1 (MQ=255)                                 gCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTa                                                    <  2:173792/90‑1 (MQ=255)                                  cACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGGACTGATTGATTGCTATCCGGATATCGCTaa                                                   >  1:408795/1‑90 (MQ=255)                                           gCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTCCGGGGGCACTGATTGATTGCTATCCGGAGATCGCTAAAAACATGAc                                          >  2:146968/1‑90 (MQ=255)                                              ggCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACggg                                       >  2:252874/1‑90 (MQ=255)                                                cGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGcc                                     <  2:357683/90‑1 (MQ=255)                                                   ataCCGATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCAc                                                                               >  2:447258/1‑45 (MQ=255)                                                   ataCCGATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCAc                                                                               <  1:447258/45‑1 (MQ=255)                                                     aCCGATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATtgt                                <  1:244349/90‑1 (MQ=255)                                                        gATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGGACTGATTGATTGCTATCCGGATATCGCTAAAAACAAGACGGGCCATTGTGat                             >  1:416280/1‑90 (MQ=255)                                                        gATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCCCTGATTGATTTCTATCCGGATATCGCTAAAAACATGACGGGCCCTTGTGat                             >  1:116237/1‑90 (MQ=255)                                                        gATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCAt                                   <  1:352608/84‑1 (MQ=255)                                                        gATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCAt                                   >  2:352608/1‑84 (MQ=255)                                                        gATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGat                             >  1:24779/1‑90 (MQ=255)                                                        gATGCGCAGTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGat                             >  2:196398/1‑90 (MQ=255)                                                             gcAGTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTgc                        >  2:7443/1‑90 (MQ=255)                                                                gTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGAc                                          <  1:11203/69‑1 (MQ=255)                                                                gTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGAc                                          >  2:259931/1‑69 (MQ=255)                                                                gTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGAc                                          >  2:11203/1‑69 (MQ=255)                                                                gTATCAACAGCTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGAc                                          <  1:259931/69‑1 (MQ=255)                                                                          cTTGCGGCGGTTCCGCGGGCACTGATTTATTGCTATCCGGATATCGCTAAAAAAATGACGGGCCATTTTGATATTTCGCCCGGTCGGgaa           >  1:253718/1‑90 (MQ=255)                                                                          cTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAAAATGACGGGCCATTTTGATATTGCGCCCGATCGGaaa           >  2:414145/1‑90 (MQ=255)                                                                          cTTGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAAAATGACGGGCCATTGTGATATTGCGCCGGGTCGGgaa           >  1:84300/1‑90 (MQ=255)                                                                          cTTGCGGCGGCTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGaaa           >  1:7038/1‑90 (MQ=255)                                                                            tGCGGCGGTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAAc         >  2:36422/1‑90 (MQ=255)                                                                              cggcggTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAAAATGACGGGCCATTTTGATATTGCGCCGGATCGGAAAAACg       >  2:326256/1‑90 (MQ=255)                                                                                   gTTCCGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATccc  <  1:270643/90‑1 (MQ=255)                                                                                      |                                                                                       CAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCC  >  NZ_CP009273/115543‑115714

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑