Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	119,028	T→C	V99A (GTC→GCC)	ampD →	1,6‑anhydro‑N‑acetylmuramoyl‑L‑alanine amidase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	119,028	0	T	C	100.0%	195.0 / NA	46	V99A (GTC→GCC)	ampD	1,6‑anhydro‑N‑acetylmuramoyl‑L‑alanine amidase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (29/17);  total (29/17)

CCTTTCGATAAACGTGCATGGCATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAAT  >  NC_000913/118997‑119059                                |                                ccTTTCGATAAACGTGCATGGCATGCGGGAGcctc                              <  1:529122/35‑1 (MQ=255) ccTTTCGATAAACGTGCATGGCATGCGGGAGcctc                              >  1:5652840/1‑35 (MQ=255)  cTTTCGATAAACGTGCATGGCATGCGGGAGcctct                             >  1:4057309/1‑35 (MQ=255)  cTTTCGATAAACGTGCATGGCATGCGGGAGcctct                             <  1:4718709/35‑1 (MQ=39)  cTTTCGATAAACGTGCATGGCATGCGGGAGcctct                             <  1:4873704/35‑1 (MQ=39)  cTTTCGATAAACGTGCATGGCATGCGGGAGcctct                             >  1:2155273/1‑35 (MQ=255)  cTTTCGATAAACGTGCATGGAATGCGGGAGcctct                             <  1:787964/35‑1 (MQ=37)     tCGATAAACGTGCATGGCATGCGGGAGCCTCTCAg                          <  1:3564702/35‑1 (MQ=255)     tCGATAAACGTGCATGGCATGCGGGAGCCTCTCAg                          >  1:3949357/1‑35 (MQ=255)     tCGATAAACGTGCATGGCATGCGGGAGCCTCTCAg                          >  1:2496895/1‑35 (MQ=255)     tCGATAAACGTGCATGGCATGCGGGAGCCTCTCAg                          <  1:7199078/35‑1 (MQ=255)     tCGATAAACGTGCATGGCATGCGGGAGCCTCTCAg                          <  1:1983204/35‑1 (MQ=39)      cGATAAACGTGCATGGCATGCGGGAGCCTCTCAGt                         >  1:2372186/1‑35 (MQ=255)      cGATAAACGTGCATGGCATGCGGGAGCCTCTCAGt                         >  1:4315729/1‑35 (MQ=255)      cGATAAACGTGCATGGCATGCGGGAGCCTCTCAGt                         >  1:957545/1‑35 (MQ=255)        aTAAACGTGCATGGCATGCGGGAGCCTCTCAGTAt                       <  1:6552459/35‑1 (MQ=255)        aTAAACGTGCATGGCATGCGGGAGCCTCTCAGTAt                       <  1:684987/35‑1 (MQ=39)        aTAAACGTGCATGGCATGCGGGAGCCTCTCAGTAt                       <  1:7455314/35‑1 (MQ=39)        aTAAACGTGCATGGCATGCGGGAGCCTCTCAGTAt                       <  1:1142569/35‑1 (MQ=255)        aTAAACGTGCATGGCATGCGGGAGCCTCTCAGTAt                       <  1:4016633/35‑1 (MQ=255)        aTAAACGTGCATGGCATGCGGGAGCCTCTCAGTAt                       >  1:4044469/1‑35 (MQ=255)         tAAACGTGCATGGCATGCGGGAGCCTCTCAGTATc                      >  1:252048/1‑35 (MQ=255)          aaaCGTGCATGGCATGCGGGAGCCTCTCAGTATCa                     <  1:4737513/35‑1 (MQ=39)           aaCGTGCATGGCATGCGGGAGCCTCTCAGTATCAg                    >  1:930596/1‑35 (MQ=255)           aaCGTGCATGGCATGCGGGAGCCTCTCAGTATCAg                    >  1:1790398/1‑35 (MQ=255)           aaCGTGCATGGCATGCGGGAGCCTCTCAGTATCAg                    >  1:2123409/1‑35 (MQ=255)            aCGTGCATGGCATGCGGGAGCCTCTCAGTATCAgg                   >  1:1590798/1‑35 (MQ=255)              gTGCATGGCATGCGGGAGCCTCTCAGTATCAgggg                 >  1:2245988/1‑35 (MQ=255)              gTGCATGGCATGCGGGAGCCTCTCAGTATCAgggg                 <  1:634375/35‑1 (MQ=255)              gTGCATGGCATGCGGGAGCCTCTCAGTATCAgggg                 >  1:2615794/1‑35 (MQ=255)               tGCATGGCATGCGGGAGCCTCTCAGTATCAGGGgc                >  1:5090098/1‑35 (MQ=39)               tGCATGGCATGCGGGAGCCTCTCAGTATCAGGGgc                >  1:3419738/1‑35 (MQ=39)                 catggcatgCGGGAGCCTCTCAGTATCAGGGgcgc              >  1:2760277/1‑35 (MQ=255)                 catggcatgCGGGAGCCTCTCAGTATCAGGGgcgc              >  1:4801987/1‑35 (MQ=255)                  atggcatgCGGGAGCCTCTCAGTATCAGGGGcgcg             <  1:3570099/35‑1 (MQ=39)                  atggcatgCGGGAGCCTCTCAGTATCAGGGGcgcg             <  1:3547021/35‑1 (MQ=255)                  atggcatgCGGGAGCCTCTCAGTATCAGGGGcgcg             <  1:7483081/35‑1 (MQ=39)                   tggcatgCGGGAGCCTCTCAGTATCAGGGGCGCGa            >  1:6500225/1‑35 (MQ=38)                    ggcatgCGGGAGCCTCTCAGTATCAGGGGCGCGaa           <  1:6692994/35‑1 (MQ=255)                    ggcatgCGGGAGCCTCTCAGTATCAGGGGCGCGaa           <  1:2264482/35‑1 (MQ=38)                    ggcatgCGGGAGCCTCTCAGTATCAGGGGCGCGaa           >  1:3986369/1‑35 (MQ=255)                     gcatgCGGGAGCCTCTCAGTATCAGGGGCGCGAAc          >  1:7716143/1‑35 (MQ=38)                      catgCGGGAGCCTCTCAGTATCAGGGGCGCGAACg         >  1:5210123/1‑35 (MQ=255)                      catgCGGGAGCCTCTCAGTATCAGGGGCGCGAACg         >  1:3035687/1‑35 (MQ=37)                       atgCGGGAGCCTCTCAGTATCAGGGGCGCGAACGc        >  1:3549439/1‑35 (MQ=38)                        tgCGGGAGCCTCTCAGTATCAGGGGCGCGAACGcg       >  1:7727815/1‑34 (MQ=37)                          cGGGAGCCTCTCAGTATCAGGGGCGCGAACGCTGc     <  1:666059/35‑1 (MQ=255)                          cGGGAGCCTCTCAGTATCAGGGGCGCGAACGCTGc     >  1:1975168/1‑35 (MQ=38)                            ggAGCCTCTCAGTATCAGGGGCGCGAACGCTGCaa   >  1:215344/1‑35 (MQ=38)                            ggAGCCTCTCAGTATCAGGGGCGCGAACGCTGCaa   >  1:2065346/1‑35 (MQ=255)                            ggAGCCTCTCAGTATCAGGGGCGCGAACGCTGCaa   >  1:5119862/1‑35 (MQ=38)                             gAGCCTCTCAGTATCAGGGGCGCGAACGCTGCAAt  >  1:3069552/1‑35 (MQ=255)                             gAGCCTCTCAGTATCAGGGGCGCGAACGCTGCAAt  <  1:7316362/35‑1 (MQ=255)                                |                                CCTTTCGATAAACGTGCATGGCATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAAT  >  NC_000913/118997‑119059

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑