Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	3,516,705	T→C	I159T (ATC→ACC)	mrcA →	peptidoglycan glycosyltransferase/peptidoglycan DD‑transpeptidase MrcA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	3,516,705	0	T	C	100.0%	97.1 / NA	29	I159T (ATC→ACC)	mrcA	peptidoglycan glycosyltransferase/peptidoglycan DD‑transpeptidase MrcA
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (16/13);  total (16/13)

CCAGCAGCTGGCGAGAAACTTCTTCCTCAGTCCAGAACGCACGCTGATGCGTAAGATTAAGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGATCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGTGCTGCGGCACAAGTCTATTTCGGAAAAACGGTCGACCAACTGACGCTGAACGAAATGGCGGTGATAGCCGGGCTG  >  NZ_CP009273/3516595‑3516835                                                                                                               |                                                                                                                                   ccAGCAGCTGGCGAGAAACTTCTTCCTCAGTCCAGAACGCACGCTGATGCGTAAGATTAAGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTAc                                                                                                        <  2:579729/139‑1 (MQ=255) ccAGCAGCTGGCGAGAAACTTCTTCCTCAGTCCAGAACGCACGCTGATGCGTAAGATTAAGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTAc                                                                                                        <  1:91160/139‑1 (MQ=255)  cagcagCTGGCGAGAAACTTCTTCCTCAGTCCAGAACGCACGCTGATGCGTAAGATTAAGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTAcc                                                                                                       <  2:256301/139‑1 (MQ=255)     cagcTGGCGAGAAACTTCTTCCTCAGTCCAGAACGCACGCTGATGCGTAAGATTAAGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTg                                                                                                    >  2:571129/1‑139 (MQ=255)     cagcTGGCGAGAAACTTCTTCCTCAGTCCAGAACGCACGCTGATGCGTAAGATTAAGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTg                                                                                                    >  1:473702/1‑139 (MQ=255)           gCGAGAAACTTCTTCCTCAGTCCAGAACGCACGCTGATGCGTAAGATTAAGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTAc                                                                                               <  2:438798/138‑1 (MQ=255)            cGAGAAACTTCTTCCTCAGTCCAGAACGCACGCTGATGCGTAAGATTAAGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACcg                                                                                             <  1:478874/139‑1 (MQ=255)                   cttcttCCTCAGTCCAGAACGCACGCTGATGCGTAAGATTAAGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCCCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTAt                                                                                      <  1:30025/139‑1 (MQ=255)                              gTCCAGAACGCACGCTGATGCGTAAGATTAAGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGtgc                                                                           <  2:426823/139‑1 (MQ=255)                                 cAGAACGCACGCTGATGCGTAAGATTAAGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGtgctgc                                                                        >  2:551565/1‑139 (MQ=255)                                     acgcacgcTGATGCGTAAGATTAAGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGTGCTGCGGca                                                                    <  1:169624/139‑1 (MQ=255)                                         acgcTGATGCGTAAGATTAAGGAAGTCTTTCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGCGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGTGCTGCGGAACAAg                                                                >  2:240344/1‑139 (MQ=255)                                         acgcTGATGCGTAAGATTAAGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGaa                                                                                                                  <  2:79964/89‑1 (MQ=255)                                         acgcTGATGCGTAAGATTAAGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGaa                                                                                                                  >  1:79964/1‑89 (MQ=255)                                         acgcTGATGCGTAAGATTAAGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGTGCTGCGGCACAAg                                                                >  2:160387/1‑139 (MQ=255)                                         acgcTGATGCGTAAGATTAAGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGTGCTGCGGCACAAg                                                                >  2:549461/1‑139 (MQ=255)                                         acgcTGATGCGTAAGATTAAGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGTGCTGCGGCACAAg                                                                >  1:314371/1‑139 (MQ=255)                                                tGCGTAAGATTAAGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGTGCTGCGGCACAAGTCTAttt                                                         >  2:353845/1‑139 (MQ=255)                                                       gATTAAGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGTGCTGCGGCACAAGTCTATTTCGGaaa                                                   >  2:372892/1‑138 (MQ=255)                                                            aGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGTGCTGCGGCACAAGTCTATTTCGGAAAAACgg                                              <  1:360799/138‑1 (MQ=255)                                                               aaGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGTGCTGCGGCACAAGTCTATTTCGGAAAAACGGTCGa                                          <  2:314371/139‑1 (MQ=255)                                                                 gTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGTGCTGCGGCACAAGTCTATTTCGGAAAAACGGTCGAc                                         >  1:349465/1‑138 (MQ=255)                                                                  tCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGTGCTGCGGCACAAGTCTATTTCGGAAAAACGGTCGAcc                                        >  1:164721/1‑138 (MQ=255)                                                                              ttCGCATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGTGCTGCGGCACAAGTCTATTTCGGAAAAACGGTCGACCAACTGACGCTGaa                           <  1:245655/139‑1 (MQ=255)                                                                                  cATTGAACAGCTGCTGACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGTGCTGCGGCACAAGTCTATTTCGGAAAAACGGTCGACCAACTGACGCTGAACGaa                       <  2:219491/139‑1 (MQ=255)                                                                                            ctgctgACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGTGCTGCGGCACAAGTCTATTTCGGAAAAACGGTCGACCAACTGACGCTGAACGAAATGGCGGTGa             >  1:576451/1‑139 (MQ=255)                                                                                             tgctgACGAAAGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGTGCTGCGGCACAAGTCTATTTCGGAAAAACGGTCGACCAACTGACGCTGAACGAAATGGCGGTGa             >  2:369678/1‑138 (MQ=255)                                                                                                      aaGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGTGCTGCGGCACAAGTCTATTTCGGAAAAACGGTCGACCAACTGACGCTGAACGAAATGGCGGTGATAGCCggggt   >  2:26735/1‑137 (MQ=255)                                                                                                       aGACGAGACCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGTGCTGCGGCACAAGTCTATTTCGGAAAAACGGTCGACCAACTGACGCTGAACGAAATGGCGGTGATAGCCGGGCTg  >  1:557738/1‑139 (MQ=255)                                                                                                               |                                                                                                                                   CCAGCAGCTGGCGAGAAACTTCTTCCTCAGTCCAGAACGCACGCTGATGCGTAAGATTAAGGAAGTCTTCCTCGCGATTCGCATTGAACAGCTGCTGACGAAAGACGAGATCCTCGAGCTTTATCTGAACAAGATTTACCTTGGTTACCGCGCCTATGGTGTCGGTGCTGCGGCACAAGTCTATTTCGGAAAAACGGTCGACCAACTGACGCTGAACGAAATGGCGGTGATAGCCGGGCTG  >  NZ_CP009273/3516595‑3516835

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑