Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,980,957	(G)6→7	coding (71/1386 nt)	yifK →	putative APC family amino acid transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,980,951	1	.	G	100.0%	216.2 / NA	60	L22R (CTG→CGG)	yifK	putative APC family amino acid transporter
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base G (28/32);  total (28/32)

TGCAACACTCGATGTACCCATAACGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTTCATCATGCGTTCAATGGGCGAAAT  >  NC_000913/3980817‑3981083                                                                                                                                        |                                                                                                                                     tGCAACACTCGATGTACCCATAACGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑gggg                                                                                                                                  >  1:1396306/1‑139 (MQ=255)        cTCGATGTACCCATAACGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑gggggggcacc                                                                                                                           >  1:1418947/1‑134 (MQ=255)                  ccATAACGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCg                                                                                                                  <  2:379035/139‑1 (MQ=255)                   cATAACGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCgg                                                                                                                 <  1:663664/139‑1 (MQ=255)                    aTAACGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGc                                                                                                                <  2:1396306/139‑1 (MQ=255)                      aaCGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑ggggggg                                                                                                                               <  1:216803/121‑2 (MQ=255)                      aaCGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑ggggggg                                                                                                                               >  2:216803/1‑120 (MQ=255)                           tAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTa                                                                                                         >  1:1322603/1‑139 (MQ=255)                            aaCCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTAt                                                                                                        >  2:900045/1‑139 (MQ=255)                            aaCCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTAt                                                                                                        >  1:210328/1‑139 (MQ=255)                                  tAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGgc                                                                                                  >  2:165974/1‑139 (MQ=255)                                     cacCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGgccgc                                                                                               <  2:126492/139‑1 (MQ=255)                                       ccGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCa                                                                                             <  2:1322603/139‑1 (MQ=255)                                        cGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAg                                                                                            <  2:210328/139‑1 (MQ=255)                                          gAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTa                                                                                          >  2:333371/1‑139 (MQ=255)                                            aaGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTAcc                                                                                        <  2:364452/139‑1 (MQ=255)                                               cATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGc                                                                                                                >  2:1403837/1‑112 (MQ=255)                                               cATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGc                                                                                                                <  1:1403837/112‑1 (MQ=255)                                                 tGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTAcc                                                                                        <  1:786825/134‑1 (MQ=255)                                                 tGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTAcc                                                                                        >  2:786825/1‑134 (MQ=255)                                                 tGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGaa                                                                                   >  2:321934/1‑139 (MQ=255)                                                 tGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGaa                                                                                   <  1:321934/139‑1 (MQ=255)                                                         caacacGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑gg                                                                                                                                    <  2:549657/81‑1 (MQ=255)                                                         caacacGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑gg                                                                                                                                    >  1:549657/1‑81 (MQ=255)                                                               gAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCAt                                                                     <  1:333371/139‑1 (MQ=255)                                                                  gATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCg                                                                  <  1:165974/139‑1 (MQ=255)                                                                  gATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCg                                                                  <  1:620851/139‑1 (MQ=255)                                                                      tATGGCAGATAACAAACTAGAGCTACAGCGTGGGCTGGAAGCTCGACATAACGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCGGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTAtt                                                              >  1:165552/1‑139 (MQ=255)                                                                      tATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTAtt                                                              >  2:668917/1‑139 (MQ=255)                                                                             gATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTAttg                                                             >  2:1186533/1‑133 (MQ=255)                                                                             gATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTAttg                                                             <  1:1186533/133‑1 (MQ=255)                                                                              aTAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCt                                                      >  2:1381642/1‑139 (MQ=255)                                                                                aaCAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCtat                                                    >  1:1241978/1‑139 (MQ=255)                                                                                aaCAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCtat                                                    >  1:1096443/1‑139 (MQ=255)                                                                                  cAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTatat                                                  <  2:962805/139‑1 (MQ=255)                                                                                        agagCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATgggccgggc                                                                        >  2:1126779/1‑111 (MQ=255)                                                                                        agagCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATgggccgggc                                                                        <  1:1126779/111‑1 (MQ=255)                                                                                         gagCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGcc                                           >  1:1274202/1‑139 (MQ=255)                                                                                                aGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGt                                    <  1:900045/139‑1 (MQ=255)                                                                                                      ggCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATgggccgggc                                                                        >  1:191481/1‑97 (MQ=255)                                                                                                      ggCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATgggccgggc                                                                        <  2:191481/97‑1 (MQ=255)                                                                                                              gCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTtcatc                      <  1:708182/139‑1 (MQ=255)                                                                                                              gCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTtcatc                      <  2:1418947/139‑1 (MQ=255)                                                                                                                tCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCt                              >  2:1362685/1‑129 (MQ=255)                                                                                                                tCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCGGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCt                              <  1:1362685/129‑1 (MQ=255)                                                                                                                 cGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCgg                                                                                                                 >  1:197287/1‑45 (MQ=255)                                                                                                                 cGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCgg                                                                                                                 <  2:197287/45‑1 (MQ=255)                                                                                                                            aCTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATgg                                                                               <  1:1025132/68‑1 (MQ=255)                                                                                                                            aCTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATgg                                                                               >  2:1025132/1‑68 (MQ=255)                                                                                                                            aCTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATatca                                                >  1:179359/1‑99 (MQ=255)                                                                                                                            aCTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATatca                                                <  2:179359/99‑1 (MQ=255)                                                                                                                              tCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTTCATCATGCGTTCAATGGGCg      <  2:749991/139‑1 (MQ=255)                                                                                                                              tCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTTCATCATGCGTTCAATGGGCg      <  2:1274202/139‑1 (MQ=255)                                                                                                                                aTCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCa                                                                                             <  2:1188831/50‑1 (MQ=255)                                                                                                                                aTCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCa                                                                                             <  1:266838/50‑1 (MQ=255)                                                                                                                                aTCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCa                                                                                             >  1:1188831/1‑50 (MQ=255)                                                                                                                                aTCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCa                                                                                             >  2:266838/1‑50 (MQ=255)                                                                                                                                aTCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTAttg                                                             >  2:135033/1‑82 (MQ=255)                                                                                                                                aTCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTAttg                                                             <  1:135033/82‑1 (MQ=255)                                                                                                                                aTCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCttttt                          <  2:365096/117‑1 (MQ=255)                                                                                                                                aTCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCttttt                          >  1:365096/1‑117 (MQ=255)                                                                                                                                aTCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTtcat                       <  1:1336917/120‑1 (MQ=255)                                                                                                                                aTCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTtcat                       >  2:1336917/1‑120 (MQ=255)                                                                                                                                  cGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGgccgc                                                                                               >  2:415773/1‑46 (MQ=255)                                                                                                                                  cGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGgccgc                                                                                               <  1:415773/46‑1 (MQ=255)                                                                                                                                  cGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTTCATCATGCGTTCAATGGGCGAAAt  >  1:770279/1‑139 (MQ=255)                                                                                                                                        |                                                                                                                                     TGCAACACTCGATGTACCCATAACGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTTCATCATGCGTTCAATGGGCGAAAT  >  NC_000913/3980817‑3981083

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑