Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,147,479 G→A *114* (TAG→TAA) 
T280I (ACT→ATT) 		 frwD →
yijO ←		 putative enzyme IIB component of PTS
AraC family putative transcriptional activator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,147,4790GA100.0% 202.0 / NA 63*114* (TAG→TAA) 
T280I (ACT→ATT) 		frwD
yijO		putative enzyme IIB component of PTS
AraC family putative transcriptional activator
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (34/29);  total (34/29)

TGCCGAGCGATTTGAACATTGCCGCTATGTGCAATGCAGCATCTACGCATTCCTGCGTGAGCCGCAGCGGGTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAGTCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCAGAAGTAGTTGCTGTCGACAAAGCCGCAGGCGTGCGCCACTTCTTTTACCTT  >  NC_000913/4147347‑4147612
                                                                                                                                    |                                                                                                                                     
tGCCGAGCGATTTGAACATTGCCGCTATGTGCAATGCAGCATCTACGCATTCCTGCGTGAGCCGCAGCGGGTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTGATTCTGGAGTAATCGGtt                                                                                                                                 >  1:1031246/1‑139 (MQ=255)
 gCCGAGCGATTTGAACATTGCCGCTATGTGCAATGCAGCATCTACGCATTCCTGCGTGAGCCGCAGCGGGTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGttt                                                                                                                                >  1:846982/1‑139 (MQ=255)
            tGAACATTGCCGCTATGTGCAATGCAGCATCTACGCATTCCTGCGTGAGCCGCAGCGGGTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGtt                                                                                                                     <  2:1031246/139‑1 (MQ=255)
                    gCCGCTATGTGCAATGCAGCATCTACGCATTCCTGCGTGAGCCGCAGCGGGTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTgg                                                                                                             >  1:352795/1‑139 (MQ=255)
                        cTATGTGCAATGCAGCATCTACGCATTCCTGCGTGAGCCGCAGCGGGTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACt                                                                                                         >  1:755378/1‑139 (MQ=255)
                             tgCAATGCAGCATCTACGCATTCCTGCGTGAGCCGCAGCGGGTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGt                                                                                                                      >  2:1110390/1‑121 (MQ=255)
                             tgCAATGCAGCATCTACGCATTCCTGCGTGAGCCGCAGCGGGTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGt                                                                                                                      <  1:1110390/121‑1 (MQ=255)
                                     agcaTCTACGCATTCCTGCGTGAGCCGCAGCGGGTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTc                                                                                            >  2:274889/1‑139 (MQ=255)
                                       caTCTACGCATTCCTGCGTGAGCCGCAGCGGGTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCg                                                                                          >  1:88391/1‑139 (MQ=255)
                                              gCATTCCTGCGTGAGCCGCAGCGGGTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGa                                                                                         <  2:436767/133‑1 (MQ=255)
                                              gCATTCCTGCGTGAGCCGCAGCGGGTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGa                                                                                         >  1:436767/1‑133 (MQ=255)
                                                  tCCTGCGTGAGCCGCAGCGGGTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGt                                                                               >  2:575162/1‑139 (MQ=255)
                                                    cTGCGTGAGCCGCAGCGGGTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTCCTGCCGGCGATATTCCGACGGCGAGCGTTc                                                                             >  2:874441/1‑139 (MQ=255)
                                                         tGAGCCGCAGCGGGTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGgtgt                                                                        >  1:1491081/1‑139 (MQ=255)
                                                            gCCGCAGCGGGTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGtttt                                                                     >  1:1444396/1‑139 (MQ=255)
                                                            gCCGCAGCGGGTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGtttt                                                                     >  2:775827/1‑139 (MQ=255)
                                                                 aGCGGGTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGa                                                                >  1:183808/1‑139 (MQ=255)
                                                                     ggTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACa                                                            >  2:1348805/1‑139 (MQ=255)
                                                                     ggTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACa                                                            >  1:1488151/1‑139 (MQ=255)
                                                                     ggTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACa                                                            <  2:1491081/139‑1 (MQ=255)
                                                                          tGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACgg                                                       <  1:546703/139‑1 (MQ=255)
                                                                            aGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTTGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCa                                                     <  1:1138580/139‑1 (MQ=255)
                                                                            aGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGAGTTCGATGTTTTTACGAAACAGACGGCa                                                     <  1:274889/139‑1 (MQ=255)
                                                                             gcgcGGTGCGCAAAGTGCTTTCTGCGCCGCGGCAAACCCATCTTATTCTGGAG‑AATCGGTTTTTCTGTCAg                                                                                                                       <  1:935739/71‑1 (MQ=255)
                                                                             gcgcGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGt                                                                                                                                  >  1:376563/1‑61 (MQ=255)
                                                                             gcgcGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGt                                                                                                                                  <  2:376563/61‑1 (MQ=255)
                                                                             gcgcGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGc                                                                                                   >  2:1310271/1‑92 (MQ=255)
                                                                             gcgcGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGc                                                                                                   <  1:1310271/92‑1 (MQ=255)
                                                                             gcgcGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAG‑AATCGGTTTTTCTGTCAg                                                                                                                       >  2:935739/1‑71 (MQ=255)
                                                                               gcgGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGtt                                                                                                                     <  1:618408/72‑1 (MQ=255)
                                                                               gcgGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGtt                                                                                                                     >  2:618408/1‑72 (MQ=255)
                                                                               gcgGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGa                                                                                   <  1:238250/106‑1 (MQ=255)
                                                                               gcgGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGa                                                                                   >  2:238250/1‑106 (MQ=255)
                                                                                   tGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCAGAagtag                                              <  2:1444396/139‑1 (MQ=255)
                                                                                    gcgcAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCAGAagtagt                                             <  2:4913/139‑1 (MQ=255)
                                                                                     cgcAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCAGAAGTAGtt                                            >  1:290348/1‑139 (MQ=255)
                                                                                         aaGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGtt                                                                                                                     >  2:1280171/1‑62 (MQ=255)
                                                                                         aaGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGtt                                                                                                                     <  1:1280171/62‑1 (MQ=255)
                                                                                             gCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTa                                                                                                           >  2:1188903/1‑68 (MQ=255)
                                                                                             gCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTa                                                                                                           <  1:1188903/68‑1 (MQ=255)
                                                                                                    gcgcCGCAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCAGAAGTAGTTGCTGTCGACAAAGcc                             >  1:1234592/1‑139 (MQ=255)
                                                                                                     cgccgcAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGc                                                                                                                  >  2:1404984/1‑53 (MQ=255)
                                                                                                     cgccgcAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGc                                                                                                                  <  1:1404984/53‑1 (MQ=255)
                                                                                                     cgccgcAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCAGAAGTAGTTGCTGTCGACAAAGCCg                            <  1:575162/139‑1 (MQ=255)
                                                                                                      gccgcAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACgg                                                       <  2:1403147/111‑1 (MQ=255)
                                                                                                      gccgcAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACgg                                                       >  1:1403147/1‑111 (MQ=255)
                                                                                                        cgcAGCAAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCAGAAGTAGTTGCTGTCGACAAAGCCGCAg                         >  2:4054/1‑139 (MQ=255)
                                                                                                          cagcaAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCAGAAGTAGTTGCTGTCGACAAAGCCGCAGGc                       >  2:219127/1‑139 (MQ=255)
                                                                                                           agcaAACCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCAGAAGTAGTTGCTGTCGACAAAGCCGCAGGCg                      <  1:1348805/139‑1 (MQ=255)
                                                                                                               aaCCCATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCAGAAGTAGTTGCTGTCGACAAAGCCGCAGGCGTgcg                  <  1:769786/139‑1 (MQ=255)
                                                                                                                  ccATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCAGAAGTAGTTGCTGTCGACAAAGCCGCAGGCGTGCGCCa               <  2:954659/139‑1 (MQ=255)
                                                                                                                  ccATCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCAGAAGTAGTTGCTGTCGACAAAGCCGCAGGCGTGCGCCa               <  2:846982/139‑1 (MQ=255)
                                                                                                                    aTCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCAGAAGTAGTTGCTGTCGACAAAGCCGCAGGCGTGCGCCAct             <  1:1037579/139‑1 (MQ=255)
                                                                                                                     tCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCg                                                                            <  2:1376431/75‑1 (MQ=255)
                                                                                                                     tCTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCg                                                                            >  1:1376431/1‑75 (MQ=255)
                                                                                                                      cTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCAGAAGTAGTTGCTGTCGACAAAGCCGCAGGCGTg                    >  2:1141174/1‑130 (MQ=255)
                                                                                                                      cTTATTCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCAGAAGTAGTTGCTGTCGACAAAGCCGCAGGCGTg                    <  1:1141174/130‑1 (MQ=255)
                                                                                                                          ttCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACg                                                        >  2:393934/1‑90 (MQ=255)
                                                                                                                          ttCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACg                                                        <  1:393934/90‑1 (MQ=255)
                                                                                                                          ttCTGGAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCAGAAGTAGTTGCTGTCGACAAAGCCGCAGGCGTGCGCCACTTCtttt       >  1:712000/1‑139 (MQ=255)
                                                                                                                               gAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCAGAAGTAGTTg                                           >  2:254055/1‑98 (MQ=255)
                                                                                                                               gAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCAGAAGTAGTTg                                           <  1:254055/98‑1 (MQ=255)
                                                                                                                               gAGTAATCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCAGAAGTAGTTGCTGTCGACAAAGCCGCAGGCGTGCGCCACTTCTTTTACCtt  <  1:4054/139‑1 (MQ=255)
                                                                                                                                    |                                                                                                                                     
TGCCGAGCGATTTGAACATTGCCGCTATGTGCAATGCAGCATCTACGCATTCCTGCGTGAGCCGCAGCGGGTAATGAGCGCGGTGCGCAAAGTGCTTTCTGCGCCGCAGCAAACCCATCTTATTCTGGAGTAGTCGGTTTTTCTGTCAGTTGGCTGTGGTACTGCCGGCGATATTCCGACGGCGAGCGTTCGGTGTTTTTACGAAACAGACGGCAGAAGTAGTTGCTGTCGACAAAGCCGCAGGCGTGCGCCACTTCTTTTACCTT  >  NC_000913/4147347‑4147612

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑