Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A12 F1 I1 R1 760 58.2 3022526 90.8% 2744453 102.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,218,815 A→G T74A (ACG→GCG)  aceK → isocitrate dehydrogenase kinase/phosphatase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,218,8150AG100.0% 224.9 / NA 62T74A (ACG→GCG) aceKisocitrate dehydrogenase kinase/phosphatase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (34/28);  total (34/28)

CTCCGGTGCGCAGCAGCGTTTCGAACAGGCCGACTGGCATGCTGTCCAGCAGGCGATGAAAAACCGTATCCATCTTTACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTACGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCTTTTTTAACTCCGTGTACTGTCGGTTATTTGACCACCGCTCGCTTACTCC  >  NC_000913/4218679‑4218948
                                                                                                                                        |                                                                                                                                     
cTCCGGTGCGCAGCAGCGTTTCGAACAGGCCGACTGGCATGCTGTCCAGCAGGCGATGAAAAACCGTATCCATCTTTACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCg                                                                                                                                     >  2:949634/1‑139 (MQ=255)
   cGGTGCGCAGCAGCGTTTCGAACAGGCCGACTGGCATGCTGTCCAGCAGGCGATGAAAAACCGTATCCATCTTTACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGAc                                                                                                                                  >  2:1201098/1‑139 (MQ=255)
     gTGCGCAGCAGCGTTTCGAACAGGCCGACTGGCATGCTGTCCAGCAGGCGATGAAAAACCGTATCCATCTTTACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGAcgc                                                                                                                                >  1:1134928/1‑139 (MQ=255)
           agcagcGTTTCGAACAGGCCGACTGGCATGCTGTCCAGCAGGCGATGAAAAACCGTATCCATCTTTACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCAtt                                                                                                                          >  1:1144644/1‑139 (MQ=255)
               gcGTTTCGAACAGGCCGACTGGCATGCTGTCCAGCAGGCGATGAAAAACCGTATCCATCTTTACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTta                                                                                                                      <  1:949634/139‑1 (MQ=255)
                 gTTTCGAACAGGCCGACTGGCATGCTGTCCAGCAGGCGATGAAAAACCGTATCCATCTTTACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTtact                                                                                                                    <  2:1482721/139‑1 (MQ=255)
                  tttCGAACAGGCCGACTGGCATGCTGTCCAGCAGGCGATGAAAAACCGTATCCATCTTTACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGAcgc                                                                                                                                <  1:1097433/126‑1 (MQ=255)
                  tttCGAACAGGCCGACTGGCATGCTGTCCAGCAGGCGATGAAAAACCGTATCCATCTTTACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGAcgc                                                                                                                                >  2:1097433/1‑126 (MQ=255)
                                                      gATGAAAAACCGTATCCATCTTTACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTtactac                                                                                                                  >  1:1109492/1‑104 (MQ=255)
                                                      gATGAAAAACCGTATCCATCTTTACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTtactac                                                                                                                  <  2:1109492/104‑1 (MQ=255)
                                                      gATGAAAAACCGTATCCATCTTTACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGAt                                                                               <  2:135689/139‑1 (MQ=255)
                                                          aaaaaCCGTATCCATCTTTACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTAcc                                                                           <  2:1134928/139‑1 (MQ=255)
                                                            aaaCCGTATCCATCTTTACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCcg                                                                         <  2:1333439/139‑1 (MQ=255)
                                                            aaaCCGTATCCATCTTTACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCcg                                                                         <  2:1144644/139‑1 (MQ=255)
                                                                 gTATCCATCTTTACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCtt                                                                    <  1:1201098/139‑1 (MQ=255)
                                                                    tCCATCTTTACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCga                                                                 >  2:406492/1‑139 (MQ=255)
                                                                        tCTTTACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGAtt                                                             >  1:1324545/1‑139 (MQ=255)
                                                                           ttACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGc                                                                                          >  1:41077/1‑107 (MQ=255)
                                                                           ttACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGc                                                                                          <  2:41077/107‑1 (MQ=255)
                                                                            tACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCtt                                                                    <  2:1462198/128‑1 (MQ=255)
                                                                            tACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCtt                                                                    >  1:1462198/1‑128 (MQ=255)
                                                                                 tcatcaCGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGc                                                    <  1:406492/139‑1 (MQ=255)
                                                                                    tcaCGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCttt                                                 >  2:188187/1‑139 (MQ=255)
                                                                                    tcaCGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCttt                                                 >  2:1036789/1‑139 (MQ=255)
                                                                                    tcaCGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCttt                                                 >  1:65035/1‑139 (MQ=255)
                                                                                           ggtctggtcGTGGTGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGAcgc                                                                                                                                <  1:1004701/53‑1 (MQ=255)
                                                                                           ggtctggtcGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGAcgc                                                                                                                                >  2:1004701/1‑53 (MQ=255)
                                                                                            gtctggtcGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGAcgc                                                                                                                                >  1:1162206/1‑52 (MQ=255)
                                                                                            gtctggtcGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGAcgc                                                                                                                                <  2:1162206/52‑1 (MQ=255)
                                                                                            gtctggtcGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCa                                                                                                     >  1:1244098/1‑79 (MQ=255)
                                                                                            gtctggtcGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCa                                                                                                     <  2:1244098/79‑1 (MQ=255)
                                                                                            gtctggtcGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCTTTTTTAACt                                          <  1:118802/138‑1 (MQ=255)
                                                                                            gtctggtcGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCTTTTTTAACt                                          >  2:118802/1‑138 (MQ=255)
                                                                                             tctggtcGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCTTTTTTa                                             <  2:1425373/134‑1 (MQ=255)
                                                                                             tctggtcGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCTTTTTTa                                             >  1:1425373/1‑134 (MQ=255)
                                                                                             tctggtcGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCTTTTTTAACt                                          <  2:223118/137‑1 (MQ=255)
                                                                                             tctggtcGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCTTTTTTAACt                                          >  1:223118/1‑137 (MQ=255)
                                                                                               tggtcGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTa                                                                                                  <  2:99419/79‑1 (MQ=255)
                                                                                               tggtcGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTa                                                                                                  >  1:99419/1‑79 (MQ=255)
                                                                                                 gtcGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCAtt                                                                                                                          <  2:744572/53‑1 (MQ=255)
                                                                                                 gtcGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCAtt                                                                                                                          >  1:744572/1‑53 (MQ=255)
                                                                                                 gtcGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTta                                                                                                                      <  1:722719/57‑1 (MQ=255)
                                                                                                 gtcGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTta                                                                                                                      >  2:722719/1‑57 (MQ=255)
                                                                                                 gtcGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCTTTTTTAACTCCgtgt                                    >  1:210386/1‑139 (MQ=255)
                                                                                                      ggAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGTCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGTATTACCCGCGCTTCGAGATTGCg                                                          <  2:610043/112‑1 (MQ=255)
                                                                                                      ggAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCtt                                                                    >  2:1158514/1‑102 (MQ=255)
                                                                                                      ggAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCtt                                                                    <  1:257285/102‑1 (MQ=255)
                                                                                                      ggAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCtt                                                                    >  2:257285/1‑102 (MQ=255)
                                                                                                      ggAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCtt                                                                    <  1:1158514/102‑1 (MQ=255)
                                                                                                      ggAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCg                                                          >  1:610043/1‑112 (MQ=255)
                                                                                                      ggAGCAACTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCTTTTTTAACTCCGTGTACTGt                               >  2:707885/1‑139 (MQ=255)
                                                                                                            aCTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCtt                                                                    <  2:336633/96‑1 (MQ=255)
                                                                                                            aCTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCtt                                                                    >  1:336633/1‑96 (MQ=255)
                                                                                                            aCTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCTTTTTTAACTCCGTGTACTg                                >  1:1128800/1‑132 (MQ=255)
                                                                                                            aCTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCTTTTTTAACTCCGTGTACTg                                <  2:1128800/132‑1 (MQ=255)
                                                                                                            aCTGCGCTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCTTTTTTAACTCCGTGTACTGTCGGTTa                         >  1:1296246/1‑139 (MQ=255)
                                                                                                               gcgcTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCTTTTTTAACTCCGTGTACTGTCGGTTAttt                      >  2:1234040/1‑139 (MQ=255)
                                                                                                                cgcTGCATTACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCTTTTTTAACTCCGTGTACTGTCGGTTATTTg                     >  1:518713/1‑139 (MQ=255)
                                                                                                                       ttACTAACGGCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCTTTTTTAACTCCGTGTACTGTCGGTTATTTGACCACcg              <  1:188187/139‑1 (MQ=255)
                                                                                                                               ggCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCTTTTTTAACTCCGTGTACTGTCGGTTATTTGACCACCGCTCGCTTa      >  1:466940/1‑139 (MQ=255)
                                                                                                                               ggCCAAAGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCTTTTTTAACTCCGTGTACTGTCGGTTATTTGACCACCGCTCGCTTa      >  1:1332570/1‑139 (MQ=255)
                                                                                                                                   aaaGTGCGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCTTTTTTAACTCCGTGTACTGTCGGTTATTTGACCACCGCTCGCTTACTcc  <  2:65035/139‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                     
CTCCGGTGCGCAGCAGCGTTTCGAACAGGCCGACTGGCATGCTGTCCAGCAGGCGATGAAAAACCGTATCCATCTTTACGATCATCACGTTGGTCTGGTCGTGGAGCAACTGCGCTGCATTACTAACGGCCAAAGTACGGACGCGGCATTTTTACTACGTGTTAAAGAGCATTACACCCGGCTGTTGCCGGATTACCCGCGCTTCGAGATTGCGGAGAGCTTTTTTAACTCCGTGTACTGTCGGTTATTTGACCACCGCTCGCTTACTCC  >  NC_000913/4218679‑4218948

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A