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
A9 F28 I1 R1 138 91.1 3071990 99.2% 3047414 138.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,622,367 T→C V1059A (GTC→GCC)  rhsB → rhs element protein RhsB

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,622,3670TC100.0% 191.1 / NA 56V1059A (GTC→GCC) rhsBrhs element protein RhsB
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (28/28);  total (28/28)

GCTGGATGTCGCTGTCACGGAAACCGCAAGTGACCTGGTACGGCTGGGACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGTCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTGGCAGTGTGGTGTTCCCGCCGGTGCTGGTGCAGATGCTCGACC  >  NC_000913/3622232‑3622492
                                                                                                                                       |                                                                                                                             
gCTGGATGTCGCTGTCACGGAAACCGCAAGTGACCTGGTACGGCTGGGACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGaa                                                                                                                           <  2:177206/140‑1 (MQ=255)
gCTGGATGTCGCTGTCACGGAAACCGCAAGTGACCTGGTACGGCTGGGACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGaa                                                                                                                           >  1:64670/1‑140 (MQ=255)
   ggATGTCGCTGTCACGGAAACCGCAAGTGACCTGGTACGGCTGGGACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACt                                                                                                                        >  2:1506452/1‑140 (MQ=255)
     aTGTCGCTGTCACGGAAACCGCAAGTGACCTGGTACGGCTGGGACGGTGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCAAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGc                                                                                                                      <  2:135782/140‑1 (MQ=255)
      tGTCGCTGTCACGGAAACCGCAAGTGACCTGGTACGGCTGGGACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGcc                                                                                                                     >  1:333831/1‑140 (MQ=255)
          gCTGTCACGGAAACCGCAAGTGACCTGGTACGGCTGGGACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCg                                                                                                                 >  2:381440/1‑140 (MQ=255)
          gCTGTCACGGAAACCGCAAGTGACCTGGTACGGCTGGGACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCg                                                                                                                 <  2:1123864/140‑1 (MQ=255)
            tGTCACGGAAACCGCAAGTGACCTGGTACGGCTGGGACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGt                                                                                                               <  1:1234918/140‑1 (MQ=255)
              tCACGGAAACCGCAAGTGACCTGGTACGGCTGGGACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGa                                                                                                             >  2:467782/1‑140 (MQ=255)
                          cAAGTGACCTGGTACGGCTGGGACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAAc                                                                                                 >  1:1273571/1‑140 (MQ=255)
                            aGTGACCTGGTACGGCTGGGACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGc                                                                                               >  1:575024/1‑140 (MQ=255)
                             gTGACCTGGTACGGCTGGGACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCa                                                                                              <  1:694313/140‑1 (MQ=255)
                                   tGGTACGGCTGGGACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGcgccg                                                                                        <  2:1451452/140‑1 (MQ=255)
                                       aCGGCTGGGACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGc                                                                                    <  2:575024/140‑1 (MQ=255)
                                         ggCTGGGACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCt                                                                                  <  2:1198980/140‑1 (MQ=255)
                                           cTGGGACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTgg                                                                                >  2:292503/1‑140 (MQ=255)
                                           cTGGGACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTgg                                                                                >  2:1362168/1‑140 (MQ=255)
                                               gACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGa                                                                            <  2:433133/140‑1 (MQ=255)
                                               gACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGa                                                                            >  2:1521548/1‑140 (MQ=255)
                                               gACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGa                                                                            <  1:381440/140‑1 (MQ=255)
                                               gACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGa                                                                            <  1:1309139/140‑1 (MQ=255)
                                                 cGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATg                                                                          <  2:487606/140‑1 (MQ=255)
                                                    cGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGccc                                                                       >  2:395484/1‑140 (MQ=255)
                                                    cGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGccc                                                                       >  2:1398834/1‑140 (MQ=255)
                                                         ggCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGACCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTcag                                                                  <  1:1237924/140‑1 (MQ=255)
                                                          gCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTcagc                                                                 >  1:163192/1‑140 (MQ=255)
                                                                cACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCcg                                                           <  1:1398834/140‑1 (MQ=255)
                                                                 aCGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCGGCAGTCcgg                                                          <  1:467782/140‑1 (MQ=255)
                                                                   gATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCcggcg                                                        >  1:253462/1‑140 (MQ=255)
                                                                      aCAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCTGgcggcg                                                     <  2:1273571/140‑1 (MQ=255)
                                                                             gACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGa                                                 >  2:863355/1‑137 (MQ=255)
                                                                             gACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGa                                                 <  1:863355/137‑1 (MQ=255)
                                                                             gACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACgg                                              <  1:1512154/140‑1 (MQ=255)
                                                                             gACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACgg                                              <  2:163192/140‑1 (MQ=255)
                                                                             gACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACgg                                              >  1:1125048/1‑140 (MQ=255)
                                                                               cAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTg                                            >  1:1278637/1‑140 (MQ=255)
                                                                               cAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTg                                            >  2:388800/1‑140 (MQ=255)
                                                                                aGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTgg                                           <  1:1506452/140‑1 (MQ=255)
                                                                                aGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTgg                                           <  1:388800/140‑1 (MQ=255)
                                                                                 ggAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTGGc                                          >  1:709415/1‑140 (MQ=255)
                                                                                  gAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTGGCa                                         <  1:1521548/140‑1 (MQ=255)
                                                                                    gCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTGGCAgt                                       >  1:1009796/1‑140 (MQ=38)
                                                                                        cATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGa                                                 >  2:731880/1‑126 (MQ=38)
                                                                                        cATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGa                                                 <  1:731880/126‑1 (MQ=255)
                                                                                          tCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTGGCAGTgtggtg                                 >  2:1436123/1‑140 (MQ=37)
                                                                                          tCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTGGCAGTgtggtg                                 >  2:635851/1‑140 (MQ=37)
                                                                                              gACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTGGCa                                         <  1:1001572/128‑1 (MQ=38)
                                                                                              gACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTGGCa                                         >  2:1001572/1‑128 (MQ=38)
                                                                                               aCGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTGGCAGTGTGGTGTTccc                            <  1:395484/140‑1 (MQ=37)
                                                                                                 gATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTGGCAGTGTGGTGTTCccgc                          <  2:1009796/140‑1 (MQ=37)
                                                                                                  aTTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGGGGCGAAGACGGTGGCAGTGTGGTGTTCccgcc                         <  2:64670/140‑1 (MQ=255)
                                                                                                  aTTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTGGCAGTGTGGTGTTCccgcc                         >  2:1452656/1‑140 (MQ=37)
                                                                                                       tCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTGGCAGTGTGGTGTTCCCGCCGGTGc                    <  1:1452656/140‑1 (MQ=37)
                                                                                                       tCAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTGGCAGTGTGGTGTTCCCGCCGGTGc                    <  2:333831/140‑1 (MQ=37)
                                                                                                       ccAGCCGGGGCGCTTCACCCCACGCTTCGGGGCTGAAACTGCCAGGGGGGGGCTGGAAAAAACGCAGCGCGGCAGCGTGGCGGATGCCCTCCGGCAGTCCGGGGGGGAAGAGGGTGGCTGTGTGGTGTTCCCGCCGGTGc                    <  2:1030996/139‑1 (MQ=2)
                                                                                                        cAGCCGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTGGCAGTGTGGTGTTCCCGCCGGTGCt                   <  2:1125048/140‑1 (MQ=37)
                                                                                                           ccGGGGAGCTTCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTGGCAGTGTGGTGTTCCCGCCGGTGCTGGt                >  2:458245/1‑140 (MQ=255)
                                                                                                                     tCACGCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTGGCAGTGTGGTGTTCCCGCCGGTGCTGGTGCAGATGCTc      >  1:320994/1‑140 (MQ=37)
                                                                                                                         gCCACTCATCAGGGCCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTGGCAGTGTGGTGTTCCCGCCGGTGCTGGTGCAGATGCTCGAcc  >  2:564057/1‑140 (MQ=255)
                                                                                                                                       |                                                                                                                             
GCTGGATGTCGCTGTCACGGAAACCGCAAGTGACCTGGTACGGCTGGGACGGCGACCGGCTGACCACGATACAGAACGACAGGAGCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGTCGAAACTGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATGCCCTTCAGCAGTCCGGCGGCGAAGACGGTGGCAGTGTGGTGTTCCCGCCGGTGCTGGTGCAGATGCTCGACC  >  NC_000913/3622232‑3622492

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A