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 F1 I1 R1 64 69.7 3300380 93.4% 3082554 111.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,451,938 G→A R117C (CGT→TGT)  rplD ← 50S ribosomal subunit protein L4

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,451,9380GA100.0% 212.8 / NA 61R117C (CGT→TGT) rplD50S ribosomal subunit protein L4
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (27/34);  total (27/34)

CGCGCAGCCAGGAACAGGTTTTCGTCCAGCTCACCGGTGATGATCAGCACATCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACGATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATCGGGCTCTTGA  >  NC_000913/3451802‑3452069
                                                                                                                                        |                                                                                                                                   
cgcgcAGCCAGGAACAGGTTTTCGTCCAGCTCACCGGTGATGATCAGCACATCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAAt                                                                                                                                   <  1:1590583/139‑1 (MQ=255)
  cgcAGCCAGGAACAGGTTTTCGTCCAGCTCACCGGTGATGATCAGCACATCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATcc                                                                                                                                 <  1:1449265/139‑1 (MQ=255)
      gCCAGGAACAGGTTTTCGTCCAGCTCACCGGTGATGATCAGCACATCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGAc                                                                                                                             >  2:446886/1‑139 (MQ=255)
         aGGAACAGGTTTTCGTCCAGCTCACCGGTGATGATCAGCACATCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTa                                                                                                                          <  2:794330/139‑1 (MQ=255)
           gAACAGGTTTTCGTCCAGCTCACCGGTGATGATCAGCACATCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTAcc                                                                                                                        <  2:1384771/139‑1 (MQ=255)
                     tCGTCCAGCTCACCGGTCATGATCAGCACATCTTCCAGAGCCATGTCTTTCAGTTTCTGTGACAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTCCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGAcc                                                                                                              <  2:1014327/139‑2 (MQ=255)
                       gTCCAGCTCACCGGTGATGATCAGCACATCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAgg                                                                                                            <  2:897070/139‑1 (MQ=255)
                                     tgatgaTCAGCACATCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAgcgc                                                                                              >  1:823346/1‑139 (MQ=255)
                                       atgatCAGCACATCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAgcgcgc                                                                                            >  2:1219647/1‑139 (MQ=255)
                                        tgatCAGCACATCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGcgcc                                                                                           <  2:1345517/139‑1 (MQ=255)
                                           tCAGCACATCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCcgcg                                                                                        <  1:33701/139‑1 (MQ=255)
                                               cacaTCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAgcgcgc                                                                                            >  1:157184/1‑131 (MQ=255)
                                               cacaTCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAgcgcgc                                                                                            <  2:157184/131‑1 (MQ=255)
                                                  aTCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATcc                                                                                                                                 >  2:450065/1‑91 (MQ=255)
                                                  aTCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATcc                                                                                                                                 <  1:450065/91‑1 (MQ=255)
                                                  aTCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACAtc                                                                                 <  1:338099/139‑1 (MQ=255)
                                                    cTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACAtctt                                                                               >  2:234380/1‑139 (MQ=255)
                                                       ccAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATcttctt                                                                            >  1:833374/1‑139 (MQ=255)
                                                             ccATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAAc                                                                      >  1:475171/1‑139 (MQ=255)
                                                             ccATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAAc                                                                      >  1:140656/1‑139 (MQ=255)
                                                              cATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGcgccg                                                                                          >  2:1454797/1‑118 (MQ=255)
                                                              cATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGcgccg                                                                                          <  1:1454797/118‑1 (MQ=255)
                                                                tGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACa                                                                                                              <  1:744087/96‑1 (MQ=255)
                                                                tGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACa                                                                                                              >  2:744087/1‑96 (MQ=255)
                                                                tGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACttt                                                                   >  2:1204736/1‑139 (MQ=255)
                                                                tGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACttt                                                                   <  1:1216635/139‑1 (MQ=255)
                                                                    tttCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGa                                                               <  1:446886/139‑1 (MQ=255)
                                                                            tCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAgcg                                                                                               >  1:346127/1‑99 (MQ=255)
                                                                            tCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAgcg                                                                                               <  2:346127/99‑1 (MQ=255)
                                                                            tCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACAtct                                                                                >  2:1431142/1‑114 (MQ=255)
                                                                            tCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACAtct                                                                                <  1:1431142/114‑1 (MQ=255)
                                                                            tCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTc                                                       >  2:823649/1‑139 (MQ=255)
                                                                              tgtgCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACttttt                                                                 >  1:688187/1‑127 (MQ=255)
                                                                              tgtgCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACttttt                                                                 <  2:688187/127‑1 (MQ=255)
                                                                                tgCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGc                                                   >  1:1410109/1‑139 (MQ=255)
                                                                                 gCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCg                                                  <  2:296796/139‑1 (MQ=255)
                                                                                  ccAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCgg                                                 <  2:833374/139‑1 (MQ=255)
                                                                                    agcagcTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGAc                                               >  2:910480/1‑139 (MQ=255)
                                                                                        gcTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAgcg                                                                                               <  1:1627615/87‑1 (MQ=255)
                                                                                        gcTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAgcg                                                                                               >  2:1627615/1‑87 (MQ=255)
                                                                                                ttCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAgcgcgc                                                                                            >  2:177007/1‑82 (MQ=255)
                                                                                                ttCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAgcgcgc                                                                                            <  1:177007/82‑1 (MQ=255)
                                                                                                 tCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGt                                  <  2:1265578/139‑1 (MQ=255)
                                                                                                                agaACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACttt                                                                   <  1:819855/91‑1 (MQ=255)
                                                                                                                agaACTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACttt                                                                   >  2:819855/1‑91 (MQ=255)
                                                                                                                  aaCTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGt                                                                                      <  2:255809/70‑1 (MQ=255)
                                                                                                                  aaCTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGt                                                                                      >  1:255809/1‑70 (MQ=255)
                                                                                                                  aaCTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTaa                                                                       >  2:1291480/1‑85 (MQ=255)
                                                                                                                  aaCTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTaa                                                                       <  1:1291480/85‑1 (MQ=255)
                                                                                                                  aaCTTCTCGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGcc                 >  2:299388/1‑139 (MQ=255)
                                                                                                                       ctcGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAgcgcgc                                                                                            <  1:635205/59‑1 (MQ=255)
                                                                                                                       ctcGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAgcgcgc                                                                                            >  2:635205/1‑59 (MQ=255)
                                                                                                                       ctcGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATc            <  1:101002/139‑1 (MQ=255)
                                                                                                                       ctcGACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATc            <  2:823346/139‑1 (MQ=255)
                                                                                                                          gACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATCggg         <  2:475171/139‑1 (MQ=255)
                                                                                                                          gACAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATCggg         <  1:1588960/139‑1 (MQ=255)
                                                                                                                            cAACGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATCGGGct       >  2:1517520/1‑139 (MQ=255)
                                                                                                                             aaCGATCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATCGGGctc      <  2:1491337/139‑1 (MQ=255)
                                                                                                                                 aTCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATc            >  2:940287/1‑129 (MQ=255)
                                                                                                                                 aTCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATc            <  1:940287/129‑1 (MQ=255)
                                                                                                                                 aTCAGACAATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATCGGGCTCTTGa  <  1:823649/139‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                   
CGCGCAGCCAGGAACAGGTTTTCGTCCAGCTCACCGGTGATGATCAGCACATCTTCCAGAGCCATGTCTTTCAGTTTCTGTGCCAGCAGCTTAGTTTTCGGCGCTTCTACAGAGAACTTCTCGACAACGATCAGACGATCCTGACGTACCAGTTCGGACAGGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATCGGGCTCTTGA  >  NC_000913/3451802‑3452069

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A