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
A11 F1 I1 R1 757 76.1 3598070 93.4% 3360597 108.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,083,620 G→A R60C (CGT→TGT)  speB ← agmatinase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,083,6200GA100.0% 213.7 / NA 66R60C (CGT→TGT) speBagmatinase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (33/33);  total (33/33)

GCTTTTCGCTCATCTCACGGGCATCGCCAAAGGCATATACCAGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACGGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCATCGCTGTCATACGGCTGGAAGTTCATCGGCAG  >  NC_000913/3083485‑3083734
                                                                                                                                        |                                                                                                                  
gCTTTTCGCTCATCTCACGGGCATCGCCAAAGGCATATACCAGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGAt                                                                                                                 <  1:1453199/139‑1 (MQ=255)
    ttCGCTCATCTCACGGGCATCGCCAAAGGCATATACCAGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCt                                                                                                             >  2:770633/1‑139 (MQ=255)
        cTCATCTCACGGGCATCGCCAAAGGCATATACCAGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCg                                                                                                         <  2:792979/139‑1 (MQ=255)
             ctcACGGGCATCGCCAAAGGCATATACCAGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCg                                                                                                    <  1:1214517/139‑1 (MQ=255)
                       tCGCCAAAGGCATATACCAGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCg                                                                                                               <  1:54452/118‑1 (MQ=255)
                       tCGCCAAAGGCATATACCAGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCg                                                                                                               >  2:54452/1‑118 (MQ=255)
                       tCGCCAAAGGCATATACCAGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCg                                                                                                    >  1:549166/1‑129 (MQ=255)
                       tCGCCAAAGGCATATACCAGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCg                                                                                                    <  2:549166/129‑1 (MQ=255)
                       tCGCCAAAGGCATATACCAGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGaccac                                                                                          >  2:781722/1‑139 (MQ=255)
                              aGGCATATACCAGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACg                                                                                   >  2:374711/1‑139 (MQ=255)
                                gCATATACCAGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGAc                                                                                 <  1:770633/139‑1 (MQ=255)
                                   tataCCAGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATc                                                                                                                <  2:663371/105‑1 (MQ=255)
                                   tataCCAGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATc                                                                                                                >  1:663371/1‑105 (MQ=255)
                                          gATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCCAGGCCAGATTCGTCGAAACCTGACAGAt                                                                                                                 >  1:1532519/1‑98 (MQ=255)
                                          gATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCCAGGCCAGATTCGTCGAAACCTGACAGAt                                                                                                                 <  2:1532519/98‑1 (MQ=255)
                                          gATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCTAGATTCGTCGAAACCTGACAGAt                                                                                                                 <  2:909060/97‑1 (MQ=255)
                                          gATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCTAGATTCGTCGAAACCTGACAGAt                                                                                                                 >  1:909060/1‑97 (MQ=255)
                                          gATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGc                                                                       >  1:1122508/1‑139 (MQ=255)
                                          gATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGc                                                                       >  1:1104322/1‑139 (MQ=255)
                                               ccgcAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGCAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCatat                                                                  >  2:1335493/1‑139 (MQ=255)
                                               ccgcAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTgg                                                                        <  2:399311/133‑1 (MQ=255)
                                               ccgcAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTgg                                                                        >  1:399311/1‑133 (MQ=255)
                                                    gTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAAc                                                             <  1:687036/139‑1 (MQ=255)
                                                     tCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGa                                                                                                       >  1:1115639/1‑96 (MQ=255)
                                                     tCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACg                                                            >  2:466161/1‑139 (MQ=255)
                                                     tCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATACGTCGAAACCTGACAGATCGCTGCCGGa                                                                                                       <  2:1115639/96‑1 (MQ=255)
                                                      ccACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACgg                                                           <  2:1520630/139‑1 (MQ=255)
                                                       cACGACGTTCAGACGCTCACGCATGTGGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGc                                                          >  2:174272/1‑139 (MQ=255)
                                                          gacgTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACg                                                       >  1:989665/1‑139 (MQ=255)
                                                            cgTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGcc                                                     >  2:1146115/1‑139 (MQ=255)
                                                               tCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGac                                                                                             >  1:1642494/1‑96 (MQ=255)
                                                               tCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGac                                                                                             <  2:1642494/96‑1 (MQ=255)
                                                               tCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGc                                                                                      >  1:762525/1‑103 (MQ=255)
                                                               tCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGc                                                                                      <  2:762525/103‑1 (MQ=255)
                                                               tCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGt                                                  >  1:1717694/1‑139 (MQ=255)
                                                               tCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGAT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGc                                                                                      >  2:316352/1‑103 (MQ=255)
                                                               tCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGAT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGc                                                                                      <  1:316352/103‑1 (MQ=255)
                                                                    cGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGc                                                      <  1:827074/130‑1 (MQ=255)
                                                                    cGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGc                                                      >  2:827074/1‑130 (MQ=255)
                                                                     gCTCACGCATGTCGAAAATCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCag                                            <  2:1104322/139‑2 (MQ=255)
                                                                      cTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCa                                                                                     >  1:1451469/1‑97 (MQ=255)
                                                                      cTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCa                                                                                     <  2:1451469/97‑1 (MQ=255)
                                                                      cTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCAcc                                           <  1:69803/139‑1 (MQ=255)
                                                                      cTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCAcc                                           >  1:65422/1‑139 (MQ=255)
                                                                               gTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCa                                  <  1:1377789/139‑1 (MQ=255)
                                                                                tCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCAt                                 <  1:1335493/139‑1 (MQ=255)
                                                                                 cGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCg                                                                >  2:71957/1‑107 (MQ=255)
                                                                                 cGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCg                                                                <  1:71957/107‑1 (MQ=255)
                                                                                  gAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCATCg                               <  1:374711/139‑1 (MQ=255)
                                                                                          aCGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCATCGCTGTCATa                       <  1:781722/139‑1 (MQ=255)
                                                                                          aCGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCATCGCTGTCATa                       <  1:174272/139‑1 (MQ=255)
                                                                                                 gCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACgg                                                           <  1:705661/96‑1 (MQ=255)
                                                                                                 gCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACgg                                                           >  2:705661/1‑96 (MQ=255)
                                                                                                        tgtT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCAt                                 >  2:711552/1‑115 (MQ=255)
                                                                                                        tgtT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCAt                                 <  1:711552/115‑1 (MQ=255)
                                                                                                        tgtT‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCATCGCTGTCATACGGCTGGAAGTTCa         >  2:218258/1‑139 (MQ=255)
                                                                                                          tt‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGcc                                                     >  2:1373266/1‑93 (MQ=255)
                                                                                                          tt‑CCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGcc                                                     <  1:1373266/93‑1 (MQ=255)
                                                                                                             cccAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCATCGCTGTCATACGGCTGGAAGTTCATCgg     <  2:1717694/139‑1 (MQ=255)
                                                                                                                aGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCATCGCTGTCATACGGCTGGAAGTTCATCGGCAg  >  2:1798940/1‑139 (MQ=255)
                                                                                                                  gCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGAc                                                                                 <  2:704621/58‑1 (MQ=255)
                                                                                                                  gCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGAc                                                                                 >  1:704621/1‑58 (MQ=255)
                                                                                                                     aGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGaa                                                              >  1:221921/1‑74 (MQ=255)
                                                                                                                     aGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGaa                                                              <  2:221921/74‑1 (MQ=255)
                                                                                                                            tcgAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGc                                                                                      >  1:190266/1‑43 (MQ=255)
                                                                                                                            tcgAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGc                                                                                      <  2:190266/43‑1 (MQ=255)
                                                                                                                                        |                                                                                                                  
GCTTTTCGCTCATCTCACGGGCATCGCCAAAGGCATATACCAGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTT‑CCCAGGCCAGATTCGTCGAAACCTGACGGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCATCGCTGTCATACGGCTGGAAGTTCATCGGCAG  >  NC_000913/3083485‑3083734

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: ‑

GATK/CNVnator alignment

N/A