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
A8 F73 I1 R1 23 85.6 2911730 99.3% 2891347 139.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,139,931 G→T A764E (GCG→GAG)  ptsA ← putative PTS multiphosphoryl transfer protein PtsA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,139,9310GT98.2% 185.0 / NA 54A764E (GCG→GAG) ptsAputative PTS multiphosphoryl transfer protein PtsA
Reads supporting (aligned to +/- strand):  ref base G (0/0);  major base T (29/24);  minor base C (1/0);  total (30/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CTTCGTGCATGATGCGGCGAGCGAGGCGCGAGAAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCGCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTCGCGCGCCCACAAGTCGGCTTCCAGTTTACGCGGATAGCGGCAG  >  NC_000913/4139797‑4140062
                                                                                                                                      |                                                                                                                                   
cttcGTGCATGATGCGGCGAGCGAGGCGCGAGAAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCTCCGGCGCTTGCAGACGCTCCACg                                                                                                                                <  1:678440/140‑1 (MQ=255)
 ttcGTGCATGATGCGGCGAGCGAGGCGCGAGAAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCAc                                                                                                                                 <  1:1074390/138‑1 (MQ=255)
 ttcGTGCATGATGCGGCGAGCGAGGCGCGAGAAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGc                                                                                                                               <  1:1276568/140‑1 (MQ=255)
 ttcGTGCATGATGCGGCGAGCGAGGCGCGAGAAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGc                                                                                                                               >  2:646425/1‑140 (MQ=255)
 ttcGTGCATGATGCGGCGAGCGAGGCGCGAGAAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCCCCAc                                                                                                                                 >  2:1074390/1‑138 (MQ=255)
     tGCATGATGCGGCGAGCGAGGCGCGAGAAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGAt                                                                                                                           >  1:1321849/1‑140 (MQ=255)
      gCATGATGCGGCGAGCGAGGCGCGAGAAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGAtg                                                                                                                          >  2:699007/1‑140 (MQ=255)
      gCATGATGCGGCGAGCGAGGCGCGAGAAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGAtg                                                                                                                          >  1:79375/1‑140 (MQ=255)
      gCATGATGCGGCGAGCGAGGCGCGAGAAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGAtg                                                                                                                          <  2:1222009/140‑1 (MQ=255)
          gatgCGGCGAGCGAGGCGCGAGAAAATGCGCATATGCTGATAGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGAtggtgg                                                                                                                      <  1:1201057/140‑1 (MQ=255)
           atgCGGCGAGCGAGGCGCGAGAAAATGCGCATTTGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGa                                                                                                                     <  2:1442068/140‑1 (MQ=255)
           atgCGGCGAGCGAGGCGCGAGAAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGa                                                                                                                     <  1:1443044/140‑1 (MQ=255)
                gcgagcgaGGCGCGAGAAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCt                                                                                                                <  2:396307/140‑1 (MQ=255)
                   agcgagGCGCGAGAAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCaa                                                                                                             >  1:670145/1‑140 (MQ=255)
                    gcgagGCGCGAGAAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAAt                                                                                                            >  2:694983/1‑140 (MQ=255)
                    gcgagGCGCGAGAAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAAt                                                                                                            <  2:847580/140‑1 (MQ=255)
                     cgagGCGCGAGAAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAAtg                                                                                                           >  2:1052634/1‑140 (MQ=255)
                              agaAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAAt                                                                                                            <  1:1164415/130‑1 (MQ=255)
                              agaAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAAt                                                                                                            >  2:1164415/1‑130 (MQ=255)
                              agaAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGAt                                                                                                  <  1:63946/140‑1 (MQ=255)
                              agaAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGAt                                                                                                  <  1:307720/140‑1 (MQ=255)
                              agaAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGAt                                                                                                  >  2:1428515/1‑140 (MQ=255)
                                 aaaTGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTg                                                                                               <  2:670145/140‑1 (MQ=255)
                                  aaTGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGc                                                                                              >  2:1198643/1‑140 (MQ=255)
                                                gATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCa                                                                                <  1:960174/140‑1 (MQ=255)
                                                 aTCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCaa                                                                               <  1:699007/140‑1 (MQ=255)
                                                   cGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCaaaa                                                                             >  1:979695/1‑140 (MQ=255)
                                                       cGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTaa                                                                         >  2:324950/1‑140 (MQ=255)
                                                         cAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAg                                                                       <  1:1052634/140‑1 (MQ=255)
                                                                tttgttCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGAc                                                                <  2:979695/140‑1 (MQ=255)
                                                                  tgttCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCg                                                              <  1:1428515/140‑1 (MQ=255)
                                                                     tCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTa                                                           <  1:537718/140‑1 (MQ=255)
                                                                        gggATAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGATCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTagag                                                        >  2:160207/1‑140 (MQ=255)
                                                                         ggTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGTGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAgaga                                                       >  1:933390/1‑140 (MQ=255)
                                                                                   atgatgAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTc                                             >  2:987342/1‑140 (MQ=255)
                                                                                   atgatgAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTc                                             >  1:197195/1‑140 (MQ=255)
                                                                                   atgatgAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTc                                             >  2:921374/1‑140 (MQ=255)
                                                                                   atgatgAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTc                                             >  2:160038/1‑140 (MQ=255)
                                                                                     gatgaATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTcgc                                           >  1:616894/1‑140 (MQ=255)
                                                                                        gaATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTcgcgcg                                        <  1:398978/140‑1 (MQ=255)
                                                                                         aaTTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGCTTGCTCAATGCGTTCTGATTAGCTGTGTGGAATGCCAAAACTAAAGCACAGACCGGTAGAGAAAACGGCCTCgcgcgc                                       >  2:160205/1‑140 (MQ=255)
                                                                                          aTTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTCGCGCGcc                                      >  1:761367/1‑140 (MQ=255)
                                                                                          aTTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTCGCGCGcc                                      <  1:921374/140‑1 (MQ=255)
                                                                                              cgcTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTCGCGCGCCcaca                                  >  2:429947/1‑140 (MQ=255)
                                                                                              cgcTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTCGCGCGCCcaca                                  >  2:622022/1‑140 (MQ=255)
                                                                                              cgcTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTCGCGCGCCcaca                                  >  2:776309/1‑140 (MQ=255)
                                                                                                cTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTCGCGCGCCCACAAg                                >  1:173593/1‑140 (MQ=255)
                                                                                                   catcatCGCCCCAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTCGCGCGCCCACAAGTCg                             <  1:646425/140‑1 (MQ=255)
                                                                                                           ccccAGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTCGCGCGCCCACAAGTCGGCTTCCAg                     >  2:620684/1‑140 (MQ=255)
                                                                                                               aGCGCACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTCGCGCGCCCACAAGTCGGCTTCCAGTTTa                 >  2:1149184/1‑140 (MQ=255)
                                                                                                                gcgcACCGGCGCTTGCAGACCCTCCACGCTGGTGGTGGCTTGCTCAATGCGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTCGCCCGCCCACAAGTCGGCTTCCAGTTTAc                >  2:1345055/1‑140 (MQ=255)
                                                                                                                 cgcACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTCGCGCGCCCACAAGTCGGCTTCCAGTTTAcg               <  2:79375/140‑1 (MQ=255)
                                                                                                                   cACCGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTCGCGCGCCCACAAGTCGGCTTCCAGTTTAcgcg             <  1:694983/140‑1 (MQ=255)
                                                                                                                      cGGCGCTTGCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTCGCGCGCCCACAAGTCGGCTTCCAGTTTACGCGGAt          >  2:670481/1‑140 (MQ=255)
                                                                                                                              gCAGACGCTCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTCGCGCGCCCACAAGTCGGCTTCCAGTTTACGCGGATagcggcag  >  1:122760/1‑140 (MQ=255)
                                                                                                                                      |                                                                                                                                   
CTTCGTGCATGATGCGGCGAGCGAGGCGCGAGAAAATGCGCATATGCTGATCGCCCGCAGCGTGTTTGTTCAGGGTTAACATAATGATGAATTGCGCTTCATCATCGCCCCAGCGCACCGGCGCTTGCAGACGCGCCACGCTGATGGTGGATTGCTCAATGTGTTCTGATTTGCTGTGTGGAATGGCAAAACTAAAGCCCAGACCGGTAGAGAAAACGGCCTCGCGCGCCCACAAGTCGGCTTCCAGTTTACGCGGATAGCGGCAG  >  NC_000913/4139797‑4140062

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A