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 F48 I1 R1 62 93.4 3176452 99.2% 3151040 139.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,036,812 G→T A432E (GCG→GAG)  recJ ← ssDNA‑specific exonuclease RecJ

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,036,8120GT100.0% 179.7 / NA 52A432E (GCG→GAG) recJssDNA‑specific exonuclease RecJ
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (38/14);  total (38/14)

CATTTCGGCCGGGCTTAACGGACCGTCTGATACCACTTCGCCTTGCAATAGCGAAGGGTCCAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCGCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTCACCTGCTGGCGCAAACGC  >  NC_000913/3036676‑3036948
                                                                                                                                          |                                                                                                                                        
cATTTCGGCCGGGCTTAACGGACCGTCTGATACCACTTCGCCTTGCAATAGCGAAGGGTCCAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCgcctcct                                                                                                                                       >  2:1238560/1‑139 (MQ=255)
 aTTTCGGCCGGGCTTAACGGACCGTCTGATACCACTTCGCCTTGCAATAGCGAAGGGTCCAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCAt                                                                                                                                      >  1:450152/1‑140 (MQ=255)
              ttAGCGGCCCGTCAGATCCATCTCCGCTTAGAAATGGCAAGGGGTCCAGCCACTCAGTACCCAGTTCGCAAAACCGTTGTTAAAAGGTTTTGAATTTACCCTCTCCCAGCGCCAAACCCGCCTCCATCGCATGACCGCCa                                                                                                                         <  2:450152/140‑1 (MQ=255)
                      ccGTCTGATACCACTTCGCCTTGCAATAGCGAAGGGTCCAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCac                                                                                                                 >  1:124654/1‑139 (MQ=255)
                      ccGTCTGATACCACTTCGCCTTGCAATAGCGAAGGGTCCAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAg                                                                                                                 >  1:1232262/1‑140 (MQ=255)
                       cGTCTGATACCACTTCGCCTTGCAATAGCGAAGGGTCCAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGc                                                                                                                >  2:541906/1‑140 (MQ=255)
                          cTGATACCACTTCGCCTTGCAATAGCGAAGGGTCCAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGcatc                                                                                                             >  1:472186/1‑140 (MQ=255)
                            gATACCACTTCGCCTTGCAATAGCGAAGGGTCCAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGcatcat                                                                                                           >  1:297123/1‑140 (MQ=255)
                                   cTTCGCCTTGCAATAGCGAAGGGTCCAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAggg                                                                                                    >  1:1210163/1‑140 (MQ=255)
                                   cTTCGCCTTGCAATAGCGAAGGGTCCAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAggg                                                                                                    >  1:803777/1‑140 (MQ=255)
                                   attccatttGAAAAAGCGAGGGCCCCAGCCCGTCAGCAACCATTCCGCCAAACCTTTGTTAAAAGGGTTTGATTTTATCCCCTTCCGGCGAAAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAggg                                                                                                    <  2:278529/133‑1 (MQ=255)
                                    ttCGCCTTTCAATAGCGAAGGGTCCAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAggga                                                                                                   >  2:784501/1‑139 (MQ=255)
                                    ttCGCCTTGCAATAGCGAAGGGTCCAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGt                                                                                                   >  1:1238662/1‑140 (MQ=255)
                                    ttCGCCTTGCAATAGCGAAGGGTCCAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGt                                                                                                   >  2:701733/1‑140 (MQ=255)
                                     tCGCCTTGCAATAGCGAAGGGTCCAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTa                                                                                                  >  2:1159500/1‑140 (MQ=255)
                                      cGCCTTGCAATAGCGAAGGGTCCAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTag                                                                                                 >  1:320592/1‑140 (MQ=255)
                                       cctttacAATAGGGAAGGTCCCAGCCACTCAGTACCCAGTCCCCCAACCCGTTGTTGAAAGAGTTTGAATTTACCCCCTCCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTaga                                                                                                <  2:803777/134‑1 (MQ=255)
                                                   ggAAGGGTCCCACCCCTTAAGAACCAGATCCGCAAAACCGTTTTGGAAAGGGTTTGAATTTACCCTCTTCCAGGGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAAt                                                                                     <  2:1148756/139‑1 (MQ=255)
                                                     aaGGGTCCAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAATCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGc                                                                                  >  1:1482197/1‑140 (MQ=255)
                                                     aaGGGTCCAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGc                                                                                  >  1:1178492/1‑140 (MQ=255)
                                                       gggCCCAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGATAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTc                                                                                >  1:1017805/1‑140 (MQ=255)
                                                          tCCAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAg                                                                             >  2:1485951/1‑140 (MQ=255)
                                                            cAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAgcc                                                                           >  2:1192500/1‑139 (MQ=255)
                                                               ccccTCAGTACCCAGTCCGCAAACCCGTTTTTAAAAGAGTTTAATTTTATCCTCTTCCAGCAAAAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCAt                                                                        <  2:320592/137‑1 (MQ=255)
                                                               ccACACAGTACCCAGTTCCCAAAACCGTTTTGGAAAGATTTTAATTTTACCCTCTCCCAGCAACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCAt                                                                        <  2:360547/140‑1 (MQ=255)
                                                                  cTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCAc                                                                     >  1:1017820/1‑140 (MQ=255)
                                                                  cTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCAc                                                                     >  1:1486341/1‑140 (MQ=255)
                                                                  cTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCAc                                                                     >  1:1309033/1‑140 (MQ=255)
                                                                  cTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCAc                                                                     >  1:425705/1‑140 (MQ=255)
                                                                   tCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACg                                                                    >  2:1348193/1‑140 (MQ=255)
                                                                       aaaCCAGTTCCCAAAACCGTTGTTAAAAGAGTTTGATTTTATCCTCTTCCAGCGACAACCCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCata                                                                <  2:472186/139‑1 (MQ=255)
                                                                         aCCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATg                                                              >  1:1148559/1‑140 (MQ=255)
                                                                          ccAGTTCGCAAACCCGTTGTTGAAAGATTTTAAATTTATCCTCTCCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGc                                                             <  2:1017820/140‑1 (MQ=255)
                                                                           cccattCCCCAAACCCGTTTTGGAAAGAGTTAGAATTACACCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACACATATg                                                              <  2:1178492/136‑1 (MQ=255)
                                                                             gTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGc                                                          >  1:1454840/1‑140 (MQ=255)
                                                                             gTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGc                                                          >  2:764903/1‑140 (MQ=255)
                                                                             gTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGc                                                          >  1:331388/1‑140 (MQ=255)
                                                                               ttCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGcc                                                         >  1:678910/1‑140 (MQ=255)
                                                                                tCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGccc                                                        >  2:191611/1‑140 (MQ=255)
                                                                                  gCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCt                                                      >  1:223004/1‑140 (MQ=255)
                                                                                       acccGTTGTTAAAAGAGTTGAAATTTATCCTCTCCCAGGGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAAt                                                  <  2:104385/138‑1 (MQ=255)
                                                                                               ttgAAAGAGTTTAAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGAc                                          <  1:191611/140‑1 (MQ=255)
                                                                                                 gAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCg                                        >  2:253164/1‑140 (MQ=255)
                                                                                                      agttgaaaTTTACCCTCTCCCAGCGAAAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAAcc                                   <  2:297123/134‑1 (MQ=255)
                                                                                                         ttGAATTTATCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCttt                                >  1:471144/1‑140 (MQ=255)
                                                                                                         ttGAATTAACCCTCTCCCAGCAACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCttt                                <  2:1309033/140‑1 (MQ=255)
                                                                                                           aattttATCCTCTTCCAGCGAAAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCa                              <  2:1238662/137‑1 (MQ=255)
                                                                                                             aTTTATCCTCTTCCAGCGACAACCCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGc                            <  1:541906/140‑1 (MQ=255)
                                                                                                                 aTCCTCTTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTAc                        >  1:811145/1‑140 (MQ=255)
                                                                                                                      ctTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTcc                   >  2:1194606/1‑139 (MQ=255)
                                                                                                                      ctTCCAGCGACAAACCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTCa                   >  2:657772/1‑140 (MQ=255)
                                                                                                                                 aaaCCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTCACCTGCTGgcgc        >  1:863186/1‑140 (MQ=255)
                                                                                                                                  aaCCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTCACCTGCTGGCGCa       <  1:1485951/140‑1 (MQ=255)
                                                                                                                                   aCCCGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTCACCTGCTGGCGCaa      >  1:1554656/1‑140 (MQ=255)
                                                                                                                                    cccGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTCACCTGCTGGCGCaaa     <  2:678910/140‑1 (MQ=255)
                                                                                                                                    cccGCCTCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTCACCTGCTGGCGCaaa     >  2:770106/1‑140 (MQ=255)
                                                                                                                                       gcctccATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTCACCTGCTGGCGCAAAcgc  <  1:1194606/140‑1 (MQ=255)
                                                                                                                                       gcctccATCGCAAGACCGACAAACTTCAGCATCAAGCCAGGGTAGAGTGTGTATAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTCACCTGCTGGCGCAAAcgc  <  2:223004/140‑1 (MQ=255)
                                                                                                                                          |                                                                                                                                        
CATTTCGGCCGGGCTTAACGGACCGTCTGATACCACTTCGCCTTGCAATAGCGAAGGGTCCAGCCACTCAGTAACCAGTTCGCCAAACCGTTGTTGAAAGAGTTTGAATTTATCCTCTTCCAGCGACAAACCCGCCGCCATCGCATGACCGCCAAACTTCAGCATCATGCCAGGGTAGAGTGTGTCTAATCGCTCCAGCGCATCACGCATATGCAGCCCCTGAATGGAGCGACCGGAACCTTTCAGCGTACCGTCACCTGCTGGCGCAAACGC  >  NC_000913/3036676‑3036948

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: 

GATK/CNVnator alignment

N/A