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
A4 F1 I1 R1 765 39.6 1867486 94.4% 1762906 108.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,881,431 C→T P297P (CCG→CCA)  dnaN ← DNA polymerase III, beta subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,881,4310CT100.0% 72.8 / NA 24P297P (CCG→CCA) dnaNDNA polymerase III, beta subunit
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (12/12);  total (12/12)

TTCAGCGCGTTCAGAACATCCAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCCGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCCGCGCGAGCAAACGCCTGCTTGAGCAGATCGCAGCCA  >  NC_000913/3881327‑3881548
                                                                                                        |                                                                                                                     
ttCAGCGCGTTCAGAACATCCAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGc                                                                                     <  1:912660/139‑1 (MQ=255)
       cgTTCAGAACATCCAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATa                                                                              <  1:187575/139‑1 (MQ=255)
          tCAGAACATCCAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAg                                                                           >  1:786456/1‑139 (MQ=255)
                      gCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCt                                                                                    <  1:212307/118‑1 (MQ=255)
                      gCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCt                                                                                    >  2:212307/1‑118 (MQ=255)
                           tAACTGACGTTGAAGCCGATTTCCATCGCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAAtt                                                          <  1:782394/139‑1 (MQ=255)
                            aaCTGACGTTGAAGCAGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAAttt                                                         >  2:226009/1‑139 (MQ=255)
                                      gAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTagag                                               >  2:924420/1‑139 (MQ=255)
                                       aaGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTagaga                                              <  2:412556/139‑1 (MQ=255)
                                        aGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTagagag                                             >  1:117472/1‑139 (MQ=255)
                                                   aTCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCcgcgc                                  <  1:226009/139‑1 (MQ=255)
                                                                       aaCGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAATGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCCGCGCGAGCAAACGCCTGCTTGAGc              >  2:667428/1‑139 (MQ=255)
                                                                         cGTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAAtt                                                          >  2:493821/1‑93 (MQ=255)
                                                                         cGTCGAGGAACTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAAtt                                                          <  1:493821/93‑1 (MQ=255)
                                                                          gTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCg                                                                                      <  1:495507/64‑1 (MQ=255)
                                                                          gTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCg                                                                                      >  2:495507/1‑64 (MQ=255)
                                                                          gTCGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCCGCGCGAGCAAACGCCTGCTTGAGCAGa           >  2:362535/1‑139 (MQ=255)
                                                                            cGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGGTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAAtt                                                          >  1:627956/1‑90 (MQ=255)
                                                                            cGAGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAAtt                                                          <  2:627956/90‑1 (MQ=255)
                                                                              aGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGc                                                                                     <  1:145923/61‑1 (MQ=255)
                                                                              aGGATCTCTTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGc                                                                                     >  2:145923/1‑61 (MQ=255)
                                                                                   ctctTCCGCTTCTTCCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCCGCGCGAGCAAACGCCTGCTTGAGCAGATCGcagcca  <  2:117472/139‑1 (MQ=255)
                                                                                                tcCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCg                                                     >  2:821054/1‑75 (MQ=255)
                                                                                                tcCTGTTCTGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCg                                                     <  1:821054/75‑1 (MQ=255)
                                                                                                        |                                                                                                                     
TTCAGCGCGTTCAGAACATCCAGCACATAACTGACGTTGAAGCCGATTTCCATCTCCGCACCGCTATAGGTAACGTCGAGGATCTCTTCCGCTTCTTCCTGTTCCGGGTTGTTGGCGGTGATTTTCAGCTGGTTTTCGCTGACATAAAGACGTACGCCGCGGAATTTCTCGTTAGAGAGAATCGCCGCGCGAGCAAACGCCTGCTTGAGCAGATCGCAGCCA  >  NC_000913/3881327‑3881548

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A