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
A2 F1 I1 R1 748 32.0 1685426 92.6% 1560704 103.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,544,074 C→T *257* (TAG→TAA)  bioH ← pimeloyl‑ACP methyl ester carboxylesterase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,544,0740CT100.0% 59.4 / NA 20*257* (TAG→TAA) bioHpimeloyl‑ACP methyl ester carboxylesterase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (11/9);  total (11/9)

AAATAATGCTTGAATCCGGAGTTCCTCTTGCAGACATCATGCGCTTTACCGGGCTGTCAGAAGAAGAGTTGGCTGCGGCGAGTCAGTAAAGTTCTGTCTCGCCATTTCAAAAGCCACCTACACCCTCTGCTTCAACGCCACCAGCAGGTGACAAAACTCGGCCGGATGCGAAATAAATGGCGCATGGGCCGCTTTGGCGAAGATATATGATTCGCTGTGAGGCCAAAGTTTATCCAGCATCGGCA  >  NC_000913/3543957‑3544201
                                                                                                                     |                                                                                                                               
aaaTAATGCTTGAATCCGGAGTTCCTCTTGCAGACATCATGCGCTTTACCGGGCTGTCAGAAGAAGAGTTGGCTGCGGCGAGTCAGTAAAGTTCTGTCTCGCCATTTCAAAAGCCACTTACACCCTCTGCTTCAACGcc                                                                                                            >  1:399774/1‑139 (MQ=255)
aaaTAATGCTTGAATCCGGAGTTCCTCTTGCAGACATCATGCGCTTTACCGGGCTGTCAGAAGAAGAGTTGGCTGCGGCGAGTCAGTAAAGTTCTGTCTCGCCATTTCAAAAGCCACTTACACCCTCTGCTTCAACGcc                                                                                                            >  2:526804/1‑139 (MQ=255)
      tGCTTGAATCCGGAGTTCCTCTTGCAGACATCATGCGCTTTACCGGGCTGTCAGAAGAAGAGTTGGCTGCGGCGAGTCAGTAAAGTTCTGTCTCGCCATTTCAAAAGCCACTTACACCCTCTGCTTCAACGCCACcagc                                                                                                      >  1:92897/1‑139 (MQ=255)
                                     catGCGCTTTACCGGGCTGTCAGAAGAAGAGTTGGCTGCGGCGAGTCAGTAAAGTTCTGTCTCGCCATTTCAAAAGCCACTTACACCCTCTGCTTCAACGCCACCAGCAGGTGACAAAACTCGGCCGGATGCGaaataa                                                                       >  2:440930/1‑139 (MQ=255)
                                       tGCGCTTTACCGGGCTGTCAGAAGAAGAGTTGGCTGCGGCGAGTCAGTAAAGTTCTGTCTCGCCATTTCAAAAGCCACTTACACCCTCTGCTTCAACGCCACCAGCAGGTGACAAAACTCGGCCGGATGCGaaataaat                                                                     >  2:551021/1‑139 (MQ=255)
                                                      tGTCAGAAGAAGAGTTGGCTGCGGCGAGTCAGTAAAGTTCTGTCTCGCCATTTCAAAAGCCACTTACACCCTCTGCTTCAACGCCACCAGCAGGTGACAAAACTCGGCCGGATGCGAAATAAATGGCGCATGGGCCGCt                                                      <  1:614586/139‑1 (MQ=255)
                                                      tGTCAGAAGAAGAGTTGGCTGCGGCGAGTCAGTAAAGTTCTGTCTCGCCATTTCAAAAGCCACTTACACCCTCTGCTTCAACGCCACCAGCAGGTGACAAAACTCGGCCGGATGCGAAATAAATGGCGCATGGGCCGCt                                                      <  2:240827/139‑1 (MQ=255)
                                                           gaagaagaGTTGGCTGCGGCGAGTCAGTAAAGTTCTGTCTCGCCATTTCAAAAGCCACTTACACCCTCTGCTTCAACGCCACCAGCAGGTGACAAAACTCGGCCGGATGCGAAATAAATGGCGCATGGGCCGCTTTGGc                                                 <  2:399774/139‑1 (MQ=255)
                                                            aagaagaGTTGGCTGCGGCGAGTCAGTAAAGTTCTGTCTCGCCATTTCAAAAGCCACTTACACCCTCTGCTTCAACGCCACCAGCAGGTGACAAAACTCGGCCGGATGCGAAATAAATGGCGCATGGGCCGCTTTGGCg                                                <  1:551021/139‑1 (MQ=255)
                                                             agaagaGTTGGCTGCGGCGAGTCAGTAAAGTTCTGTCTCGCCATTTCAAAAGCCACTTACACCCTCTGCTTCAACGCCACCAGCAGGTGACAAAACTCGGCCGGATGCGAAATAAATGGCGCATGGGCCGCTTTGGCGa                                               <  1:526804/139‑1 (MQ=255)
                                                                  agTTGGCTGCGGCGAGTCAGTAAAGTTCTGTCTCGCCATTTCAAAAGCCACTTACACCCTCTGCTTCAACGCCACCAGCAGGTGACAAAACTCGGCCGGATGCGAAATAAATGGCGCATGGGCCGCTTTGGCGAAGata                                          >  1:346718/1‑139 (MQ=255)
                                                                         tGCGGCGAGTCAGTAAAGTTCTGTCTCGCCATTTCAAAAGCCACTTACACCCTCTGCTTCAACACCACCNGCAGGTGACAAAACTCGGCCGGATGCGAAATAAATGACNCATGGGCGGCTTTGGCGAAGATNTNTGAtt                                   >  2:504039/1‑139 (MQ=255)
                                                                                    aGTAAAGTTCTGTCTCGCCATTTCAAAAGCCACTTACACCCTCTGCTTCAACGCCACCAGCAGGTGACAAAACTCGGCCGGATGCGAAATAAATGGCGCATGGGCCGCTTTGGCg                                                <  2:371346/115‑1 (MQ=255)
                                                                                    aGTAAAGTTCTGTCTCGCCATTTCAAAAGCCACTTACACCCTCTGCTTCAACGCCACCAGCAGGTGACAAAACTCGGCCGGATGCGAAATAAATGGCGCATGGGCCGCTTTGGCg                                                >  1:371346/1‑115 (MQ=255)
                                                                                           ttCTGTCTCGCCATTTCAAAAGCCACTTACACCCTCTGCTTCAACGCCACcagcag                                                                                                    <  2:156631/56‑1 (MQ=255)
                                                                                           ttCTGTCTCGCCATTTCAAAAGCCACTTACACCCTCTGCTTCAACGCCACcagcag                                                                                                    >  1:156631/1‑56 (MQ=255)
                                                                                            tCTGTCTCGCCATTTCAAAAGCCACTTACACCCTCTGCTTCAACGCCACCAGCAGGTGACAAAACTCGGCCGGATGCGAAATAAATGGCGCATGGGCCGCTTTGGCGAAGATATATGATTCGCTGTGAGGCCAAAGttt                >  2:800953/1‑139 (MQ=255)
                                                                                              tGTCTCGCCATTTCAAAAGCCACTTACACCCTCTGCTTCAACGCCACCAGCAGGTGACAAAAc                                                                                          <  2:178838/63‑1 (MQ=255)
                                                                                              tGTCTCGCCATTTCAAAAGCCACTTACACCCTCTGCTTCAACGCCACCAGCAGGTGACAAAAc                                                                                          >  1:178838/1‑63 (MQ=255)
                                                                                                          tCAAAAGCCACTTACACCCTCTGCTTCAACGCCACCAGCAGGTGACAAAACTCGGCCGGATGCGAAATAAATGGCGCATGGGCCGCTTTGGCGAAGATATATGATTCGCTGTGAGGCCAAAGTTTATCCAGCATCGGca  <  1:504039/139‑1 (MQ=255)
                                                                                                                     |                                                                                                                               
AAATAATGCTTGAATCCGGAGTTCCTCTTGCAGACATCATGCGCTTTACCGGGCTGTCAGAAGAAGAGTTGGCTGCGGCGAGTCAGTAAAGTTCTGTCTCGCCATTTCAAAAGCCACCTACACCCTCTGCTTCAACGCCACCAGCAGGTGACAAAACTCGGCCGGATGCGAAATAAATGGCGCATGGGCCGCTTTGGCGAAGATATATGATTCGCTGTGAGGCCAAAGTTTATCCAGCATCGGCA  >  NC_000913/3543957‑3544201

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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