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 F5 I184 R1 278 29.6 1166432 97.3% 1134938 124.1

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
GTATTGAAGTACCAGAAGTTCTGCGTCCGTATATGAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGC‑TTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAATACTACTTTCGAGTGAAAATCTACCTATCTCTTTGATTTTCAAATTATTCGATGTATACAAGCCTATATAG  >  NZ_CP009273/936118‑936339
                                                                                                         |                                                                                                                     
GTATTGAAGTACCAGAAGTTCTGCGTCCGTATATGAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGT                                                                           >  SRR3722139.184867/1‑150 (MQ=60)
    TGAAGTACCAGAAGTTCTGCGTCCGTATATGAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGC‑TTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAATAC                                                                      <  SRR3722139.469616/150‑1 (MQ=60)
     GAAGTACCAGAAGTTCTGCGTCCGTATATGAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAATAC                                                                      <  SRR3722139.142834/150‑1 (MQ=60)
            CAGAAGTTCTGCGTCCGTATATGAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAATACTACTTTCG                                                              >  SRR3722139.97531/1‑151 (MQ=60)
                                  GAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGC‑TTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAATACTACTTTCGAGTGAAAATCTACCTATCTCTTT                                       >  SRR3722139.33539/1‑151 (MQ=60)
                                                ATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTgtctcttatacacatctccgagcccacgagaccgtactagatctcgtatgccgtcttctg                          >  SRR3722139.298652/1‑91 (MQ=60)
                                                            ACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAATACTACTTTCGAGTGAAAATCTACCTATCTCTTTGATTTTCAAATTATTCGATGTATAC              <  SRR3722139.340228/151‑1 (MQ=60)
                                                                         GAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAATACTACTTTCGAGTGAAAATCTACCTATCTCTTTGATTTTCAAATTATTCGATGTATACAAGCCTATATAG  <  SRR3722139.91549/150‑1 (MQ=60)
                                                                         GAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAATACTACTTTCGAGTGAAAATCTACCTATCTCTTTGATTTTCAAATTATTCGATGTATACAAGCCTATAT    <  SRR3722139.118484/148‑1 (MQ=60)
                                                                         GAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAATACTACTTTCGAGTGAAAATCTACCTATCTCTTTGATTTTCAAATTATTCGATGTATACAAGCCTATAT    <  SRR3722139.39245/148‑1 (MQ=60)
                                                                                                         |                                                                                                                     
GTATTGAAGTACCAGAAGTTCTGCGTCCGTATATGAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGC‑TTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAATACTACTTTCGAGTGAAAATCTACCTATCTCTTTGATTTTCAAATTATTCGATGTATACAAGCCTATATAG  >  NZ_CP009273/936118‑936339

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑