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
A1 F2 I198 R1 96 36.2 2313912 84.6% 1957569 85.2

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
TCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTCGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTTCCGTACCGTTGGCCTGCACGTTTTTATCAACCCACGCCACCGGGAATTCCGCCAGAATGTTGGTTTTCGGAATCACCACTTCAAAGCCCTGCGCTTC  >  NZ_CP009273/2536007‑2536203
                                                                                                   |                                                                                                 
TCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTCGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTC                                                                                                   >  SRR3722077.1016430/1‑100 (MQ=60)
  CATCACCTCCGGGTTATTCACGCGGTAGTAATAGTCGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTCCC                                                                                                 >  SRR3722077.68973/1‑100 (MQ=60)
       CCTCCGGGTTATTCACGCGGTAGTAATAGTCGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTCCCGTACC                                                                                            >  SRR3722077.893409/1‑100 (MQ=60)
        CTCCGGGTTATTCACGCGGTAGTAATAGTCGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTCCCGTACCG                                                                                           <  SRR3722077.678136/100‑1 (MQ=60)
            GGGTTATTCACGCGGTAGTAATAGTCGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTCCCGTACCGTTGG                                                                                       >  SRR3722077.378182/1‑100 (MQ=60)
                          GTAGTAATAGTCGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTTCCGTACCGTTGGCCTGCACGTTTTTA                                                                         >  SRR3722077.460973/1‑100 (MQ=60)
                          GTAGTAATAGTCGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTCCCGTACCGTTGGCCTGCACGTTTTTA                                                                         >  SRR3722077.354358/1‑100 (MQ=60)
                                 TAGTCGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTTCCGTACCGTTGGCCTGCACGTTTTTATCAACCT                                                                  >  SRR3722077.904649/1‑100 (MQ=60)
                                       GTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTTCCGTACCGTTGGCCTGCACGTTTTTATCAACCCACGCCA                                                            >  SRR3722077.173094/1‑100 (MQ=60)
                                                         TGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTCCCGTACCGTTGGCCTGCACGTTTTTATCAACCCACGCCACCGGGAATTCCGCCAGAA                                          <  SRR3722077.405577/100‑1 (MQ=60)
                                                            GGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTCCCGTACCGTTGGCCTGCACGTTTTTATCAACCCACGCCACCGGGAATTCCGCCAGAATGT                                       >  SRR3722077.808185/1‑100 (MQ=60)
                                                            GGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTCCCGTACCGTTGGCCTGCACGTTTTTATCAACCCACGCCACCGGGAATTCCGCCAGAATGT                                       >  SRR3722077.958241/1‑100 (MQ=60)
                                                               CTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTTCCGTACCGTTGGCCTGCACGTTTTTATCAACCCACGCCACCGGGAATTCCGCCAGAATGTTGG                                    >  SRR3722077.1044581/1‑100 (MQ=60)
                                                                 ATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTCCCGTACCGTTGGCCTGCACGTTTTTATCAACCCACGCCACCGGGAATTCCGCCAGAATGTTGGTT                                  <  SRR3722077.1149396/100‑1 (MQ=60)
                                                                             CAGATAGGCTTTGGCGGCTTTTCCCGTACCGTTGGCCTGCACGTTTTTATCAACCCACGCCACCGGGAATTCCGCCAGAATGTTGGTTTTCGGAATCACC                      >  SRR3722077.819496/1‑100 (MQ=60)
                                                                                                 TTTCCGTACCGTTGGCCTGCACGTTTTTATCAACCCACGCCACCGGGAATTCCGCCAGAATGTTGGTTTTCGGAATCACCACTTCAAAGCCCTGCGCTTC  >  SRR3722077.264326/1‑100 (MQ=60)
                                                                                                   |                                                                                                 
TCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTCGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTTCCGTACCGTTGGCCTGCACGTTTTTATCAACCCACGCCACCGGGAATTCCGCCAGAATGTTGGTTTTCGGAATCACCACTTCAAAGCCCTGCGCTTC  >  NZ_CP009273/2536007‑2536203

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑