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
GCGGGGAAACCATAAACAGGCTATTAAACGTTTCCATTAGATCACGTGCTCATCCAGTAGCGCCTGGCAGGAAGGCGGCAACGGAGGCGGTGTCTTCTTCTCAGGCTTTGTTGTTCCCGGTTTTGGAGGTTCAAACCAGCTTTGCAGTTCTGCCCCGCAACCATCGCCTGATGGCGGTAAAGGTTGATCTT  >  NZ_CP009273/2439003‑2439193
                                                                                                  |                                                                                            
GCGGGGAAACCATAAACAGGCTATTAAACGTTTCCATTAGATCACGTGCTCATCCAGTAGCGCCTGGCAGGAAGGCGGCAACGGAGGCGGTGTCTTCTCC                                                                                             <  SRR3722077.200281/100‑1 (MQ=60)
         CCATAAACAGGCTATTAAACGTTTCCATTAGATCACGTGCTCATCCAGTAGCGCCTGGCAGGAAGGCGGCAACGGAGGCGGTGTCTTCTCCTCAGGCTTT                                                                                    >  SRR3722077.1115165/1‑100 (MQ=60)
         CCATAAACAGGCTATTAAACGTTTCCATTAGATCACGTGCTCATCCAGTAGCGCCTGGCAGGAAGGCGGCAACGGAGGCGGTGTCTTCTCCTCAGGCTTT                                                                                    >  SRR3722077.579134/1‑100 (MQ=60)
                  GGCTATTAAACGTTTCCATTAGATCACGTGCTCATCCAGTAGCGCCTGGCAGGAAGGCGGCAACGGAGGCGGTGTCTTCTCCTCAGGCTTTGTTGTTCCC                                                                           >  SRR3722077.166199/1‑100 (MQ=60)
                  GGCTATTAAACGTTTCCATTAGATCACGTGCTCATCCAGTAGCGCCTGGCAGGAAGGCGGCAACGGAGGCGGTGTCTTCTCCTCAGGCTTTGTTGTTCCC                                                                           >  SRR3722077.19179/1‑100 (MQ=60)
                    CTATTAAACGTTTCCATTAGATCACGTGCTCATCCAGTAGCGCCTGGCAGGAAGGCGGCAACGGAGGCGGTGTCTTCTTCTCAGGCTctgtctcttatac                                                                         >  SRR3722077.32576/1‑87 (MQ=60)
                      ATTAAACGTTTCCATTAGATCACGTGCTCATCCAGTAGCGCCTGGCAGGAAGGCGGCAACGGAGGCGGTGTCTTCTCCTCAGGCTTTGTTGTTCCCGGTT                                                                       >  SRR3722077.911207/1‑100 (MQ=60)
                                 CCATTAGATCACGTGCTCATCCAGTAGCGCCTGGCAGGAAGGCGGCAACGGAGGCGGTGTCTTCTTCTCAGGCTTTGTTGTTCCCGGTTTTGGAGGTTCA                                                            >  SRR3722077.510959/1‑100 (MQ=60)
                                 CCATTAGATCACGTGCTCATCCAGTAGCGCCTGGCAGGAAGGCGGCAACGGAGGCGGTGTCTTCTCCTCAGGCTTTGTTGTTCCCGGTTTTGGAGGTTCA                                                            >  SRR3722077.356619/1‑100 (MQ=60)
                                     TAGATCACGTGCTCATCCAGTAGCGCCTGGCAGGAAGGCGGCAACGGAGGCGGTGTCTTCTTCctgtctcttatacacatctccgagcccacgagaccca                                                        >  SRR3722077.975364/1‑63 (MQ=60)
                                     TAGATCACGTGCTCATCCAGTAGCGCCTGGCAGGAAGGCGGCAACGGAGGCGGTGTCTTCTTCTCAGGCTTTGTTGTTCCCGGTTTTGGAGGTTCAAACC                                                        <  SRR3722077.137402/100‑1 (MQ=60)
                                               GCTCATCCAGTAGCGCCTGGCAGGAAGGCGGCAACGGAGGCGGTGTCTTCTCCTCAGGCTTTGTTGTTCCCGGTTTTGGAGGTTCAAACCAGCTTTGCAG                                              <  SRR3722077.181769/100‑1 (MQ=60)
                                                  CATCCAGTAGCGCCTGGCAGGAAGGCGGCAACGGAGGCGGTGTCTTCTTCTCAGGCTTTGTTGTTCCCGGTTTTGGAGGTTCAAACCAGCTTTGCAGTTC                                           <  SRR3722077.917315/100‑1 (MQ=60)
                                                      CAGTAGCGCCTGGCAGGAAGGCGGCAACGGAGGCGGTGTCTTCTCCTCAGGCTTTGTTGTTCCCGGTTTTGGAGGTTCAAACCAGCTTTGCAGTTCTGCC                                       >  SRR3722077.415002/1‑100 (MQ=60)
                                                       AGTAGCGCCTGGCAGGAAGGCGGCAACGGAGGCGGTGTCTTCTCCTCAGGCTTTGTTGTTCCCGGTTTTGGAGGTTCAAACCAGCTTTGCAGTTCTGCCC                                      <  SRR3722077.653038/100‑1 (MQ=60)
                                                                    AGGAAGGCGGCAACGGAGGCGGTGTCTTCTTCTCAGGCTTTGTTGTTCCCGGTTTTGGAGGTTCAAACCAGCTTTGCAGTTCTGCCCCGCAACCATCGCC                         <  SRR3722077.193200/100‑1 (MQ=60)
                                                                                          TGTCTTCTCCTCAGGCTTTGTTGTTCCCGGTTTTGGAGGTTCAAACCAGCTTTGCAGTTCTGCCCCGCAACCATCGCCTGATGGCGGTAAAGGTTGATCT   <  SRR3722077.891464/100‑1 (MQ=60)
                                                                                           GTCTTCTTCTCAGGCTTTGTTGTTCCCGGTTTTGGAGGTTCAAACCAGCTTTGCAGTTCTGCCCCGCAACCATCGCCTGATGGCGGTAAAGGTTGATCTT  >  SRR3722077.802649/1‑100 (MQ=60)
                                                                                           GTCTTCTTCTCAGGCTTTGTTGTTCCCGGTTTTGGAGGTTCAAACCAGCTTTGCAGTTCTGCCCCGCAACCATCGCCTGATGACGGTAAAGGTTGATCTT  >  SRR3722077.502059/1‑100 (MQ=60)
                                                                                                  |                                                                                            
GCGGGGAAACCATAAACAGGCTATTAAACGTTTCCATTAGATCACGTGCTCATCCAGTAGCGCCTGGCAGGAAGGCGGCAACGGAGGCGGTGTCTTCTTCTCAGGCTTTGTTGTTCCCGGTTTTGGAGGTTCAAACCAGCTTTGCAGTTCTGCCCCGCAACCATCGCCTGATGGCGGTAAAGGTTGATCTT  >  NZ_CP009273/2439003‑2439193

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑