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 I74 R1 158 13.7 815430 95.7% 780366 86.0

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CAGGCTTATTGCTGGCGGTAAGTATTCCCCCCCTCGCGCCATGGTGGATGGTCGTGCTGGGTACGGTGTTTGCGGTGATCATCGCTAAACAGTTGTATGGCGGTCTGGGACAAAACCCGTTTAATCCGGCAATGATTGGTTATGTGGTCTTACTGATCTCCTTCCCCGTGCAGATG  >  NZ_CP009273/1703640‑1703815
                                                                                  |                                                                                             
CAGGCTTATTGCTGGCGGTAAGTATTCCCCCCCTCGCGCCATGGTGGATGGTCGTGCTGGGTACGGTGTTTGCGGTGATCATAGCTAAACAGTTGTATGG                                                                              <  SRR3722212.48843/100‑1 (MQ=60)
                                                                            GATCATAGCTAAACAGTTGTATGGCGGTCTGGGACAAAACCCGTTTAATCCGGCAATGATTGGTTATGTGGTCTTACTGATCTCCTTCCCCGTGCAGATG  >  SRR3722212.60545/1‑100 (MQ=60)
                                                                                  |                                                                                             
CAGGCTTATTGCTGGCGGTAAGTATTCCCCCCCTCGCGCCATGGTGGATGGTCGTGCTGGGTACGGTGTTTGCGGTGATCATCGCTAAACAGTTGTATGGCGGTCTGGGACAAAACCCGTTTAATCCGGCAATGATTGGTTATGTGGTCTTACTGATCTCCTTCCCCGTGCAGATG  >  NZ_CP009273/1703640‑1703815

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑