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 F3 I95 R1 196 14.2 808436 96.0% 776098 85.4

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
AGGTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGGCGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTTCGGGGAGATGATTTCCGCTTCCACGCGCTCGCCATAATGGGCGAAAAAGGCCTC  >  NZ_CP009273/4613151‑4613319
                                                                       |                                                                                                 
AGGTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGGGGGGCAAAGGTTTCGGCGAAGTTTGGCAA                                                                       >  SRR3722235.300393/1‑100 (MQ=60)
 GGTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGGGGGGCAAAGGTTTCGGCGAAGTTTGGCAAG                                                                      >  SRR3722235.85904/1‑100 (MQ=60)
                     GATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGGGGGGCAAAGGGTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTTCGGGGA                                                  >  SRR3722235.260086/1‑100 (MQ=60)
                       TGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGGGGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTTCGGGGAGA                                                >  SRR3722235.242043/1‑100 (MQ=60)
                                                                     GGGGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTTCGGGGAGATGATTTCCGCTTCCACGCGCTCGCCATAATGGGCGAAAAAGGCCTC  >  SRR3722235.251395/1‑100 (MQ=60)
                                                                       |                                                                                                 
AGGTAAAGCGTTCATCCAGCAGATGCGAGAATGCCGGAGCCTGACCGAAGTTCCATTCCCAGCTACTCTGGCGGGCAAAGGTTTCGGCGAAGTTTGGCAAGTCTGGCGTTTTGTTCGGGGAGATGATTTCCGCTTCCACGCGCTCGCCATAATGGGCGAAAAAGGCCTC  >  NZ_CP009273/4613151‑4613319

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑