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 F50 I1 R1 782 316.7 10427156 97.0% 10114341 138.2

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
AGAATATTTGCCTGCCGCCGACAATCAGGTGGTCGGGGACATGGTGAACACTTTTTAACATCCTTTACCCATGGTGATCGACTTTTTCTTCAGGTCGATCACCCCCACTTTCGTGCTGTACCACCACACCTCGTAGCTGCCGTCTTCCTGCATCTCCT  >  NZ_CP025268/279828‑279985
                                                                                                                                    |                         
gtgtacagtccggggacatggtagaCAGGTGTTCGGGGACATGGTGAACACTTTTTAACATCCTTTACCCATGGTGATCGACTTTTTCTTCAGGTCGATCACCCCCACTTTCGTGCTGTACCACCACACCTCATAGCTGCCGTCTTCCTGC         >  SRR14920191.686989/26‑151 (MQ=60)
       gtccggggacatggtagaCAGGTGTTCGGGGACATGGTGAACACTTTTTAACATCCTTTACCCATGGTGATCGACTTTTTCTTCAGGTCGATCACCCCCACTTTCGTGCTGTACCACCACACCTCATAGCTGCCGTCTTCCTGCATTTCCT  >  SRR14920191.4987420/19‑151 (MQ=60)
                                                                                                                                    |                         
AGAATATTTGCCTGCCGCCGACAATCAGGTGGTCGGGGACATGGTGAACACTTTTTAACATCCTTTACCCATGGTGATCGACTTTTTCTTCAGGTCGATCACCCCCACTTTCGTGCTGTACCACCACACCTCGTAGCTGCCGTCTTCCTGCATCTCCT  >  NZ_CP025268/279828‑279985

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑