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 F1 I1 R1 154 26.6 2069536 90.2% 1866721 108.9

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CAAGGCGGGCGACACCATCAACGCCGAAGACGCCGTGGTGACGCTGGAGTCCGACAAGGCCACCATGGACGTGCCGTCGCCGCAAGGCGGCGTGGTCAAGGAAGTCAAGGTCAAGGTCGGTGACAACGTCGCCGAAGGCACGTTGCTGCTGATCCTGGAAGGCGCCGCCGCATCAGCCGCCCCGGCAGCTGCCGCCGCGGCACCGGCTCCGGCTGCCAGCGCGCCCGCACCGGCACCGGCCCCC  >  AM260479/1492781‑1493024
                                                                                                                                              |                                                                                                     
CAAGGCGGGCGACACCATCAACGCCGAAGACGCCGTGGTGACGCTGGAGTCCGACAAGGCCACCATGGACGTGCCGTCGCCGCAAGGCGGCGTGGTCAAGGAAGTCAAGGTCAAGGTCGGTGACAACGTCGCCGAAGGCACGCTGCTGC                                                                                                 <  GWNJ‑0478:712:GW2002102894th:2:2113:5597:67535/149‑1 (MQ=60)
          GACACCATCAACGCCGAAGACGCCGTGGTGACGCTGGAGTCCGACAAGGCCACCATGGACGTGCCGTCGCCGCAAGGCGGCGTGGTCAAGGAAGTCAAGGTCAAGGTCGGTGACAACGTCGCCGAAGGCACGCTGCTGCTGATCCTGGAA                                                                                      <  GWNJ‑0478:712:GW2002102894th:2:2116:3271:63927/150‑1 (MQ=60)
                                                                                              GTCAAGGAAGTCAAGGTCAAGGTCGGTGTCAACGTCGCCGAAGGCACGCTGCTGCTGATCCTGGAAGGCGCCGCCGCAGCAGCCGCCCCGGCAGCTGtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgt  >  GWNJ‑0478:712:GW2002102894th:2:2213:18226:38452/1‑97 (MQ=60)
                                                                                                                                              |                                                                                                     
CAAGGCGGGCGACACCATCAACGCCGAAGACGCCGTGGTGACGCTGGAGTCCGACAAGGCCACCATGGACGTGCCGTCGCCGCAAGGCGGCGTGGTCAAGGAAGTCAAGGTCAAGGTCGGTGACAACGTCGCCGAAGGCACGTTGCTGCTGATCCTGGAAGGCGCCGCCGCATCAGCCGCCCCGGCAGCTGCCGCCGCGGCACCGGCTCCGGCTGCCAGCGCGCCCGCACCGGCACCGGCCCCC  >  AM260479/1492781‑1493024

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑