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 F15 I1 R1 782 634.5 21863942 98.1% 21448527 138.4

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CTGAATATTCTGCGCGACAGCCTCGGGCTGGAGTAACAGTACATCATTTTCTTTTTTTACAGGGTGGAGGAGGAATAATGGAATATCAACACTGGTTACGTGAAGCAATAAGCCAACTTCAGGCGAGCGAAAGCCCGCGGCGTGATGCTGAAATCCTGCTGGAGCATGTTACCGGCAGAGGGCGTACTTTTATTCTCGCCTTTGGTGAAACGCAGCTGAC  >  NZ_CP025268/1272034‑1272253
                                                                     |                                                                                                                                                      
aagctggatatgctgattgaaccgattatccaggaacatcaggccgaccaactggcggcgttgtccGAGNAGGAATAATGGAATATCAACACTGGTTACGTGAAGCAATAAGCCAACTTCAGGCGAGCGAAAGCCCGCGGCGTGATGCTGA                                                                       >  SRR14920162.5929498/67‑151 (MQ=60)
                                                                  GAGCAGGAATAATGGAATATCAACACTGGTTACGTGAAGCAATAAGCCAACTTCAGGCGAGCGAAAGCCCGCGGCGTGATGCTGAAATCCTGCTGGAGCATGTTACCGGCAGAGGGCGTACTTTTATTCTCGCCTTTGGTGAAACGCAGCT     >  SRR14920162.4071819/1‑151 (MQ=60)
                                                                  GAGCAGGAATAATGGAATATCAACACTGGTTACGTGAAGCAATAAGCCAACTTCAGGCGAGCGAAAGCCCGCGGCGTGATGCTGAAATCCTGCTGGAGCATGTTACCGGCAGAGGGCGTACTTTTATTCTCGCCTTTGGTGAAACGCAGCT     >  SRR14920162.4071824/1‑151 (MQ=60)
                                                                   AGCAGGAATAATGGAATATCAACANTGGTTACGTGAAGCAATAAGCCAACTTCAGGCGAGCGAAAGCCCGCGGCGTGATGCTGAAATCCTGCTGGAGCATGTTACCGGCAGAGGGCGTACTTTTNTTCTCGCCTTTGGTGAAACGCAGCTG    >  SRR14920162.5884933/1‑151 (MQ=60)
                                                                   AGCAGGAATAATGGAATATCAACACTGGTTACGTGAAGCAATAAGCCAACTTCAGGCGAGCGAAAGCCCGCGGCGTGATGCTGAAATCCTGCTGGAGCATGTTACCGGCAGAGGGCGTACTTTTATTCTCGCCTTTGGTGAAACGCAGCTG    >  SRR14920162.4851633/1‑151 (MQ=60)
                                                                   AGCAGGAATAATGGAATATCAACACTGGTTACGTGAAGCAATAAGCCAACTTCAGGCGAGCGAAAGCCCGCGGCGTGATGCTGAAATCCTGCTGGAGCATGTTACCGGCAGAGGGCGTACTTTTATTCTCGCCTTTGGTGAAACGCAGCTG    >  SRR14920162.5117619/1‑151 (MQ=60)
                                                                   AGCAGGAATAATGGAATATCAACACTGGTTACGTGAAGCAATAAGCCAACTTCAGGCGAGCGAAAGCCCGCGGCGTGATGCTGAAATCCTGCTGGAGCATGTTACCGGCAGAGGGCGTACTTTTATTCTCGCCTTTGGTGAAACGCAGCTG    >  SRR14920162.9351357/1‑151 (MQ=60)
                                                                     CAGGAATAATGGAATATCAACACTGGTTACGTGAAGCAATAAGCCAACTTCAGGCGAGCGAAAGCCCGCGGCGTGATGCTGAAATCCTGCTGGAGCATGTTACCGGCAGAGGGCGTACTTTTATTCTCGCCTTTGGTGAAACGCAGCTGAC  <  SRR14920162.1349819/151‑1 (MQ=60)
                                                                     CAGGAATAATGGAATATCAACACTGGTTACGTGAAGCAATAAGCCAACTTCAGGCGAGCGAAAGCCCGCGGCGTGATGCTGAAATCCTGCTGGAGCATGTTACCGGCAGAGGGCGTACTTTTATTCTCGCCTTTGGTGAAACGCAGCTGAC  <  SRR14920162.3108647/151‑1 (MQ=60)
                                                                     |                                                                                                                                                      
CTGAATATTCTGCGCGACAGCCTCGGGCTGGAGTAACAGTACATCATTTTCTTTTTTTACAGGGTGGAGGAGGAATAATGGAATATCAACACTGGTTACGTGAAGCAATAAGCCAACTTCAGGCGAGCGAAAGCCCGCGGCGTGATGCTGAAATCCTGCTGGAGCATGTTACCGGCAGAGGGCGTACTTTTATTCTCGCCTTTGGTGAAACGCAGCTGAC  >  NZ_CP025268/1272034‑1272253

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑