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
A2 F5 I178 R1 167 28.0 1137820 95.3% 1084342 115.1

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CGCTGGTGGATGGCAAAAATACCTTTAGCGCCAAGTATCAACAAGAACCAGGTGTTTCCGGGCCGCTGAAAGTCGGCAACTCGCTGGTAGATGCGTTTACTTTGCAATATTACGAAGGTTTTCCGATGGATCAGGTGGCCTGGGGAGAAATCAAATCTGACCAGCAGTGGAAGGTGTTGTCGAAGCTTAAAAACGGCTACCAGGACAGCCTGTTTACCTCACCGGAAGTGGCGCGCAATGTTGCGAAACCGCTGGTCAGTTATATCGACAAAGCTCTGGTC  >  NZ_CP009273/1061648‑1061928
                                                                                                                                                      |                                                                                                                                  
CGCTGGTGGATGGCAAAAATACCTTTAGCGCCAAGTATCAACAAGAACCAGGTGTTTCCGGGCCGCTGAAAGTCGGCAACTCGCTGGTAGATGCGTTTACTTTGCAATATTACGAAGGTTTTCCGATGGATCAGGTGGCCTGGGGAGAAAT                                                                                                                                    >  SRR3722132.537349/1‑151 (MQ=60)
               AAAATACCTTTAGCGCCAAGTATCAACAAGAACCAGGTGTTTCCGGGCCGCTGAAAGTCGGCAACTCGCTGGTAGATGCGTTTACTTTGCAATATTACGAAGGTTTTCCGATGGATCAGGTGGCCTGGGGAGAAACCAAATCTGACCAGC                                                                                                                      >  SRR3722132.377799/1‑150 (MQ=60)
                                                      TTTCCGGGCCGCTGAAAGTCGGCAACTCGCTGGTAGATGCGTTTACTTTGCAATATTACGAAGGTTTTCCGATGGATCAGGTGGCCTGGGGAGAAATCAAATCTGACCAGCAGTGGAAGGTGTTGTCGAAGCTTAAAAACGGCTACCAGG                                                                               >  SRR3722132.44216/1‑150 (MQ=60)
                                                        TCCGGGCCGCTGAAAGTCGGCAACTCGCTGGTAGATGCGTTTACTTTGCAATATTACGAAGGTTTTCCGATGGATCAGGTGGCCTGGGGAGAAACCAAATCTGACCAGCAGTGGAAGGTGTTGTCGAAGCTTAAAAACGGCTACCAGGAC                                                                             <  SRR3722132.390349/150‑1 (MQ=60)
                                                                       GTCGGCAACTCGCTGGTAGATGCGTTTACTTTGCAATATTACGAAGGTTTTCCGATGGATCAGGTGGCCTGGGGAGAAACCAAATCTGACCAGCAGTGGAAGGTctgtctcttatacacatctccgagcccacgagaccgtactagatctc                                                             >  SRR3722132.6621/1‑104 (MQ=60)
                                                                                                                             gatgtgtataagagacaGGGAGAAACCAAATCTGACCAGCAGTGGAAGGTGTTGTCGAAGCTTAAAAACGGCTACCAGGACAGCCTGTTTACCTCACCGGAAGTGGCGCGCAATGTTGCGAAACCGCTGGTCAGTTATATCGACAAAGCTC       <  SRR3722132.444371/134‑1 (MQ=60)
                                                                                                                               GGATCAGGTGGCCTGGGGAGAAATCAAATCTGACCAGCAGTGGAAGGTGTTGTCGAAGCTTAAAAACGGCTACCAGGACctgtctcttatacacatctccgagcccacgagaccgtactagatctcgtatgccgtcttctgcttgaaaaa      >  SRR3722132.356746/1‑79 (MQ=60)
                                                                                                                                GATCAGGTGGCCTGGGGAGAAACCAAATCTGACCAGCAGTGGAAGGTGTTGTCGAAGCTTAAAAACGGCTACCAGGACAGCCTGTTTACCTCACCGGAAGTGGCGCGCAATGTTGCGAAACCGCTGGTCAGTTATATCGACAAAGCTCTGG    >  SRR3722132.1536/1‑151 (MQ=60)
                                                                                                                                   CAGGTGGCCTGGGGAGAAACCAAATCTGACCAGCAGTGGAAGGTGTTGTCGAAGCTTAAAAACGGCTACCAGGACAGCCTGTTTACCTCACCGGAAGTGGCGCGCAATGTTGCGAAACCGCTGGTCAGTTATATCGACAAAGCTCTGGTC  >  SRR3722132.318677/1‑150 (MQ=60)
                                                                                                                                                      |                                                                                                                                  
CGCTGGTGGATGGCAAAAATACCTTTAGCGCCAAGTATCAACAAGAACCAGGTGTTTCCGGGCCGCTGAAAGTCGGCAACTCGCTGGTAGATGCGTTTACTTTGCAATATTACGAAGGTTTTCCGATGGATCAGGTGGCCTGGGGAGAAATCAAATCTGACCAGCAGTGGAAGGTGTTGTCGAAGCTTAAAAACGGCTACCAGGACAGCCTGTTTACCTCACCGGAAGTGGCGCGCAATGTTGCGAAACCGCTGGTCAGTTATATCGACAAAGCTCTGGTC  >  NZ_CP009273/1061648‑1061928

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑