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
GAAGCGCAGAGTGAGTATTTACTGCTGCGCGAAACCGGCGGTACGGCGACCCAGACTGAAGGCATTCTTGAGCGGCTGCGACTGGCGGGAATGCCGGAGGCGGATATTCGCCGCCTGATCGCCACGCAAAAAATCCAGACTCGCTTTACGCTCAAAGCGCCCATTGATGGCGTGATCACCGCGTTTGATCTGCGCGCGGGAATGAATATCGCCAAAGATAACGTGGTAGCGAAAATTCAGGGTATGGACCCGGTGTGGGTCACTGCTGCGATCCCGGAG  >  NZ_CP009273/593412‑593690
                                                                                                                                    |                                                                                                                                                  
GAAGCGCAGAGTGAGTATTTACTGCTGCGCGAAACCGGCGGTACGGCGACCCAGACTGAAGGCATTCTTGAGCGGCTGCGACTGGCGGGAATGCCGGAGGCGGATATTCGCCGCCTGATCGCCACGCAAAAAATCCAGACTCGCTTTACGC                                                                                                                                  <  SRR3722132.456351/151‑1 (MQ=60)
        GAGTGAGTATTTACTGCTGCGCGAAACCGGCGGTACGGCGACCCAGACTGAAGGCATTCTTGAGCGGCTGCGACTGGCGGGAATGCCGGAGGCGGATATTCGCCGCCTGATCGCCACGCAAAAAATCCAGACTCGCTTTACGCTCAAAGCG                                                                                                                          >  SRR3722132.497973/1‑151 (MQ=60)
                  gtgggctcggagatgtgtataagagacagGACCCAGACTGAAGGCATTCTTGAGCGGCTGCGACTGGCGGGAATGCCGGAGGCGGATATTCGCCGCCTGATCGCCACGC‑AAAAATCCAGACTCGCTTTACGCTCAAAGCGCCCATTGATGG                                                                                                               <  SRR3722132.30864/122‑1 (MQ=60)
                                                         GAAGGCATTCTTGAGCGGCTGCGACTGGCGGGAATGCCGGAGGCGGATATTCGCCGCCTGATCGCCACGC‑AAAAATCCAGACTCGCTTTACGCTCAAAGCGCCCATTGATGGCGTGATCACCGCGTTTGATCTGCGCGCGGGAATGAAT                                                                          <  SRR3722132.197932/149‑1 (MQ=60)
                                                                  CTTGAGCGGCTGCGACTGGCGGGAATGCCGGAGGCGGATATTCGCCGCCTGATCGCCACGCAAAAAATCCAGACTCGCTTTACGCTCAAAGCGCCCATTGATGGCGTGATCACCGCGTTTGATCctgtctcttatacacatctccgagccc                                                                >  SRR3722132.371869/1‑124 (MQ=60)
                                                                       GCGGCTGCGACTGGCGGGAATGCCGGAGGCGGATATTCGCCGCCTGATCGCCACGC‑AAAAATCCAGACTCGCTTTACGCTCAAAGCGCCCATTGATGGCGTGATCACCGCGTTTGATCTGCGCGCGGGAATGAATATCGCCAAAGATAACG                                                          <  SRR3722132.77791/151‑1 (MQ=60)
                                                                             GCGACTGGCGGGAATGCCGGAGGCGGATATTCGCCGCCTGATCGCCACGC‑AAAAATCCAGACTCGCTTTACGCTCAAAGCGCCCATTGATGGCGTGATCACCGCGTTTGATCTGCGCGCGGGAATGAATATCGCCAAAGATAACGTGGT                                                      <  SRR3722132.563202/149‑1 (MQ=60)
                                                                                           TGCCGGAGGCGGATATTCGCCGCCTGATCGCCACGC‑AAAAATCCAGACTCGCTTTACGCTCAAAGCGCCCATTGATGGCGTGATCACCGCGTTTGATCTGCGCGCGGGAATGAATATCGCCAAAGATAACGTGGTAGCGAAAATTCAGGGT                                      >  SRR3722132.107173/1‑151 (MQ=60)
                                                                                            GCCGGAGGCGGATATTCGCCGCCTGATCGCCACGC‑AAAAATCCAGACTCGCTTTACGCTCAAAGCGCCCATTGATGGCGTGATCACCGCGTTTGATCTGCGCGCGGGAATGAATATCGCCAAAGATAACGTGGTAGCGAAAATTCAGGGT                                      <  SRR3722132.398661/150‑1 (MQ=60)
                                                                                                GAGGCGGATATTCGCCGCCTGATCGCCACGC‑AAAAATCCAGACTCGCTTTACGCTCAAAGCtgtctcttatacacatctccgagcccacgagaccgtactagatctcgtatgccgtcttctgcttgaaaaaaaaaacgaccaatctcacg                                  >  SRR3722132.41255/1‑61 (MQ=60)
                                                                                                  GGCGGATATTCGCCGCCTGATCGCCACGC‑AAAAATCCAGACTCGCTTTACGCTCAAAGCGCCCATTGATGGCGTGATCACCGCGTTTGATCTGCGCGCGGGAATGAATATCGCCAAAGATAACGTGGTAGCGAAAATTCAGGGTATGGACC                               <  SRR3722132.510539/151‑1 (MQ=60)
                                                                                                   GCGGATATTCGCCGCCTGATCGCCACGCAAAAAATCCAGACTCGCTTTACGCTCAAAGCGCCCATTGATGGCGTGATCACCGCGTTTGATCTGCGCGCGGGAATGAATATCGCCAAAGATAACGTGGTAGCGAAAATTCAGGGTATGGACC                               <  SRR3722132.490017/151‑1 (MQ=60)
                                                                                                     GGATATTCGCCGCCTGATCGCCACGC‑AAAAATCCAGACTCGCTTTACGCTCAAAGCGCCCATTGATGGCGTGATCACCGCGTTTGATCTGCGCGCGGGAATGAATATCGCCAAAGATAACGTGGTAGCGAAAATTCAGGGTATGGACtgtc                            >  SRR3722132.438736/1‑147 (MQ=60)
                                                                                                               CGCCTGATCGCCACGC‑AAAAATCCAGACTCGCTTTACGCTCAAAGCGCCCATTGATGGCGTGATCACCGCGTTTGATCTGCGCGCGGGAATGAATATCGCCAAAGATAACGTGGTAGCGAAAATTCAGGGTATGGACCCGGTGTGGGTCAC                  <  SRR3722132.147631/151‑1 (MQ=60)
                                                                                                                                acagATCCAGACTCGCTTTACGCTCAAAGCGCCCATTGATGGCGTGATCACCGCGTTTGATCTGCGCGCGGGAATGAATATCGCCAAAGATAACGTGGTAGCGAAAATTCAGGGTATGGACCCGGTGTGGGTCACTGCTGCGATCCCGGAG  <  SRR3722132.173431/147‑1 (MQ=60)
                                                                                                                                    |                                                                                                                                                  
GAAGCGCAGAGTGAGTATTTACTGCTGCGCGAAACCGGCGGTACGGCGACCCAGACTGAAGGCATTCTTGAGCGGCTGCGACTGGCGGGAATGCCGGAGGCGGATATTCGCCGCCTGATCGCCACGCAAAAAATCCAGACTCGCTTTACGCTCAAAGCGCCCATTGATGGCGTGATCACCGCGTTTGATCTGCGCGCGGGAATGAATATCGCCAAAGATAACGTGGTAGCGAAAATTCAGGGTATGGACCCGGTGTGGGTCACTGCTGCGATCCCGGAG  >  NZ_CP009273/593412‑593690

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑