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 F2 I198 R1 96 36.2 2313912 84.6% 1957569 85.2

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
AACTGGTTGAACCGACCAGCGGTAATACCGGGATTGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAACCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAGGCATGAAAGGCGCAATCCAAAAAGC  >  NZ_CP009273/2525958‑2526147
                                                                                            |                                                                                                 
AACTGGTTGAACCGACCAGCGGTAATACCGGGATTGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAG                                                                                            <  SRR3722077.609904/100‑1 (MQ=60)
        GAACCGACCAGCGGTAATACCGGGATTGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAAC                                                                                    <  SRR3722077.561113/100‑1 (MQ=60)
        GAACCGACCAGCGGTAATACCGGGATTGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAACCATGAGTATTGAAC                                                                                    <  SRR3722077.671987/100‑1 (MQ=60)
                          ACCGGGATTGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAACCATGAGTATTGAACGCCGCAAGCTGCTGAAAG                                                                  <  SRR3722077.603135/100‑1 (MQ=60)
                                        GGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAAC                                                    >  SRR3722077.260071/1‑100 (MQ=60)
                                        GGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAAC                                                    >  SRR3722077.936605/1‑100 (MQ=60)
                                         GCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACC                                                   <  SRR3722077.1048662/100‑1 (MQ=60)
                                             ATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGTAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGT                                               <  SRR3722077.973783/100‑1 (MQ=60)
                                                      CCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAACCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGA                                      <  SRR3722077.674155/100‑1 (MQ=60)
                                                               GTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAA                             >  SRR3722077.443260/1‑100 (MQ=60)
                                                                 agagacagCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAG                           <  SRR3722077.705351/92‑1 (MQ=60)
                                                                 TACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAG                           >  SRR3722077.700110/1‑100 (MQ=60)
                                                                 TACAAACTCACCCTGACCATGCCAGAAACCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAG                           <  SRR3722077.854930/100‑1 (MQ=60)
                                                                  ACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAGG                          <  SRR3722077.518011/100‑1 (MQ=60)
                                                                  ACAAACTCACCCTGACCATGCCAGAAACCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAGG                          <  SRR3722077.49738/100‑1 (MQ=60)
                                                                     AACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAGGCAT                       >  SRR3722077.62833/1‑100 (MQ=60)
                                                                      aagagacagGACCATGCCAGAAACCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAGGCATG                      <  SRR3722077.778072/91‑1 (MQ=60)
                                                                           CCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAGGCATGAAAGG                 >  SRR3722077.259133/1‑100 (MQ=60)
                                                                                     GCCAGAAACCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAGGCATGAAAGGCGCAATCCAA       >  SRR3722077.1136446/1‑100 (MQ=60)
                                                                                      CCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCctgtctcttatacacatctccgagcccacgagacccacg      >  SRR3722077.863966/1‑61 (MQ=60)
                                                                                      CCAGAAACCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAGGCATGAAAGGCGCAATCCAAA      >  SRR3722077.609430/1‑100 (MQ=60)
                                                                                        AGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAGGCATGAAAGGCGCAATCCAAAAA    <  SRR3722077.464868/100‑1 (MQ=60)
                                                                                          AAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAGGCATGAAAGGCGCAATCCAAAAAGC  <  SRR3722077.988624/100‑1 (MQ=60)
                                                                                            |                                                                                                 
AACTGGTTGAACCGACCAGCGGTAATACCGGGATTGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAACCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAGGCATGAAAGGCGCAATCCAAAAAGC  >  NZ_CP009273/2525958‑2526147

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑