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 I184 R1 278 29.6 1166432 97.3% 1134938 124.1

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
GCATCCTTGAAGTTATCTCTCTGTGGTTACAGGAAGGTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAACTATGGATCATCGTCTGCTTGAAATCATTGC  >  NZ_CP009273/965887‑966157
                                                                                                                                          |                                                                                                                                    
gatgtgtataagagacagCTCTGTGGTTACAGGAAGGTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTAC                                                                                                                          <  SRR3722139.41796/133‑1 (MQ=60)
          AGTTATCTCTCTGTGGTTACAGGAAGGTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGC                                                                                                                >  SRR3722139.169494/1‑151 (MQ=60)
                  CTCTGTGGTTACAGGAAGGTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTG                                                                                                        >  SRR3722139.382685/1‑151 (MQ=60)
                                           ACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATG                                                                               >  SRR3722139.139955/1‑151 (MQ=60)
                                                    AACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATA                                                                      <  SRR3722139.106172/151‑1 (MQ=60)
                                                          GCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAtgaattttataaaatttt                                                                >  SRR3722139.242976/1‑133 (MQ=60)
                                                          GCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATT                                                                 <  SRR3722139.277605/150‑1 (MQ=60)
                                                             AAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATG                                                             <  SRR3722139.407068/151‑1 (MQ=60)
                                                                 GGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATT                                                         >  SRR3722139.43854/1‑151 (MQ=60)
                                                                      ACGTCAGGCGATTACTGATTTCGCTGACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATA                                                     >  SRR3722139.70057/1‑150 (MQ=60)
                                                                                  TACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAActgtctcttatacacatctccgagcccacgagaccgtact                                         >  SRR3722139.358930/1‑110 (MQ=60)
                                                                                       ATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGG                                   <  SRR3722139.175240/151‑1 (MQ=60)
                                                                                           CGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAACT                               >  SRR3722139.180879/1‑151 (MQ=60)
                                                                                                ACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAACTATGGA                          <  SRR3722139.82717/151‑1 (MQ=60)
                                                                                                     CAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAACTATGGATCATC                     <  SRR3722139.440525/151‑1 (MQ=60)
                                                                                                        CAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAACTATGGATCATCGTC                  <  SRR3722139.246117/151‑1 (MQ=60)
                                                                                                                       ACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCctgtctcttatacacatctccgagcccacgagaccgtactagatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaacaataca    >  SRR3722139.325493/1‑63 (MQ=60)
                                                                                                                        CATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAACTATGGATCATCGTCTGCTTGAAATCATTGC  >  SRR3722139.361715/1‑151 (MQ=60)
                                                                                                                                          |                                                                                                                                    
GCATCCTTGAAGTTATCTCTCTGTGGTTACAGGAAGGTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAACTATGGATCATCGTCTGCTTGAAATCATTGC  >  NZ_CP009273/965887‑966157

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑