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
ACAGGTAACGCAGAAAAAAGGCACCTTGCGGTGCCTTTCTTATCATTCAATATCCAGCGGATCTTCTGAAAGAATAATCCCGGTATTGTCGGCATAAAGATGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACATCGCTTTCGCCAATGCCTTCGCCAGCGGCACCAACCGGAATTGCCGCCATC  >  NZ_CP009273/4108731‑4108926
                                                                                                   |                                                                                                
ACAGGTAACGCAGAAAAAAGGCACCTTGCGGTGCCTTTCTTATCATTCAATATCCAGCGGATCTTCTGAAAGAATAATCCCGGTATTGTCGGCATAAAGG                                                                                                  <  SRR3722077.619569/100‑1 (MQ=60)
ACAGGTAACGCAGAAAAAAGGCACCTTGCGGTGCCTTTCTTATCATTCAATATCCAGCGGATCTTCTGAAAGAATAATCCCGGTATTGTCGGCATAAAGA                                                                                                  <  SRR3722077.313712/100‑1 (MQ=60)
ACAGGTAACGCAGAAAAAAGGCACCTTGCGGTGCCTTTCTTATCATTCAATATCCAGCGGATCTTCTGAAAGAATAATCCCGGTATTGTCGGCATAAAGA                                                                                                  <  SRR3722077.289224/100‑1 (MQ=60)
                gagatgtgtataagagacagTTCTTATCATTCAATATCCAGCGGATCTTCTGAAAGAATAATCCCGGTATTGTCGGCATAAAGATGGTCGCCGGAGAAGA                                                                                  <  SRR3722077.728087/80‑1 (MQ=60)
                       CCTTGCGGTGCCTTTCTTATCATTCAATATCCAGCGGATCTTCTGAAAGAATAATCCCGGTATTGTCGGCATAAAGGTGGTCGCCGGAGAAGAAGGTGAC                                                                           >  SRR3722077.283714/1‑100 (MQ=60)
                         TTGCGGTGCCTTTCTTATCATTCAATATCCAGCGGATCTTCTGAAAGAATAATCCCGGTATTGTCGGCATAAAGATGGTCGCCGGAGAAGAAGGTGACAC                                                                         <  SRR3722077.998074/100‑1 (MQ=60)
                                GCCTTTCTTATCATTCAATATCCAGCGGATCTTCTGAAAGAATAATCCCGGTATTGTCGGCATAAAGGTGGTCGCCGGAGAAGAAGGTGACACCGCCAAA                                                                  >  SRR3722077.126851/1‑100 (MQ=60)
                                            ATTCAATATCCAGCGGATCTTCTGAAAGAATAATCCCGGTATTGTCGGCATAAAGGTGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGAC                                                      >  SRR3722077.1067080/1‑100 (MQ=60)
                                             TTCAATATCCAGCGGATCTTCTGAAAGAATAATCCCGGTATTGTCGGCATAAAGGTGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACA                                                     >  SRR3722077.864182/1‑100 (MQ=60)
                                             TTCAATATCCAGCGGATCTTCTGAAAGAATAATCCCGGTATTGTCGGCATAAAGGTGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACA                                                     >  SRR3722077.853144/1‑100 (MQ=60)
                                              TCAATATCCAGCGGATCTTCTGAAAGAATAATCCCGGTATTGTCGGCATAAAGActgtctcttatacacatctccgagcccacgagacccacggccatct                                                    >  SRR3722077.356677/1‑54 (MQ=60)
                                                 ggccgtgggtctcgtgggctcggagatgtgtataagagacaGGCATAAAGGTGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACATCGC                                                 <  SRR3722077.722916/59‑1 (MQ=60)
                                                 ATATCCAGCGGATCTTCTGAAAGAATAATCCCGGTATTGTCGGCATAAAGGTGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACATCGC                                                 >  SRR3722077.457590/1‑100 (MQ=60)
                                                 ATATCCAGCGGATCTTCTGAAAGAATAATCCCGGTATTGTCGGCATAAAGGTGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACATCGC                                                 >  SRR3722077.568879/1‑100 (MQ=60)
                                                  TATCCAGCGGATCTTCTGAAAGAATAATCCCGGTATTGTCGGCATAAAGGTGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACATCGCT                                                <  SRR3722077.426074/100‑1 (MQ=60)
                                                  TATCCAGCGGATCTTCTGAAAGAATAATCCCGGTATTGTCGGCATAAAGGTGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACATCGCT                                                <  SRR3722077.834128/100‑1 (MQ=60)
                                                             TCTTCTGAAAGAATAATCCCGGTATTGTCGGCATAAAGGTGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACATCGCTTTCGCCAATGC                                     >  SRR3722077.873873/1‑100 (MQ=60)
                                                                             TCCCGGTATTGTCGGCATAAAGATGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACATCGCTTTCGCCAATGCCTTCGCCAGCGGCACC                     >  SRR3722077.1167998/1‑100 (MQ=60)
                                                                             TCCCGGTATTGTCGGCATAAAGATGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACATCGCTTTCGCCAATGCCTTCGCCAGCGGCACC                     <  SRR3722077.277092/100‑1 (MQ=60)
                                                                               CCGGTATTGTCGGCATAAAGGTGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACATCGCTTTCGCCAATGCCTTCGCCAGCGGCACCAA                   <  SRR3722077.502850/100‑1 (MQ=60)
                                                                                CGGTATTGTCGGCATAAAGGTGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACATCGCTTTCGCCAATGCCTTCGCCAGCGGCACCAAC                  <  SRR3722077.220850/100‑1 (MQ=60)
                                                                                      TGTCGGCATAAAGATGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACATCGCTTTCGCCAATGCCTTCGCCAGCGGCACCAACCGGAAT            <  SRR3722077.988776/100‑1 (MQ=60)
                                                                                           GCATAAAGGTGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACATCGCTTTCGCCAATGCCTTCGCCAGCGGCACCAACCGGAATTGCCG       >  SRR3722077.1047376/1‑100 (MQ=60)
                                                                                           GCATAAAGGTGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACATCGCTTTCGCCAATGCCTTCGCCAGCGGCACCAACCGGAATTGCCG       >  SRR3722077.119051/1‑100 (MQ=60)
                                                                                           GCATAAAGATGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACATCGCTTTCGCCAATGCCTTCGCCAGCGGCACCAACCGGAATTGCCG       >  SRR3722077.270325/1‑100 (MQ=60)
                                                                                           GCATAAAGATGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACATCGCTTTCGCCAATGCCTTCGCCAGCGGCACCAACCGGAATTGCCG       >  SRR3722077.889253/1‑100 (MQ=60)
                                                                                            CATAAAGATGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACATCGCTTTCGCCAATGCCTTCGCCAGCGGCACCAACCGGAATTGCCGC      <  SRR3722077.622327/100‑1 (MQ=60)
                                                                                             ATAAAGATGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACATCGCTTTCGCCAATGCCTTCGCCAGCGGCACCAACCGGAATTGCCGCC     >  SRR3722077.1131753/1‑100 (MQ=60)
                                                                                                AAGGTGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACATCGCTTTCGCCAATGCCTTCGCCAGCGGCACCAACCGGAATTGCCGCCATC  >  SRR3722077.699911/1‑100 (MQ=60)
                                                                                                   |                                                                                                
ACAGGTAACGCAGAAAAAAGGCACCTTGCGGTGCCTTTCTTATCATTCAATATCCAGCGGATCTTCTGAAAGAATAATCCCGGTATTGTCGGCATAAAGATGGTCGCCGGAGAAGAAGGTGACACCGCCAAAATTGACGCGGACATCGCTTTCGCCAATGCCTTCGCCAGCGGCACCAACCGGAATTGCCGCCATC  >  NZ_CP009273/4108731‑4108926

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: ‑