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
ATCATGTACCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCGGGTGATCACCCC  >  NZ_CP009273/3535240‑3535432
                                                                                                   |                                                                                             
ATCATGTACCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTC                                                                                               >  SRR3722077.865729/1‑100 (MQ=60)
ATCATGTACCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTC                                                                                               >  SRR3722077.41304/1‑100 (MQ=60)
        CCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCG                                                                                       <  SRR3722077.317748/100‑1 (MQ=60)
                     GCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTT                                                                          >  SRR3722077.218967/1‑100 (MQ=60)
                         GATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTgt                                                                      >  SRR3722077.1322/1‑98 (MQ=60)
                          ATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTTCTCGC                                                                     <  SRR3722077.856798/100‑1 (MQ=60)
                             ATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGA                                                                  >  SRR3722077.1146428/1‑100 (MQ=60)
                                   ACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGA                                                            >  SRR3722077.698370/1‑100 (MQ=60)
                                   ACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGGAAAGTGATCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGA                                                            >  SRR3722077.448464/1‑100 (MQ=60)
                                    CCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAA                                                           <  SRR3722077.433768/100‑1 (MQ=60)
                                                      GCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAA                                         >  SRR3722077.1121325/1‑100 (MQ=60)
                                                          CGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGAC                                     <  SRR3722077.621/100‑1 (MQ=60)
                                                             TCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCG                                  >  SRR3722077.966766/1‑100 (MQ=60)
                                                                     CTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCctgtctcttatacacatctccgagcccacgagacccac                          >  SRR3722077.225465/1‑62 (MQ=60)
                                                                     CTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGC                          >  SRR3722077.386175/1‑100 (MQ=60)
                                                                     CTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGC                          >  SRR3722077.58585/1‑100 (MQ=60)
                                                                      TGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCG                         <  SRR3722077.678301/100‑1 (MQ=60)
                                                                       GGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGT                        >  SRR3722077.444770/1‑100 (MQ=60)
                                                                          AAAGTGATCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCG                     >  SRR3722077.270012/1‑100 (MQ=60)
                                                                            AGTGATCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTC                   <  SRR3722077.374680/100‑1 (MQ=60)
                                                                             GTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCA                  >  SRR3722077.217565/1‑100 (MQ=60)
                                                                                 TCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCG              >  SRR3722077.72827/1‑100 (MQ=60)
                                                                                   ATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGctgtctcttatac            >  SRR3722077.143519/1‑87 (MQ=60)
                                                                                   ATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGACAACATCAACGACTCGGCGCTGGCGctgtctcttatac            >  SRR3722077.890448/1‑87 (MQ=60)
                                                                                       TCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCGGGTGAT        >  SRR3722077.1033844/1‑100 (MQ=60)
                                                                                             GCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCGGGTGATCACCCC  >  SRR3722077.366586/1‑100 (MQ=60)
                                                                                                   |                                                                                             
ATCATGTACCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCGGGTGATCACCCC  >  NZ_CP009273/3535240‑3535432

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑