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 I200 R1 216 30.8 1683622 97.2% 1636480 87.0

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
GGTCATTGGCTCAGCACGCTGAGTCGTCGTCCTGTTTGCCAGGGTTAAAATTAATTCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGGCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGATTGCTATGTTCCACCCCGCCCGGTATCCAAACCGCATA  >  NZ_CP009273/1869441‑1869638
                                                                                                  |                                                                                                   
GGTCATTGGCTCAGCACGCTGAGTCGTCGTCCTGTTTGCCAGGGTTAAAATTAATTCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGCC                                                                                                    <  SRR3722079.729313/100‑1 (MQ=60)
             GCACGCTGAGCCGTCGTCCTGTTTGCCAGGGTTAAAATTAATTCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGC                                                                                       <  SRR3722079.457164/100‑1 (MQ=60)
                                              AAAATTAATTCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCAT                                                      <  SRR3722079.7692/100‑1 (MQ=60)
                                                AATTAATTCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGGCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTA                                                    >  SRR3722079.292935/1‑100 (MQ=60)
                                                AATTAATTCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTA                                                    >  SRR3722079.369766/1‑100 (MQ=60)
                                                   TAATTCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGGCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCT                                                 <  SRR3722079.751578/100‑1 (MQ=60)
                                                   TAATTCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCT                                                 <  SRR3722079.429708/100‑1 (MQ=60)
                                                    AATTCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTG                                                <  SRR3722079.61227/100‑1 (MQ=60)
                                                            GCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGCctgtctcttatacacatctccgagcccacgagaccagagaggatctc                                        >  SRR3722079.120207/1‑53 (MQ=60)
                                                            GCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGA                                        >  SRR3722079.44563/1‑100 (MQ=60)
                                                            GCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGA                                        >  SRR3722079.132906/1‑100 (MQ=60)
                                                            GCATAAGGGCGATATTTTCAATGTGCAACATGTTGACGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTctgtctctt                                        >  SRR3722079.325364/1‑91 (MQ=60)
                                                                       ATATTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGATTGCTATGTTC                             <  SRR3722079.746657/100‑1 (MQ=60)
                                                                       ATATTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGATTGCTATGTTC                             >  SRR3722079.765305/1‑100 (MQ=60)
                                                                          TTTTCAATGTGCAACATGTTGTCGGCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGATTGCTATGTTCCAC                          <  SRR3722079.231620/100‑1 (MQ=60)
                                                                                  GTGCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGATTGCTATGTTCCACCCCGCCCG                  >  SRR3722079.688919/1‑100 (MQ=60)
                                                                                       ACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGATTGCTATGTTCCACCCCGCCCGGTATC             <  SRR3722079.778777/100‑1 (MQ=60)
                                                                                                  GCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGATTGCTATGTTCCACCCCGCCCGGTATCCAAACCGCATA  >  SRR3722079.52115/1‑100 (MQ=60)
                                                                                                  |                                                                                                   
GGTCATTGGCTCAGCACGCTGAGTCGTCGTCCTGTTTGCCAGGGTTAAAATTAATTCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGGCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGATTGCTATGTTCCACCCCGCCCGGTATCCAAACCGCATA  >  NZ_CP009273/1869441‑1869638

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑