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
AACTGACCAACACCGTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACACCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGATGTCGTCTGGTTGCAGGTGCCGTTCTCCGCACTGCCGGGCGATAAA  >  NZ_CP009273/2801014‑2801204
                                                                                                  |                                                                                            
tcgtgggctcggagatgtgtataagagacaGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCC                                                                                             <  SRR3722077.244955/70‑1 (MQ=60)
    GACCAACACCGTGATGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGG                                                                                         >  SRR3722077.865516/1‑100 (MQ=60)
    GACCAACACCGTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACGCCTGG                                                                                         >  SRR3722077.570269/1‑100 (MQ=60)
      agaagacggcatccgagatggccgtgggtctcgtgggctcggagatgtgtataagagacaGCTACAAAGAGGGCAAACCGGTGTTTTATTACACCTGGAC                                                                                       <  SRR3722077.564543/40‑1 (MQ=60)
         ACACCGTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCC                                                                                    <  SRR3722077.48217/100‑1 (MQ=60)
            CCGTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTCCACCTGGACGCCGac                                                                                 >  SRR3722077.591732/1‑98 (MQ=60)
             CGTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTAC                                                                                <  SRR3722077.96838/100‑1 (MQ=60)
             CGTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTAC                                                                                <  SRR3722077.594360/100‑1 (MQ=60)
             CGTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTAC                                                                                <  SRR3722077.748937/100‑1 (MQ=60)
                      TAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTACTGGGTGAGT                                                                       >  SRR3722077.850450/1‑100 (MQ=60)
                               GAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACACCTGGACGCCGTACTGGGTGAGTAACGAACTG                                                              >  SRR3722077.978579/1‑100 (MQ=60)
                                         GCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACACCctgtctcttatacacatctccgagcccacgagacccacgg                                                    >  SRR3722077.476918/1‑60 (MQ=60)
                                           GATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAA                                                  >  SRR3722077.415022/1‑100 (MQ=60)
                                             TGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGA                                                >  SRR3722077.1137706/1‑100 (MQ=60)
                                                     GACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACACCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGActgtctct                                        >  SRR3722077.768254/1‑92 (MQ=60)
                                                               GTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACCCCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGATGTCGTCTGGTTGCAGGT                              >  SRR3722077.588885/1‑100 (MQ=60)
                                                                       AAAGAGGGCAAACCGGTATTTTATTACCCCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGATGTCGTCTGGTTGCAGGTGCCGTTCT                      >  SRR3722077.490797/1‑100 (MQ=60)
                                                                                        GTTTTATTACCCCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGATGTCGTCTGGTTGCAGGTGCCGTTCTCCGCACTGCCGGGCGAT     >  SRR3722077.258502/1‑100 (MQ=60)
                                                                                        GTTTTATTACACCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGATGTCGTCTGGTTGCAGGTGCCGTTCTCCGCACTGCCGGGCGAT     >  SRR3722077.1042832/1‑100 (MQ=60)
                                                                                           TTATTACCCCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGATGTCGTCTGGctgtctcttatacacatctccgagcccacgagaccc  >  SRR3722077.961707/1‑64 (MQ=60)
                                                                                                  |                                                                                            
AACTGACCAACACCGTGACGCATAATCAGGGGAACTACGCAGCGATGATGGCCGACACCATCAGTCGCTACAAAGAGGGCAAACCGGTGTTTTATTACACCTGGACGCCGTACTGGGTGAGTAACGAACTGAAGCCGGGCAAAGATGTCGTCTGGTTGCAGGTGCCGTTCTCCGCACTGCCGGGCGATAAA  >  NZ_CP009273/2801014‑2801204

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑