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 F1 I1 R1 6081 0.0 0 0.0% 0 0.0

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
TAAGTATAAAGATACGCATATATATATATATATAATATGTCAATCATGCCGGTAACGGGTACGACTTCGAAACTCTATAGCGCTAAAGCTGTAGACCAAAGGAAGTCAAATGGAGCATACGCGGTACAGTAATAGGAAATTGCGAAAATTTTTCACCATAGAAAGGCGATGATGAGTCGAAGCCAAGGGGACTCAGTCACTCAGTCAGCTGATGCGATGCGATGTTAGCGCAAACAATAACGCGTACGATAATAAAACTTCAAATGCGCCAATTC‑‑TTT‑TTTTTTTTTTTTTTTTTTTTT‑‑GATTTCTTTTCATATATCCGATTTAAACCGCCTAGGGAAGAGTAAAAACCCGAATTGTTCCGTCTATACTTGGTTGTATGGGTGTTTTTTCTTCGATGCTTTTCGTATAAGAAGATATGCAGTGAATATCTTTCAATCGCCTTGAACGGTTGACAAGACGCAAGAATTTGAAAAACCTTGCAATGCACGATGCAATATTCAATTTGCACACATCGAAACGAATTGGTATCGAAAATAAACGCGAAACATATGAGAAATTTTTCTAACTTTTCTTCCTTCGTTAAGAGTGATCCTTGC  >  BK006944/384829‑385424
                                                                                                                                                                                                                                                                                                             |                                                                                                                                                                                                                                                                                                           
TAAGTATAAAGATACGCATATATGTATATATATAATATGTCAATCATGCCGGTAACGGGTACGACTTCGAAACTCTATAGCGCTAAAGCTGTAGACCAAAGGAAGTCAAATGGAGCATACGCGGTACAGTAATAGGAAATTGCGAAAATTTTTCACCATAGAAAGGCGATGATGAGTCGAAGCCAAGGGGACTCAGTCACTCAGTCAGCTGATGCGATGCGATGTTAGCGCAAACAATAACGCGTACGATAATAAAACTTCAAATGCGCCAATTC‑‑TTT‑TTTTTTTTTTTTTTTTTTTTTtt                                                                                                                                                                                                                                                                                                           >  SRR13385771.1115319/1‑299 (MQ=60)
  agtaaaaaaaaatgcatatataatttattataattttttaataattccggtaaggggtaagaatttagaaatttaaagcggtaaagggtgAGACCAAAGGAAGGCAAATGGGGCATACGCGGTAAAGTAATAGGAAATTGGGAAAATTTTTCACCATAGAAAGGGGATGATGAGTCGAAGGCAAGGGGACTTTGTCCCTCAGTCGGCGGATGCGTTGGGATGTTAGCGCAAAAAATAACGCGTAAGATAAAAAAACTTCAAATGCGCCAATTT‑‑TTT‑TTTTTTTTTTTTTTTTTTTTTttga                                                                                                                                                                                                                                                                                                         <  SRR13385771.507210/211‑5 (MQ=60)
         AGATACGCATATATATATATATATAATATGTCAATCATGCCGGTAACGGGTACGACTTCGAAACTCTATAGCGCTAAAGCTGTAGACCAAAGGAAGTCAAATGGAGCATACGCGGTACAGTAATAGGAAATTGCGAAAATTTTTCACCATAGAAAGGCGATGATGAGTCGAAGCCAAGGGGACTCAGTCACTCAGTCAGCTGATGCGATGCGATGTTAGCGCAAACAATAACGCGTACGATAATAAAACTTCAAATGCGCCAATTC‑‑TTTCTTTTTTTTTTTTTTTTTTTTT‑‑TATTTCTTTT                                                                                                                                                                                                                                                                                                 >  SRR13385771.43706/1‑301 (MQ=60)
           ATACGCATATATATATATATATAATATGTCAATCATGCCGGTAACGGGTACGACTTCGAAACTCTATAGCGCTAAAGCTGTAGACCAAAGGAAGTCAAATGGAGCATACGCGGTACAGTAATAGGAAATTGCGAAAATTTTTCACCATAGAAAGGCGATGATGAGTCGAAGCCACGGGGACTCAGTCACTCAGTCAGCTGATGCGATGCGATGTTAGCGCAAACAATAACGCGTACGATAATAAAACTTCAAATGCACCAATTC‑‑TTT‑TTTTTTTTTTTTTTTTTTTTTttgtttttctttt                                                                                                                                                                                                                                                                                                >  SRR13385771.350856/1‑288 (MQ=60)
                CATATATATATATATATAATATGTCAATCATGCCGGTAACGGGTACGACTTCGAAACTCTATAGCGCTAAAGCTGTAGACCAAAGGAAGTCAAATGGAGCATACGCGGTACAGTAATAGGAAATTGCGAAAATTTTTCACCATAGAAAGGCGATGATGAGTCGAAGCCAAGGGGACTCAGTCACTCAGTCAGCTGATGCGATGCGATGTTAGCGCAAACAATAACGCGTACGATAATAAAACTTCAAATGCGCCAATTC‑‑TTT‑TTTTTTTTTTTTTTTTTTTTTtgttttttttttattttt                                                                                                                                                                                                                                                                                           >  SRR13385771.757845/1‑283 (MQ=60)
                     aataaattaaaaaatagataaaacaatccagtaatagaagagactttaaaacgctatcgcgttaacggggtagaccaaagcaattgatatgggcgtggcgatggaaaataatatgaaaatgcaagaaattttcaccaaagaaagagaatgatgaatcaaagacaaggggactgagtgactagttcatatggTGCGATGCGATGTTAGCCCAAACAATAACGCGTTCGATTATAAAACTTCAAATGGGCCAATTC‑‑‑‑T‑TTTTTTTTTTTTTTTTTTTTT‑‑GATTTCTTTTCATATATCCGATTT                                                                                                                                                                                                                                                                                   <  SRR13385771.912301/109‑1 (MQ=60)
                                         AATCATGCCGGTAACGGGTACGACTTCGAAACTCTATAGCGCTAAAGCTGTAGACCAAAGGAAGTCAAATGGAGCATACGCGGTACAGTAATAGGAAATTGCGAAAATTTTTCACCATAGAAAGGCGATGATGAGTCGAAGCCAAGGGGACTCAGTCACTCAGTCAGCTGATGCGATGCGATGTTAGCGCAAACAATAACGCGTACGATAATAAAACTTCAAATGCGACAATTC‑‑TTT‑TTTTTTTTCTTTTTTTTTTTT‑‑GATTTCTTTTCATATATCCGCTTTAAAACGCCTCGGGAAC                                                                                                                                                                                                                                                                   >  SRR13385771.913457/1‑298 (MQ=60)
                                                               ACTTCGAAACTCTATAGCGCTAAAGCTGTAGACCAAAGGAAGTCAAATGGAGCATACGCGGTACAGTAATAGGAAATTGCGAAAATTTTTCACCATAGAAAGGCGATGATGAGTCGAAGCCAAGGGGACTCAGTCACTCAGTCAGCTGATGCGATGCGATGTTAGCGCAAACAATAACGCGTACGATAATAAAACTTCAAATGCGCCAATTC‑‑TTT‑TTTTTTTTTTTTTTTTTTTTTttttttttttttttttcttttttacgtttttaaaccccatgggaaaagtaaaaacacagattatt                                                                                                                                                                                                                                            >  SRR13385771.1123375/1‑236 (MQ=60)
                                                                  TCGAAACTCTATAGCGCTAAAGCTGTAGACCAAAGGAAGTCAAATGGAGCATACGCGGTACAGTAATAGGAAATTGCGAAAATTTTTCACCATAGAAAGGCGATGATGAGTCGAAGCCAAGGGGACTCAGTCACTTAGTCAGCTGATGCGATGCGATGTTAGCGCAAACAATAACGCGTACGATAATAAAACTTCAAATGCGCCAATTC‑‑TTT‑TTTTTTTTTTTTTTTTTTTTTttttattttttttcatttatctgatttaaacccctcttggaagagaaaaaaccccaagtgttccctct                                                                                                                                                                                                                                         >  SRR13385771.824792/1‑233 (MQ=60)
                                                                   aaaaaaagtcataaataaaacatataaacaacacacatattatgagtgtcgaacgcgtcactacgtacagaacacagaaaacataaaacaaacgagaagagaaaaaaaaagaaatgaagaagaatataacgaagtaaactaatttaaataaataaaaaagagaaaaaaaaagatgctcgaaagtaataatgcgtcgaagcccccatttcgTTT‑TTTTTTTTTTTGTTTTTTTTT‑‑GATTTCTTTTCATATATCCGATTTAAACCGCCTAGGGAAGAGTAAAAACCCGAATTGTTCCGTCTAT                                                                                                                                                                                                                                        <  SRR13385771.554569/91‑1 (MQ=60)
                                                                                               CCAAAGGAAGTCAAATGGAGCATACGCGGTACAGTAATAGGAAATTGCGAAAATTTTTCACCATAGAAAGGCGATGATGAGTCGAAGCCAAGGGGACTCAGTCACTCAGTCAGCTGATGCGATGCGATGTTAGCGCAAACAATAACGCGTACGATAATAAAACTTCAAATGCGCCAATTC‑‑TTT‑TTTTTTTTTTTTTTTTTTTTTttttttttttttatttttccgttttatgcacctgtggtagtggtaaaaacccaatttgtcgtgtgtttctggtgttttttaggtgttttttttttgt                                                                                                                                                                                                            >  SRR13385771.686861/1‑204 (MQ=60)
                                                                                                                GAGCATACGCGGTACAGTAATAGGAAATTGCGAAAATTTTTCACCATAGAAAGGCGATGATGAGTCGAAGCCAAGGGGACTCAGTCACTCAGTCAGCTGATGCGATGCGATGTTAGCGCAAACAATAACGCGTACGATAATAAAACTTCAAATGCGCCAATTCTTTTT‑TTTTTTTTTTTTTTTTTTTTT‑‑GTTTTTTTTTCTTTTTTCTGTTTTAAACCCCCTAGGGAAGGTTAAAAACCCGAATTGTTCCGTCTATACTTGTGTGTCTGGGTGTTTTTTTTTCGTTGCTTTTtttataaa                                                                                                                                                                                            >  SRR13385771.1358383/1‑292 (MQ=60)
                                                                                                                          aaaaaaaaaaaaaaaaaaataaaaaaaatattaaaaaaataaaaaagataaaacaagcacgacaaagtgaaaaaaatactaaacaaacttaatagatgaaaaagaaacaaaaaaaaaaacagcgaaaaaaaaaaaaaattaaaatgcccaattttTTT‑TTTTTTTTTTTTTTTTTTTTT‑‑GATTTCTTTTCATATATCCGATTTAAACCGCCTAGGGAAGAGTAAAAACCCGAATTGTTCCGTCTATACTTGGTTGTATGGGTGTTTTTTCTTCGATGCTTTTCGTATAAGAAGATATGCAG                                                                                                                                                                                 <  SRR13385771.1847778/146‑1 (MQ=60)
                                                                                                                            TACAGTAATAGGAAATTGCGAAAATTTTTCACCATAGAAAGGCGATGATGAGTCGAAGCCAAGGGGACTCAGTCACTCAGTCAGCTGATGCGATGCGATGTTAGCGCAAACAATAACGCGTACGATAATAAAACTTCAAATGCGCCAATTCTTTTT‑TTTTTTTTTTTTTTTTTTTTT‑‑GTTTTCTTTTCATATATCCGATTTAAACCGCCTAGGGAAGAGTAAAAACCCGAATTGTTCCGTCTATACTTGGTTGTATGGGGGTTTTTTCTTTGATGCTTTTCTTATAAAAAGATATGCAGTG                                                                                                                                                                               >  SRR13385771.1692200/1‑301 (MQ=60)
                                                                                                                                                                          GATGAGTCGAAGCCAAGGGGACTCAGTCACTCAGTCAGCTGATGCGATGCGATGTTAGCGCAAACAATAACGCGTACGATAATAAAACTTCAAATGCGCCAATTCT‑TTT‑TTTTTTTTTTTTTTTTTTTTT‑‑GATTTTTTTTAATTTATCCGATTTAAACCGCCTAGGGAAGAGTAAAAACCCGACTTGTTCCGTCTATCTTTGGTTGTATGGGTGTTTTTTTTTCGATGCTTTTCGTATAAGAAAATATGCAGTGAATATCTTTCAATCGCCTTGACCGGTTGcaaaaccccaagaattta                                                                                                                                 >  SRR13385771.1403905/1‑282 (MQ=60)
                                                                                                                                                                                                     aaataaataaaataacaaaaataaaaaaaaataataaaaataaataagaacaacaaaacACTTCAAATGCGCCAATTCTTTTT‑TTTTTTTTTTTTTTTTTTTTT‑‑GATTTCTTTTCATATATCCGAGTTAAACCGCCTAGGGAAGAGTAAAAACCCGAATTGTTCCGTCTATACTTGGTTGTATGGGTGTTTTTTCTTCGATGCTTTTCGTATAAGAAGATATGCAGTGAATATCTTTCAATCGCCTTGAACGGTTGACAAGACGCAAGAATTTGAAAAACCTTGCAATGCACGATGCAATA                                                                                                      <  SRR13385771.701197/242‑1 (MQ=60)
                                                                                                                                                                                                              ggttattagtttttgggaaagtacgacacacaagagagtgttagataataatgtgttttgtgcctccatttTTT‑TTTTTTTTTTTTTTTTTTTTT‑‑GATTTCTTTTCATATATCCGATTTAAACCGCCTAGGGAAGAGTAAAAACCCGAATTGTTCCGTCTATACTTGGTTGTATGGGTGTTTTTTCTTCGATGCTTTTCGTATAAGAAGATATGCAGTGAATATCTTTCAATCGCCTTGAACGGTTGACAAGACGCAAGAATTTGAAAAACCTTGCAATGCACGATGCAATATTCAATTTG                                                                                             <  SRR13385771.497005/230‑1 (MQ=60)
                                                                                                                                                                                                                   ATGCGATGCGATGTTAGCGCAAACAATAACGCGTACGATAATAAAACTTCAAATGCGCCAATTCT‑TTT‑TTTTTTTTTTTTTTTTTTTTT‑‑GATTTCTTTTCTTATTTCCCATTTTAACCCCCTCGGGAAGAGTAAAAAACCCAAATTTTCCGTCTATACTCGGGTGTCTGGGTGTTTTTTCTTCTAATCCTTTCCTCTAAAAAAATAAGCAATGAATATCTTTCAATCGCCTTGAACGGTTGACAAAACGCAAGAAATTGAAAAAACTTGCAATGagaacagaagagcacaagacctgactc                                                                                       >  SRR13385771.308179/1‑274 (MQ=60)
                                                                                                                                                                                                                                           AATAACGAGTACGATAATAAAACTTCAAATGCGCCAATTC‑‑TTT‑TTTTTTTTTTTTTTTTTTTTTttttctctattcttataatcaattttctccccctccggaagagaaaaaacaagaatttttccgtttataattggttatatgggtgtttttttttcgttctttttcgtttacgaagttattcactgaatatctttccataccctcaatcggttgaaacaacgcaagatttaacaaaacatcctcaaacacgatgccataatcaattagaccaacacgaaaaaaccagttacatcaaa                                                                 >  SRR13385771.381391/1‑64 (MQ=60)
                                                                                                                                                                                                                                                                 CTTCAAATGCGCCAATTC‑‑TTT‑TTTTTTTTTTTTTTTTTTTTTTGGTTTTCTTTTTCTATATGCGATTTTAACAGCCTAGGGAGGGGGAAAAACACGAATTGGTCCGTCTCAACTTGGTTGTATGGGGGTTTTTGCTTAGATGCTTTTCGTATAAGGAGCTATGCAGAGAATATCTTTCAATCGCCTTGAACGGTTtaaaagcagaaaacaattgaacaacataccaatgcacgatgaaaaattcaattgcaacacatcgaaaaaaaatggtatcaaaaataaaagagaaacaaatgagaa                                           >  SRR13385771.1501699/1‑195 (MQ=60)
                                                                                                                                                                                                                                                                            ttttTTC‑‑TTT‑TTTTTTTTTTTTTTTTTTTTT‑‑GATTTCggctgtcaccaacaatcaaaatttataacttcttttttgaataatcatcactaaaaaaaaaaaggtctttaactttttctcattcataaaaaaggggacaaaaaacaggggtgtgtattatatttaataactaaattaattggtgcacagattgaaatttaatttattttttttttttaatttttttttcataaatgaacaaagtaaatacaaaaaaagtatggttccagagaaaaaacagggaccatcacgaatggggcac                               >  SRR13385771.1025466/5‑37 (MQ=0)
                                                                                                                                                                                                                                                                                     TTT‑TTTTTTTTTTTTTTTTTTTTT‑‑GATTTCTTTTC                                                                                                                                                                                                                                                                                                >  SRR13385771.707502/1‑35 (MQ=60)
                                                                                                                                                                                                                                                                                                        TTTTTT‑‑GATTTCTTTTCATATATCCGATTTAAACCGCCTAGGGAAGAGTAAAAACCCGAATTGTTCCGTCTATACTTGGTTGTATGGGTGTTTTTTCTTCGATGCTTTTCGTATAAGAAGATATGCAGTGAATATCTTTCAATCGCCTTGAACGGTTGACAAGACGCAAGAATTTGAAAAACCTTGCAATGCACGATGCAATATTCAATTTGCACACATCGAAACGAATTGGTATCGAAAATAAACGCGAAACATATGAGAAATTTTTCTAACTTTTCTTCCTTCGTTAAGAGTGATCCT     <  SRR13385771.835896/300‑1 (MQ=60)
                                                                                                                                                                                                                                                                                                         TTTTT‑‑GATTTCTTTTCATATATCCGATTTAAACCGCCTAGGGAAGAGTAAAAACCCGAATTGTTCCGTCTATACTTGGTTGTATGGGTGTTTTTTCTTCGATGCTTTTCGTATAAGAAGATATGCAGTGAATATCTTTCAATCGCCTTGAACGGTTGACAAGACGCAAGAATTTGAAAAACCTTGCAATGCACGATGCAATATTCAATTTGCACACATCGAAACGAATTGGTATCGAAAATAAACGCGAAACATATGAGAAATTTTTCTAACTTTTCTTCCTTCGTTAAGAGTGATCCTTG   >  SRR13385771.1692551/1‑301 (MQ=60)
                                                                                                                                                                                                                                                                                                          TTTT‑‑GATTTCTTTTCATATATCCGATTTAAACCGCCTAGGGAAGAGTAAAAACACGAATTGTTCCGTCTATCCTTGGTTGTCTGGGTGTTTTTTCTTCGATGCTTTTCGTATAAGAAGATATGCAGTGAATATCTTTCAATCGCCTTGAACGGTTGACAAGACGCAAGAATTTGAAACACCTTGCAATGCACGATGCACTATTCAATTTGCACACATCGAAACGAATTGGTATCGAAAATAAAAGAGAAACATATGAGAAATTTTTCTAACTTTTCTTCCTTCGTTAAGAGTGATCCTTGC  >  SRR13385771.166631/1‑301 (MQ=60)
                                                                                                                                                                                                                                                                                                             |                                                                                                                                                                                                                                                                                                           
TAAGTATAAAGATACGCATATATATATATATATAATATGTCAATCATGCCGGTAACGGGTACGACTTCGAAACTCTATAGCGCTAAAGCTGTAGACCAAAGGAAGTCAAATGGAGCATACGCGGTACAGTAATAGGAAATTGCGAAAATTTTTCACCATAGAAAGGCGATGATGAGTCGAAGCCAAGGGGACTCAGTCACTCAGTCAGCTGATGCGATGCGATGTTAGCGCAAACAATAACGCGTACGATAATAAAACTTCAAATGCGCCAATTC‑‑TTT‑TTTTTTTTTTTTTTTTTTTTT‑‑GATTTCTTTTCATATATCCGATTTAAACCGCCTAGGGAAGAGTAAAAACCCGAATTGTTCCGTCTATACTTGGTTGTATGGGTGTTTTTTCTTCGATGCTTTTCGTATAAGAAGATATGCAGTGAATATCTTTCAATCGCCTTGAACGGTTGACAAGACGCAAGAATTTGAAAAACCTTGCAATGCACGATGCAATATTCAATTTGCACACATCGAAACGAATTGGTATCGAAAATAAACGCGAAACATATGAGAAATTTTTCTAACTTTTCTTCCTTCGTTAAGAGTGATCCTTGC  >  BK006944/384829‑385424

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑