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
AAGGACTAGTAGTGTAATAGAATAATATTGTGTAAAAGTATCGATACCCTTTTTGGAATTATTGTATCTTCGAGGGTGGCTTTTAATATATTTTTGAAAACCTAATATTATAACCTTTCACAACAACGAAATCCCAACTGTTGTGTAATAATTTTACTCAATTCTTACTATTGCTTTACCAATCCTTGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAACTCTTTCTGGAAAACTTCTTGTCCTAAAGAACAAAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTCGGCTTATAAAATTCTAACATGTACATATTTTTTATAAAATGAAAATACTATTGTCCTTAATTGTACAATTTTTACATTTGGAGGCCAAATTATAAAAATAATAGCGCTGCTACTCCAACTATATAACCCATGTTCTTGGATTCAACCTTCATACCAGCACCTTCATAGACAGAGACATT  >  BK006934/359206‑359791
                                                                                                                                                                                                                                                                                             |                                                                                                                                                                                                                                                                                                            
AAGGACTAGTAGTGTAATATAATAATATTGTGTAAAAGTATCGATACCCTTTTTGGAATTATTGTATCTTCGAGGGTGGCTTTTAATATATTTTTGAAAACCTAATATTATAACCTTTCACAACAACGAAATCCCAACTGTTGTGTAATAATTTTACTCAATTCTTACTATTGCTTTACCAATCCTTGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACT                                                                                                                                                                                                                                                                                               <  SRR13385771.1145187/301‑1 (MQ=60)
                     ATAATATTGTGTAAAAGTATCGATACCCTTTTTGGAATTATTGTATCTTCGAGGGTGGCTTTTAATATATTTTTGAAAACCTAATATTATAACCTTTCACAACAACGAAATCCCAACTGTTGTGTAATAATTTTACTCAATTCTTACTATTGCTTTACCAATCCTTGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCTAAAGAACAAAtc                                                                                                                                                                                                                                                                          <  SRR13385771.227841/301‑3 (MQ=60)
                           TTGTGTAAAAGTATCGATACCCTTTTTGGAATTATTGTATCTTCGAGGGTGGCTTTTAATATATTTTTGAAAACCTAATATTATAACCTTTCACAACAACGAAATCCCAACTGTTGTGTAATAATTTTACTCAATTCTTACTATTGCTTTACCAATCCTTGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGT                                                                                                                                                                                                                                                                    >  SRR13385771.490245/1‑300 (MQ=60)
                                  AAAGTATCGATACCCTTTTTGGAATTATTGTATCTTAGAGGGTGGCTTTTAATATATTTTTGAAAACCTAATATTATAACCTTTCACAACAACGAAATCCCAACTGTTGTGTAATAATTTTACTCAATTATTACTATTGCTTTACCAATCCTTGTATTTGAGCACTCATAAAGTTCGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGT                                                                                                                                                                                                                                                             >  SRR13385771.1486783/1‑300 (MQ=60)
                                           ATACCCTTTTTGGAATTATTGTATCTTCGAGGGTGGCTTTTAATATATTTTTGAAAACCTAATATTATAACCTTTCACAACAACGAAATCCCAACTGTTGTGTAATAATTTTACTCAATTCTTACTATTGCTTTACAAATCCTTGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGT                                                                                                                                                                                                                                                   <  SRR13385771.475226/301‑1 (MQ=60)
                                              CCCTTTTTGGAATTATTGTATCTTCGAGGGTGGCTTTTAATATATTTTTGAAAACCTAATATTATAACCTTTCACAACAACGAAATCCCAACTGTTGTGTAATAATTTTACTCAATTCTTACTATTGCTTTACCAATCCTTGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGGGTTAT                                                                                                                                                                                                                                                >  SRR13385771.689087/1‑301 (MQ=60)
                                                              TGTATCTTCGAGGCTGGCTTTTAATATATTTTTGCAACCCTAATCTTATAACCTTTCAAAAAAACGAAATCCCAACTGTTGTGTAATAATTCTACACAATTCTTACTATTGCTTTACAAATCCTTGTATTTGAGATCTCATAAACTTCGCTGACTACTTATCACGACTCATGTAATCTCCTTATACTGTATATGATAATATAATGGTGGTGAATGACAGCAACATCTTTCTGGAACACCTCTTGTCCTAAAGAACAAAA‑CAGCGTAATCTGTAGGCCAGAGTTATGTATTCATGAATATG                                                                                                                                                                                                                                 >  SRR13385771.1230417/1‑300 (MQ=60)
                                                                          GGTGGCTTTTAATATATTTTTGAAAACCTAATATTATAACCTTTCACAACAACGAAATCCCAACTGTTGTGTAATAATTTTACTCAATTCTTACTATTGCTTTACCAATCCTTGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGA                                                                                                                                                                                                                    <  SRR13385771.1467040/301‑1 (MQ=60)
                                                                                     ATATATTTTTGAAAACCTAATATTATAACCTTTCACAACAACGAAATCCCAACTGTTGTGTAATAATTTTACTCAATTCTTACTATTGCTTTACCAATCCTTGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACT                                                                                                                                                                                                         >  SRR13385771.593626/1‑301 (MQ=60)
                                                                                          TTTTTGAAAACCTAATATTATAACCTTTCACAACAACGAAATCCCAACTGTTGTGTAATAATTTTACTCAATTCTTACTATTGCTTTACCAATCCTTGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTT                                                                                                                                                                                                                                                                                           >  SRR13385771.1847086/1‑215 (MQ=60)
                                                                                                             ATAACCTTTCACAACAACGAAATCCCAACTGTTGTGTAATAATTTTACTCAATTCTTACTATTGCTTTACCAATCCTTGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACCGGTAAAATGACTGCTTTTTCGG                                                                                                                                                                                   >  SRR13385771.966509/1‑299 (MQ=60)
                                                                                                               AACCTTTCACAACAACGAAATCCCAACTGTTGTGTAATAATTTTACTCAATTCTTACTATTGCTTTACCAATCCTTGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTCGGCTT                                                                                                                                                                                >  SRR13385771.845464/1‑300 (MQ=60)
                                                                                                               AACCTTTCACAACAACGAAATCCCAACTGTTGTGTAATAATTTTACTCAATTCTTACGATTGCTTTACCAATCCTTGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTCGGCTTA                                                                                                                                                                               <  SRR13385771.782722/301‑1 (MQ=60)
                                                                                                                             ACGAAATCCCAACTGTTGTGTAATAATTTTACTCAATTCTTACTATTGCTTTACCAATCCTTGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTACTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTCGGCTTATAAAATTCTAACAT                                                                                                                                                                 <  SRR13385771.815555/301‑1 (MQ=60)
                                                                                                                                AAATCCCAACTGTTGTGTAATAATTTTACTCAATTCTTACTATTGCTTTACCAATCCTTGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTCGGCTTATAAAATTCTAACATGT                                                                                                                                                               >  SRR13385771.1910304/1‑300 (MQ=60)
                                                                                                                                    CCCAACTGTTGTGTAATAATTTTACTCAATTCTTACTATTGCTTTACCAATCATTGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCACGACTCATGACATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTCGGCTTATAAAATTCTAACATGTACttt                                                                                                                                                          >  SRR13385771.1409291/1‑298 (MQ=60)
                                                                                                                                                GTAATAATTTTACTCAATTCTTACTATTGCTTTACCAATCCTTGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTAGGCTTATAAAATTATAACATGTACTTATTTTTTTTAAA                                                                                                                                               >  SRR13385771.1032799/1‑300 (MQ=60)
                                                                                                                                                     AATTTTACTCAATTCTTACTATTGCTTTACCAATCCTTGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTCGGCTTATAAAATTCTAACATGTACTTATTTTTTTTAAAATGAA                                                                                                                                          <  SRR13385771.1154434/300‑1 (MQ=60)
                                                                                                                                                       TTTTACTCAATTCTTACTATTGCTTTACCAATCCTTGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCAAGACTCATGTCATCTCCTTATACTGTATATGATAATATAATGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTCGGCTTATAAAATTCTAACATGTACTTATTTTTTTTAAAATGAAAA                                                                                                                                        >  SRR13385771.119632/1‑300 (MQ=60)
                                                                                                                                                                 TTCTTACTATTGCTTTACCAATCCTTGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGAAAAATCTTTCTGGAAAAATTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATATGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTCGGCTTATAAAATTCTAACATGTACTTATTTTTTTTAAACTGAAAATACTATTGTCC                                                                                                                             >  SRR13385771.696844/1‑301 (MQ=60)
                                                                                                                                                                                          TGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTCGGCTTATAAAATTCTAACATGTACTTATTTTTTTTAAAATGAAAATACTATTGTCCTTAATTGTACAATTTTTACATTT                                                                                                      <  SRR13385771.274849/299‑1 (MQ=60)
                                                                                                                                                                                                               TTCGCTGACTACTTCTCACGACTCATGTCCTCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAACCTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTCGGCTTATAAAATTCTAACATGTACTTATTTTTTTTAAAATGACAATACTATTGTCCTTAATTGTACAATTTTTACATTTGGAGGCCAAATTATA                                                                                       >  SRR13385771.1456997/1‑293 (MQ=60)
                                                                                                                                                                                                                 CGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAAGCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTCGGCTTATAAAATTCTAACATGTACTTATTTTTTTTAAAATGAAAATACTATTGTCCTTAATTGTACAATTTTTACATTTGGAGGCCAAATTATAAAAATAATAG                                                                             <  SRR13385771.413603/301‑1 (MQ=60)
                                                                                                                                                                                                                    TGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTCGGCTTATAAAATTCTAACATGTACTTATTTTTTTTAAAATGAAAATACTATTGTCCTTAATTGTACAATTTTTACATTTGGAGGCCAAATTATAAAAATAATAGCGC                                                                          >  SRR13385771.1336385/1‑301 (MQ=60)
                                                                                                                                                                                                                         ACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCCAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTCGGCTTATAAAATTCTAACATGTACTTATTTTTTTTAAAATGAAAATACTATTGCCCTTAATTGTACAATTTTTACATTTGCAGGCCAAATTAGAAAAATAATAGCGCTGCT                                                                      >  SRR13385771.1854709/1‑300 (MQ=60)
                                                                                                                                                                                                                                 CGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTCGGCTTATAAAATTCTAACATGTACTTATTTTTTTTAAAATGAAAATACTATTGTCCTTAATTGTACAATTTTTACATTTGGAGGCCAAATTATAAACATAATAGCGCTGCTACTCCAACT                                                             >  SRR13385771.1180442/1‑301 (MQ=60)
                                                                                                                                                                                                                                   ACTCATGTCATCTCCTTATACTGTATATGCTAATATACTGGTGGTGAATGACAGCAACATCTTTCTGGAACACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTCGGCTTATAAAATTCTCACATGTACTTATTTTTTTTAAAATGACAATACTATTGTCCTTAATTGTACAATTTTTACATTTGGAGGCCACATTATAAAACTCATAGCGCTGATACTCCAACTAT                                                           >  SRR13385771.1077791/1‑301 (MQ=60)
                                                                                                                                                                                                                                                   TATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTCGGCTTATAAAATTCTAACATGTACTTATTTTTTTTAAAATGAAAATACTATTGTCCTTAATTGTACAATTTTTACATTTGGAGGCCAAATTATAAAAATAATAGCGCTGCTACTCCAACTATATAACCCATGTTCTTG                                           >  SRR13385771.291253/1‑301 (MQ=60)
                                                                                                                                                                                                                                                    ATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAAATCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTCGGCTTATAAAATTCTAACATGTACTTATTTTTTTTAAAATGAAAATACTATTGTCCTTAATTGTACAATTTTTACATTTGGAGGCCAAATTATAAAAATAATAGCGCTGCTACTCCAACTATATAACCCATGTTCTTGG                                          >  SRR13385771.1908550/1‑301 (MQ=60)
                                                                                                                                                                                                                                                                                            AATCTTTCTGGAAAACTTCTTGTCCTAAAGAAC‑AAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTCGGCTTATAAAATTCTAACATGTACTTATTTTTTTTAAAATGAAAATACTATTGTCCTTAATTGTACAATTTTTACATTTGGAGGCCAAATTATAAAAATAATAGCGCTGCTACTCCAACTATATAACCCATGTTCTTGGATTCAACCTTCATACCAGCACCTTCATAGACAGAGACATT  >  SRR13385771.516838/1‑301 (MQ=60)
                                                                                                                                                                                                                                                                                             |                                                                                                                                                                                                                                                                                                            
AAGGACTAGTAGTGTAATAGAATAATATTGTGTAAAAGTATCGATACCCTTTTTGGAATTATTGTATCTTCGAGGGTGGCTTTTAATATATTTTTGAAAACCTAATATTATAACCTTTCACAACAACGAAATCCCAACTGTTGTGTAATAATTTTACTCAATTCTTACTATTGCTTTACCAATCCTTGTATTTGAGCTCTCATAAAGTTCGCTGACTACTTCTCACGACTCATGTCATCTCCTTATACTGTATATGATAATATACTGGTGGTGAATGACAGCAAACTCTTTCTGGAAAACTTCTTGTCCTAAAGAACAAAATCAGTGTAATGTGTAGGCCAGTGTTATGTTTTCATGAATATGACATCTGATAAGAATAAAACAACTGGTAAAATGACTGCTTTTTCGGCTTATAAAATTCTAACATGTACATATTTTTTATAAAATGAAAATACTATTGTCCTTAATTGTACAATTTTTACATTTGGAGGCCAAATTATAAAAATAATAGCGCTGCTACTCCAACTATATAACCCATGTTCTTGGATTCAACCTTCATACCAGCACCTTCATAGACAGAGACATT  >  BK006934/359206‑359791

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑