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
A0 F0 I1 R1 6054 0.0 0 0.0% 0 0.0

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
ATCAAAAGTTTCCGCCAAAATACATCAAGAAGTCGGCAAAGAAAGGTGATAAGAATTAGCATTACTACTAGTATACTACTATTTAAGCTCTTTGTATGTAAAGTGAGCAAATCTCAAATTTTGCTACTTAATTCTTATTTTCGTGCTAGCCCTACAACGGAACCCAAAAAATCAATCACCAGGGTAAGCGGG‑AAAAAAAAAAAGTGTAGGAACCGCACTATAAAAAGTCGAAGGTTTGTATTAATTTTCCACACCTCTTTAGTTTTGTTATAATCAAATTCCTTTTGGTTTTTGTTTTAAAAAGGCCAACATCATAATTATATCGCGAATGTACTACTAGTATATGCAGTTTTCTTAAAATTGCAGGGAATGACTAAAAGCCCACGTTTTTCCCACTTTTAGTAGTACTGAAGCGTAGATAGATTGAACGTTGCTGGGCGCCTGGTGTTGATCATTTCTGAAATGAGATATTGGGAATCAGCTGTATCTACATTTTATTTATACATATTTATTTTTACTGGTTCTTAGTAACGTACTTTAGTAGCAATGCTGTGTTTTAGTGCGAACG  >  BK006934/381233‑381800
                                                                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                                                 
ATCAAAAGTTTCCGCCAAAATACATCAAGAAGTCGGCAAAGAAAGGTGATAAGAATTAGCATTACTACTAGTATACTACTATTTAAGCTCTTTGTATGTAAAGTGAGCAAATCTCAAATTTTGCTACTTAATTCTTATTTTCGTGCTAGCCCTACAACGGAACCCAAAAAATCAATCACCAGGGTAAGCGGG‑AAAAAAAAAAAGAGTAGGAACCGCACTATAAAAAGTCGAAAGTTTGTATTAATTTTCCACACCTCTTTATTTCTGTTATAATTAAATTCGTTTCGGATTTTGATTTAA                                                                                                                                                                                                                                                                              >  SRR13385772.650331/1‑300 (MQ=60)
    AAAGTTTCCGCCAAAAAACATCAAGAAGTCGGCAAAGAAAGGTGATAAGAATTAGCATTACTACTAGTATACTACTATTTAAGCTCTTTGTATGTAAAGTGAGCAAATCTCAAATTTTGCTACTTAATTCTTATTTTCGTGCTAGCCCTACAACGGAACCCAAAAAATCAATCACCAGGGTAAGCGGG‑AAAAAAAAAAAGTGTAGGAACCGCACTATAAAAAGTCGAAGGTTTGTATTAATTTTCCACACCTCTTTAGTTCTGTTATAATTAAATTCGTTTTGGATTTTGATTTAAAAAGG                                                                                                                                                                                                                                                                         <  SRR13385772.685966/301‑1 (MQ=60)
                                                  AAGAATTAGCATTACTATTAGTATACTACTATTTAAGCTCTTTTGATGGAAAGTGAGCAAATCTCAAATTTTGCTACTTAATTCTTATTGTCGTGCTAGCCCTACAACGGAACCCAAAAAATCAAGCACCAGGGTAAGCGGG‑AAAAAAAAAAAGTGTAGGAACCTCACTATAAAAAGTCGAAGGTTTGTATTAATTTTCCACACCTCTTTAGTTCTGTTATAATTAAATTCGTTTTGGATTTTGATTTAAAAAGGCCAACATCATAATTATATCGCGAATGTACTACTAGTATATGCAGTT                                                                                                                                                                                                                           <  SRR13385772.111837/301‑1 (MQ=60)
                                                     AATTAGCATTACTACTAGTATACTACTATTTAAGCTCTTTGTATGTAAAGTGAGCAAATCTCAAATTTTGCTACTTAATTCTTATTTTCGTGCTAGCCCTACAACGGAACCCAAAAAATCAATCACCAGGGTAAGCGGG‑AAAAAAAAAAAGTGTAGGAACCGCACTATAAAAAGTCGAATGTTTGTATTAATTTTCCACACCTCTTTAGTTCTGTTATAATTAAATTCGTTTTGTATTTTGATTTAAAACGGCCAACATCATAATTATATCTCTAATGTACTACTATCATATGCAGTTTTT                                                                                                                                                                                                                        >  SRR13385772.1036187/1‑301 (MQ=60)
                                                        TAGCATTACTACTAGTATACTACTATTTAAGATATTTGTATGTAAAGTGAGCAAATCTCAAATTTTGCTACTTAATTCTTATTTTCGTGCTAGCCCTACAACGGAACCCAAAAAATCAATCACCAGGGTAAGCGGG‑AAAAAAAAAAAGTGTAGGAACCGCACTATAAAAAGTCGAAGGTTTGTATTAATTTTCCACACCTCTTTAGTTCTGTTATAATTAAATTCGTTTTGGATTTTGATTTAAAAAGGCCAACATCATAATTATctcgctcatgtcctcctattctattcctttttctt                                                                                                                                                                                                                      <  SRR13385772.211879/300‑36 (MQ=60)
                                                                      GTATACTACTATTTAAGCTCTTTGTATGTAAAGTGAGCAAATCTCAAATTTTGCTACTTAATTCTTATTTTCGTGCTAGCCCTACAACGGAACCCAAAAAATCAATCACCAGGGTAAGCGGGAAAAAAAAAAAAGTGTAGGAACCGCACTATAAAAAGTCGAAGGTTTGTATTAATTTTCCACACCTCTTTAGTTCTGTTATAATTAAATTCGTTTTGTATTTTGATTTAAAAAGGACAACATCATAATTATATCGCGAATGTAGTACTAGTTTATTCATTTTTCTTAAAATTTCAGGTA                                                                                                                                                                                                         >  SRR13385772.234740/1‑300 (MQ=60)
                                                                       TATACTACTATTTAAGCTCTTTGTATGTAAAGTGAGCAAATCTCAAATTTTGCTACTTAATTCTTATTTTCGTGCTAGCCCTACAACGGAACCCAAAAAATCAATCACCAGGGTAAGCGGG‑AAAACAAAAAAGTGTAGGAACCGCACTATAAAAAGTCGAAGGTTTGTATTAATTTTCCACACCTCTTTAGTTCTGTTATAATTAAATTCGTTTTGGATTTTGGTTTAAAAAGGCCAACATCATAATTATATCGCGAATGTACTACTAGTATATGCAGTTTTCTTAAAATTGCAGGGAGTG                                                                                                                                                                                                      >  SRR13385772.93091/1‑301 (MQ=60)
                                                                            taatatttaagattgTTGTATGTAAAGTGAGAAAATCTCAAATTTTGCTACTTAATTCTTATTTTCGTGCTAGCCCTAAAACGGAACCCAAAAAAACAATCACCAGGGTAAGCGGG‑AAAAAAAAAAAGTGTAGGAACCGCACTATAAAAAGTCGAAGGTTTGTATTAATTTTCCACACCTCTTTAGTTCTGTTATAATTAAATTCGTTTTGGATTTTGATTTAAAAAGGCCAACATCATAATTATATCGCGAATGTACTACTAGTATATGCAGTTTgaggaaaagggcagggaaggaaga                                                                                                                                                                                                  <  SRR13385772.748680/285‑25 (MQ=60)
                                                                             ACTATTTAAGCTCTTTGTATGTAAAGTGAGCAAATCTCAAATTTTGCTACTTAATTCTTATTTTCGTGCTAGCCCTACAACGGAACCCAAAAAATCAATCACCAGGGTAAGCGGGAAAAAAAAAAAAGTGTAGGAACCGCACTATAAAAAGTCGAAGGTTTGTATTAATTTTCCACACCTCTTTAGTTCTGTTATAATTAAATTCGTTTTGGATTTTGATTTAAAAAGGCCAACATCATAATTATATCGCGAATGTACTACTAGTATATGCAGTTTTCTTAAAATTGCAGGGAATGACTA                                                                                                                                                                                                  <  SRR13385772.1095204/300‑1 (MQ=60)
                                                                                    CAGCTCTTTGTATGTAAAGTGAGCAAATCTCAAATTTTGCTACTTAATTCTTATCTTCGTGCTAGCCCTACAACGGAACCCAAAAAATCAATCACCAGGGTAAGCGGG‑AAAAAACAAAAGAGCAGGAACCGCACCATAACAAGCCGAAGGCCTGTATTAATTTTCCACACCTCTTTAGTTATCTTATACTTAAATTCGTTTTGGATTTTGCTTTAAAAAGGCCAACATCATACTTATATCGCGAATGTACTACTAGTATATGCAGTTTTCTTAAAATTGCAGGGAATGACTcaaagacaac                                                                                                                                                                                         >  SRR13385772.1128041/1‑291 (MQ=60)
                                                                                              TATGTAAAGTGAGCAAATCTCAAATTTTGCTACTTAATTCTTATTTTCGTGCTAGCCCTACAACGGAACCCAAAAAATCAATCACCAGGGTAAGCGGG‑AAAAAAAAAAAGTGTAGGAACCGCACTATAAAAAGTCTAAGGCTTGTATTAATTTTTCACACCTCTTTAGTTTTGTTATAATTAAATTCGTTTTTGTTTTTGATTTAAAAAGGCCAACATCATAATTATATTGCGAATGTACTACTAGTTTATGCAGTTTTCTTAAAATTGCAGGTAATGACTAAAAGCCCACGTTTTTCCCC                                                                                                                                                                               >  SRR13385772.1006902/1‑301 (MQ=60)
                                                                                                 GTAAAGTGAGCAAATCTCAAATTTTGCTACTTAATTCTTATTTTCGTGCTAGCCCTACAACGGAACCCAAAAAATCAATCACCAGGGTAAGCGGG‑AAAAAAAAAAAGTGTAGGAACCGCACTATAAAAAGGCGAAGGTTTGTATTAATTTTCCACACCTCTTTAGTTCTGTTATAATTAAATTCGTTTTGGATTTTGATTTAAAAAGGCCAACATCAAAATTATATCCCGAATGTACAACTAGTATATGCAGTTTTCTTAAAATTCCAGGAAATGGATAAAAGCCAACGTTTTTCCCACTT                                                                                                                                                                            >  SRR13385772.1040383/1‑301 (MQ=60)
                                                                                                   AAAGTGAGCAAATCTCAAATTTTGCTACTTAATTCTTATTTTCGTGCTAGCCCTACAACGGAACCCAAAAAATCAATCACCAGGGTAAGCGGG‑AAAAAAAAAAAGTGTAGGAACCGCACTATAAAAAGTCGCAGGTTTGTATTAATTTTCCACAACTCTTTAGTTCTGTTATAATTAAATTCGTTTTGGATTTTGATTTAAAACGGCCAACCTCATAATTATATCGCGAATGTACTACTAGTATATGCAGTTTTCTTAAAATTGCAGGGAATGACTTAAAGCCCACGTTTTTCTCACTTTT                                                                                                                                                                          >  SRR13385772.241024/1‑301 (MQ=60)
                                                                                                    AAGTGAGCAAATCTCAAATTTTGCTACTTAATTCTTATTTTCGTGCTAGCCCTACAACGGAACCCAAAAAATCAATCACCAGGGTAAGCGGG‑AAAAAAAAAAAGTGTAGGAACCGCACTATAAAAAGTCGAAGGTTTGTATTAATTTTCCACACCTCTTTAATTCTGTTATAATTAAATTCGTTTTGGATTTTGATTTAAAAAGGCCAACATCATAATTATATCCCGAATGTACTACTAGTAAATGCAGATTTCTTAAAATagatcgaaagagcaacagtctgaactccagtcacgtgaa                                                                                                                                                                          >  SRR13385772.350546/1‑261 (MQ=60)
                                                                                                                                         TTTTCGTGCTAGCCCTACAACGGAACCCAAAAAATCAATCACCAGGGTAAGCGGG‑AAAAAAAAAAAGTGTAGGAACCGCACTATAAAAAGTCGAAGGTTTGTATTAATTTTCCACACCTCTTTAGTTCTGTTATAATTAAATTCGTTTTGGATTTTGATTTAAAAAGGCCAACATCATAATTATATCGCGAATGTACTACTAGTATATGCAGTTTTCTTAAAATTGCAGGGAATGACTAAAAGCCCACGTTTTTCCCACTTTTAGTAGTACTGAAGCGTAGATAGATTGAACGTTGCTGGG                                                                                                                                    >  SRR13385772.940222/1‑301 (MQ=60)
                                                                                                                                                            ACGGAACCCAAAAAATCAATCACCAGGGTAAGCGGG‑AAAAAAAAAAAGTGTAGGAACCGCACTATAAAAAGTCGAAGGTTTGTATTAATTTTCCACACCTCTTTAGTTCTGTTATAATTAAATTCGTTTTGGATTTTGATTTAAAAAGGCCAACATCATAATTATATCGCGAATGTACTACTAGTATATGCAGTTTTCTTAAAATTGCAGGGAATGACTAAAAGCCCACGTTTTTCCCACTTTTAGTAGTACTGAAGCGTAGATAGATTGAACGTTGCTGGGCGCCTGATGTTGATCATTT                                                                                                                 <  SRR13385772.1261154/301‑1 (MQ=60)
                                                                                                                                                                AAACCAAAAAATCAATCAACAGGGTAAGCGGG‑AAACAAAAAAAGTGTAGGAACCGCACTATAAAAAGTAGAAGGTTTGTATTAATTATCCACACCTCTTTAGTTCTGTTATAATTAAATTCGTTTTGGCTTTTGATTTAACAAGGCCAACATCATAATTATATCGCGAATGTACTACTAGTATATGCAGTTTTCTTAAAATTGCAGGGAATGACTAAAAGCCCACGTTTTTCCCACTTTTAGTAGTACTGAAGCGTAGATCGATTGAACGTTGCTGGGCGCCTGATGTTGATCATTTCTGA                                                                                                             <  SRR13385772.323407/301‑1 (MQ=60)
                                                                                                                                                                  CCCAAAAAATCAATCACCAGGGTAAGCGGG‑AAAAAAAAAAAGTGTAGGAACCGCACTATAAAAAGTCGAAGGTTTGTATTAATTTTCCACACCTCTTTAGTTTTGTTATAATTAAATTCGTTTTGGATTTTGATTTAAAAAGGCCAACATCCTAATTATATCGCGAATGTACTACTAGTATATGCAGTTTT                                                                                                                                                                                                                         >  SRR13385772.460573/1‑191 (MQ=60)
                                                                                                                                                                              ATCACCAGGGTAAGAGGG‑AAAAAAAAAAAGTGTAGGAACCGCACTATAAAAAGTCGAATGTTTGTATTAATTTTCCACACCTCTTTAGTTCTTTTATAATTAAATTCGTTTTGGATTTTGATTTAAAAAGGCCAACATCATAATTATATCGCGAATGTACTACTAGTATATGCAGTTTTCTTAAAATTGCAGGGAATGACTAAAAGCCCACGTTTTTCCCACTTTTAGTAGTACTGAAGCGTAGATAGATTGAACGTTGCTGGGCGCCTGATGTTGATCATTTCTGAAATGAGATATTGGG                                                                                               <  SRR13385772.474732/301‑1 (MQ=60)
                                                                                                                                                                                                          AAGTGTAGGAACCGCACTATAAAAAGTCGAAGGTTTGTATTAATTTTCCACACCTCTTTAGTTCTGTTATAATTAAATTCGTTTTGGATTTTGATTTAAAAAGGCCAACATCATAATTATATCGCGAATGTACTACTAGTATATGCAGTTTTCTTAAAATTGCAGGGAATGACTAAAAGCCCACGTTTTTCCCACTTTTAGTAGTACTGAAGCGTAGATAGATTGAACGTTGCTGGGCGCCTGATGTTGATCATTTCTGAAATGAGATATTGGGAATCAGCTGTATCTACATTTTATTTAT                                                                    >  SRR13385772.1121063/1‑301 (MQ=60)
                                                                                                                                                                                                                AGGAACCGCACTATAAAAAGTCGAAGGTTTGTATTAATTTTCCACACCTCTTTAGTTCTGTTATAATTAAATTCGTTTTGGATTTTGATTTAAAAAGGCCAACATCATAATTATATCGCGAATGTACTACTAGTATATGCAGTTTTCTTAAAATTGCAGGGAATGACTAAAAGCCCACGTTTTTCCCACTTTTAGTAGTACTGAAGCGTAGATAGATTGAACGTTGCTGGGCGCCTGATGTTGATCATTTCTGAAATGAGATATTGGGAATCAGCTGTATCTACATTTTATTTATACATA                                                               <  SRR13385772.322925/300‑1 (MQ=60)
                                                                                                                                                                                                                    ACCGCACTATAAAAAGTCGAAGGTTTGTATTCATTTTCCACACCTCTTTAGTTCTGTTATAATTAAATTCGTTTTGGATTTTGATTTAAAAAGGCCAACATCATAATTATATCGCGAATGTACTACTAGTATATGCAGTTTTCTTAAAATTGCAGGGAATGACTAAAAGCCCACGTTTTTCCCACTTTTAGTAGTACTGAAGCGTAGATAGATTGAACGTTGCTGGGCGCCTGATGTTGATCATTTCTGAAATGAGATATTGGGAATCAGCTGTATCTACATTTTATTTATACATATTTAT                                                          >  SRR13385772.491752/1‑301 (MQ=60)
                                                                                                                                                                                                                           TATAAAAAGTCGAAGGTTTGTATTAATTTTCCACACCTCTTTAGTTCTGTTATAATTAAATTCGTTTTGGATTTTGATTTAAAAAGGCCAACATCATAATTATATCGCGAATGTACTACTAGTATATGCAGTTTTCTTAAAATTGCAGGGAATGACTAAAAGCCCACGTTTTTCCCACTTTTAGTAGTACTGAAGCGTAGATAGATTGAACGTTGCTGGGCGCCTGATGTTG                                                                                                                        <  SRR13385772.12265/232‑1 (MQ=60)
                                                                                                                                                                                                                                      GAAGGTTTGTATTATTTTTCCATACCTCTTTAGTTCTGTTATAATTAGATTCGTTTTGGATTTTGATTTAAAAAGGCCAACATCATAATTATATCGCGAATGTACTACTAGTATATGCAGTTTTCTTAAAATTGCAGGGAATGACTAAAAGCCCACGTTTTTCCCACTTTTAGTAGTACTGAAGCGTAGATAGATTGAACGTTGCTGGGCGCCTGATGTTGATCATTTCTGAAATGAGATATTGGGAATCAGCTGTATCTACATTTTATTTATACATATTTATTTTTACTGGTTCTTAGTA                                        <  SRR13385772.253824/301‑1 (MQ=60)
                                                                                                                                                                                                                                       AAGGTTTGTATTAATTTTCCACACCTCTTTAGTTCTGTTATAATTAAATTCGTTTTGGATTTTGATTTAAAAAGGCCAACATCATAATTATATCGCGAATGTACTACTAGTATATGCAGTTTTCTTAAAATTGCAGGGAATGACTAAAAGCCCACGTTTTTCCCACTTTTAGTAGTACTGAAGCGTAGATAGATTGAACGTTGCTGGGCGCCTGATGTTGATCATTTCTGAAATGAGATATTGGGAATCAGCTGTATCTACATTTTATTTATACATATTTATTTTTACTGGTTCTTAGTAA                                       <  SRR13385772.380102/301‑1 (MQ=60)
                                                                                                                                                                                                                                                                    TAGTTCTGTTATAATTAAATTCGTTTTGGATTTTGATTTAAAAAGGCCAACATCATAATTATATCGCGAATGTACTACTAGTATATGCAGTTTTCTTAAAATTGCAGGGAATGACTAAAAGCCCACGTTTTTCCCACTTTTAGTAGTACTGAAGCGTAGATAGATTGAACGTTGCTGGGCGCCTGATGTTGATCATTTCTGAAATGAGATATTGGGAATCAGCTGTATCTACATTTTATTTCTACATATTTATTTTTACTGGTTCTTAGTAACGTACTTTTGTAGCAATGCTGTGTTTC            >  SRR13385772.1239738/1‑299 (MQ=60)
                                                                                                                                                                                                                                                                             TATAATTAAATTCGTTTTGGATTTTGATTTAAAAAGGCCAACATCATAATTATATCGCGAATGTACTACTAGTATATGCAGTTTTCGTAAAATTGCAGGGAATGACTAAAAGCCCACGTTTTTCCCACTTTTAGTAGTACTGAAGCGTAGATAGATTGAACGTTGCTGGGCGCCTGATGTTGATCATTTCTGAAATGAGATATTGGGAATCAGCTGTATCTACATTTTATTTATACATATTTATTTTTACTGGTTCTTAGTAACGTACTTTTGTAGCAATGCTGTGTTTCAGTGCGAACG  <  SRR13385772.675013/300‑1 (MQ=60)
                                                                                                                                                                                                                                                                             TATAATTAAATTCGTTTTGGATTTTGAGTTAAAAAGGCCAACATCATAATTATATCGCGAATGTACTACTAGTATATGCAGTTTTCTTAAAATTGCAGGGAATGACTAAAAGCCCACGTTTTTCCCACTTTTAGTAGTACTGAAGCGTAGATAGATTGAACGTTGCTGGGCGCCTGATGTTGATCATTTCTGAAATGAGATATTGGGAATCAGCTGTATCTACATTTTATTTATACATATTTATTTTTACTGGTTCTTAGTAACGTACTTTTGTAGCAATGCTGTGTTTCAGTGCGAACG  <  SRR13385772.241843/300‑1 (MQ=60)
                                                                                                                                                                                                                                                                                         CGTTTTGGATTTTGATTTAAAAAGGCCAACATCATAATTATATCGCGAATGTACTACTAGTATATGCAGTTTTCTTAAAATTGCAGGGAATGACTAAAAGCCCACGTTTTTCCCACTTTTAGTAGTACTGAAGCG                                                                                                                                                           >  SRR13385772.1076207/1‑135 (MQ=60)
                                                                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                                                 
ATCAAAAGTTTCCGCCAAAATACATCAAGAAGTCGGCAAAGAAAGGTGATAAGAATTAGCATTACTACTAGTATACTACTATTTAAGCTCTTTGTATGTAAAGTGAGCAAATCTCAAATTTTGCTACTTAATTCTTATTTTCGTGCTAGCCCTACAACGGAACCCAAAAAATCAATCACCAGGGTAAGCGGG‑AAAAAAAAAAAGTGTAGGAACCGCACTATAAAAAGTCGAAGGTTTGTATTAATTTTCCACACCTCTTTAGTTTTGTTATAATCAAATTCCTTTTGGTTTTTGTTTTAAAAAGGCCAACATCATAATTATATCGCGAATGTACTACTAGTATATGCAGTTTTCTTAAAATTGCAGGGAATGACTAAAAGCCCACGTTTTTCCCACTTTTAGTAGTACTGAAGCGTAGATAGATTGAACGTTGCTGGGCGCCTGGTGTTGATCATTTCTGAAATGAGATATTGGGAATCAGCTGTATCTACATTTTATTTATACATATTTATTTTTACTGGTTCTTAGTAACGTACTTTAGTAGCAATGCTGTGTTTTAGTGCGAACG  >  BK006934/381233‑381800

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑