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
TGGAATAGTCAAAATCCTAGGGATGTTATTAATCGGAAAACTACTATCTCGAACGAATAGTTATAATTAATCAATGAAAAAAAAAAAGAGAAAGTAAAAAATGTTACAACAACTAATATACACTAATTGTCCTTGATAACAGAACTTGTTGTAGTTTTATTCCGTGGGGAGGAGGGTGAATTTTTTTTATTTAGTTTTAAAGAACAAAACAGAAGTCTATATACTTAGCACTATAATATCCAGTTTCAATTTGCTCTGTCAGAATCCGAATTGGCTGGTTTTCTTTGTTTTACCATCCCCTTCCATTTATCAGCATGATATTTTTTTTTTTAGAATAATCCTTTCAATCGTTGAAGTAGTTTGTGGGAAAAAAAAAGTTGTTAAAGGCATTAACGTACACAGTGATTTGCTGACTCATTACGATTTTTCACTCATCGAAGTATTGTTAGATTTTGATATATTAACATGACTAAAGGGCTATGGTCCATCGTAGCAGAAGGCAATCATCACTTTAAAACCGAGGCCACAATCGATAATTAGCACTGATATTCTGATTGGAAAAAAGGCAAAAAATGACCGC  >  BK006939/337377‑337956
                                                                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                                                            
TGGAATAGTCAAAATCCTAGGGATGTTATTAATCGGAAAACTACTATCTCGAACGAATCGTTATAATTAATCAATG‑CAAAAAAAACGAGCAAGTAAAAAATGTTACAACACCTAATATACACTAATTGTCCTTGATAACAGAACTTGTTGTAGTTTTATTCCGTCGGGAGGAGGGTGAATTTTTTTTATTTCCTTTTAAACATCACACCAGAACTCTATATACTTAGCACTATCATATCCAGTTTCACTTTGCTCTGTCCGATTCCTAATTCTCTGGTTTTCTTTGTTTTACCCCCCCCTT                                                                                                                                                                                                                                                                                        >  SRR13385772.1047673/1‑301 (MQ=60)
         CAAAATCCTAGGTATGTTATTAATCGGAAAACTACTATCTCGAACGAAGAGTTATAATTAATCAAT‑TAAAAAAAAAAGAGAAAGTAAAAAATGTTACAACAACTAATATACACTAATTGTCCTTGATAACAGAACTTGTTGTAGTTTTATTCCGTGGGGAGGAGGGTGAATTTTTTTTATTTAGTTTTAAAGAACAAAACAGAAGTCTATATACTTAGCACTATAATATCCAGTTTCAATTTGCTCTGTCATAATCCGAATTGGCTGGTTTTCTTTGTTTTACCACCCCCTTCCATTTAT                                                                                                                                                                                                                                                                                <  SRR13385772.1209444/300‑1 (MQ=60)
         CAAAATCCTAGGGATGTTATTAATCGGAAAACTACTATCTCGAACGAATAGTTATAATTAATCAATG‑AAAAAAAAAAGAGAAAGTAAAAAATGTTACAACAACTAATATACACTAATTGTCCTTGATAACAGAACTTGTTGTAGTTTTATTCCGTGGGGAGGAGGGTGAATTTTTTTTATTTAGTTTTAAAGAACAAAACAGAAGTCTATATACTTAGCACTATAATATCCAGTTTCAATTTGCTCTGTCAGAATCCGAATTGGCTGGTTTTCTTTGTTTTACCACCCCCTTCCATTTATC                                                                                                                                                                                                                                                                               >  SRR13385772.455032/1‑301 (MQ=60)
                              AATCGGAAAACTACTATCTCGAACGAATAGGTATAATTAAACAATG‑AAAAAAAAAAGAGAAAGTAAAAAATGTTACAACAACTAATTTACACTGATTGTCCTTGATAACAGAACTTTTTGTAGTTTTATTCCGTGGGGATGAGGGTGAATTTTTTTTATTTAGTTTTAAAGAACAAAACAGAAGGCTATATACTTAGCACTATAAGTTCCAGTTTCAATTTGCTCTGTCAGAATCCGAATTGGCTGGTGTTCTTTGTTTTACCACCCCCTTCCATTTATCATCATGGTATTTTTTTTTTag                                                                                                                                                                                                                                                          <  SRR13385772.765654/301‑3 (MQ=60)
                                 CGAAAAACTACTAGCCCGAACGAATAGTTATAATTAATAAATG‑‑AAAAAAAAAGAGAAAGTAAAAAATGTTACAACAACTAATATACACTAAATGTCCTTGATAACAGAACTTGTTGTAGTTTTATTCCGTGGGGAGGAGGGTGAATTTTTTTTATTTAGTTTTAAAGAACAAAACAGAAGTCTATATACTTAGCACTATAATATCCAGTTTCAATTTGCTCTGTCAGAATCCGAATTGGCTGGTTTTCTTTGTTTTACCACCCCCTTCCATTTATCAGCATGATA‑TTTTTTTTTTAGAAT                                                                                                                                                                                                                                                      <  SRR13385772.290162/300‑1 (MQ=60)
                                     AAACTACTATCTCGAACGAATAGTTATAATTAATCAATG‑AAAAAAAAAAGAGAAAGTAAAAAATGTTACAAAAACTAATATACACTAATTGTCCTTGATAACAGAACTTGTTGTAGTTTTATTCCGCAGGGAGGAGGGAGAATTTTTTTTAATTAGTTTTAAAGACCAACACAGAAGTCTATATCCTTAGCACTATAATATCCAGTTTAAATTTGCTCTGTCAGAATCCGACTTGGCTGGTTTTCTTTGTTTTACCACCCCCTTCCATTTATCAGCATGATA‑TTTTTTTTTTAGAATAATC                                                                                                                                                                                                                                                  >  SRR13385772.16346/1‑301 (MQ=60)
                                                             GATAATTAATCAATG‑AAAAAAAAAAGAGAAAGTAAAAAATGTTACAACAACTAATATACGCTAATTGTCCTTGATAACAGAACTTGTTGTAGTTTTATTCCGTGGAGAGGAGGGTGAATTGTTTTTATTTAGTTTTAAAGAACAAAACAGAAGTCTATATACGTAGCACTATAATATCCAGTTTCAATTTGCTCTGTCAGAATCCGAATTGGCTGGTTTTCTTTGTTTTACCACCCCCTTCCATTTATCAGCATGATA‑TTTTTTTTTTAGAATAATCCTTTCAATCGTTGAAGTAGTTTG                                                                                                                                                                                                                           <  SRR13385772.1293317/300‑1 (MQ=60)
                                                                   ataaacaatgAAAAAAAAAAGAGAAAGTAAAAAATGTTACAACAACTAATATACACTAATTGTCCTTGATAACAGAACTTGTTGTAGGTTGATTCCGTGGGGAGGAGGGTGAATTTTTTTTATTTAGTTTTAAAGAACAAAACAGAAGTCTATATACTTAGCACTAGAATATCCAGTTTCAATTTGCTCTGTCAGAATCCGAATTGGCTGGTTTTCTTTGTGTTACCACCCCCTTCCATTTATCAGCATGATA‑TTTTTTTTTTAGAATAATCCTTTCAATCGTTGAAGTAGTTTGTGGGAA                                                                                                                                                                                                                     <  SRR13385772.521395/291‑1 (MQ=60)
                                                                     ATCAATG‑AAAAAAAAAAGAGAAAGTAAAAAATGTTACAACAACTAATATACACTAATTGTCCTTGATAACAGAACTTGTTGTAGTTTTATTCCGTGGGGAGGAGGGTGAATTTTTTTTATTTAGTTTTAAAGAACAAAACAGAAGTCTATATACTTAGCACTATAATATCCAGTTTCAATTTGCTCTGTCAGAATCCGAATTGGCTGGTTTTCTTTGTTTTACCACCCCCTTCCATTTTTCAGCATGATA‑TTTTTTTTTTAGAATAATCCTTTAAATCTTTGAAGTAGTTTGTGGGAA                                                                                                                                                                                                                     >  SRR13385772.690668/1‑298 (MQ=60)
                                                                                                                                               ACTTGTTGTAGTTTTATTCCGTGGGGAGGAGGGTGAATTTTTTTTATTTAGTTTTAAAGAACAAAACAGAAGTCTATAGACTTAGCACTATAATATCCAGTTTCAATTTGCTCTGTCAGAATCCGAATTGGCTGGTTTTCTTTGGTTTACCACCCCCTTCCATTTATCAGCATGATA‑TTTTTTTTTTAGAATAATCCTTTCAATCGTTGAAGTAGTTTGTGGGAAAAGAAAAGTTGTTAAAGGCATTAACGTACACAGTGATTTGCTGACTCATTACGATTTTTCACTCATCGAAGTATTG                                                                                                                                         <  SRR13385772.717302/301‑1 (MQ=60)
                                                                                                                                                                                     TTTTTTTATTTAGTTATAAAGAACAAAACAGAAGTCTATATACTTAGCACTATAATATCCAGTTTCACTTTGCTCTGTCAGAATCCGAATTGGCTGGTTTTCTTTGTTTTACCCCCCCCTTCCATTTATCCGCATGATA‑TTTTTTTTTTAGAATAATCCTTTCAATCGTTGAAGTAGTTTGTGGGAAAAGAAAAGTTGTTAAAGCCCTTAACGTACACAGTGATTTGCTGACTCATTACGATTTTTCACTCATCGAAGTATTGTTAACATTCGATATATTACCATGACTAAAGGGCTATGG                                                                                                   >  SRR13385772.903219/1‑301 (MQ=60)
                                                                                                                                                                                        TTTTATTTAGTTTTAAAGAACAAAACAGAAGTCTATATACTTAGCACTATAATATCCAGTTTCAATTTGCTCTGTCAGAATCCGAATTGGCTGGTTTTCTTTGTTTTACCACCCCCTTCCATTTATCAGCATGATA‑TTTTTTTTTTAGAATAATCCTTTCAATCGTTGAAGTAGTTTGTGGGAAAAGAAAAGTTGTTAAAGGCATTAACGTACACAGTGATTTGCTGACTCATTACGATTTTTCACTCATCGAAGTATTGTTAAATTTCGATATATTAACATGACTAAAGGGCTATGGTC                                                                                                 <  SRR13385772.28675/300‑1 (MQ=60)
                                                                                                                                                                                             TTTAGTTTTAAAGAACAAAACAGAAGTCTATATACTTAGCACTATAATATCCAGTTTCAATTTGCTCTGTCAGAATCCGAATTGGCTGGTTTTCTTTGTTTTACCACCACATTCCATTTATCAGCATGATA‑TTTTTTTTTTAGAATAATCCTTTCAATCGTTGAAGTAGTTTGTGGGAAAAGAAAAGTTGTTAAAGGCATTAACGTACACAGTGATTTGCTGACTCATTACGATTTTTCACTCATCGAAGTATTGTTAAATTTCGATATATTAACATGACTAAAGGGCTATGGTCCGTCGT                                                                                           >  SRR13385772.955468/1‑301 (MQ=60)
                                                                                                                                                                                                                   GAAGTCTATATACTTAGCACTATAATATCCAGTTTCAATTTGCTCTGTCAGAATCCGTATTGGCTGGTTGTCTTTGTTTTACCACCCCCTTCCATTTATCAGCATGATA‑TTTTTTTTTTAGAATAATCTTTTCAATCGTTGAAGTAGTTTGTGGGAAAAGAAAAGTTGTTAAAGGCATTAACGTACACATGGATTTGCTGACTCATTACGATTTTTCACTCATCGAAGTATTGTTAATTTTCGATGTATTAACATGACTAAAGGGCTAGGGTCCGTCGTAGCAGAAGGCAATCATCACTTT                                                                     >  SRR13385772.229393/1‑301 (MQ=60)
                                                                                                                                                                                                                             TACTTAGCACTATAATATCCAGTTTCAATTTGCTCTGTCAGAATCCGAATTGGCTGGTTTTCTTTGTTTTACCACCCCCTTCCATTTATCAGCATGATA‑TTTTTTTTTTAGAATAATACTTTCAATCGTTGAAGTAGTTTGTGGGAAAAGAAAAGTTGTTAAAGGCATTAACGTACACAGTGATTTGCTGACTCATTACGATTTTTCACTCATCGAAGTATTGTTAAATTTCGATATATTAACATGACTAAAGGGCTATGGTCCGTCGTAGCAGAAGGCAATCATCACTTTAAAACCGAGG                                                           >  SRR13385772.638327/1‑301 (MQ=60)
                                                                                                                                                                                                                                TTAGCACTATAATATCCAGTTTCAATTTGCTCTGTCAGAATCCGAATTGGCTGGTTTTCTTTGTTTTACCACCCCCTTCCATTTATCAGCATGATA‑TTTTTTTTTTAGAATAATCCTTTCAATCGTTGAAGTAGTTTTTGGGAAAAGAAAAGTTGTTAAAGGCATTAACGTACACAGTGATTTGCTTACTCATTACGATTTTTCACTCATCTATGTATTGTTAAATTTCGATATATTAACATGACTAAAGGGCTATGGTCCGTCGTAGCTGAAGGCAATCATCACTTTAAAACCTAGGCC                                                         >  SRR13385772.757654/1‑300 (MQ=60)
                                                                                                                                                                                                                                  AGCACTATAATATCCAGTTTCAATTTGCTCTGTCAGAATCCGAATTGGCTGGTTTTCTTTGTTTTACCACCCCCTTCCATTTATCAGCATGATA‑TTTTTTTTTTAGAATAATCCTTTCAATCGTTGAAGTAGTTTGTGGGAAAAGAAAAGTTGTTAAAGGCATTAACGTACACAGTGATTTGCTGACTCATTACGATTTTTCACTCATCGAAGTATTGTTAAATTTCGATATATTAACATGACTAAAGGGCTATGGTCCGTCGTAGCAGAAGGCAATCATCACTTTAAAACCGAGGCCACA                                                      <  SRR13385772.898348/301‑1 (MQ=60)
                                                                                                                                                                                                                                                   TTTCAATTTGCTCTGTCAGAATCCGAATTGGCTGGTTTTCTTTGTTTTACCACCCCCTTCCATTTATCAGCATGATA‑TTTTTTTTTTAGAATAATCCTTTCAATCGTTGAAGTAGTTTGTGGGAAAAGAAAAGTTGTTAAAGGCATTAACGTACACAGTGATTTGCTGACTCATTACGATTTTTCACTCATCGAAGTATTGTTAAATTTCGATATATTAACATGACTAAAGGGCTATGGTCCGTCGTAGCAGAAGGCAATCATCACTTTAAAACCGAGGCCACAATCGATAATTAGCACTG                                     >  SRR13385772.562139/1‑301 (MQ=60)
                                                                                                                                                                                                                                                                 GTCAGCATCCGAATTGGCTGGTTTTCTTTGTTTTACCACCCCCTTACATTTATCAGCATGATA‑TTTTTTTTTTAGAATAATCCTTTCAATCGTTGCAGTCGTTTGTGGGAAAAGAAAAGTTGTTAAAGCCATTAACGTACACAGTGATTTGCTGACTCATTACGATTTTAACCTCCTCGAAGTATTGTTAAATTTCGATATATTAACATGAATAAAGGGCTATGGTCCGTCGTCGCAGAAGGACATCATCACTTTAAAACCGAGGCCACAATCGATACTTAGACATGATATCCTGATTGG                        >  SRR13385772.1020403/1‑300 (MQ=60)
                                                                                                                                                                                                                                                                      AATCCGAATTGGCTGGTTTTCTTTGTTTTACCACCCCCTTCCATTTATCAGCATGATA‑TTTTTTTTTTAGAATAATCCTTTCAATCGTTGAAGTAGTTTGTGGGAAAAGAAAAGTTGTTAAAGGCATTAACGTACACAGTGATTTGCTGACTCATTACGATTTTTCACTCATCGAAGTATTGTTAAATTTCGATATATTAACATGACTAAAGGGCTATGGTCCGTCGTAGCAGAAGGCAATCATCACTTTAAAACCGAGGCCACAATCGATAATTAGCACTGATATTCTGATTGGAAAAA                   >  SRR13385772.534068/1‑300 (MQ=60)
                                                                                                                                                                                                                                                                            AATTGGCTGGTTTTCTTTGTTTTACCACCCCCTTCCATTTATCAGCATGATA‑TTTTTTTTTTCGAATAATCCTTTCAATCGTTGAAGTAGTTTGTGGGAAAAGAAAAGTTGTTAAAGGCATTAACGTACACAGTGATTTGCTGACTCATTACGATTTTTCACTCATCGAAG                                                                                                                                              >  SRR13385772.1225368/1‑171 (MQ=60)
                                                                                                                                                                                                                                                                                     GTTTTCTTTGTTTTACCACCCCCTTCCATTTATCAGCATGATA‑‑TTTTTTTTTCGAATAATCCTTTCAATCGTTGAAGTAGTTTGTGGGAAAAGAAAAGTTGTTAAAGGCATTAACGTACACAGTGATTTGCTGACTCATTACGATTTTTCACTCATCGAAGTATTGTTAAATTTCGATATATTAACATGACTAAAGGGCTATGGTCCGTCGTAGCAGAAGGCAATCATCACTTTAAAACCGAGGCCACAATCGCTAATTAGCACTGATATTCTGATTGGAAAAAAGGCAAAAAATGACCGC  >  SRR13385772.741536/1‑301 (MQ=60)
                                                                                                                                                                                                                                                                                      TTTTCTTTGTTTTACCACCCCCTTCCATTTATCAGCATGATA‑TTTTTTTTTTAGAATAATCCTTTCACTCGTTGAAGTAGATTGTGGGAAAAGAAAAGTTGTTAAAGGCATTAACGTACACAGTGATTTGCTGACTCATTACGATTTTTCACTCATCGAAGTATTGTTAAATTTCGATATATTAACATGACTAAAGGGCTATGGTCCGTCGTAGCAGAAGGCAATCATCACTTTAAAACCGAGGACACAATCGATAATTAGCACTGATATTCTGATTGGACAAAAGGCAAAACATGACCGC  >  SRR13385772.812778/1‑301 (MQ=60)
                                                                                                                                                                                                                                                                                         TCTTTGTTTTACCACCCCCTTCCATTTATCAGCATGATA‑TTTTTTTTTTAGAATAATCCTTTCAATCGTTGAAGTAGTTTGTGGGAAAAGAAAAGTTGTTAAAGGCATTAACGTACACAGTGATTTGCTGACTCATTACGATTTTTCACTCATCGAAGTATTGTTAAATTTCGATATATTAACATGACTAAA                                                                                                            <  SRR13385772.973456/192‑1 (MQ=60)
                                                                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                                                            
TGGAATAGTCAAAATCCTAGGGATGTTATTAATCGGAAAACTACTATCTCGAACGAATAGTTATAATTAATCAATGAAAAAAAAAAAGAGAAAGTAAAAAATGTTACAACAACTAATATACACTAATTGTCCTTGATAACAGAACTTGTTGTAGTTTTATTCCGTGGGGAGGAGGGTGAATTTTTTTTATTTAGTTTTAAAGAACAAAACAGAAGTCTATATACTTAGCACTATAATATCCAGTTTCAATTTGCTCTGTCAGAATCCGAATTGGCTGGTTTTCTTTGTTTTACCATCCCCTTCCATTTATCAGCATGATATTTTTTTTTTTAGAATAATCCTTTCAATCGTTGAAGTAGTTTGTGGGAAAAAAAAAGTTGTTAAAGGCATTAACGTACACAGTGATTTGCTGACTCATTACGATTTTTCACTCATCGAAGTATTGTTAGATTTTGATATATTAACATGACTAAAGGGCTATGGTCCATCGTAGCAGAAGGCAATCATCACTTTAAAACCGAGGCCACAATCGATAATTAGCACTGATATTCTGATTGGAAAAAAGGCAAAAAATGACCGC  >  BK006939/337377‑337956

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑