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

CGAAAACAAGGCACAACAATGAATCTATCGCCCTGTGAGATTTTCAATCTCAAGTTTGTGTAATAGATAGCGTTATATTATAGAACTATAAAGGTCCTTGAATATACATAGTGTTTCATTCCTATTACTGTATATGTGACTTTACATTGTTACTTCCGCGGCTATTTGACGTTTTCTGCTTCAGGTGCGGCTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCGCCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCCCTTATAATTGCCCTCCATTTTGTGTCACCTATTTAAGCAAAAAATTGAAAGTTTACTAACCTTTCATTAAAGAGAAATAACAATATTATAAAAAGCGCTTAAAATGAATGAAATGGAAAACACAGATCCAGTATTACAGGATGATCTCGTATCCAAATATGAGAGGGAATTAAGCACAGAACAGGAAGAGGATACGCCTGTTATCCTTACGCAGTTGAATGAAGATGGCACCACTTCGAATT  >  BK006934/356111‑356699

CGACAACAAGGCACAACAATCAATCTATCACCCTGTTAGATTTTCAATCTCAAGTTTGTGTAATAGATAGCGTTATATTATAGAACTATAAAGGTCCTAGAATATACATAGTGTTTCATTCTTATTACTGTATATGTGACTTTACATTGCTACTTCCGCGGCTATTTGACGTTTTTTGCTCCAGGTGCGGCTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCT                                                                                                                                                                                                                                                                                                   <  SRR13385772.596195/300‑1 (MQ=60)

               ACAAGCAATCTATCGCCCTGTGAGATTTTCAATCTCAAGTTTGTGTAATAGATAGCGTTATATTATAGAACTATAAAGGTCCTTGAATATACATAGTGTTTCATTCTTATTACTGTATATGTGACTTTACATTGCTACTTCCGCGGCTATTGGACGTTTTTTGCTCCAGGTGCGGCTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAAC                                                                                                                                                                                                                                                                                   <  SRR13385772.1257618/301‑1 (MQ=60)

                          ATCGCCCTGTGAGATTTTCAATCTCAAGTTTGTGTAATAGATAGCGTTATATTATAGAACTATAAAGGTCCTTGAATATACATAGTGTTTCATTCTTATTACTGTATATGTGACTTTACATTGCTACTTCCGCGGCTATTTGACGTTTTTTGCTCCAGGTGCGACTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTT                                                                                                                                                                                                                                                                          <  SRR13385772.574752/299‑1 (MQ=60)

                              CCCTGTGAGATTTTCAATCTCAAGTTTGTGTAATAGATAGCGTTATATTATAGAACTATAAAGGTCCTTGAATATACATAGTGTTTCATTCTTATTACTGTATATGTGACTTTACATTGCTACTTCCGCGGCTATTTGACGTTTTTTGCTCCAGGTGCGGCTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTT                                                                                                                                                                                                                                                                    <  SRR13385772.1195211/301‑1 (MQ=60)

                               CCTGTGAGATTTTCAATCTCAAGTTTGTGTAATAGATAGCGTTATATTATAGAACTATATAGGTCCTTGAATATACATAGTGTTTCATTCTTATTACTGTATATGTGACTTTACATTGCTACTTCCGCGGCTATTTGACGTTTTTTGCTCCAGGTGCGGCTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTC                                                                                                                                                                                                                                                                   >  SRR13385772.85870/1‑301 (MQ=60)

                                  GTGAGATTTTCAATCTCAAGTTTGTGTAATAGATAGCGTTATATTATAGAACTATAAAGGTCCTTGAATATACATAGTGTTTCATTCTTATTACTGTATATGTGACTTTACATTGCTACTTCCGCGGCTATTTGACGTTTTTTGCTCCAGGTGCGGCTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGA                                                                                                                                                                                                                                                                 >  SRR13385772.166898/1‑300 (MQ=60)

                                                  CAAGTTTGTGTAATAGATAGCGTTATATTATAGAACTATAAAGGTCCTTGAATATACATAGTGTTTCATTCTTATTACTGTATATGTGACTTTACATTGCTACTTCCGCGGCTATTTGACGTTTTTTGCTCCAGGTGCGGCTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCCCTTT                                                                                                                                                                                                                                                >  SRR13385772.1203256/1‑301 (MQ=60)

                                                    AGTGTGTGTAATAGATAGCGTTATATTATAGATCTATAAAGGTCCTTGAATATACATAGTGTTTCATTCTTATTACTGTATATGTGACTTTACATTGCTACTTCCGCGGCTATTTGACGTTTTTTGCTCCAGGTGCGGCTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCGCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCCCTTATA                                                                                                                                                                                                                                              <  SRR13385772.367765/301‑1 (MQ=60)

                                                     GTTTGTGTAATAGATAGCGTTATATTATAGAACTATAAAGGTCCTTGAATATACATAGTGTTTCATTCTTATTACTGTATATGTGACTTTACATTGCTACTTCCGCGGCTATTTGACGTTTTTTGCTCCAGGTGCGGCTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCCCTTATAA                                                                                                                                                                                                                                             <  SRR13385772.771575/301‑1 (MQ=60)

                                                                 GATAGCGTTATATTATAGAACTATAAAGGTCCTTGAATATACATAGTGTTTCATTCTTATTACTGTATATGTGACTTTACATTGCTACTTCCGCGGCTATTTGACGTTTTTTGCTCCAGGTGCGGCTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCCCTTATAATTGCCCTCCATT                                                                                                                                                                                                                                 <  SRR13385772.430490/301‑1 (MQ=60)

                                                                                                  TGAATATACATAGTGTTTCATTCTTATTACTGTATATGTGACTTTACATTGCTACTTCCGCGGCTATTTGACGTTTTTTGCTCCAGGTGCGGCTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCCCTTATAATTGCCCTCCATTTTGTGTCACCTATTTAAGCAAAAAATTGAAAG                                                                                                                                                                                                 <  SRR13385772.1246530/300‑1 (MQ=60)

                                                                                                       ATACCTAGTGTTTCATTCTTATTACTGTATATGTGACTTCACATTGCTACTTCCGCGGCTATTGGACGTTTTTTGCTCCAGGTGCTGCTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAAATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCCCCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGACAAGCCAAGG                                                                                                                                                                                                                                                       <  SRR13385772.12659/241‑1 (MQ=60)

                                                                                                                           ATTACTGTATATGTGACTTTACATTGCTACTTCCGCGGCTATTTGACGTTTTTTGCTCCAGGTGCGGCTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAA                                                                                                                                                                                                                                                                >  SRR13385772.323637/1‑212 (MQ=60)

                                                                                                                                TGTATATGTGAATTTACATTGCTACTTCCGCGGCTATATGACGTTTTTTGCTCCAGGTGCGGCTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGACGTATGACACAAAAGAGTAGAAAACGAGATCTCAAAGATCTCGCAGCCTGTCCCCTATACAAACCCCCAGCTCCCTCACAAAGCACCCGAACGGTTGTCTTTTGTTTCGAAAAGCCAACGTACCTTACAATTGCCCTACATTTTGCGTCACCTATTTAAGCAAAAACTTGACCGATCACTAACCTTTCATTAAAGAacactaac                                                                                                                                                                   >  SRR13385772.341178/1‑292 (MQ=60)

                                                                                                                                   ATATGTGACTTTACATTGCTACTTCCGCGGCTATTTGACGTTTTTTGCTCCAGGTGCGGCTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGACCCTTATAATTGCCCTCCACTTTGTGTCACCTATTTAAGCAAAAAATTTAAAGCTTACTAACCTTTCACTAAAGAGACATAACAAT                                                                                                                                                                >  SRR13385772.1166743/1‑300 (MQ=60)

                                                                                                                                              TACATTGCTACTTCCGCGGCTATTTGGCGTTTTTTGCTCCAGGTGCGGCTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCCCTTATAATTGCCCTCCATTTTGTGTCACCTATTTAAGCAAAAAATTGAAAGTTTACTAACCTTTCATTAAAGAGAAATAACAATATTATAAAAAG                                                                                                                                                     <  SRR13385772.975264/300‑1 (MQ=60)

                                                                                                                                                            CGCGGCTATTTGACGTTTTTTGCTCCAGGTGCGGCTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCACTTATAATTGACCTCCATTTTGTGTCACCTATTTAAGCAAAAAATTGAAAGTTTACTAACCTTTCATTAAAGAGAAATAACAATATTATAAAAAGCGCTTAAAATGAATG                                                                                                                                      >  SRR13385772.601273/1‑301 (MQ=60)

                                                                                                                                                                GCTATTTGACGTTTTTTGCTCCAGGTGCGGCTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCCCTTATAATTGCCCTCCATTTTGTGTCACCTATTTAAGCAAAAAATTGAAAGTTTACTAACCTTTCATTAAAGAGAAATAACAATATTATAAAAAGCGCTTAAAATGAATGAAAT                                                                                                                                  <  SRR13385772.914042/301‑1 (MQ=60)

                                                                                                                                                                              tttggtcgatggGCGGCTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAATAGTAGAAAACGTGATCTCAAATATCTCGATGCCTGTCCTCTATACAACCACCCAGCTCTCGGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCCCTTATAATTGCCCTCCATTTTGTGTCACCTATTTAAGCAAAAAATTGAAAGTTTTCTAACCTTTCATTAAAGAGAAATAACAATATTATAAAAAGCGCTTAAAATGAATGAAATGGAAAACACAGAT                                                                                                                     <  SRR13385772.624794/288‑1 (MQ=60)

                                                                                                                                                                                                   AGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTC                                                                                                                                                                                                                                                     <  SRR13385772.1228593/151‑1 (MQ=60)

                                                                                                                                                                                                    GGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCCCTTATAATTGCCCTCCATTTTGTGTCACCTATTTAAGCAAAAAATTGAAAGTTTACTAACCTTTCATTAAAGAGAAATAACAATATTATAAAAAGCGCTTAAAATGAATGAAATGGAAAACACAGATCCAGTATTACAGGATGATCTCGT                                                                                              <  SRR13385772.943688/301‑1 (MQ=60)

                                                                                                                                                                                                         AAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCCCTTATAATTGCCCTCCATTTTGTGTCACCTATTTAAGCAAAAAATTGAAAGTTTACTAACCTTTCATTAAAGAGAAATAACAATATTATAAAAAGCGCTTAAAATGAATGAAATGGAAAACACAGATCCAGTATTACAGGATGATCTCGTATCCA                                                                                         <  SRR13385772.130394/301‑1 (MQ=60)

                                                                                                                                                                                                                                   ATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCCCTTATAATTGCCCTCCATTTTGTGTCACCTATTTAAGCAAAAAATTGAAAGTTTACTAACCTTTCATTAAAGAGAAATAACAATATTATAAAAAGCGCTTAAAATGAATGAAATGGAAAACACAGATCCAGTATTACAGGATGATCTCGTATCCAAATATGAGAGGGAATTAAGCACAGAA                                                               <  SRR13385772.301389/301‑1 (MQ=60)

                                                                                                                                                                                                                                       CACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCCCTTATAATTGCCCTCCATTTTGTGTCACCTATTTAAGCAAAAAATTGAAAGTTTACTAACCTTTCATTAAAGAGAAATAACAATATTATAAAAAGCGCTTAAAATGAATGAAATGGAAAACACAGATCCAGTATTACAGGATGATCTCGTATCCAAATATGAGAGGGAATTAAGCACAGAACAGG                                                           >  SRR13385772.606556/1‑301 (MQ=60)

                                                                                                                                                                                                                                                 TAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCCCTTATAATTGCCCTCCATTTTGTGTCA                                                                                                                                                                                                                         <  SRR13385772.171363/133‑1 (MQ=60)

                                                                                                                                                                                                                                                      AACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCCCTTATAATTGCCCTCCATTTTGTGTCACCTATTTAAGCAAAAAATTGAAAGTTTACTAACCTTTCATTAAAGAGAAATAACAATATTATAAAAAGCGCTTAAAATGAATGAAATGGAAAACACAGATCCAGTATTACAGGATGATCTCGTATCCAAATATGAGAGGGAATTAAGCACAGAACAGGAAGAGGATACGCCTG                                            >  SRR13385772.772315/1‑301 (MQ=60)

                                                                                                                                                                                                                                                                CAAATATCTCGAGGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCCCTTATAATTGCCCTCCATTTTGTGTCACCTATTTAAGCAAAAAATTGAAAGTTTACTAACCTTTCATTAAAGAGAAATAACAATATTATAAAAAGCGCTTAAAATGAATGAAATGGAAAACACAGATCCAGTATTACAGGATGATCTCGTATCCAAATATGAGAGGGAATTAAGCACAGAACAGGAAGAGGATACGCCTGTTATC                                       <  SRR13385772.526033/296‑1 (MQ=60)

                                                                                                                                                                                                                                                                           AGTCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCCCTTATAATTGCCCTCCATTTTGTGTCACCTATTTAAGCAAAAAATTGAAAGTTTACTAACCTTTCATTAAAGAGAAATAACAATATTATAAAAAGCGCTTAAAATGAATGAAATGGAAAACACAGATCCAGTATTACAGGATGATCTCGTATCCAAATATGAGAGGGAATTAAGCACAGAACAGGAAGAGGATACGCCTGTTATCCTTACGCAGTTGAATG                       <  SRR13385772.1238912/301‑1 (MQ=60)

                                                                                                                                                                                                                                                                            GGCCTGTCCTCTATACAACCACCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCCCTTATAATTGCCCTCCATTTTGTGTCACCTATTTAAGCAAAAAATTGAAAGTTTACTAACCTTTCATTAAAGAGAAATAACAATATTATAAAAAGCGCTTAAAATGAATGAAATGGAAAACACAGATCCAGTATTACAGGATGATCTCGTATCCAAATATGAGAGGGAATTAAGCACAGAACAGGAAGAGGATACGCCTGTTATCCTTACGCAGTTGAATGA                      <  SRR13385772.462356/301‑1 (MQ=60)

                                                                                                                                                                                                                                                                                                CCCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCCCTTATAATTGCCCTCCATTTTGTGTCACCTATTTAAGCAAAAAATTGAAAGTTTACTAACCTTTCATTAAAGAGAAATAACAATATTATAAAAAGCGCTTAAAATGAATGAAATGGAAAACACAGATCCAGTATTACAGGATGATCTCGTATCCAAATATGAGAGGGAATTAAGCACAGAACAGGAAGAGGATACGCCTGTTATCCTTACGCAGTTGAATGAAGATGGCACCACTTCGAATT  <  SRR13385772.1184259/301‑1 (MQ=60)

CGAAAACAAGGCACAACAATGAATCTATCGCCCTGTGAGATTTTCAATCTCAAGTTTGTGTAATAGATAGCGTTATATTATAGAACTATAAAGGTCCTTGAATATACATAGTGTTTCATTCCTATTACTGTATATGTGACTTTACATTGTTACTTCCGCGGCTATTTGACGTTTTCTGCTTCAGGTGCGGCTTGGAGGGCAAAGTGTCAGAAAATCGGCCAGGCCGTATGACACAAAAGAGTAGAAAACGAGATCTCAAATATCTCGAGGCCTGTCCTCTATACAACCGCCCAGCTCTCTGACAAAGCTCCAGAACGGTTGTCTTTTGTTTCGAAAAGCCAAGGTCCCTTATAATTGCCCTCCATTTTGTGTCACCTATTTAAGCAAAAAATTGAAAGTTTACTAACCTTTCATTAAAGAGAAATAACAATATTATAAAAAGCGCTTAAAATGAATGAAATGGAAAACACAGATCCAGTATTACAGGATGATCTCGTATCCAAATATGAGAGGGAATTAAGCACAGAACAGGAAGAGGATACGCCTGTTATCCTTACGCAGTTGAATGAAGATGGCACCACTTCGAATT  >  BK006934/356111‑356699

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 0 ≤` `ATCG/ATCG` `< 11 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`