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

CTACCTGTTAGGACGATGGAGGCCATATATGCCTACGAAGCACAGGGAGATGATGAGATTTCAATTGATCCGGGGGACATAATTACTGTTATCAGAGGCGATGACGGTAGCGGGTGGACATATGGTGAATGTGACGGATTGAAAGGTCTATTTCCTACAAGTTACTGTAAATGAACGAAGGAATGAACTGAAACTATTAAATATTTTCCCTGGCCGCCACTTTTTTGAGAGGTATGACGACTCTATGT‑‑TATATATATATATA‑‑TAT‑‑ATATATATATATATAGCACAAAATTTCATGTGATCAATCTACTAGGCGAACACCTAAATTGTTATTTATTTCCATGTCTATATCCATTTCAATGTCTGGCTCATCTTCGTCCTCGTTTTCGAATTCGGATTCAGATTCGGATTCCAAGGTAGTCTCCAAATCACAGTTTGTCCTACAGTTCGGACACATGAATTGAGGATAATTCATAATAACCAATCTTCTTACACAATGAAAATGCCAACTATGGGCACATGGTGATATAAAAATG  >  BK006934/339811‑340343

CTACCTGTTAGGACGATGGAGGCCATATATGCCTACGAAGCACAGGGGGATGATGAGATTTCAATTGATCCGGGGGACATAATTACTGTTATCAGAGGCGATGACGGTAGCGGGTGGACATATGGTGAATGTGACGGATTGAAAGGTCTATTTCCTACAAGTTACTGTAAATGAACGAAGGAATGAACTGAAACTATTAAATATTTTCCCTGGCCGCCACTTTTTTGAGAGGTATGACGACTCTATGT‑‑TATATATATATATA‑‑TAT‑‑ATATATATATATATAGCACA                                                                                                                                                                                                                                                          >  SRR13385771.1430874/1‑285 (MQ=60)

           GAGGAGGGAGGCCATATATGCCTACGAGGCACAGGGAGATTATGAGATTTCAATTGATCCGGGGGACATAATTACTGTTATCAGAGGCGATGACGGTAGCGGGTGGACATATGGTGAATGTGACGGAGTGAAAGGTCTATTTCCTACAAGTTACTGTAAATGAACGAAGGAATGAACTGAAACTATTAAATATTTTCCCTGGCCGCCACTTTTTTGAGAGGTATGACGACTCTATGTTATATATATATATATA‑‑TAT‑‑ATATATATATATATAGCACAAAATTTCATGTGATCAATCTACTAG                                                                                                                                                                                                                                 <  SRR13385771.1052574/301‑1 (MQ=60)

                       CATATATGCCTACGATGGACATGGAGATGATGAGATTTCAATGGATCCGGGTGACAGAATTACTGTTAGCAGAGGCGAGGACGGTAGCTGGTGTACATATGGTGAATGTGACTGAGTGAAGTGTCTATTTCCTACTAGTTACTGTAAATGATCGAAGGAATGAACTTAAACTATTAAATATTTTCCCTGGCCTCCACTTTTTTGAGAGGTATGACGACTCTATGT‑‑TATATATATATATA‑‑TATAGATATATATATATATATCACAAAATTTCATGTGATCAATCTACTAGGCTAACACCTAA                                                                                                                                                                                                                     <  SRR13385771.1025542/301‑1 (MQ=60)

                                                       AGATTTCAATTGATCCGGGGGACATAATTACTGTTATCAGAGGCGATGACGGTAGCGGGTGGACATATGGTGAATGTGACGGATTGAAAGGTCTATTTCCTACAAGTTACTGTAAATGAACGAAGGAATGAACTGAAACTATTAAATATTTTCCCTGGCCGCCACTTTTTTGAGAGGTATGACGACTCTATGTTATATATATATATATA‑‑TAT‑‑ATATATATATATATAGCACAAAATTTCATGTGATCAATCTACTAGGCGAACACCTAAATTGTTATTTATTTCCATGTCTATATCCATTT                                                                                                                                                                                     >  SRR13385771.1595958/1‑301 (MQ=60)

                                                                                          ATCAGAGGCGATGACGGTAGCGGGTGGACATATGGTGAATGTGACGGATTGAAAGGTCTATTTCCTACAAGTTACTGTAAATGAACGAAGGAATGAACTGAAACTATTAAATATTTTCCCTGGCCGCCACTTTTTTGAGAGGTATGACGACTCTATGTTATATATATATATATA‑‑TAT‑‑ATATATATATATATAGCACAAAATTTCATGTGATCAATCTACTAGGCGAACACCTAAATTGTTATTTATTTCCATGTCTATATCCATTTCACTGTCTGGCTCATCTTCGTCCTCGTTTTCGAAT                                                                                                                                                  >  SRR13385771.545300/1‑301 (MQ=60)

                                                                                                     GGACGGTAGCGGGTGGACATATGGTGAATGTGACGGATTGAAAGGTCTATTTCCTACAAGTTACTGTAAATGAACGAAGGAATGAACTGAAACGATTAAATATTTTCCCTGGCCGCCACTTTTTTGAGAGGTATGACGACTCTATGTTATATATATATATATA‑‑TAT‑‑ATATATATATATATAGCACAAAATTTCATGTGATCAATCTACTAGGCGAACACCTAAATTGTTATTTATTTCCATGTCTATATCCATTTCAATGTCTGGCTCATCTTCGTCCTCGTTTTCGAATTCGGATTCAGA                                                                                                                                       <  SRR13385771.1051582/301‑1 (MQ=60)

                                                                                                                                                    TATTTCATACAAGTTAATGTATATGAACGAAAGAATGAACTGAAAATATTATATATTTTCTCTGGCCGCCACTTTTTTGAGAGGTATGACGACTCTATGTTATATATATATATATA‑‑TAT‑‑ATATATATATATATAGCACAAAATTTCATGTGATCAATCTACTAGGCGAACACCTAAATTGTTATTTATTTCCATGTCTATATCCATTTCAATGTCTGGCTCATCTTCGTCCTCGTTTTCGAATTCGGATTCAGATTCGGATTCCAAGGTAGTCTCCAAATCACAGTTTGTCCTACAGTTC                                                                                         <  SRR13385771.411659/300‑1 (MQ=60)

                                                                                                                                                                      GTATATGAGCGAAGGAATGAATTGAATCTGTTAGATTTTTTCCCTGGCCGCCACTTTTTTGAGAGGTATGGCGACTCTATGTTATATATATATATATA‑‑TAT‑‑ATATATATATATATAGCACAAAATTTCATGTGATCAATCTACTAGGCGAACACCTAAATTGTTATTTATTTCCATGTCTATATCCATTTCAATGTCTGGCTCATCTTCGTCCTCGTTTTCGAATTCGGATTCAGATTCGGATTCCAAGGTAGTCTCCAAATCACAGTTTGTCCTACAGTTCGGACACATGAATTGAGGA                                                                       <  SRR13385771.1203592/300‑1 (MQ=60)

                                                                                                                                                                               CGAAGGAATGAACTGAAACTCTTAAATATTCTCCCTGGCCGCCACTTTTTTGAGAGGTATGACGACTCTATGTTATATATATATATATA‑‑TAT‑‑ATATATATATATATAGCACAAAATTTCATGTGATCAATCTAATACGCGAACACCTAAATTGTTATTTATTTCCATGTCTATATCCATTTCAATGTCTGGCTCATCTTCGTCCTCGTTTTCG                                                                                                                                                     >  SRR13385771.1418368/1‑213 (MQ=60)

                                                                                                                                                                                GAAGGAATGAACTGAAACTATTAAATATTTTCCCTGGCCGCCACTTTTTTGAGAGGTATGACGACTCTATGT‑‑TATATATATATATA‑‑TAT‑‑ATATATATATATATAGCACAAAATTTCATGTGAGCAATCTACTAGGCGAACACCTAAATTGTTATTTATTTCCATGTCTATATCCATTTCAATGTCTGGCTCATCTTCGTCCTCGTTTTCGAATTCGGATTCAGATTCGGATTCCAAGTGAGTCTCCAAATCACAGTTTGTCCTACAGTTCGGACACATGAATTGGGGATAAGGCATAATA                                                           >  SRR13385771.743422/1‑300 (MQ=60)

                                                                                                                                                                                                 CTATTAAATA‑TTTCCCTGGCCGCCACTCTTTTGAGAGGTATGACGACTCTATGT‑‑TATATATATATATA‑‑TAT‑‑ATATATATATATATCGAACAAAATTTCATGTGATCAATCTACTAGGCGAACACCTAAATTGTTATTTATTTCCATGTCTATATCCATTTCAATGTCTGGCTCATCTTCGTCCTCGTTTTCGACTTCGGATTCAGATTCGGATTACAAGGTAGTCTCCAAATCACAGTTTGTCCTACAGTTCGGACACATGACTTGAGGATAATTCATAATAACCAATCTTCTTACACAA                                         >  SRR13385771.860269/1‑300 (MQ=60)

                                                                                                                                                                                                        ATATTTTCCCTGGCCGCCGCTTTTTTGAGAGGTATAACGACTCTATGTTATATATATATATATA‑‑TAT‑‑ATATATATATATATAGCACAAAATTTCATGTGATCAATCTACTAGGCGAACACCTAAATTGTTATTTATTTCCATGTCTATATCCATTTCAATGTCTGGCTCATCTTCGTCCTCGTTTTCGAATTCGGATTCAGATTCGGATTCCAAGGTAGTCTCCAAATCACAGTTTGTCCTACAGTTCGGACACATGAATTGAGGATAATTCATAATAACCAATCTTCTTACACAATGAAA                                    <  SRR13385771.1782776/301‑1 (MQ=60)

                                                                                                                                                                                                          ATTTTCCCTGGCCGCCACTTTTTTGAGAGGTATGACGACTCTATGTTATATATATATATATA‑‑TAT‑‑ATATATATATATATAGCACAAAATTTCATGTGATCAATCTACTAGGCGAACACCTAAATTGTTATTTATTTCCATGTCTATATCCATTTCAATGTCTGGCTCATCTTCGTCCTCGTTTTCGAATTCGGATTCAGATTCGGATTCCAAGGTAGTCTCCAAATCACAGTTTGTCCTACAGTTCGGACACATGAATTGAGGATAATTCATAATAACCAATCTTCTTACACAATGAAAAT                                  <  SRR13385771.1797819/301‑1 (MQ=60)

                                                                                                                                                                                                            TTTCCCTGGCCGCCACTTTTTTGAGAGGTATGACGACTCTATGTTATATATATATATATA‑‑TAT‑‑ATATATATATATATAGCACAAAATTTAATGTGATCAATCTACTAGGCGAACACCTAAATTGTTATTTATTTCCATGTCTCTATCCATTTCAATGTCTGGCTCATCTTCGTCCTCGTTTTCGCTTTCGGATTCAGATTCGGATTCCAAGGTAGTCTCCAAATCACAGTTTGTCCTACAGTTCGGACACATGAATTGAGGATAATTCATCATCACCACTCTTCTTCAACAATGAAAATGC                                >  SRR13385771.1822018/1‑301 (MQ=60)

                                                                                                                                                                                                                    GCCGCCACTTTTTTGAGAGGTATGACGACTCTATGTTATATATATATATATA‑‑TAT‑‑ATATATATATATATAGCACAAAATTTCATGTGATCAATCTACTAGGCGAACACCTAAATTGTTATTTATTTCCATGTCTATATCCATTTCAATGTCTGGCTCATCTTCGTCCTCGTTTTCGAATTCGGATTCAGATTCGGATTCCAAGGTAGTCTCCAAATCACAGTTTGTCCTACAGTTCGGACACATGAATTGAGGATAATTCATAATAACCAATCTTCTTACACAA                                         >  SRR13385771.1569124/1‑284 (MQ=60)

                                                                                                                                                                                                                    GCCGCCACTTTTTTGAGAGGTATGACGACTCTATGT‑‑TATATATATATATA‑‑TAT‑‑ATATATATATATATAGCACAAAATTTCATGTGATCAATCTACTAGGCGAACACCTAAATTGTTATTTATTTCCATGTCTATATCCATTTCAATGTCTGGCTCATCTTCGTCCTCGTTTTCGAATTCGGATTCAGATTCGGATTCCAAGGTAGTCTCCAAATCACAGTTTGTCCTACAGTTCGGACACATGAATTGAGGATAATTCATAATAACCAATCTTCTTACACAATGAAAATGCCAACTATGGG                      >  SRR13385771.1427024/1‑301 (MQ=60)

                                                                                                                                                                                                                        CCACTTTTTTGAGAGGTATGACGACTCTATGT‑‑TATATATATATATA‑‑TAT‑‑ATATATATATATATAGCACAAAATTTCATGTGATCAATCTACTAGGCGAACACCTAAATTGTTATTTATTTCCATGTCTATATCCATTTCAATGTCTGGCTCATCTTCGTCCTCGTTTTCGAATTCGGATTCAGATTCGGATTCCAAGGTAGTCTCCAAATCACAGTTTGTCCTACAGTGCGGACACATGAATTGAGGATAATTCATAATAACCAATCTTCTTACACAATGAAAATGCAAACTAAGGGCAC                   >  SRR13385771.636513/1‑300 (MQ=60)

                                                                                                                                                                                                                             TTTTTGAGAGGTATGACGACTCTATGT‑‑TATATATATATATA‑‑TAT‑‑ATATATATATATATAGCACAAAATTTCATGTGATCAATCTACTAGGCGAACACCTAAATTGTTATTTATTTCCATGTCTATATCCATTTCAATGTCTGGCTCATCTTCGTCCTCGTTTTCGAATTCGGATTCAGATTCGGATTCCAAGGTAGTCTCCAAATCACAGTTTGTCCTACAGTTCGGACACATGAATTGAGGATAATTCATAATAACCAATCTTCTTACACAATGAAAATGCCAACTATGGGCACATGG               <  SRR13385771.1245793/299‑1 (MQ=60)

                                                                                                                                                                                                                                     GGGTATGACGTCTCTATGTTATATATATATATATA‑‑TAT‑‑ATATATATATATATAGCACAGAAGTTCATGTGATCAATCTACTAGGCGAACACCTAAATTGTTATTTATTTCCATGTCTATATCCATTTCAATGTCTGGCTCATCTTCGTCCTCGTTTTCGAATTCGTATTCAGATTCGGATTCCAAGGTAGTCTCCAAATCACAGTTTGTCCTTCAGTTCGGACACATGAATTGAGGATAATTCATAATAACCAATCTTCTTACACAATGAAAATGCCAACTATGGGCACATGGTGATATAA       <  SRR13385771.461536/301‑1 (MQ=60)

                                                                                                                                                                                                                                          TGACGACTCTATGT‑‑TATATATATATATATCTAT‑‑CTATATATCTATATACCACACAATTTCATGTGATACCTCTACTCGGCGCACACCTAACTTGTTATTTATTTCACTGTCTATATCCATTTAAATGTCTGGCTCATCTTCGTACTCGTTTTAGCATTCGGCTTCAGATTCGGATTACCAGGTAGTCTCCACATCCCCGTTTGTCCTCCCGTTCGCCCACCTGCACTGCGGCTAATTCATAATACCCACTCTTCTTACCCACTGAAACTGCCAACTATGGGCACATGGTGATATAccactg  >  SRR13385771.1446689/1‑295 (MQ=60)

CTACCTGTTAGGACGATGGAGGCCATATATGCCTACGAAGCACAGGGAGATGATGAGATTTCAATTGATCCGGGGGACATAATTACTGTTATCAGAGGCGATGACGGTAGCGGGTGGACATATGGTGAATGTGACGGATTGAAAGGTCTATTTCCTACAAGTTACTGTAAATGAACGAAGGAATGAACTGAAACTATTAAATATTTTCCCTGGCCGCCACTTTTTTGAGAGGTATGACGACTCTATGT‑‑TATATATATATATA‑‑TAT‑‑ATATATATATATATAGCACAAAATTTCATGTGATCAATCTACTAGGCGAACACCTAAATTGTTATTTATTTCCATGTCTATATCCATTTCAATGTCTGGCTCATCTTCGTCCTCGTTTTCGAATTCGGATTCAGATTCGGATTCCAAGGTAGTCTCCAAATCACAGTTTGTCCTACAGTTCGGACACATGAATTGAGGATAATTCATAATAACCAATCTTCTTACACAATGAAAATGCCAACTATGGGCACATGGTGATATAAAAATG  >  BK006934/339811‑340343

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: `‑`