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

AAACTAATGATTTTAAATCGTTAAAAAAATATGCGAATTCTGTGGATCGAACACAGGACCTCCAGATAACTTGACCGAAGTTTTTTCTTCAGTCTGGCGCTCTCCCAACTGAGCTAAATCCGCTTACTATTTGTTATCAGTTCCCTTCATATCTACATAGAATAGGTTAAGTATTTTATTAGTTGCCAGAAGAACTACTGATAGTTGGGAATATTTGGTGAATAATGAAGATTGGGTGAATAATTTGATAATTTTGAGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAGTATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATAATATTATCATTACTTCTTCCCCATCTTATATTTGTCATTCATTATTGATTATGATCAATGCAATAATGATTGGTAGTTGCCAAACATTTAATACGATCCTCTGTAATATTTCTATGAATAATTATCACAGCAACGTTCAATTATCTTCAATTCGGCTTCAGTACTGTATGAAATACTCGCTAACATTTTCTTTATTCTATAATAGCACAGTGACACTTAAACGTCAAACGTGGC  >  BK006934/358447‑359041

AAACTAATGATTTTAAATCGTTAAAAAAATATGCGAATTCTGTGGATCGAACACAGGACCTCCAGATAACTTGACCGAAGTTTTTTCTTCAGTCTGGCGCTCTCCCAACTGAGCTAAATCCGCTTACTATTTGTTATCAGTTCTCTTCATATCTACATAGAATAGCTTAAGTGTTTTATTAGTTGCCAGAAGAACTACTGATAGTTGGGAATATTTGGTGAATAATGAAGATTGGGTGAATAATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATA                                                                                                                                                                                                                                                                                                        <  SRR13385772.142563/301‑1 (MQ=60)

        GATTTTAAATCGTTAAAAAAATATGCGAATTCTGTGGATCGGACATAGGACCTCCAGATAACTTGACCGAAGTTTTTTCTTCAGTCTGGCGCTCTCCCAGCTGAGCTAGATCCGCTTACTATTTGTTATCAGTTCTCTTCATATCTCCATAGGATAGCTTAAGTGTTTTATTAGTTGCCAGAAGAACTACTGATAGTTGGGAATATTTGGTGAGTAATGAAGATTGGGTGGATAATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTGTACAGAATATACTAGAA                                                                                                                                                                                                                                                                                                <  SRR13385772.1040356/301‑1 (MQ=60)

         ATTTTAAATCGTTAAAAAAATATGCGAATTCTGTGGATCGAACAACGGACCTCCAGATAACTTGAACGAAGTTTTTTCTTCAGTCTGGCGATCTCCCAACTGAGCTAAATCCGCTTACTATTTGTTATCAGTTCTCTTCATATCTACATAGAATAGCTTAAGTGTTTTATTAGTTGCCAGAAGAACTACTGATAGTTGGGAATATTTGGTGAATAAAGAAGATTGGGTGAATAATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATATACTAGAAG                                                                                                                                                                                                                                                                                               <  SRR13385772.245454/301‑1 (MQ=60)

                                             ATCGAACACAGGACCACCAGATAAATTGACCGAAGTTTTTTCTTCAGTCTGGCGCTCTCCCAACTGAGCTAAATCCGCTTACTATTTGTTATCAGTTCTCTTCATATCTACATAGAATAGCTTAAGTGTTTTATTAGTTGCCAGAAGAACTACTGATAGTTGGGAATATTTGGTGAATAATGAAGATTGGGTGAATAATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAAT                                                                                                                                                                                                                                                           <  SRR13385772.506724/301‑1 (MQ=60)

                                                      AGGACCTCCAGATAACTTGACCGAAGGTTTTTCTTCAGTCTGGCGCTCTCCCAACTGAGCTAAATCCGCTTACTATTTGTTATCAGTTCTCTTCATATCTACATAGAATAGCTTAAGTGGTTTATTAGTTGCCAGAAGAACTACTGATAGTTGGGAATATTTGGTGAATAATGAAGATTGGGTGAATAATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTC                                                                                                                                                                                                                                                  <  SRR13385772.955545/301‑1 (MQ=60)

                                                        GACCTCCAGATAACTTGACCTAAGTTGTTTCGTCAGTCTGGCGCTCTCCCAACTGAGCTAAATCCGCTTACTATTTGTGATCAGGTCTCTTCATATCTACATATAATAGCTTAAGTGTTTTAGTAGTTGCCAGAAGAACTACTGATAGTTTGGAATATTTGGTGAATAATGAAGATTGGGTTAATAATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATATACTAGAAGTTCTCTTCGTAGATCTTGAAGGTCACAAAAGTGAATCTATATTTCTA                                                                                                                                                                                                                                                <  SRR13385772.1019110/301‑1 (MQ=60)

                                                         ACCTCCAGATAACTTGACCGAAGTTTTTTCTTCAGTCTGGCGCTCTCCCAACTGAGCTAAATCCGCTTACTATTTGTTATCAGTTCTCTTCATATCTACATAGAATAGCTTAAGTGTTTTATTAGTTGCCAGAAGAACTACTGATAGTTGGGAATATTTGGTGAATAATGAAGATTGGGTGAATAATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTAC                                                                                                                                                                                                                                               <  SRR13385772.716697/301‑1 (MQ=60)

                                                             CCAGATACCTTGACCGAAGTTTTTTCTTCAGTCTGGCGCTCTCCCAACTGAGCTAAATCCGCTTACTCTTTGTTATCAGTTCTCTTAATATCTACATAGAATAGCTTAAGTGTTTTATTAGTTGCCAGAAGAACTACTGATAGTTGGGAATATTTGGTGAATAATGAAGATTGGGTGAATAATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATA                                                                                                                                                                                                                                            <  SRR13385772.287952/300‑1 (MQ=60)

                                                                       TGACCGAAGTTTTTTCTTCAGTCTGGCGCTCTCCCAACTGAGCTAAATCCGCTTACTAGTTGTTATCAGTTCTCTTCATATCTACATAGAATAGCTTAAGTGTTTTATTAGTTGCCAGAAGAACTACTGATAGTTGGGAATATTTGGTGAATAATGAAGATTGGGTGAATAATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATATACTAGAAGTTCGCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATAATATTATCAT                                                                                                                                                                                                                                  <  SRR13385772.987901/300‑1 (MQ=60)

                                                                                        TCAGTCTGGCGCTCTCCCAACTGAGCTAAATCCGCTTACTATTTGTTATCAGTTCTCTTCATATCTACATAGAATAGCTTAAGTGTTTTATTAGTTGCCAGAAGAACTACTGATAGTTGGGAATATTTGGTGAATAATGAAGATTGGGTGAATAATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATAATATTATCATTACTTCTTCCCCATCTT                                                                                                                                                                                                                 <  SRR13385772.273798/300‑1 (MQ=60)

                                                                                        TCAGTCTGGCGCTCTCCCAACTGAGCTAAATCCGCTTACTATTTGTTATCAGTTCTCTTCATATCTACATAGAATAGCTTAAGTGTTTTATTAGTTGCCAGAAGAACTACTGATAGTTGGGAATATTTGGTGAATAATGAAGATTGGGTGAATAATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATAATATTATCATTACTTCTTCCCCATCTT                                                                                                                                                                                                                 <  SRR13385772.330605/300‑1 (MQ=60)

                                                                                                       CCCAACTGAGCTAAATCCGCTTACTATTTGTTATCAGTTCTCTTCATATCTACATAGAATAGCTTAAGTGTTTTATTAGTTGCCAGAAGAACTACTGATAGTTGGGAATATTTGGTGAATAATGAAGATTGGGTGAATAATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATAATATTATCATTACTTCTTCCCCATCTTATATTTGTCATTCAT                                                                                                                                                                                                  <  SRR13385772.636003/300‑1 (MQ=60)

                                                                                                           ACTGAGCTAAATCCGCTTACTATTTGTTATCAGTTCTCTTCATATCTACATAGAATAGCTTAAGTGTTTTATTAGTTGCCAGAAGAACTACTGATAGTTGGGAATATTTGGTGAATAATGAAGATTGGGTGAATAATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATAATATTATCATTACTTCTTCCCCATCTTATATTTGTCATTCATTATTG                                                                                                                                                                                             <  SRR13385772.374351/301‑1 (MQ=60)

                                                                                                                             ACTATTTGTTATCAGTTCTCTTCATATCTACATAGAATAGCTTAAGTGTTTTATTAGTTGCCAGAAGAACTACTGATAGTTGGGAATATTTGGTGAATAATGAAGATTGGGTGAATAATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATAATATTATCATTACTTCTTCCCCATCTTATATTTGTCATTCATTATTGATTttgataattgcatt                                                                                                                                                                            >  SRR13385772.919823/1‑286 (MQ=60)

                                                                                                                                                                       taagtgttgtagtatTTGCCAGAAGAACTACTGATAGTTGGGAATATGTGGTGAATAATGAAGATTGGGTGAATAATTTGATAATTGTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATATACTAGAAGTTCTCTTCGTAGATCTTGAATTTCACAAAAGGGAATCGATATTTCTACATAATATTATCATTACTTCTTCCCCATCTTATATTTGTCATTCATTATTGATTATGATCAATGCAATAATGATTGGTAGTTGCCAAACATTTAATACGATCCTCTGTA                                                                                                                                   <  SRR13385772.764570/284‑1 (MQ=60)

                                                                                                                                                                               TTATTAGTTGCCAGAAGAACTACTGATAGTTGGGAATCTTTGGTGAATAATGAAGATTGGGTGAATAATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTATACATAATATTATCATTACTTCTTCCCCATCTTATATTTGTCCTTCATTATTGATTATGATCAATGCAATAATGATTGGTAGTTGCCAAACATTTAATACGATCCTCTGTAATATTTCTAT                                                                                                                         >  SRR13385772.1208102/1‑301 (MQ=60)

                                                                                                                                                                                       TGCCAGAAGAACTACTGATAGTTGGGAATATTTGGTGAATAATGAAGATTGGGTGAATAATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATAATATTATCATTACTTCTTCCCCATCTTATATTTGTCATTCATTATTGATTATGATCAATGCAATAATGATTGGTAGTTGCCAAACATTTAATACGATCCTCTGTAATATTTCTATGAATAATT                                                                                                                 >  SRR13385772.1231986/1‑301 (MQ=60)

                                                                                                                                                                                                             TGGGAATATTTGGTGAATAATGAAGATTGGGTGAATAATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATAATATTATCATTACTTCTTCCCCATCTTATATTTGTCATTCATTATTGATTATGATCAATGCAATAATGATTGGTAGTTGCCAAACATTTAATACGATCCTCTGTAATATTTCTATGAATAATTATCACAGCAACGTTCAATTATC                                                                                           >  SRR13385772.620771/1‑301 (MQ=60)

                                                                                                                                                                                                                 AATATTTGGTGAATAATGAAGATTGGGTGAATAATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGACTATACTAGAAGTTCTCTTCGGA                                                                                                                                                                                                                                                                                    >  SRR13385772.1279469/1‑112 (MQ=60)

                                                                                                                                                                                                                     TTTGGTGAATAATGAAGATTGGGTGAATAATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATAATATTATCATTACTTCTTCCCCATCTTATATTTGTCATTCATTATTGATTATGATCAATGCAATAATGATTGGTAGTTGCCAAACATTTAATACGATCCTCTGTAATATTTCTATGAATAATTATCACAGCAACGTTCAATTATCTTACATTC                                                                                   >  SRR13385772.1226674/1‑301 (MQ=60)

                                                                                                                                                                                                                                          GGTGAATAATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATAATATTATCATTACTTCTTCCCCATCTTATATTTGTCATTCATTATTGATTATGATCAATGCAATAATGATTGGTAGTTGCCAAACATTTAATACGATCCTCTGTAATATTTCTATGAATAATTATCACAGCAACGTTCAATTATCTTCAATTCGGCTTCAGTACTGCATGAAAT                                                              >  SRR13385772.1105216/1‑301 (MQ=60)

                                                                                                                                                                                                                                                  ATTTGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATACACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATAATATTATCATTACTTCTTCCCAATCTTATATTTGTCATTCATTATTGATTATGATCAATGCAATAATGATTGCTAGTTGCCAAACATTTAATACGATCCTCTGTAATATTTCTATGAATAATTATCACAGCAACGTTCAATTATCTTCATTTCGGATTCAGTACTGCATGAAATACTCGCT                                                       >  SRR13385772.1259479/1‑300 (MQ=60)

                                                                                                                                                                                                                                                     TGATAATTTTGGGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAATATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATAATATTATCATTACTTCTTCCCCATCTTATATTTGTCATTCATTATTGATTATGATCAATGCAATAATGATTGGTAGTTGCCAAACATTTAATACGATCCTCTGTAATATTTCTATGAATAATTATCACAGCAACGTTCAATTATCTTCAATTCGGCTTCAGTACTGCATGAAATACTCGCTAAC                                                    >  SRR13385772.420769/1‑300 (MQ=60)

                                                                                                                                                                                                                                                                  ATGCAATTGTTAATCAATGTTACCATATTATGTATACAGAATATACGAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATAATATTATCATTACTTCTTCCCCATCTTATATTTGTCATTCATTATTGATTATGATCAATGCAATAATGATTGGTAGTTGCCAAACATTTAATACGATCCTCTGTAATATTTCTATGAATAATTATCACAGCAACGTTCAATTATCTTCAATTCGGCTTCAGTACTGCATGAAATACTCGCTAACATTTTCTTTATTCT                                      <  SRR13385772.259994/301‑1 (MQ=60)

                                                                                                                                                                                                                                                                      AATTGTTAATCAATGTTACAATATTATGTATACAGAATATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATAATATTATCATTACTTCTTCCCCATCTTATATTTGTCATTCATTATTGATTATGATCAATGCAATAATGATTGGTAGTTGCCAAACATTTAATACGATCCTCTGTAATATTTCTATGAATAATTATCACAGCAACGTTCAATTATCTTCAATTCGGCTTCAGTACTGCATGAAATACTCGCTAACATTTTCTTTATTCTATAA                                  <  SRR13385772.451772/301‑1 (MQ=60)

                                                                                                                                                                                                                                                                            TAATCAATGTTACAATATTATGTATACAGAATATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATAATATTATCATTACTTCTTCCCCATCTTATATTTGTCATTCATTATTGATTATGATCAATGCAATAATGATTGGTAGTTGCCAAACATTTAATACGATCCTCTGTAATATTTCTATGAATAATTATCACAGCAACGTTCAATTATCTTCAATTCGGCTTCAGTACTGCATGAAATACTCGCTAACATTTTCTTTATTCTATAATAGCA                             >  SRR13385772.872864/1‑300 (MQ=60)

                                                                                                                                                                                                                                                                                              TATGTATACAGAATATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATAATATTATCATTACTTCTTCCCCATCTTATATTTGTCATTCATTATTGATTATGATCAATGCAATAATGATTGGTAGTTGCCAAACATTTAATACGATCCTCTGTAATATTTCTATGAATAATTATCACAGCAACGTTCAATTATCTTCAATTCGGCTTCAGTACTGCATGAAATACTCGCTAACATTTTCTTTATTCTATAATAGCACAGTGACACTTAAACGTC           >  SRR13385772.1299581/1‑300 (MQ=60)

                                                                                                                                                                                                                                                                                                      CAGAATATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATAATATTATCATTACTTCTTCCCCATCTTATATTTGTCATTCATTATTGATTATGATCAATGCAATAATGTTTGGTAGTTGCCAAACATTTAATACGATCCTCTGTAATATTTCTATGAATAATTATCACAGCAACGTTCAATTATCTTCAATTCGGCTTCAGTACTGCATGAAATACTCGCTAACATTTTCTTTATTCTATAATAGCACAGTGACACTTAAACGTCAAACTTGGC  >  SRR13385772.560742/1‑301 (MQ=60)

                                                                                                                                                                                                                                                                                                          ATATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATAATATTATCATTACTTCTTCCCCATCTTATATTTGTCATTCATTATTGATTATGATCAATGCAATAATGATTGGTAGTTGCCAAACATTTAATACGATCCTCTGTAATATTTCTATGAATAATTATCACAGCAACGTTCAATTATCTTC                                                                                        >  SRR13385772.426242/1‑211 (MQ=60)

AAACTAATGATTTTAAATCGTTAAAAAAATATGCGAATTCTGTGGATCGAACACAGGACCTCCAGATAACTTGACCGAAGTTTTTTCTTCAGTCTGGCGCTCTCCCAACTGAGCTAAATCCGCTTACTATTTGTTATCAGTTCCCTTCATATCTACATAGAATAGGTTAAGTATTTTATTAGTTGCCAGAAGAACTACTGATAGTTGGGAATATTTGGTGAATAATGAAGATTGGGTGAATAATTTGATAATTTTGAGATTCAATTGTTAATCAATGTTACAATATTATGTATACAGAGTATACTAGAAGTTCTCTTCGGAGATCTTGAAGTTCACAAAAGGGAATCGATATTTCTACATAATATTATCATTACTTCTTCCCCATCTTATATTTGTCATTCATTATTGATTATGATCAATGCAATAATGATTGGTAGTTGCCAAACATTTAATACGATCCTCTGTAATATTTCTATGAATAATTATCACAGCAACGTTCAATTATCTTCAATTCGGCTTCAGTACTGTATGAAATACTCGCTAACATTTTCTTTATTCTATAATAGCACAGTGACACTTAAACGTCAAACGTGGC  >  BK006934/358447‑359041

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 0 ≤` `ATCG/ATCG` `< 11 ≤` `ATCG/ATCG` `< 24 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`