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

ATCCATGGATGCAAATCAAGGAATGTTCTAATTATATGTATTGTGCATATGCTACGGGTGACGGACACACAAACTCTGAACTTGACGAAGGTCGTCTAATCACGTTTACTGAAAAGGAATTACGATATATCAATGATATTTCTCGAACCTGGAATGCTAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAAT‑AA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGTATTAGGTAATTTTGAATGTTTTCTAACGGAACGCTATTCACTGATTATACGCTTTGTTCGTTTGGATTATGAGATGTTTTGGACCGCCTCATTGATGGGATACACTTCTTTATACCATCAATCACAGAAGGCCAAATTTTTTTGATGTAGGTTAGGTAGAAGCCCACAAACATGGCGGCAATGTTAAAGCAAACGAAAACCCATTCAAAACCAAAATTTCTCCATCTGTGATGATAAC  >  BK006942/327832‑328400

ATCCATGGATGCAAATCAAGGAATGTTCTAATTATATGTATTGTGCATATGCTACGGGTGACGGACACACAAACTCTGAACTTGACGAAGGTCGTCTAATCACGTTTACTGAAAAGGAATTACGATATATCAATGATATTTCTCGAACCTGGAAGGCTAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAGTC                                                                                                                                                                                                                                                                                >  SRR13385772.899628/1‑300 (MQ=60)

   CATGGATGCAAATCAAGGAATGTTCTAATTATATGTATTGTGCATATGCTACGGGTGACGGACACACAAACTCTGAACTTGACGAAGGTCGTCTAATCACGTTTACTGAAAAGGAATTACGATATATCAATGATATTTCTCGAACCTGGAATGCTAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTA                                                                                                                                                                                                                                                                                                       >  SRR13385772.777053/1‑274 (MQ=60)

        ATGCAAATCAAGGAATGTTCTAATTATATGTATTGTGCATATGCTACGGGTGACGGACACACAAACTCTGAACTTGACGAAGGTCGTCTAATCACGTTTACTGAAAAGGAATTACGATATATCAATGATATTTCTCGAACCTGGAATGCTAATTGAGAAAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAG                                                                                                                                                                                                                                                                                        <  SRR13385772.1222790/285‑1 (MQ=60)

                      ATGTTCTAATTATATGTATTGTGCATATGCTACGGGTGACGGACACACAAACTCTGAACTTGACGAAGGTCGTCTAATCACGTTTACTGAAAAGGAATTACGATATATCAATGATATTTCTCGAACCTGGAATGCTAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTG                                                                                                                                                                                                                                                         >  SRR13385772.484504/1‑301 (MQ=60)

                             AATTATATGTATTGTGCATATGCTACGGGTGACGGACACACAAACTCTGAACTTGACGAAGGTCGTCTAATCACGTTTACTGAACAGGAATTACGATATATCAATGATATTTCTCGAACCTGGAATGCTAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATCTTTATTAAGAATGGAGCATATATCATCCGAACACTGATTATAGATTACTTTAGAATCTGATTTGGGAAT‑AA‑ACTTAACACTTAGTTTAAACCAGAAGTCAGCCGGCTGAGGAACAAGAACTGTTGAAT                                                                                                                                                                                                                                                   >  SRR13385772.374514/1‑300 (MQ=60)

                                            GCATATGCTACGGGTGACGGACACACAAACTCTGAACTTGACGAAGGTCGTCTAATCACGTTTACTGAAAAGGAATTACGATATATCAATGATATTTCTCGAACCTGGAATGCTAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTAATTT                                                                                                                                                                                                                                    <  SRR13385772.1076167/300‑1 (MQ=60)

                                                AGGCTACGGGTGACGGACACACAAACTCGGGACTTGACGAAGGTCGTCTAATCACGTTTACTGAAAAGGAATTACGATATATCAATGATATTTCTCGAACCTGGAATGCTAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTAATTTTGAAT                                                                                                                                                                                                                               <  SRR13385772.289488/301‑1 (MQ=60)

                                                                     AAAACTCTGAACTTGACGAAGGTCGTCTAATCACGTTTACTGAAAAGGAATTACTATATAGCAATGATATTGCTCGAACCTGGAATGCTAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGTAGCATATATAATCCGAAAAATGATTATAGATTAATGTAGAATATGATTGGGGAAT‑AAGA‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTAATTTTGAATGGTTTCTAACGGAACGTTATT                                                                                                                                                                                                          <  SRR13385772.1083237/301‑1 (MQ=60)

                                                                      AAACTCTGAACTTGACGAAGGTCGTCTAATCCCGTTTACTGAAAAGGAATTACGATATATCAATGATATTTCTCGAACCTGGAATGCTAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAA                                                                                                                                                                                                                                                                                          <  SRR13385772.146146/220‑1 (MQ=60)

                                                                                            CGTCTAATCACGTTTACTGAAAAGGAATTACGATATATCAATGATATTTCTCGAACCTGGAATGCTAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGAATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTAATTTTGAATGTTTTCTAACGGAACGTTATTCACTGATTATACGCTTTGTTCG                                                                                                                                                                                    <  SRR13385772.4176/300‑1 (MQ=60)

                                                                                                TAATCACGTTTACTGAAAAGGAATTACGATATATCAATGATATTTCTCGAACCTGGAATGCTAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTAATTTTGAATGTTTTCTAACGGAACGTTATTCACTGATTATACGCTTTGTTCGTTTGG                                                                                                                                                                               >  SRR13385772.1297535/1‑301 (MQ=60)

                                                                                                         TGACTGAAAAGGAATGACGATGTATCAATGATATTTCTCGAACCTGGAATGCGAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTGATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGAGTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCATAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTAATTTTGAATGTTTTCTAACGGAACGTTATTCACTGATTATACGCTTTGTTCGTTTGGATTATGAG                                                                                                                                                                       <  SRR13385772.527444/300‑1 (MQ=60)

                                                                                                               AAAAGGAATTACGATATATCAATGATATTTCTCGAACCTGGAATTCTAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTAATTTTGAATGTTTTCTAACGGAACGTTATTCACTGATTATACGCTTTGTTCGTTTGGATTATGAGATGTTTT                                                                                                                                                                <  SRR13385772.88179/301‑1 (MQ=60)

                                                                                                                        TACGATATATCAATGATATTTCTCGAACCTGGAATGCTAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTA                                                                                                                                                                                                                                            >  SRR13385772.427538/1‑216 (MQ=60)

                                                                                                                            ATATATCAATGATATTTCTCGAACCTGGAATGCTAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTAATTTTGAATGTTTTCTAACGGAACGTTATTCACTGATTATACGCTTTGTTCGTTTGGATTATGAGATGTTTTGGACCGCCTCATT                                                                                                                                                   <  SRR13385772.90150/301‑1 (MQ=60)

                                                                                                                             TATATCAATGATATTTATCGAACCTGGAATGATAATTGAG‑AAAACAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGCAT‑AACA‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTAATTTTGAATGTTTTCTAACGGAACGTTATTAACTGATTATAC                                                                                                                                                                                              >  SRR13385772.839776/1‑257 (MQ=60)

                                                                                                                              ATATCAATGATATTTCTCGAACCTGGAATGCTAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAAGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTAATTTTGAATGTTTTCTAACGGAACGTTATTCACTGATTATACGCTTTGTTCGTGTGGATTATGAGATGTTTTGGACCGCCTCATTGT                                                                                                                                                 >  SRR13385772.323635/1‑301 (MQ=60)

                                                                                                                                   AATGGTATTTGTCGGACCTGGGAGGGTAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTAATTTTGAATGTTTTCTAACGGAACGTTATTCACTGATTATACGCTTTGTTCGTTTGGATTATGAGATGTTTTGGACCGCCTCATTGATGGG                                                                                                                                             <  SRR13385772.238255/300‑1 (MQ=60)

                                                                                                                                    ATGATATTTCTCGAACCTGGAATGCTAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTAATTTTGAATGTTTTCTAACGGAACGTTATTCACTGATTATACGCTTTGTTCGTTTGGATTA                                                                                                                                                                           >  SRR13385772.1257389/1‑269 (MQ=60)

                                                                                                                                         ATTTCTCGAACCTGGAATGCTAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTA                                                                                                                                                                                                                                        >  SRR13385772.853028/1‑203 (MQ=60)

                                                                                                                                                       GAATGCTAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTAATTTTGAATGTTTTCTAACGGAACGTTATTCACTGATTATACGCTTTGTTCGTTTGGATTATGAGATGTTTTGGACCGCCTCATTGATGGGATACACTTCTTTATACCATC                                                                                                                         >  SRR13385772.1286335/1‑300 (MQ=60)

                                                                                                                                                                 TGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTAATTTTGAATGTTTTCTAACGGAACGTTATTCACTGATTATACGCTTTGTTCGTTTGGATTATGAGATGTTTTGGACCGCCTCATTGATGGGATACACTTCTTTATACCATCAATCACAGA                                                                                                                >  SRR13385772.79561/1‑299 (MQ=60)

                                                                                                                                                                          AAAAAAGTGAAAAGGAAATGAGAGTATTAAGATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGT                                                                                                                                                                                                                                                        <  SRR13385772.1189373/155‑1 (MQ=60)

                                                                                                                                                                                                                  GTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTAATTTTGAATGTTTTCTAACGGAACGTTATTCACTGATTATACGCTTTGTTCGTTTGGATTATGAGATGTTTTGGACCGCCTCATTGATGGGATACACTTCTTTATACCATCAATCACAGAAGGCCAAATTTTTTTGATGTAGGTTAGGTAGAAGCCCACAAACATGGCGG                                                              <  SRR13385772.811463/301‑1 (MQ=60)

                                                                                                                                                                                                                      GGAGCATATATAATACGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTAATTTTGAATGTTTTCTAACGGAACGTTATTCACTGATTATACGCTTTGTTCGTTTGGATTATGAGATGTTTTGGACCGCCTCATTGATGGGATACACTTCTTTATACCATCAATCACAGAAGGCCAAATTTTTTTGATGTAGGTTAGGTAGAAGCCCACAAACATGGCGGCAAT                                                          <  SRR13385772.49921/301‑1 (MQ=60)

                                                                                                                                                                                                                                TAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTAATTTTGAATGTTTTCTAACGGAACGTTATTCACTGATTATACGCTTTGTTCGTTTGGATTATGAGATGTTTTGGACCGCCTCATTGATGGGATACACTTCTTTATACCATCAATCACAGAAGGCCAAATTTTTTTGATGTAGGTTAGGTAGAAGCCCACAAACATGGCGGCAATGTTAAAGCA                                                 >  SRR13385772.1090375/1‑300 (MQ=60)

                                                                                                                                                                                                                                    CCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTAATTTTGAATGTTTTCTAACGGAACGTTATTCACTGATTATACGCTTTGTTCGTTTGGATTATGAGATGTTTTGGACCGCCTCATTGATGGGATACACTTCTTTATACCATCAATCACAGAAGGCCAAATTTTTTTGATGTAGGTTAGGTAGAAGCCCACAAACATGGCGGCAATGTTAAAGCAAACG                                             >  SRR13385772.1189660/1‑300 (MQ=60)

                                                                                                                                                                                                                                                       TAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGCAGGCAGCAGGATGAGGAACAAGAACTGTTGAATAGAATTAGGTAATTTTGAATGTTTTCTAACGGAACGTTATTCACTGATTATACGCTTTGTTCGTTTGGATTATGAGATG                                                                                                                                                                    >  SRR13385772.891425/1‑162 (MQ=60)

                                                                                                                                                                                                                                                       TAATTTAGAATATGATTTGGGAATAAA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTAATTTTGAATGTTTTCTAACGGAACGTTATTCACTGATTATACGCTTTGTTCGTTTGGATTATGAGATGTTTTGGACCGCCTCATTGATGGGATACACTTCTTTATACCATCAATCACAGAAGGCCAAATTTTTTTGATGTAGGTTAGGTAGAAGCCCACAAACATGGCGGCAATGTTAAAGCAAACGAAAACCCATTCAAAACCAA                          >  SRR13385772.719894/1‑300 (MQ=60)

                                                                                                                                                                                                                                                                             AA‑AA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGCATTAGGTAATTTTGAATGTTTTCTAACGGAACGTTATTCACTGATTATACGCTTTGTTCGTTTGGATTATGAGATGTTTTGGACCGCCTCATTGATGGGATACACTTCTTTATACCATCAATCACAGAAGGCCAAATTTTTTTGATGTAGGTTAGGTAGAAGCCCACAAACATGGCGGCAATGTTAAAGCAAACGAAAACCCATTCAAAACCAAAATTTCTCCATCTGTGATGATAAC  <  SRR13385772.319632/301‑1 (MQ=60)

ATCCATGGATGCAAATCAAGGAATGTTCTAATTATATGTATTGTGCATATGCTACGGGTGACGGACACACAAACTCTGAACTTGACGAAGGTCGTCTAATCACGTTTACTGAAAAGGAATTACGATATATCAATGATATTTCTCGAACCTGGAATGCTAATTGAG‑AAAAAAAAAAGTGAAAAGGAAATGAGAGTATTAATATTTATTAAGTATGGAGCATATATAATCCGAAAAATGATTATAGATTAATTTAGAATATGATTTGGGAAT‑AA‑A‑TTAACAATTAGTTTAAAGCAGAAGGCAGCCGGATGAGGAACAAGAACTGTTGAATAGTATTAGGTAATTTTGAATGTTTTCTAACGGAACGCTATTCACTGATTATACGCTTTGTTCGTTTGGATTATGAGATGTTTTGGACCGCCTCATTGATGGGATACACTTCTTTATACCATCAATCACAGAAGGCCAAATTTTTTTGATGTAGGTTAGGTAGAAGCCCACAAACATGGCGGCAATGTTAAAGCAAACGAAAACCCATTCAAAACCAAAATTTCTCCATCTGTGATGATAAC  >  BK006942/327832‑328400

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 0 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`