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

AAACGAATTACCATTCCAAATAGTATCCACGGGAAATGAACTATCAGCAGAGTCTATTGCTAAAATTTCTGAGACCGCTAAAGAAACGGAACAAAGGGTCTACTTAGTAGACTGCTCGACAGTGCTTGACACTAATTTTGCTAATACATACATTTCTTTTTTTCAGAATAAATGGGTCGCCACTTTGTTCAACACATTTGAAGAATACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGCGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGTGGAACCCTCTGCACAAGAACGCAGATTTATTGGAAGTAGGTTAGTTTTTGATTCGTCATTACCGTTTTCTTCCGAAACCTCAGAAGAAGCATCTGTGTATTACAATTTTTTCAAAAAATTACGACTCCATCATGTTGATAGTGGTTTGGTTGTAGTCAATAAACTTGAGAAATTAAATGGATTGTTGATGTCTTTTATGTTAAATTTGG  >  BK006942/326882‑327450

AAACGAATTACCATTCCAAATAGTATCCACGGGAAATGAACTATCAGCAGAGTCTATTGCTAAAATTTCTGAGACCGCTAAAGAAACGGAACAAAGGGTCTACTTAGTAGACTGCTCGACAGTGCTTGACACTAATTTTGCTAATACATACATTTCTTTTTTTCAGAATAAATGGGTCGCCACTTTGTTCAACACATTTGAAGAATACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGCGAGTGGGATACTTTTGTTCA                                                                                                                                                                                                                                                                                >  SRR13385772.887422/1‑299 (MQ=60)

        TACCATTCCAAATAGTATCCACGGGAAATGAACTATCAGCAGAGTCTATTGCTAAAATTTCTGAGACCGCTAAAGAAACGGAACAAAGGGTCTACTTAGTAGACTGCTCGACAGTGCTTGACACTAATTTTGCTAATACATACATTTCTTTTTTTCAGAATAAATGGGTCGCCACTTTGTTCAACACATTTGAAGAATACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGT                                                                                                                                                                                                                                                                      >  SRR13385772.544748/1‑301 (MQ=60)

               CCAAGTAGTATCCACGGGAAATGAACTATCAGCAGAGTCTATTGCTAAAATTTCTGAGACCGCTAAAGAAACGGAACAAAGGGTCTACTTAGTAGACTGCTCGACAGTGCTTGACACTAATTTTGCTAATACATACATTTCTTTTTTTCAGAATAAATGGGTCGCCACTTTGTTCAACACATTTGAAGAATACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAA                                                                                                                                                                                                                                                               <  SRR13385772.818898/301‑1 (MQ=60)

                CAAATAGTATCCACGGGAAATGAACTATCAGCAGAGTCTATTGCTAAAATTTCTGAGACCGCTAAAGAAACGGAACAAAGGGTCTACTTAGTAGACTGCTCGACAGTGCTTGACACTAATTTTGCTAATACATACATTTCTTTTTTTCAGAATAAATGGGTCGCCACTTGGTTCAACACATTTGAAGAATACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACGTTTTCGACTCTCCTTCTTACAGGGAGTGAGGGATACTCTTGTTCAAGGATAGGtgtctggta                                                                                                                                                                                                                                                               >  SRR13385772.179139/1‑291 (MQ=60)

                      GTATCCACGGGAAATGAACTATCAGCAGAGTCTATTGCTAAAATTTCTGAGACCGCTAAAGAAACGGAACAAAGGGTCTACTTAGTAGACTGCTCGACAGTGCTTGACACTAATTTTGCTAATACATACATTTCTTTTTTTCAGAATAAATGGGTCGCCACTTTGTTCAACACATTTGAAGAATACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGC                                                                                                                                                                                                                                                        <  SRR13385772.1100082/301‑1 (MQ=60)

                                                           ATAAAATTTCTGAGACCGCTAAAGAAACGGAACAAAGGGTCTACTTAGTAGACTGCTCGACAGTGCTTGACAATAATTTTGCTAATACATACATTTCTTTTTTTCAGAATAAATGGGTCGCCACTTTGTTCAACACATTTGAAGAATACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGT                                                                                                                                                                                                                   <  SRR13385772.1171869/301‑1 (MQ=60)

                                                                ATTACTGAGACCGCTAAAGAAACGGAACAAAGGGTCTACTTAGTAGACTGCTCGACAGTGCTTGACACTAATTTTGCTAATACATACATTTCTTTTTTTCAGAATAAATGGGTCGCCACTTTGTTCAACACATTTGAAGAATACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGTGGAAC                                                                                                                                                                                                              <  SRR13385772.1015068/301‑1 (MQ=60)

                                                                  TTCTGAGACCGCTAAAGAAACGGAACAAAGGGTCTACGTAGTAGACTGCTCGACAGTGCTTGACACTAATTTTGCTAATACATACATTTCTTTTGTTCAGAATAAATGGGTCGCCACTTTGTTCAACACATTTGAAGAATACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGTGGAACC                                                                                                                                                                                                             <  SRR13385772.999292/300‑1 (MQ=60)

                                                                                                GGTCTACTTAGTAGACTGCTCGACAGTGCTTGACACTAATTTTGCTAATACATACATTTCTTTTTTTCAGAATAAATGGGTCGCCACTTTGTTCAACACATTTGAAGAATACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGTGGAACCCTCTGCACACGAACGCAGCTTTATTGGAAGT                                                                                                                                                                              >  SRR13385772.84758/1‑301 (MQ=60)

                                                                                                                 GCTCGACAGTGCTTGACACTAATTTTGCTAATACATACATTTCTTTTTTTCAGAATAAATGGGTCGCCACTTTGTTCAACACATTTGAAGAATACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGTGGAACCCTCTGAACAAGAACGCAGATTTATTGGAAGTAGGTTAGTTTTTGATTC                                                                                                                                                             >  SRR13385772.473401/1‑301 (MQ=60)

                                                                                                                            CTTGACACTAATTTTGCTAATACATACATTTCTTTTTTTCAGAATAAATGGGTCGCCACTTTGTTCAACACATTTGAAGAATACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGTGGAACCCTCTGCACACGAACGCAGATTTATTGGAAGTAGGTTAGTTTTTGATTCGTCATTACCGT                                                                                                                                                  >  SRR13385772.317122/1‑301 (MQ=60)

                                                                                                                                             TAATACATACATTTCTTTTTTTCAGAATAAATGGGTCGCCACTTTGTTCAACACATTTGAAGAATACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGGTAAATGAAGTGGAACCCTCTGCACAAGAACGCAGATTTATTGGAAGTAGGTTAGGTGTTGATTCGTCAGTACCGTTTTCTTCCGAAACttcg                                                                                                                                 >  SRR13385772.212108/1‑297 (MQ=60)

                                                                                                                                                      CATTTCGGTTTTTCAGAATAAATGGGTCGCCACGTTGTTCAACACATTTGAAGAAGACATTTTGGTGGATGCAGACGGAGTACCGTTTGTAGGGTCTGAGTACTTTGTCGACTCTCCTTCTTACAGGGAGAGAGGGATACGTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGTGGAACCCTCTGCACAAGAACGCAGATTTATTGGAAGTAGGTTAGTTTTTGAGTCGTCATTACCGTTTTCTTCCGAAACTTCAGAAGAAGCA                                                                                                                        <  SRR13385772.1050441/301‑1 (MQ=60)

                                                                                                                                                              TTTTTCAGAATAAATGGGTCGCCACTTTGTTCAACACATTTGAAGAATACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGCGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGTGGAACCCTCTGCACAAGACCGCAGATTTATTGGAAGTAGGTTAGTTTTTGATTCGTCATTACCGTTTTCTTCCGAAACTTCAGAAGAAGCATCTGTGT                                                                                                                 >  SRR13385772.1024207/1‑300 (MQ=60)

                                                                                                                                                                 TTCAGAATAAATGGGTCGCCACTTTGTTCAACACATTTGAAGAATACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCCGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGTGGAACCCTCTGCACAAGAACGCAGATTTATTGGAAGTAGGTTAGTTTTTGATTCGTCATTACCGTTTTCTTCCGAAACTTCAGAAGAAGCATCTGTGTATT                                                                                                              <  SRR13385772.906205/300‑1 (MQ=60)

                                                                                                                                                                    AGAATAACTGGGTCGCCACTTTGTTCAACACATTTGAAGAATACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCCTCGAAATGTTAAATGAAGTGGAACCCTCTGCACAAGAACGCAGATTTATTGGAAGTAGGTTAGTTTTTGATTCGTCATTACCGTTTTCTTCCGAAACTTCAGAAGAAGCATCTGTGTATTACAA                                                                                                          <  SRR13385772.395025/301‑1 (MQ=60)

                                                                                                                                                                             GGGTCGCCACTTTGTTCAACACATTTGAAGAATACATTTTGTTGGTTGCAGACGTAGTACCGTTTGTAGGGTCTGATGACTTTTTCGACTCTCCTTCGTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGTGTAACCCTCTGCACAATAACGCAGATTTATTGGAAGGAGGTTAGTTTTTGAGTCGTCATTACCGTTTTCTTCCGAAACTTCAGAAGAAGCATCTGTGTATTACAATTTTTTCAA                                                                                                 <  SRR13385772.20486/301‑1 (MQ=60)

                                                                                                                                                                               GTCGCCACTTTGTTCAACACATTTGAAGAATACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGAATCGAAATGTTAAATGAAGTGGAACCCTCTGCACAAGAACGCAGATTTATTGGAAGTAGGTTAGTTTTTGATTCGTCATTACCGTTTTCTTCCGAAACTTCAGAAGAAGCATCTGTGTATTACAATTTTTTCAAAA                                                                                               <  SRR13385772.1298410/301‑1 (MQ=60)

                                                                                                                                                                                 CGCCACTTTGTTCAACACATTTGAAGAATACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGTGGAACCCTCTGCACAAGAACGCAGATTTATTGGAAGTAGGTTAGTTTTTGATTCGTCATTACCGTTTTCTTCCGAAACTTCAGAAGAAGCATCTGTGTATTACAATTTTTTCAAAAA                                                                                              <  SRR13385772.12452/300‑1 (MQ=60)

                                                                                                                                                                                         TGTTCAACACATTTGAAGAATACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGTGGAAACCTCTGCACAAGAACGCAGATTTATTGGAAGTAGGTTAGTTTTTGATTCGTCATTACCGTTTTCTTCCGAAACTTCAGAAGAAGCATCTGTGTATTACAATTTTTTCAAAAAATTACGACT                                                                                     >  SRR13385772.726743/1‑301 (MQ=60)

                                                                                                                                                                                                             TACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGTGGAACCCTCTGCACAAGAACGCAGATTTATTGGAAGTA                                                                                                                                                                             <  SRR13385772.249286/193‑1 (MQ=60)

                                                                                                                                                                                                              ACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGTGGAACCCTCTGCACAAGAACGCAGATTTATTGGAAGTAGGTTAGTTTTTGATTCGTCATTACCGTTTTCTTCCGAAACTTCAGAAGAAGCATCTGTGTATTACAATTTTTTCAAAAAATTACGACTCCATCATGTTGATAGTGGTT                                                                 <  SRR13385772.528646/300‑1 (MQ=60)

                                                                                                                                                                                                                  TTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGTGGAACCCTCTGCACAAGAACGCAGATTTATTGGAAGTAGGTTAGTTTTTGATTCGTCATTACCGTTTTCTTCCGAAACTTCAGAAGAAGCATCTGTGTATTACAATTTTTTCAAAAAATTACGACTCCATCATGTTGATAGTGGTTTGGTT                                                            >  SRR13385772.788646/1‑301 (MQ=60)

                                                                                                                                                                                                                                 CGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGTGGAACCCTCTGCACAAGAACGCAGATTTATTGGAAGTAGGTTAGTTTTTGATTCGTCATTACCGTTTTCTTCCGAAACTTCAGAAGAAGCATCTGTGTATTACAATTTTTTCAAAAAATTACGACTCCATCATGTTGATAGTGGTTTGGTTGTAGTCAATAAACTT                                             >  SRR13385772.949523/1‑301 (MQ=60)

                                                                                                                                                                                                                                                GGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGTGGAACCCTCTGCACAAGAACGCAGATTTATTGGAAGTAGGTTAGTTTTTGATTCGTCATTACCGTTTTCTTCCGAAACTTCAGAAGAAGCATCTGTGTATTACAATTTTTTCAAAAAATTACGACTCCATCATGTTGATAGTGGTTTGGTTGTAGTCAATAAACTTGAGAAATTAAATGGA                              <  SRR13385772.309408/301‑1 (MQ=60)

                                                                                                                                                                                                                                                 GGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGTGGAACCCTCTGCACAAGAACGCAGATTTATTGGAAGTAGGTTAGTTTTTGATTCGTCATTACCGTTTTCTTCCGAAACTTCAGAAGAAGCATCTGTGTATTACAATTTTTTCAAAAAATTACGACTCCATCATGTTGATAGTGGTTTGGTTGTAGTCAATAAACTTGAGAAATTAAATGGAT                             >  SRR13385772.1128810/1‑301 (MQ=60)

                                                                                                                                                                                                                                                              TTTTCGACTCTCCTTCTTACAGGGAGAGAGGGATACTTTTGTTCACGGATAGGGTTATGGAAAACGAGCAAACTTTCCCATACTGCATAGAAATGTTAAATGAAGTGGAACACTCTGC                                                                                                                                                                                                       >  SRR13385772.925918/1‑118 (MQ=60)

                                                                                                                                                                                                                                                                             CTTACAGGGAGAGAGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGTGGAACCCTCTGCACAAGAACGCTGATTTATTGGAAGTAGGTTAGTTTTTGATTCGTCATTACCGTTTTCTTCCGAAACTTCAGAAGAAGCATCTGTGTATTACAATTTTTTCAAAAAATTACGACTCCATCATGTTGATAGTGGTTTGGTTGTAGTCAATAAACTTGAGAAATTAAATGGATTGTTGATGTCTTTTATGTTAAATTTGG  >  SRR13385772.1092509/1‑300 (MQ=60)

AAACGAATTACCATTCCAAATAGTATCCACGGGAAATGAACTATCAGCAGAGTCTATTGCTAAAATTTCTGAGACCGCTAAAGAAACGGAACAAAGGGTCTACTTAGTAGACTGCTCGACAGTGCTTGACACTAATTTTGCTAATACATACATTTCTTTTTTTCAGAATAAATGGGTCGCCACTTTGTTCAACACATTTGAAGAATACATTTTGTTGGATGCAGACGTAGTACCGTTTGTAGGGTCTGATTACTTTTTCGACTCTCCTTCTTACAGGGAGAGCGGGATACTTTTGTTCAAGGATAGGGTTATGGAAAACGAGCAAACTTTCCAATACTGCATCGAAATGTTAAATGAAGTGGAACCCTCTGCACAAGAACGCAGATTTATTGGAAGTAGGTTAGTTTTTGATTCGTCATTACCGTTTTCTTCCGAAACCTCAGAAGAAGCATCTGTGTATTACAATTTTTTCAAAAAATTACGACTCCATCATGTTGATAGTGGTTTGGTTGTAGTCAATAAACTTGAGAAATTAAATGGATTGTTGATGTCTTTTATGTTAAATTTGG  >  BK006942/326882‑327450

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: `‑`