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
A3 F28 I0 R1 51 55.9 1320120 86.3% 1139263 218.0

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
GCATTAGCCGCCAGTTGGGTGTGCAAACCAATAGTTTGCGTCGCGATCCACAGGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCACCCCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATACACCTTTGACATCGTAACCCGCGAGGATGCCGATAATCAGCCCCATCACAAAACCCACGGTGACAG  >  NC_000913/2173123‑2173608
                                                                                                                                                                                                                                                |                                                                                                                                                                                                                                                     
GCATTAGCCGCCAGTTGGGTGTGCAAACCAATAGTTTGCGTCGCGATCCACAGGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGAAACCA‑‑CCACCGTATGTC                                                                                                                                                                                                                                            >  M01186:129:000000000‑A5M8V:1:1108:25591:9528/1‑250 (MQ=60)
GCATTAGCCGCCAGTTGGGTGTGCAAACCAATAGTTTGCGTCGCGATCCACAGGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTCAGTGGGATAAAAATCAGGCTTGCCGATACCACCC‑‑CCGTATGTC                                                                                                                                                                                                                                            >  M01186:129:000000000‑A5M8V:1:2104:20967:21349/1‑250 (MQ=60)
   ttcccctctgtttgggtgggaaaaccaatagttggggttgcatcacaaggggttagtctaaaaatgatgaacccggacttaagggtggggaacagattccccagatcCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAACGGGCAGCACTTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATCCCA‑‑CCGCCGTATGTCCCAG                                                                                                                                                                                                                                        <  M01186:129:000000000‑A5M8V:1:2101:9834:20422/144‑1 (MQ=60)
                        aatacaatgtggttgtttcgcgtcccaggggtggttgcattattgtgcacccccggaatgcaggggcggaaatgagtaccccgaagccgGGCGACCGCCACCGCCACGAAGAAGCGGATGGTGGAAAGATCGCAAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGATTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCG                                                                                                                                                                                                                   <  M01186:129:000000000‑A5M8V:1:1111:4907:15753/162‑1 (MQ=60)
                           CCAATAGTTTGCGTCGCGATCCACAGGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGAGCAAGGCCAA                                                                                                                                                                                                                 >  M01186:129:000000000‑A5M8V:1:2107:13647:24431/1‑250 (MQ=60)
                                    tgcgtcgggatccacagggtgagggtaatgatgatggcccccgaaataaaggtggggaaagaatttccacggtgccgggagcCCGCCATCGCCACGAAGAAGCCGATGGTGGCAATATCGCCAAAGGGCACCACCTGATTACCCGGCCCACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAGCAGGCTAGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTC                                                                                                                                                                                                       <  M01186:129:000000000‑A5M8V:1:1106:25169:23038/169‑1 (MQ=60)
                                            catccacgggggattctacatatgacgcgcccccgagataaggggcggcaaagagttcaccagaggcacgccgaccccaatcgcaccgaagaagcggaggggggaaagagcccaaacgggcagccctgaataccccggcccacaagcacaAATTAAATTGGTGAGTGGGATAAAAACCAGGCTTGCCGATCCCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGC                                                                                                                                                                                               <  M01186:129:000000000‑A5M8V:1:2110:10439:22408/101‑1 (MQ=60)
                                            GATCCACAGGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCACCGCCGGATCAAGGCCAATCAGGAACTCCTGACCG                                                                                                                                                                                                >  M01186:129:000000000‑A5M8V:1:2103:19511:21862/1‑250 (MQ=60)
                                               CCACAGGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGCGAGTGGGATAAAAATCCGGCTTGCCGATCCCA‑‑CCGCCGTATGTCCAAGCTGCAACGCCGGATCAAGGCCAATCCGGAACcccccacccccga                                                                                                                                                                                            >  M01186:129:000000000‑A5M8V:1:2114:17157:7764/1‑238 (MQ=60)
                                                    GGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGACCAAGGCCAATCAGGAACTCCTGACCGCCGAACTT                                                                                                                                                                                        >  M01186:129:000000000‑A5M8V:1:1103:17605:24608/1‑250 (MQ=60)
                                                       tgatgctcataaggagaccaccggagataagggcgcgaaacagattcccagaatgccgggggcCCGCCATCGCCACGAAGAAGCCGATGGTGGAAAGATCGCAAAACGGAAGCACCTGATTCCCCGGCACAAAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATCCCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCC                                                                                                                                                                                    <  M01186:129:000000000‑A5M8V:1:2102:22411:17963/188‑1 (MQ=60)
                                                           GCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGGGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGTGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCACGGCAAATCAGGAGCTCCTGACCGCCGAACTTCACCTGTA                                                                                                                                                                                >  M01186:129:000000000‑A5M8V:1:1111:7493:16002/1‑251 (MQ=60)
                                                                               aaataaagggccgaaaagatttgcccgcaagccgggcgcccgccaccgccacaagaaagccgatggggcaaagatcgccaacgggcccccCCTGATTACCCGGCACAAAACCACCATTTAAAATGGTGAGTGGGATAAAAATCAGGCTTCCCGATCCCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTT                                                                                                                                                             <  M01186:129:000000000‑A5M8V:1:2107:9449:21385/160‑1 (MQ=60)
                                                                                   aaagggctgaaacaggtttcaacgagcccgggacaccgccaccgcacgGAAGAAGCCGATGGCGGCAAGATCGCAAAAGGGCAGCACCTGATGACCCGCCACAAAAACAGCAATAAAAATGGTGAGGGGGAAAAAAACCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGA                                                                                                                                                        <  M01186:129:000000000‑A5M8V:1:2105:11404:10765/203‑1 (MQ=60)
                                                                                               aagtttcccgaagagccgcgcaaccggcagccccaagaaagggccaaagggagcagacgcgcaaacgGGCAGCACTTGATGACCCGGAACACAAACAGAAATAAAAATGGTGGGTGGGAAAAAAATCAGGCTTGCGGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAAC                                                                                                                                            <  M01186:129:000000000‑A5M8V:1:1103:24248:21683/184‑1 (MQ=60)
                                                                                                 aattccccggaggcccgggcACCGCCATCGCCACGAAAAAGCCGATGGTGGCAAGACCGCCAAACGGCAGCACCTGATGACCCGGCACACAAACAGCAATTAAAAGGGTGAGTGGGATAAAAATCAGGCTGCCCGATAC‑‑CCCCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAAC                                                                                                                                            <  M01186:129:000000000‑A5M8V:1:1101:9105:17361/229‑1 (MQ=60)
                                                                                                             ccacgaccacggcctgccccagaaagaagccgaagggggcaggaccgccaaggggcagccccgattaccccggccgaaaaacaccaataaaacTGGTGAGGGGGATAAAAACCAGGCTTGCCGATACCA‑‑CCGCCGTATGGCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGACGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGT                                                                                                                              <  M01186:129:000000000‑A5M8V:1:1109:5460:10756/158‑1 (MQ=60)
                                                                                                                                  caaaaAAGCCGAGGGGGGCAAGATCGCCAAACGGCAGCACCAGATTACCCGGCACACAAACAGCAATAAAAAGGGTGAGGGGAATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGC                                                                                                         <  M01186:129:000000000‑A5M8V:1:1104:23265:14725/246‑1 (MQ=60)
                                                                                                                                  aaaagaagccaatggaggaaagtgtgccaaacggaaaccCCTGATGACCCGGCCCACAAACAGCAATTAAAATGGTGAGGGGGATAAAAACCAGCCTTGCCGATCCCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGC                                                                                                         <  M01186:129:000000000‑A5M8V:1:1113:15878:10315/212‑1 (MQ=60)
                                                                                                                                                GTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGAAACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGCCTACGAGCCGGCTAACCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAcaagcaccacggccg                                                                                            >  M01186:129:000000000‑A5M8V:1:2111:22936:15289/1‑235 (MQ=60)
                                                                                                                                                    CAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCATGCTTAACGAGCGGCGTTAAACCATCCATGATGGGGTTAATAACCAGTGGAATTAGCAGCATCAATGCCGCCGTT                                                                                       >  M01186:129:000000000‑A5M8V:1:2107:22844:20211/1‑251 (MQ=60)
                                                                                                                                                                         CCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGCCATAAGCAGCATCACTGCCGCCGTTTTTACCGCCACCTGCAATACA                                                                  >  M01186:129:000000000‑A5M8V:1:2112:22706:15023/1‑251 (MQ=60)
                                                                                                                                                                          cgctgatcacccggcaccaaaacagcaataaaaatggtggttgggtaaaaagagggcttgcccgtcacCCCCGCCGTATGTCCCAGCAGCAACGCCGGTTCAGGGCCAACCGGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATAC                                                                   <  M01186:129:000000000‑A5M8V:1:1112:10291:12140/183‑1 (MQ=60)
                                                                                                                                                                          ccttgattccccgccaaaaaaacacaaataaaagtggtaggtggaaaaaaagccggcctgccgaacccCCCCGCCGTATGTCCCAGCACCAACGCCGGATAAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATAC                                                                   <  M01186:129:000000000‑A5M8V:1:2105:14452:5000/183‑1 (MQ=60)
                                                                                                                                                                                       acacaaaaacgacaataaaatggggagggggaataaaaaccgggcttgccaaccccaCCGCCGTAGGTCCCAGAAGCAACGCCGGATCAAGGCCAATCAGGACCTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATACACCTTTGACAT                                                        <  M01186:129:000000000‑A5M8V:1:2105:16184:19385/192‑1 (MQ=60)
                                                                                                                                                                                                 CAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTCAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATAACTGCCGCCGTTTTTACCGCCCGCTGCAATACACCTTTaccatggtaacccccggga                                          >  M01186:129:000000000‑A5M8V:1:1106:14167:12458/1‑232 (MQ=60)
                                                                                                                                                                                                                   GGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATACACCTTTGACATCGTAACCCGCGAGGAGCCCGATAATCAGCCC                         >  M01186:129:000000000‑A5M8V:1:2105:16847:15762/1‑250 (MQ=60)
                                                                                                                                                                                                                   GGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATG                                                                                                                                 >  M01186:129:000000000‑A5M8V:1:2102:24711:16501/1‑146 (MQ=60)
                                                                                                                                                                                                                                         TACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATACACCTTTGACATCGTAACCCCCGAGGATGCCGCCACTAAGCCCCATCACAAAACCCACGGTGACAG  >  M01186:129:000000000‑A5M8V:1:1105:9884:6100/1‑251 (MQ=60)
                                                                                                                                                                                                                                                |                                                                                                                                                                                                                                                     
GCATTAGCCGCCAGTTGGGTGTGCAAACCAATAGTTTGCGTCGCGATCCACAGGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCACCCCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATACACCTTTGACATCGTAACCCGCGAGGATGCCGATAATCAGCCCCATCACAAAACCCACGGTGACAG  >  NC_000913/2173123‑2173608

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑