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 F9 I0 R1 58 62.8 1514203 84.7% 1282529 220.3

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CCGCCAGTTGGGTGTGCAAACCAATAGTTTGCGTCGCGATCCACAGGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCACCCCGCCGT‑ATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATACACCTTTGACATCGTAACCCGCGAGGATGCCGATAATCAGCCCCATCACAAAACCCACGG  >  NC_000913/2173130‑2173602
                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                                
CCGCCGGTTGGGTGGCAAAACCAATATTTTGCGTCGCGACCCACAGGGGTATGCTCATAATGCGGACACCCAAAATTAAGGGGCGGAACAGATTCCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGT‑ATGTCCCAGCAGC                                                                                                                                                                                                                              <  M01186:129:000000000‑A5M8V:1:1101:12562:9246/251‑1 (MQ=60)
                 acaccaagtggttgggtcgatatccagagggtaatggccatactcagcaccCCCGAGATTAAGGGGCGGACGAGATTTCCACGATGCACGGCGACCGCCATCGCCAGGAAGAAGCGGAGGGTGGAAAGATCGCAAAACGGCAGCACCTGATTACCCGGCCCACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATCCCA‑‑CCGCCGG‑ATGTCCCAGCAGCAACGCCGGATCAAGGCC                                                                                                                                                                                                             <  M01186:129:000000000‑A5M8V:1:2105:12070:25001/200‑1 (MQ=60)
                    CCAATAGTTTGCGTCGCGATCCACAGGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGCGACAGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACTGCAGCACCTGATTACCCGGCACCCAAACAGCAATTAAAATGGCGAGAGGCAGAAACATCAGGCGTGCCGCTACCA‑‑CCGCGGT‑ATGTCCCAGAAGCAAAGTCGGATCAAGCCCAAG                                                                                                                                                                                                          >  M01186:129:000000000‑A5M8V:1:1112:17519:19228/1‑251 (MQ=60)
                           tttgggtggggacccccggggtgatgcccagaatgataacccccggaattaaggtgcgaaacagtttccccggagGCACGGCGACCGCCAGCGCCACGAAGAAGCCGATGGTGGAAAGATCGCAAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGT‑ATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAA                                                                                                                                                                                                    <  M01186:129:000000000‑A5M8V:1:1104:23917:23782/175‑1 (MQ=60)
                                 TCGCGATCCACGGGGTGAGGCCCAAAATGATGACCCCCGAGTTTAAGGTGCGGACCAGATTCCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGT‑ATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTG                                                                                                                                                                                              <  M01186:129:000000000‑A5M8V:1:1101:10716:8324/250‑1 (MQ=60)
                                      tccaccggggtgtacgcCATAATGATGCCCCCCGAGATTAAGGGCGGGAACAGTTTTCCACGATGCCCGGGCACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATAAAAATGGTGAGTGGGATAAAAACCAGGCTTGCCGATCCCA‑‑CCGCCGT‑ATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGC                                                                                                                                                                                         <  M01186:129:000000000‑A5M8V:1:1101:9865:16887/233‑1 (MQ=60)
                                      ATCCACAGGGTGATGCTCATAATGATGACACACGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGGGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGT‑ATGTCCCAGGAGCAACGCGGGAACAAGGCAAATCAGGAAACCCTGCCCGC                                                                                                                                                                                         >  M01186:129:000000000‑A5M8V:1:2107:19058:26294/1‑250 (MQ=60)
                                        CCACAGGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCCCACAACCAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTTCCGATACCA‑‑ACGCCGG‑ATGTCCCAGCAGAAACACCGGATAAAGGCCAACCAGGAAATCCTGACCGCCCA                                                                                                                                                                                      >  M01186:129:000000000‑A5M8V:1:2101:27103:13239/1‑251 (MQ=60)
                                        CCACAGGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGGGGCAAGATCGCCAAACGGAGACACCTGCTTACCCGGCACACCAACAGCAATTAAAATGGTGAGTGGGAACAAAATCAGACTTTCCGATACAA‑‑CCGCCGTCATG‑CCCAGCAGCAACGCCGGCTCAAGGCCAACCAGGAACacgcgaccgacaa                                                                                                                                                                                      >  M01186:129:000000000‑A5M8V:1:1101:21478:25215/1‑238 (MQ=60)
                                        CCACAGGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGAGGGGGGCAAGATCGCCACACGGCAGCACCTGGTTACCCGGCACACAAACAGCAATTGAAATGGTGAGTGGGATAAAAATCAGGCTGGACGAAAC‑‑CCACGCCGT‑ATGTCCCAGCGGCAACGCCGGATCAAGGCACATCAGGAACTCCTGACCGCCGA                                                                                                                                                                                      >  M01186:129:000000000‑A5M8V:1:1107:6596:8321/1‑251 (MQ=60)
                                                                        AGATTAAGGTGCGGAACAGATTTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGT‑ATGTCCCAGAAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCCCCGACATTCGCCTGTAAACGACTACGCGCCTCCTT                                                                                                                                                       >  M01186:129:000000000‑A5M8V:1:2103:13528:9985/1‑250 (MQ=60)
                                                                            taagggggtgacaagtttcccccacggcacggcaccccgcacggccccgaagaagccgagggggcaaaaatgcccaaccggacgccCCTGATTCCCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATAC‑‑CCCCGCCGT‑ATGTCCCAGCAGCAACGCTGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGA                                                                                                                                                  <  M01186:129:000000000‑A5M8V:1:2101:28731:17973/165‑1 (MQ=60)
                                                                            aaaaggcgagaacggttgtacaggaggccgggaggcggccaacccccagaacAAGCCGAGGGTGGAAAGGTCGCCAACCGGCAACCCCTGATTACCCGGCACACAAGGAGCAATTAAAATGGTGGGGGGGATAAAAACCAGGCTTGCCGATACCA‑‑CCGCCGT‑ATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGA                                                                                                                                                  <  M01186:129:000000000‑A5M8V:1:1108:21670:25305/199‑1 (MQ=60)
                                                                               gtggataaagagacagggcccggtgcccggggcgccgcctgcgccaggaggaagccgagggtggaaagggcgccaaacggcacagcctgtttacccggcacacaaacaccaataaaaatggtaagtggaaaaaaaaccgggttagaaaatacCCCCGCCTT‑ATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCGGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGA                                                                                                                                                  <  M01186:129:000000000‑A5M8V:1:1101:23343:24286/98‑1 (MQ=60)
                                                                                        aaagtctcaccgatcccgGGCGACCCCCATGGCCACGAAAAAGCCGATGGTGGCAAGAGCGCCAATGGGCAGCCCTTGTTTCCCCGCAACAAAACCAGCAATTAAAATGGTGAGGGGGATAAAAACCAGGCTTGCGAATACCA‑‑CCGCCGT‑ATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAAC                                                                                                                                      <  M01186:129:000000000‑A5M8V:1:1105:13775:14452/233‑1 (MQ=60)
                                                                                                    cggcagccggacacccgcctcgccagcaaacacccgagggtgcaaaaagcgacaaacgggaaaaccgtattccccggcccacaaccaacaagtcaaaggtggagggggaaaaaaaccgggcttcccgaacccaCCGCCGT‑ATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGAT                                                                                                                            <  M01186:129:000000000‑A5M8V:1:1114:20358:18637/118‑1 (MQ=60)
                                                                                                    ATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGT‑ATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCCGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGCCTACGAGCCTGCTTAGCGATCGGCGTTAAACactccacgctgg                                                                                                                          >  M01186:129:000000000‑A5M8V:1:2101:27185:15184/1‑239 (MQ=60)
                                                                                                             cacgccaacgccccggagaaacccgtggggggcaagtctcccaagggcaagcccttgtttcCCCGGCACAAAAAAAGCAATTAAAATGGTAGGTGGGAAAAAAACCAGGCTTGCCGTTCCCA‑‑CCGCTGT‑ATGCCCCATCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATC                                                                                                                  <  M01186:129:000000000‑A5M8V:1:1102:15240:26990/189‑1 (MQ=60)
                                                                                                                           CGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAACCAGCAATTAAAATGGTGAGTGGGATAAAAAGCAGGCTTGCCGATACCA‑‑CCGCCGT‑ATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGC                                                                                                   <  M01186:129:000000000‑A5M8V:1:1101:11662:14697/251‑1 (MQ=60)
                                                                                                                                 acccgaggggggaaatgtcgcaaaagggaagcacctcattccccggccaACAAACAGCAATAAAACTGGGAAGTGGGATAAAAATAAGGCTGCCCGATCCCA‑‑CCGCCGT‑ATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGACCTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATC                                                                                             <  M01186:129:000000000‑A5M8V:1:1105:17155:23089/202‑1 (MQ=60)
                                                                                                                                                                    TGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACAA‑‑CCGCCGT‑ATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGCACTGCGCCTGTAAACGACTACGAACCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCTTCACTGCCGCCGTTTTTtacgcccgctgcactccac                                                           >  M01186:129:000000000‑A5M8V:1:2101:7080:11629/1‑231 (MQ=60)
                                                                                                                                                                     GATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGT‑ATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATACAC                                                           >  M01186:129:000000000‑A5M8V:1:1101:22527:7257/1‑249 (MQ=60)
                                                                                                                                                                     GATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGT‑ATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCC                                                                                                                                                                              >  M01186:129:000000000‑A5M8V:1:2105:10341:8029/1‑134 (MQ=60)
                                                                                                                                                                           ccttggtctcggggtatcggagatgtgtataaaaaccagAAATCAGGCTGGCCGATCCCA‑‑CCGCCGT‑ATGTCCCAGCATCAACGCCGGATCAAGGCCAAACAGGCACCCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATACACCTTTGAC                                                    <  M01186:129:000000000‑A5M8V:1:2104:7687:21765/211‑1 (MQ=60)
                                                                                                                                                                                                             ggagacaaaaccagccttgccaacacCCCCGGCGT‑ATCTCCGAGCAGCAACCCCGAATCAAGGCCAACCAGGACCCCCGGACGGCCGAACTTCGCTTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATACACCTTTGACATCGTAACCCGCGAGGATGCCGATAATCAGCC                    <  M01186:129:000000000‑A5M8V:1:1105:25379:11893/224‑1 (MQ=60)
                                                                                                                                                                                                                  AAATCAGGCTTGCCGATACCA‑‑CCGCCGT‑ATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTGGCAGCATCACTGCCGCCGGTTTTACGGCAAGCTGCAATACACCTTTTACATCGTAACCCCCGAGGATGCCGAAAATAAGCCCCACCACA            >  M01186:129:000000000‑A5M8V:1:1102:12290:23376/1‑251 (MQ=60)
                                                                                                                                                                                                                        GGCTTGCCGATACCA‑‑CCGCCGT‑ATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTATCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCAGTAGCAGCATCACTGCCGCCGTCTTTCCCTCCAGCTGCAATACACCTTTGACAACGTAAACCTCGAGGATGCCGATAATCATCCCCCTCACAAACCC       >  M01186:129:000000000‑A5M8V:1:1103:10169:27393/1‑250 (MQ=60)
                                                                                                                                                                                                                             GCCGATACCA‑‑CCGCCGT‑ATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCTATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGTATCACTGCCGCCGTTTTTACAGCCAGCTGCAATACACCTTTGACATCGCAACCCCCGCGGATGCCGTTAATCATCCCACTCACAAAACCCccct  >  M01186:129:000000000‑A5M8V:1:1103:27370:13711/1‑246 (MQ=60)
                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                                
CCGCCAGTTGGGTGTGCAAACCAATAGTTTGCGTCGCGATCCACAGGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCACCCCGCCGT‑ATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATACACCTTTGACATCGTAACCCGCGAGGATGCCGATAATCAGCCCCATCACAAAACCCACGG  >  NC_000913/2173130‑2173602

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑