Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: MH545496
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 271601
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Found at i:13630 original size:15 final size:15
Alignment explanation
Indices: 13610--13641 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13600 GTCCACTACC
13610 GAAAGAGAAAGAAAA
1 GAAAGAGAAAGAAAA
*
13625 GAAAGAGCAAGAAAA
1 GAAAGAGAAAGAAAA
13640 GA
1 GA
13642 GAAATGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.28, T:0.00
Consensus pattern (15 bp):
GAAAGAGAAAGAAAA
Left flanking sequence: Indices 13110 -- 13609
GATGGTGATTGAGCCGGTGCTTAAGTTGCCTGAGTTTGGGTTGAAACTTCTGGCAGAGACCTTGC
AGCTGAGGAAAGGGTTGGCTAACATAGCTCGCCCTATAGTAATATGTCGACCGCGCCACATTAGG
TATAACTGGTAAGCTAAAGGAAAAGGGAGCTGTTGTCAACCAACGGGAACTAGTTATCCTGTCTA
TTCATTCTCTTTCTTCTAGTTAGTCAACGGGCGTAGCAAGAAAGTAACCTAACCTATTTATCGGG
ATGTAGTAACAAAGCCAAGCACTTCTTTTACCGTGGAAAATCTCTATTTACATAGAAGAGAGCGC
AGCAACTCCCCCATTAATTAGGAACCGGTGGAACTGGAGCACTTGTTTATTTACCATCTCCTTAT
AGAAGAAGACTCTCGCCCGAATGAATTAGTATTAGTTGGTACTAGAAATGTGAGAAAAAGTGAAC
GAAAGCGCTAGCGCGTAAGCAAATCCCTTTAGCCCGTCCACTACC
Right flanking sequence: Indices 13642 -- 14141
GAAATGCCAACCCGTGGGATGAGAAGTTGCAGAGTAGCTGATAGTGGCCTCCCTCTCCTTTTAGT
CGAGTAATAAATACCTCTCCTAACATGACTTCGAGAATTGGGCGGAGCTGGAACATTTGATGCAA
TAGCTGACAATCCAATGGGAATTATCCAATCGAAGGAAGAATTATTCATGACTACTCTTGCTGCT
TTGAAAGAACTCTCTGAGCTTGGTTTTCAGTAAACTTTCTCTCTCTCTCTTTCTGAGCGGTGGTC
ATGCTCTGTACATTCTAGTATATGTTGATGATCTTAGAATCACATGGTCCAATCCTCTTCATATT
GATGACATAGTATGCATCAAAAATGCCATCTTTTCTATAAAGTATCTGGCTCAATCTTGGTCAAA
AAGTGAGTAGAACTTCTGCTTCTATCTTTCTCAAAACATTACTGATCTATTGGTCAAGGCTGGCA
TGGAAAGAACCTCTCCCTTCTCCCATAGTCACTTCTGGGTCCTCT
Found at i:18786 original size:15 final size:15
Alignment explanation
Indices: 18766--18799 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
18756 ATGGTAAATC
18766 AATGTTAGATCCCTT
1 AATGTTAGATCCCTT
18781 AATGTTAGATCCCTT
1 AATGTTAGATCCCTT
18796 AATG
1 AATG
18800 GAAGATCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (15 bp):
AATGTTAGATCCCTT
Left flanking sequence: Indices 18266 -- 18765
ACGTCCGGAAACGTTCACTTTATTCGTTTAATAGAATGATCCCTCACAGAAGACCCAATCCCATC
ACAAAGTCACTTCCAAAGAGGAATAAGAGCTAAACGGTCTCAGAGGTCCTAAATAAGCTTTCTTT
CTTTTCAATGGAAGAAACCCTACCATCCCTGTTTTCAAACCCATAGAACACATAAATCATATATC
TCTGAGTGAGCTTGAATCGGTATCAGACATCGTACATCTTAGCTGGGAGAGCTAGAGATAGTTCT
TTTTAAGCTAACCCTCACATCCAGAAAGCCAGGAGAGCAAAGAAAGTAGGAAGAAGAGAAATCCG
GGAAACCAGAAAGAAAAGAGGAATGTGAGAACTAGTAATCCCAGGAATAGGAATATCAGAATCAA
AGAACTAGGAAAGTAGGTTAGTTGGGAATGGTAGGAAAGCAAGGGAAGCCAAGTAAGCCAAGGAA
GAAAGGTTTGGTTAGTTGTTCACTTCATAGGAGGAATGGTAAATC
Right flanking sequence: Indices 18800 -- 19299
GAAGATCTGTGAATCGGAGAAATGGGATTGTAAGACATGTGCATACACCCCTCAACAAAACGGGG
TAGCTGAAAGGATGAACCGCACAATCATTGAAAAGGTCAGAAGTATGCTTTGTGAGTGTGGACTT
CCCAAGACTTTCAGGGCAGATGCTGCAAACACAGCTGTGCACATCATCAACAAATACCCTTCCAC
AGCAATCAATTTCCATGTTCCAGATGAGGTATGGTTTCAATCAGTCCCTACTTATTCATATCTCA
GGAGATTTGGGTGTGTTGCTTACATTCACTGTGATGAAGGAAAGCTGAAGCCTAGAGCTAAGAAA
GGAGAGGAGAAGGGGAGTTACCTAATAAATAGGATAGTAAGCATTCCTTACACCATAGGGATAGG
AAAGACTAGCAGCCCCAGGAAAGCAAGCCACCTCGGAATAAAAGGCTAAGTAGACCTAGTAGGAG
TAGAGGAAGCTGAAACCATTCCATATGAAACTACAGGATAAGAAA
Found at i:18805 original size:15 final size:15
Alignment explanation
Indices: 18772--18806 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18762 AATCAATGTT
**
18772 AGATCCCTTAATGTT
1 AGATCCCTTAATGGA
18787 AGATCCCTTAATGGA
1 AGATCCCTTAATGGA
18802 AGATC
1 AGATC
18807 TGTGAATCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (15 bp):
AGATCCCTTAATGGA
Left flanking sequence: Indices 18272 -- 18771
GGAAACGTTCACTTTATTCGTTTAATAGAATGATCCCTCACAGAAGACCCAATCCCATCACAAAG
TCACTTCCAAAGAGGAATAAGAGCTAAACGGTCTCAGAGGTCCTAAATAAGCTTTCTTTCTTTTC
AATGGAAGAAACCCTACCATCCCTGTTTTCAAACCCATAGAACACATAAATCATATATCTCTGAG
TGAGCTTGAATCGGTATCAGACATCGTACATCTTAGCTGGGAGAGCTAGAGATAGTTCTTTTTAA
GCTAACCCTCACATCCAGAAAGCCAGGAGAGCAAAGAAAGTAGGAAGAAGAGAAATCCGGGAAAC
CAGAAAGAAAAGAGGAATGTGAGAACTAGTAATCCCAGGAATAGGAATATCAGAATCAAAGAACT
AGGAAAGTAGGTTAGTTGGGAATGGTAGGAAAGCAAGGGAAGCCAAGTAAGCCAAGGAAGAAAGG
TTTGGTTAGTTGTTCACTTCATAGGAGGAATGGTAAATCAATGTT
Right flanking sequence: Indices 18807 -- 19306
TGTGAATCGGAGAAATGGGATTGTAAGACATGTGCATACACCCCTCAACAAAACGGGGTAGCTGA
AAGGATGAACCGCACAATCATTGAAAAGGTCAGAAGTATGCTTTGTGAGTGTGGACTTCCCAAGA
CTTTCAGGGCAGATGCTGCAAACACAGCTGTGCACATCATCAACAAATACCCTTCCACAGCAATC
AATTTCCATGTTCCAGATGAGGTATGGTTTCAATCAGTCCCTACTTATTCATATCTCAGGAGATT
TGGGTGTGTTGCTTACATTCACTGTGATGAAGGAAAGCTGAAGCCTAGAGCTAAGAAAGGAGAGG
AGAAGGGGAGTTACCTAATAAATAGGATAGTAAGCATTCCTTACACCATAGGGATAGGAAAGACT
AGCAGCCCCAGGAAAGCAAGCCACCTCGGAATAAAAGGCTAAGTAGACCTAGTAGGAGTAGAGGA
AGCTGAAACCATTCCATATGAAACTACAGGATAAGAAAGAGTGAC
Found at i:27512 original size:11 final size:11
Alignment explanation
Indices: 27496--27525 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
27486 CCCAGCCTCC
27496 CTCTCGTTTCA
1 CTCTCGTTTCA
27507 CTCTCGTTTCA
1 CTCTCGTTTCA
27518 CTCTCGTT
1 CTCTCGTT
27526 CCTCTCCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.07, C:0.37, G:0.10, T:0.47
Consensus pattern (11 bp):
CTCTCGTTTCA
Left flanking sequence: Indices 26996 -- 27495
AATGCTTTGTTTCGTTGGAAAAACCAACGCAAATCTCATATTGACTTTCTATCGCCCTACTTCTA
AGGATAGATAGAGAGAGTGACTTTATGAAATTATCTCCCTTCTAAAGCAGCGCAAGTCGGCCCCC
CCAGAACAAAGCCCCTACTCCCGAGAGGTATAAATGACTCGACTAAAAGGAGAGGTATTGATTAC
TCGAGCACTTGTCTAGAGAGGTCCAACGTAATTTATTACTCTTATAAAAGAGGGAACTCGACTGA
AAGGAGAGGTTGTTTACATACTCGACTAAAAGGAGAGGTCCAAATGGACTTCCGTGAATTACAGT
GATCCAGTCTCACGGATATGGAGCTTCGCCGGAGATGGCAGGGCAAAACCTGATGGACCTTTTTT
TTTTTTCAAGAGGTGATTTCGAGAATCAACCAACCGACGAGACTAATTCGAGGATGTGTTAAAAG
AGAGTCTAACCGCCAAGGCAAGTCCCATGGATAAGCCCAGCCTCC
Right flanking sequence: Indices 27526 -- 28025
CCTCTCCTTACAGTCGAGCTCCTTTGTTCCTTCGGACCTCTCGCCCAAATGAAATGGGATGAATC
CAATCAATAAGCTTATTGATTGATTCAGAGCGCAGCGAAGCCAAATTCAATCAAGGCAAAGGGGG
GCTTACTTTTCCTGACGCTGAGTCATCCTATTCAAATTTAGCTATGCTAATGTAACAGGAAAAGT
TTTCACAGATGATATGGATCCCAAGAGATGAGCGAGAACCTCCAATTGCTTAAGGATCGCACTCT
GCTATCCCGCTTGGTGGACGAGATCTTCTCTCGGGTCATCCATCCTGGGTTACTGAAGGGTTGTC
CGACTGCTCGGTGACCGAATCAGAGAAGTTTTGACCGCTTTCTCTTCTCTCCAGCACTCTCGGAC
TGATCATCCAATCCATCTTGCTGCGACAAAGCAAGCTTAGGAATGAATCTAAGAAATTTAGGTCT
CTGCCCGCTTGAAAGATTCTTCTTTCCTCTTCGGTGAAAGAGGGC
Found at i:56217 original size:17 final size:17
Alignment explanation
Indices: 56195--56231 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
56185 CATGGGAAAG
56195 ACTAACCTCCCATTCTT
1 ACTAACCTCCCATTCTT
56212 ACTAACCTCCCATTCTT
1 ACTAACCTCCCATTCTT
56229 ACT
1 ACT
56232 TTCCTTCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.41, G:0.00, T:0.35
Consensus pattern (17 bp):
ACTAACCTCCCATTCTT
Left flanking sequence: Indices 55695 -- 56194
AAAGATCGATTTCCTGCTTCTGCAAAGGGCGGAAAAGTCTCATCTGCTCTCTTCGGTTAAGGTGT
CCACAATACGAATACCTCTTTCCTCTAAATATCTATTTACCTTTTCCCAGTCTTTTGTGCTGTAA
CAGCAGTCGCATCTGGAATATCGAATCTAGCTCTTAGCTGGTCTAGTCCAACCCCTCTTCTGTCT
GATGACAATCGGGAATACCTTGCTAGCAAAGTAAGCAATAAAAGGGATGCCATTAGTTTGATTAA
AAGGCATATCTATTTTCTAGCCAGTTTCCGACGGCAGTTTAGGAAACTGGAATTCCTTTAGTAAG
ATAGCTTATGAATGAAGCTTTCAAACCACTTCCTAATTTCAGGAGTTTAGGAGTACATATGAGTT
CATGAGTCAATGTGCCCGCTGTGGTGTATGAGCAAGTTATCTGATCCTATGCGCCTTTCTCCTGG
TTATCCTATTTCTGGTTATCCCATTCCTTGGCTTACATGGGAAAG
Right flanking sequence: Indices 56232 -- 56731
TTCCTTCCTTGTCTTACCTTTCCTCGATTGAAGATTGTTTAATAACAAAGTCTGACCCCTGTAAA
ACAATTCCAACATTAACAACAGGCAACATTCAGTGATACGTTATGCGTTAGTTGAAAGTACTCAC
TCTCCCCCAACTCCCAACATTAGCATTAGCAACATTGAGATTGTTAACATGGGAATTAACAACAT
CGTTCCGGGCTGACCTCAGCTACAGTGTTTCGCTAACAACAGTGTTTCCCTAACATTAGCATTAG
CAACATTAGCTACACCCATACTAACAACCCTAGCAAAAGCAACTGAAGCAGGTTGAGATGGCTGA
TGGCTGTTTTTCAACTACCAAATCAATAAGTAAGTCCTCAGGACCTGCGAGGGCATCAAGTCGTA
TTTCTATGGTTAGATATTAGCCGTATCAAAGGAAGATCTTAATGGTCGTGAAACTTCGATCTACT
ACCTTTATTTTCCTTTCTTATAGATAGAAGTCAAAGGTCTCCTTG
Found at i:56470 original size:17 final size:17
Alignment explanation
Indices: 56448--56481 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
56438 GACCTCAGCT
*
56448 ACAGTGTTTCGCTAACA
1 ACAGTGTTTCCCTAACA
56465 ACAGTGTTTCCCTAACA
1 ACAGTGTTTCCCTAACA
56482 TTAGCATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (17 bp):
ACAGTGTTTCCCTAACA
Left flanking sequence: Indices 55948 -- 56447
TGATTAAAAGGCATATCTATTTTCTAGCCAGTTTCCGACGGCAGTTTAGGAAACTGGAATTCCTT
TAGTAAGATAGCTTATGAATGAAGCTTTCAAACCACTTCCTAATTTCAGGAGTTTAGGAGTACAT
ATGAGTTCATGAGTCAATGTGCCCGCTGTGGTGTATGAGCAAGTTATCTGATCCTATGCGCCTTT
CTCCTGGTTATCCTATTTCTGGTTATCCCATTCCTTGGCTTACATGGGAAAGACTAACCTCCCAT
TCTTACTAACCTCCCATTCTTACTTTCCTTCCTTGTCTTACCTTTCCTCGATTGAAGATTGTTTA
ATAACAAAGTCTGACCCCTGTAAAACAATTCCAACATTAACAACAGGCAACATTCAGTGATACGT
TATGCGTTAGTTGAAAGTACTCACTCTCCCCCAACTCCCAACATTAGCATTAGCAACATTGAGAT
TGTTAACATGGGAATTAACAACATCGTTCCGGGCTGACCTCAGCT
Right flanking sequence: Indices 56482 -- 56981
TTAGCATTAGCAACATTAGCTACACCCATACTAACAACCCTAGCAAAAGCAACTGAAGCAGGTTG
AGATGGCTGATGGCTGTTTTTCAACTACCAAATCAATAAGTAAGTCCTCAGGACCTGCGAGGGCA
TCAAGTCGTATTTCTATGGTTAGATATTAGCCGTATCAAAGGAAGATCTTAATGGTCGTGAAACT
TCGATCTACTACCTTTATTTTCCTTTCTTATAGATAGAAGTCAAAGGTCTCCTTGGACTGAACTT
AGCTTCAAAGTGTCAGTCAGGGCCTGGTTCCAGCGGGTGAGTCCTTGCAATCAGCATGGTCGTAT
AGTTCAACATGTAGTGGAGATCTTGGAACCAAGGTCCTCCTATGGAAGGAATAAGACCTTGGAAC
AAGACCCCCAAAAAGGGTCTTTATGGGACCTTTGTCAAGGTCGTTCGCTCTGGGCTTTGGGTTCA
ACGGGTCGCTTTGAAAATAAATAGTCTCATCACATCTAAGGTGCA
Found at i:62581 original size:20 final size:20
Alignment explanation
Indices: 62558--62596 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
62548 TTTCGCGTAC
62558 TCCTCTGTCTCTT-TCTTCTG
1 TCCTCTGTC-CTTCTCTTCTG
*
62578 TCCTTTGTCCTTCTCTTCT
1 TCCTCTGTCCTTCTCTTCT
62597 CTTCCGAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.00, C:0.36, G:0.08, T:0.56
Consensus pattern (20 bp):
TCCTCTGTCCTTCTCTTCTG
Left flanking sequence: Indices 62058 -- 62557
GCTTCCACTGGTGCTTATGGATTACTTGCTGGATCGAACCCAAAAACGAATAGGTTTGATCGGCC
TGGCCTCGGGTGGTGGATCGAATGGAACGATACATAGACAAGTAAATCCCGTATTCATTCTATGG
CATTCCTTTCATTTAAGTAAGGAGATTCGGCATTCGAAGGGAAGTAGACTACTCAAGAATTTCAC
ATTTCTTTTCTGTCGTAATTTTTGAAATTGAATAAAGAATGAATAAAATCTAAATAAAAGAAGAA
TGAATTGAATCAATGAAATGTTGCTTGGTCTTCACTGAGAACTTGAGTAAGGAGTAGATTCTTTT
GGGGTAACTCGAAAAAGGCTTTTTTCTAGGCAATCGACCACTGCATCTGCATTTCACAAAAAGAT
GGTTCCGCTCGCCACAAGCAAGCCCTTCCCTTTACAGGGAAGCTTTCACCCTTCCCCATCGAGTC
GAGTAGCCTCGAATAACTCTCTTCTCCCTCTTGACTTTCGCGTAC
Right flanking sequence: Indices 62597 -- 63096
CTTCCGAGCAGTAGCAGCAGCGGGAGAGTCGGTAAGTCAATTGAAAGAGATGCTCATCTGCTCTG
GTTAGCTCGGTAGAGTGGCAGGCGAAATCCGTCTCTCTTTATAGATATAGAATAGGCGGCTAGTC
ACTTCTTACTCGTGTAGTGAGAAAATCCTTCTTTTTTTCATGATAATAGTTTGTTTTTTACTCTT
TATTTTGAAGCAAGGTGGATCTATACGGGAACCGGTAAGTAGATAGTTAGAATCGTATTCTTCTT
TCTTCTTGATTGTTTGCACGTTTGTATGAGAATAAAGCTCATCTCCTTCGGTAAGCACATATAGG
GTATCGAGCCCTCGGCGCTTGAGAGGACCCCGGGGAGCTCTTCTGTGATAGGCTCCGAGTTCCTG
ACTCTACTAGGCAACTAAGACATTAGATGAGGGAGTGCTTGTCTGTTTAGCGCTCTGTAGTTCAT
AGATTGGATATTGAATTCTCCGAAGATGAGTCTCCCTCGAGCCTT
Found at i:81946 original size:5 final size:5
Alignment explanation
Indices: 81936--81965 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
81926 AAAAACGACT
81936 ACTAG ACTAG ACTAG ACTAG ACTAG ACTAG
1 ACTAG ACTAG ACTAG ACTAG ACTAG ACTAG
81966 TAGTTGAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
ACTAG
Left flanking sequence: Indices 81436 -- 81935
TAGTCGCCGGAAGCGAACTTCCGGGCCGGGAAGGGGCCAAAAAACGTGAGCGCCCCCGCAATCTT
TCTAAAGAAACAAGCGAGAAACTTGACTTTGAGAAATACCTTATTATATATAATTAGTAAAGGCG
TGTTAGCCTATCTATAATCTATAGTAAGGGGCCTTTTCTTGATCGTTAGCGCTTTACTAATAACA
AGGACTTTTCTCGCTTGTTTAGTATTGCTTTGGCTTCGCTGTCCGTATCTTGCTGGCGCGGAAGC
TACCGCAACTAAAAGAAAATGAATGAAGGAAGAAGGCATTAGAAAGACTACCGAGGCATTCCGGG
CCGACTACAATACAAGTCATGAGCGATAGCGAAGCCAAGCCGGATAGGCTTTTTTATGTCAAAAG
CCCCACCCCAAAACTAGCTCTATCTTATAGCAGACAACTCAGGCAAGTCTACTCAACTAATCTCA
TAAGTAAACGCCTGTTCGCATCGCAACTAATAGAAAAAAACGACT
Right flanking sequence: Indices 81966 -- 82465
TAGTTGAGTGTTCCTTCTTGTTCAGGTCTTGACCGGGTCCGAGCTTCCCAAGCTCTATGCTGTTG
GGGAACTCTGCAAGGATCTTGCCACCTTCTTGATTTACAATATTTGAGTCTTTGGAGTACTTGAG
GATTATATTCCGCGCCGAGGATTTGTGCTTGTGGGCTAGGGTGAATATTGCAGACCAGCGAATCT
GGTGGTCGACAATCGTTCGGACTTGGTAAAGGTTGTCGCGGCACCTGTAGTAGGACAGAGGACTT
ATCGCGATGCCCGCGGACCAATTTACGATGTCTTCGTCGCTGACGTTCGTCAAGCAGGCCACGTG
GATTGGCCAGGGTCTTCTTCGGCTAATGATACCTCGATCCCGAAGCCTTCGGAGTATCTTTTTTA
TAGGTGCCTCTATCTTTATGGGGAATTCGCTGCTGATAGATCCCGCCCAGTGTCCTCCTCCCTCC
CCCGCCGCCTTCCGACCCGGGGGAGTATACAATGACAACTTACGG
Found at i:85845 original size:27 final size:27
Alignment explanation
Indices: 85813--85887 Score: 141
Period size: 27 Copynumber: 2.8 Consensus size: 27
85803 GTCACGTCAG
85813 TACCTCTCCTTTTAGTCGAGTAATAAA
1 TACCTCTCCTTTTAGTCGAGTAATAAA
85840 TACCTCTCCTTTTAGTCGAGTAATAAA
1 TACCTCTCCTTTTAGTCGAGTAATAAA
*
85867 TACCTCTCCTTTCAGTCGAGT
1 TACCTCTCCTTTTAGTCGAGT
85888 TTGTGTTCAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.37
Consensus pattern (27 bp):
TACCTCTCCTTTTAGTCGAGTAATAAA
Left flanking sequence: Indices 85313 -- 85812
AGCTCGCAGAGCATAAGTCAGCGCAAAGGAGAGATACATCCTTTAAGACTGTGAAGAGAATCCTT
GGTTTGACCTACGGACTACGTGGGAAATACGAGATCTAGGCAAGCCGCTACATGTTCTCCCCTTG
CCCTTGAACGATAGAAGAACTACTTATCTTCTCTTAGATAGCAGTCGATCGGTTCGCATCTATGG
TCAATCAATAGGCCCACGGATCTATTCTTCTATACGAGAAATTGCCATCTCGTAGCACCACAGCC
TGGGGGTAAGACTAGAAGAGGAGATTTGCTTGGTCTTCTGTGCGGAATCTGCTTCCTAATCAGTG
TAGCTCTTGGGTCAGCTCACAGCTAGGACGTCATCAGTTCTAAAGGATTCCACCACTAGGGAGAC
TCTCTCCTTATGGGCAAGGGAGGCAGATTTTGACGGGGAGAAGGATTCGGAATATAGTTACATAA
GTCCCCTTCCCTCTCCTCAATATAGTTTCACTCGAGTCACGTCAG
Right flanking sequence: Indices 85888 -- 86387
TTGTGTTCACAACCTCTCGAAACAAGTTCGAGAGTTACGTCAGTACTTTCAATGCTCTCTCTATT
CCTTGCTAATCAAGGCCTGCAAGGGAACTGGCTACGACTATAGGCGGGACGACATGCTTTTAGCT
TCCCTGAAATAGGCGACTTGCTCGCTTTGGCAGGAAGTATTTTATTTGAAGAATTGAACAAAAAA
AACGGAAATTTCTGTAAATCATTAAAACGGGACTTTCTTTAAAGAAAAAGAAATGGTCTCTCAGG
CTGGTTCAAAGCCCTATTTTAGATAGGAAAAATCCCATTTCATTCGGGTTTTCTATTCTGTCCTT
ATCCCCACTGAGGGAAGTAGCTAACCTAACTTCATATGGATTAGTAAGGATCCACTGGGAATCAA
ACTCAACGTTGCGAGCTCAAAAAGTGATCCTGGAAGGCCCACGGGTAAGCAAAGATTCTAATTCG
AGATTGGCAGAGAAACGGCCCGTGCGAGCACGAACCAAAGGAAGG
Found at i:97801 original size:18 final size:18
Alignment explanation
Indices: 97778--97819 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
97768 AAAATGACTA
97778 CTGTTCGTACCCCGTTGG
1 CTGTTCGTACCCCGTTGG
97796 CTGTTCGTACCCCGTTGG
1 CTGTTCGTACCCCGTTGG
97814 CTGTTC
1 CTGTTC
97820 CGCCCATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.05, C:0.33, G:0.26, T:0.36
Consensus pattern (18 bp):
CTGTTCGTACCCCGTTGG
Left flanking sequence: Indices 97278 -- 97777
ATCCGAAACAAGGATCTTTGAAATAGTCTCGTTTCAAGCCAACTCCAGAGCTCTATTCCATAACC
AGGTGCTGTGGCGAGTGTGGTTTCCGATACTTGATTGAGTTCGATTGCTTGCCCGGAAAGAAGAA
TTGCCATCGACGGTTGGAGTCAAATAAGAGGAAGACAAGTTCTACTGAAAGACTGCTGGTCAGAC
ACAAGAAAAGGAATATAATAATAATAGTTGGTACGGCCAAGAGCACTTGTAATTGTTACTAGTTG
TCTTCTCTATATCTTGTTACTGGTCTCCGGCAAAGAAACATGGAATAGTCGTGCGAACTCTGGCG
GAATCTAGCACTAAAAAGAGTGGTTTCATTATTGGTAGCAAATGGGTATACTTAATCAAGCTGAA
ATCCGATGGTAGTCTAGATAGGTATAAAGCTCGTCTGCTTGCTCAAGGCTATAAGCAGGAGTATG
GCATCGATTATGAAGAAAGATTTGCTCCCGTTGCCAAAATGACTA
Right flanking sequence: Indices 97820 -- 98319
CGCCCATTCACCATAGGTCTTTACATCAGATGGACGTTCAAAATGAATTTCTTCATGGTCATCTT
AAGGAGACAGTTTATATGCTATGCAACCTCCTCCTGGCTACCAGGAAGCGGAAAAAACTCTCGTT
TGTCGTCTTCGTAAATCTCTATATGGATTGTGAAACAAGTGCATGGTTTGATAAATTTCAAACTA
TCTGAGAGTTGAGGAACACCAAGTATGATTTGATTCTAGGGCCTGGAGCTCATCATCTATGGCTT
TGCGCCAACATGCGAGTTCTGCTGCCTGCTTATAGGTAGAAGGGACATGAACAGAATGAAAAGTA
GTCAAAAAAGAAGATGATAATACCCATATCAGACAGTAGATACAGATTGACGATTGAAACGTCGA
AGAGGAACTACAGATTCAGATGGTGCAGAAGGAGCAGAGAGTTCTGAGTCATTACCTACTGGGGC
AGAAAGAAGGCGGTGGCACGAACGTTGCATTATTCGCTGGGCTTT
Found at i:114326 original size:7 final size:7
Alignment explanation
Indices: 114306--114335 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
114296 TGATGTGAAT
114306 AGAAGAA
1 AGAAGAA
114313 A-AAGAA
1 AGAAGAA
114319 AGAAGAA
1 AGAAGAA
114326 AGAAGAA
1 AGAAGAA
114333 AGA
1 AGA
114336 TAGGCGGACG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (7 bp):
AGAAGAA
Left flanking sequence: Indices 113806 -- 114305
CAAGGCTAAACTCGCCGGTTGAAGAGAGCACTGAATCATTCGAAAGGGGAAGCCTCGACTGGAAT
CCCTGCTATAAAGGGCAGCGGAGGAATACCTACAGATTGCTCGCCTTAACCTTAAGATTGCTAGA
AAATATCTAATGCAGGAGAATAACTAACAATTTATGTGGAATACTATTGCATTTCGGGGGTAACG
ACTTTCAAACTTGCCTATAGGATCGCTTGACCTAGAACCTGTTTACACTGGTCCTGCTATGAGGA
ACGGACTTTATCGAGCAAAAAAAGCGATTCTATGCGCAGACGTGAAAGCTCTATTGATAGGAAAC
ATTCTAGCCAATTTTAGAGGAACGATTCCCTTGTCTGAGAACCGCCATTCCCGCACTATTCCTCC
CCACATTGAGAATCTCGATAACTCCAAATTAAGAAGTGAGCGAATCCCAAAGCTCTCTTCTTTCC
CCCTTTTCACCTTTAATTGGTGAAAGTATAAAATCTGATGTGAAT
Right flanking sequence: Indices 114336 -- 114835
TAGGCGGACGACTTTACTTTACTATAGTAATAGTATAGGTCGAAAAAAACCGTGAGCAGTAAGCA
GCGGATCTCCCCTTCTTTTGGGAAAGCAGGTGGCCGCGTGTGAATTCTTTCAAGGCAAGGGGCGG
CCTGATTTCGACATTGTTGTTTCACTCTGATCCGGTCGAGGTGGTTTTCGTTTACCAGCGCGTAG
GTGGTCTAAGTTCCTATGACCGAGTCTTTCTGGCCCCTGTGAACATCTTTTCTTAATGTATTAAA
GAGGGCCTCTCTAACCGGTGAAAAGTAGTGGGTGTCCACTAACGGCCGTTCCAGGCTCGGCTCCG
ATAACGAAATTCCGGGAGGAGTCGGTAGTTGGGCACTGGATCCCTTCGGACCTGGAGAACGTGTG
ACGCTGGGTCGGGGTTTGGTGAACCAACTGGTCGCTCCTCTAGTTGAAGTATCGGGCCCCTTTTC
GTTGCCTAGGTTACACCTTCGGAATACCCCAGAAGGGAATTGATC
Found at i:119727 original size:15 final size:15
Alignment explanation
Indices: 119707--119736 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
119697 AGGACCTTTG
119707 GATGCCAGTTTTCTA
1 GATGCCAGTTTTCTA
119722 GATGCCAGTTTTCTA
1 GATGCCAGTTTTCTA
119737 TAAGAAGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (15 bp):
GATGCCAGTTTTCTA
Left flanking sequence: Indices 119207 -- 119706
CTGGGATTCCTTAACCAACTACCAATTAAAAGAGTAAAACACTTCCTTGGGATAAACTGATTCAA
ACAGATAGGCAGATTGAAATGGAACTTTCTACAAACAAAAACTCCTTACCTTACTTGGCTTACCT
CTCCCATTCCTCTAATCCCTAACCAAAACAAACCTAATCTCATCACCTCATTGCTAATATTGCTG
GGATTCCCTCCTAACCAACTAATCTCCTTACCTCCTATTCCTGGGATTACTGGGATTACTGGTTC
TCCCATTCCTAACATTCCTAGGAATTCGCAAGACACCATAGGCAACATGGGAATCCTTGATCTAC
TTGTTTCTCAGATTCCCTTTGAGGTTAGGAGAGTGAGTCGATTCGACGAGGCTAGCTTGTAGGTT
AGCCTTTAGTTTCCGTCAAAGAATTGGATTTTCATACTTCCTTCCCCTTTGGTCGATTCAAGTGG
ACTTTATCCTAGATTTGTCGATTTCTCCCTGGTTGAGGACCTTTG
Right flanking sequence: Indices 119737 -- 120236
TAAGAAGGGTCAGCCTTAAAGGAAAAAAACCAATCCCAAGGTAAGGTCTAAACTGATCTAATCGG
TAAAGCCGGAAAAAGAGTTGAGTTTAACGGCGAGAAGCTCCTTTCAAAGGAAGGAGTGACAGAAA
AGGTCGGGACAGTGGCTGCTACCGCATTGACTTCGGAAGATTTGGATGTGTTAAGGCTAACCTCC
CAAAACTCACTAAATTTACGTTGCTTCACAAGGTAATTCCTATTTGCTTACTTGTTAGAGTAAGG
AAAGGAGAAGAGCTTCAAGGTAGAACCTATGAACGTAGATCGCATATAATGTGTCGATCTCATCA
CCTTACCAACCAGGGCCTATGTATACGAAACTGGTGCACCATCTGCAATCGCTATATATACCTGA
CCTAGCTTCTCGTGTATCACCCTTTCTTTCTTCCTTTCCTAACTATCACTGACCGCGGGGGAAAT
GCTGACAGAATGCCAATACTTGTTCGATCGAAATTCTAACAGTTG
Found at i:121707 original size:29 final size:29
Alignment explanation
Indices: 121672--121738 Score: 134
Period size: 29 Copynumber: 2.3 Consensus size: 29
121662 TTTAGAAAGC
121672 AGGAGAGGTGCTTTAGCAACTCGACTGAA
1 AGGAGAGGTGCTTTAGCAACTCGACTGAA
121701 AGGAGAGGTGCTTTAGCAACTCGACTGAA
1 AGGAGAGGTGCTTTAGCAACTCGACTGAA
121730 AGGAGAGGT
1 AGGAGAGGT
121739 TGTGAACACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.31, C:0.15, G:0.34, T:0.19
Consensus pattern (29 bp):
AGGAGAGGTGCTTTAGCAACTCGACTGAA
Left flanking sequence: Indices 121172 -- 121671
CAGAGTTGGTGCTTTTGCGGCATCTAGTTCAGTATCAGAGGCGCTGCGCTGCCCTTGGCTAAGAA
GGTTTACTTCTCTGTCACTTCCGTACTTCTGTAACTTCTCTTTAGCTTATTAATGGAATTGGTTA
GAAAGTCTTTCCGGCTAGAAGAGAGGGATTAGTACACCTCCAACACTGACTTCTTAGTCGAGTAG
TTCTCTTTCTCCTGGGCTGAGACGTGACCTCTTCTCCTCGTTTTCATTGGGAGGGAAGATATAGA
TACAAAGGTAAGCACGAACGGAAGTATTCGAAAGAGCTATTTAGCTGAAAACTCTATAGCTAAAT
TACTCTATCATAGAAGCCATTACTGACTGAATCTGGGAGGGCAAAAGGCTTAGTAATAGTAAGCT
TCTCAACCCTGGTAAGGGTTTACTTCGTCCCAGGCCAGGTCGTTGCTCGTTGCACGGTAGGCGGC
TTTGAGGAAAGGTATGAAGTCACTCGCCCTTTAGCTTTAGAAAGC
Right flanking sequence: Indices 121739 -- 122238
TGTGAACACAAACTCGACCACTTGTTGGGAGAGGTTGTGAACACAAACTCGACTGAAAGGAGAGG
TCCAAGGTAATTTATTACTCTTATAAAAGAGGGAACTCGACTGAAAGGAGAGGGAGAGGGATTTG
ACTTTTTCTGTCAGGCCAATTTCTTTCTAGTGGTAAGTGCTTTCAGCCAGTTCTAGTCCTTTTCT
TATACGCTTATTGGCGTTAGCACATTCCTCTTTCTTATTGGATGGAGTTGTTTTGCCACCTGGAG
TTTTAATGGAAGTTTGAGTGCGTCCTAAAAGCCAATGCTTCTGCCTTTTGGAAGTGTCTGCCTAT
ATCTGTCCTCCCCATTTAATCAGTCTCTGTCCTTACCTTCGACGGTAACCCCTTTACAGTACAGC
AGTCCCGTTTCCGGCAGTGCCTTCCCCCCCCTAGTCTAGACCGAGTATCAATAGTTGTAGTTCCT
GTCCGTTATGGACCCTTCGTATCTTTCAAATCCAATCAATGTGTG
Found at i:131973 original size:5 final size:5
Alignment explanation
Indices: 131936--131970 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
131926 CCTGGTCATT
* *
131936 CTATA CTATT CTATA CTATA CTATA CTATA GTATA
1 CTATA CTATA CTATA CTATA CTATA CTATA CTATA
131971 GTAGTAATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.37, C:0.17, G:0.03, T:0.43
Consensus pattern (5 bp):
CTATA
Left flanking sequence: Indices 131436 -- 131935
GCACTGCTAGTGCTTTTGTGGATTAACCTACTTCCCAGGGCCGGCGGTCAGAGAAGAAAAGATCT
CTATGAAAGCAGGAGACGGGAAATAGGCTCGCTCGATTCGATGGTTTAGAGTCCCGTATCATATG
GCATGCTTTCCTTAGAATCCATAGACAAAGGGCGTACGGTACCCTACGAAATCGGCAGATGATTG
CTTTGATTGGCCTGCTGTATCAGTTTATTCGACTACTTCCTCCATACCGTAGTGGACTTCCTTCC
TAGATAGATGTAGGAGCAGCGGAAAGGGCTGCTTTAGAAGCTTCAATAGTTCCCTCATCAACGGA
TGGTTTAGCCGCCAGGTGATAGGGATGTCAAATAGAAGGCAAGCAGGCGTAGAAGGCCACGTTCG
ATAGCTGAAAAGTCAAGCTGCGGTAGAGGGTGTAAACTAAATAGTTACAGCTGGGCTTGGCAATT
ATCTAGCCGAAGTGGAAGGTTAAACGGGATCAAATCCTGGTCATT
Right flanking sequence: Indices 131971 -- 132470
GTAGTAATAGCTGTGAATTCCACTTCTGAGTTAGAGTTCAATCCTTTCCATCTGAAAGTACGTAC
TTCTTATAGCTTGAGAAGAGGAAGGATGCATTCGTCAGCATAGGAAGGCCCAATCAAATACCCCA
TCATAGTATAAGTTTTCCCTCTTGATTGACTTGAACAAAAGGAAAGAAAGATGCACAAACGAAAC
AGGAAACTACGAAGGTCTCAGGAGCAATATCAACTACCTAGACCGACCTGCTATAAGAATTCCAT
AAAGACCTTGCGAAGATACTGTACTGAATGACTGGATCGTACTAGATAGATAGTCTCAGATAGAC
TTGAATACGCAATTCCTGCCAATCTCGCACTTGACACGCAATAAACAGCAGTCTATCTTCACAGA
GAAGGATGGCAAGGGGTGAAAGGCTTAGACCTTATCTGCTCTAGGCTAGTTTCATTCTATTCTTG
TTCAGCATATTGAGTTTCAAAAGAGAGAGGTCCGGAGGCATTAAT
Found at i:136273 original size:18 final size:18
Alignment explanation
Indices: 136233--136275 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
136223 ACCGCCCTGC
*
136233 CATAGTCGCGAGTCTGTT
1 CATAGTCGCGACTCTGTT
*
136251 TATAGTCGCGACTCT-TGT
1 CATAGTCGCGACTCTGT-T
136269 CATAGTC
1 CATAGTC
136276 AAGAAGGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (18 bp):
CATAGTCGCGACTCTGTT
Left flanking sequence: Indices 135733 -- 136232
CTTTTTCAAGTGTCAGTAGCGGAACGTTCTGTCAATCGGGGAAGGTTTTTGGTGACAAGACCTGG
AGATATCAGAAGTGAGAATGCTGACATGAGTAACGATAAATCCTGTGAAAAACACGATCGCCTGC
CAGTGGAAGGCTTTCTGCGTTCAGTCAATCTACGCAGAGTGAATCGGTCCCTAAGGAACCCCCGA
AAGGGCTGCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAAAACCATGCCTCT
CTCTTGGAGCGAATTGGATGATCGGGCCGAGGGCAGCGTAGCGCCTCTTCCCCTCACTCTCCTTT
CCCTAATATGAACCTTGAGTCATCAAAGCCTTTCTGACTCGGCCTGGCCCGGTCGCCCTACGCTA
CTGGCGCTTCAAAAGGCGAAAGTCTCGTCGTAGTTTGGCGACCTTCAGTAGGGGCCTTTAGTCTT
TTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGTACCGCCCTGC
Right flanking sequence: Indices 136276 -- 136775
AAGAAGGTTGAAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAAGTCAAAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGTCGC
ATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTA
Found at i:163871 original size:36 final size:36
Alignment explanation
Indices: 163822--163896 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
163812 GGTAGTCGTT
*
163822 CTTGGTTAGGTAGATGTGAGGAAAGAAAGAGCAGTG
1 CTTGGTTAAGTAGATGTGAGGAAAGAAAGAGCAGTG
163858 CTTGGTTAAGTAGATGTGAGGAAAGAAAGAGCAGTG
1 CTTGGTTAAGTAGATGTGAGGAAAGAAAGAGCAGTG
163894 CTT
1 CTT
163897 TCTTAATAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.33, C:0.07, G:0.36, T:0.24
Consensus pattern (36 bp):
CTTGGTTAAGTAGATGTGAGGAAAGAAAGAGCAGTG
Left flanking sequence: Indices 163322 -- 163821
CTATAGCATACATGGAGCCAGCAGGGAGAGCCTTCTTGAATAGCAAAAGCCTTAAGCTTCAGACT
AGTTCTAACCCCGATCCTTCTTCGGCGGATCTGTCCTTGCCTCTTTCCTGATACAAAAACTTGCT
TTTCATTTTATATAGATGCAAAAGTAAGAAAAAAGGAAAGATGAAATAGGTCTTCCAGGACTGCT
TGTACCGCTGTCTATACAAAGCGAGGACTCTCCGTCAATGAAGAGCAGGATCTGACCAGAGCGAT
TACACCCAATCTCTTGATCTATACCTTCAAAGTAGTCAGTAGTCATTCTTCCTTAACCAGTTGCG
AGTATTAGTGGGGCGTTGAGACGCATTAGTAGCGCATCTTCTCTTTCAGCTGTGTGAGACTGAGT
CCTCCTACGGCAGCAAAGGTAGCAGCAACTTACTATTCACTCCGGCCAAATCAGGTTCATTTCGG
TAGCAGGCTTGCAGACCTTTCTGAACTTAGTTAAGGGTAGTCGTT
Right flanking sequence: Indices 163897 -- 164396
TCTTAATAGTCGTGGGAGTCCGGGTCTAAGGATCCCAGCTTTAAGTCAATAAGGGCACTTGCCTG
TGAGGAAAATCCCAGATCTTCCCTTTTGAAGAATTTCAGAAATTGATCAATAAAGTAATAAAATT
TCATATCTTTCTATATATAATATAATTTTAAAAGGCTGCCATTGTCTTATTTCTTGTCTTGGATT
CACTCTTTCGTTCAAGCACATTTTTAAAAGTTCTCTTAGGTTCTTAGCTGCCCTCTCTTTATGCA
CTTAGTTACGAAAGTAGTGAAATGGAGAAAAGAAGAGTTGAAAGACAACTAAAAGGGAGATGAGG
TTCAGTCACATCTTTTGGTTCGATGCTTTGAATCCTTACTATCGTCCCGGTTTCCTAACGGAAAT
CTCGGACGTGGTAAAGGAGCCTCTCGCTAATCAATAATATAATGCGATCCCTTCTTTCTTCCATC
TTCCATTCTCTTCAGCTGAATGAATGGAGGCATGGCAGACTCGTT
Found at i:177878 original size:30 final size:29
Alignment explanation
Indices: 177805--177883 Score: 140
Period size: 29 Copynumber: 2.7 Consensus size: 29
177795 TACTGACGTA
177805 ACTCGACTAAAAGGAGAGGAACCCTAATG
1 ACTCGACTAAAAGGAGAGGAACCCTAATG
*
177834 ACTCGACTAAAAGGAGAGGAACCCTAGTG
1 ACTCGACTAAAAGGAGAGGAACCCTAATG
177863 ACTCGACTGAAAAGGAGAGGA
1 ACTCGACT-AAAAGGAGAGGA
177884 TAGGAGCGCT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 36 0.75
30 12 0.25
ACGTcount: A:0.41, C:0.19, G:0.28, T:0.13
Consensus pattern (29 bp):
ACTCGACTAAAAGGAGAGGAACCCTAATG
Left flanking sequence: Indices 177305 -- 177804
GTCTATCGATGAACAGCGAATTGACGGAGCTCTTGGCATTGCTTTGTTTTTCTCTCCTTTCCTAT
CAGCGAGTTCCGATCCTTTTGTTCGAAATTTCTTTGTTTGTACCGAACCGCTTGCAGAATCAAAT
CCTGTTCCACAAGATCCTATATCAGCTATACATCCTCCTTGCATTTATGCCGGGGACGTCGCCAG
TGCGGAGGGCTTTGGCTTATGTAGATCAAAAATGATGAATGGGATTGTGGCACTCCACTCGCCGC
CAATGCGGAAGGATGCCGCCGAAAAGAATGGAACGCTGCTTCGCTCTGCTGGATGCGTCGGATCC
CGTATAACAAGCGAGCTTTTTACCCTCAAATTCAAACATGTGGGCGCAAAATGCTATCCTGCTCT
ATTGTTACGTAGCAATAGAAGCCCGCTCATGCTGCTTCGGCGGCGCTTTTTCGCCTTCTCTTCGT
TCTGGACAGGAGCGAGAAGCCACTCGACTAAAAGGTACTGACGTA
Right flanking sequence: Indices 177884 -- 178383
TAGGAGCGCTAGTGGACACGGGGAGGGAAAGAAGACTGGAACCGTGCATCTTTGCTTAGCATGGT
TCGACAAAAGAAAGAGGTGGAAAATGGACCGAGAAAATAATGCTTTGTGAACCCAATTGCTTTGA
CAAAAATATATGAAGAATCAGTGCTATTGAGGAACATTTTATAGAAAGAAAAGAAAAAGAAGCAA
TAGTAAAGAGAGAAGAAAGCAAGACTTAGAAAGAAGACAGTAAGTAAGAGAACTACGATTTACTT
GATTCCCAAAGGGGTACGTAGGCAGCCAAGGACGAATCCTGATCCAGTTCTTTGCTAGTAAGTGA
GGAAAATATATCAAACTTTTTTTGAAAAAAGTTCGTAGTTAATCTACCTCGGACGTACCCATGGC
GTGTGGGGTTCGCGTGGGGAACCGAGTAACCAAAGTCACGATCAGTCTAAGGTTGAAATCTGGAT
GGTCTTTTTGCCAGACGCGCTGGTTCGAGTCCAGCTCGTGACAAA
Found at i:182304 original size:50 final size:50
Alignment explanation
Indices: 182239--182346 Score: 207
Period size: 50 Copynumber: 2.2 Consensus size: 50
182229 GTCAAGCTTT
*
182239 AGAGCAGCTCTTTCAATTGACGACTAATCTCCCAACATGCTCAAGAACCG
1 AGAGCCGCTCTTTCAATTGACGACTAATCTCCCAACATGCTCAAGAACCG
182289 AGAGCCGCTCTTTCAATTGACGACTAATCTCCCAACATGCTCAAGAACCG
1 AGAGCCGCTCTTTCAATTGACGACTAATCTCCCAACATGCTCAAGAACCG
182339 AGAGCCGC
1 AGAGCCGC
182347 CCAGGGACTG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (50 bp):
AGAGCCGCTCTTTCAATTGACGACTAATCTCCCAACATGCTCAAGAACCG
Left flanking sequence: Indices 181739 -- 182238
ACAACTGGATTCTGTACGTTTCTCGGATGCAATATTATCTCCTGGTCCGCAAAACGCCAGCCCAC
AGTGTCTCGTTCTTCTACGGAAACGGAATATCGAGCCCTTGCACTAACGGCTGCGGAGCTCACTT
GGTCATCTGCTTCGAGATCTCGGGATCCCTCAGCAATGAACACTAACTGAAAGCGGCCGAGAATG
AGTACCTATCCCTTACGGGAATCGAACCCGTGTCTTCGACATGAAAAGACGATGTCCTAACCACT
GGACGAAAGGGACCAAAAGGCCATTCTTCATATACCTCAGCTCCGAGAATAGAAGTGGTTGTGGA
TTCGAACCACTGACACAAGGATTTACAGTCCTTTGCTCTAACCAGCTGAGCTGAACCACTTTTCC
AAAAGTCTCTTCTTTTCTTCATCGAAGAGCGCCCTACCTTACCACTTGACTAGTAAGGGAAAAGC
CCTTTACTAATCTAATTAATAGGGAAAACTTCTTCGTCAAGCTTT
Right flanking sequence: Indices 182347 -- 182846
CCAGGGACTGGACGGCCATAGGGAGCTTACTTATAGATAGAAAGAAGATAGGCCGGTCAAACAAA
AAAACGCGCAACGGGCTCCCCGCTCCTAGTCACTAAGTAGTGCTCTTCTCATTTCGCCCGCCCGT
TTCACTTCCGCGCCGGAGGAAATGGGATTCGAACCCATGATACAATCTTCTTGTATGTCGATTTA
GCAAACCAATGCCTTAAGCCACTCAGCCATCCCTCCAAGTTGTTGATCGGAATTTTTTGTGCGGT
TGGTTGCCCGAAGGGCTATCTGACCCGATCAACTTCGTAAGCCGTAGCGCGCTAGCGCGCGTACT
CTTCCTCTATCTATGAGCGAGACAGGCGTTCATCATCCAGAAAGATGCACTGACGTCGTCCCATT
GAATGAAGATCTGGGCGAAGTCCGTTGGAATTAGCCTTGATAAAAGGTAGCTTTTTATTTGACCC
TTTCCCTTTTTTTGAGAGCAAGCGCCTAAAGGAAGGAAAATAAGA
Found at i:187351 original size:12 final size:11
Alignment explanation
Indices: 187334--187377 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
187324 AAGACCACCT
187334 TACCAAGCGCCC
1 TACCAAGC-CCC
*
187346 TACCAAGCACCT
1 TACCAAGC-CCC
187358 TACCAAGCCCC
1 TACCAAGCCCC
187369 TTACCAAGC
1 -TACCAAGC
187378 TCAAGGGAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 2 0.07
12 26 0.93
ACGTcount: A:0.30, C:0.45, G:0.11, T:0.14
Consensus pattern (11 bp):
TACCAAGCCCC
Left flanking sequence: Indices 186834 -- 187333
CGATCGGAACTATCTTCTATACGACGAAGGAAGGGTGCGATTGAGTCCGCTGAACTTGGGCGAGA
GATGTGACTTCGTTCCTCTCCTTTCAGTCGAGTTATTTAAACCTCTCCAGAGCTCTGGTGTCTAC
GAGAAGCTTCATGAGTCAAACAATTGAGGAAGCCGATACTTATACTTTGGTAGAGAATCTCGCAC
AAAGCAATGGGAGTCATGGCTCGGATTATGATCGGACTACAAGGAAAAACAATGATGAATCTCAT
CATGCCATCCAAGAGCTGAATGCAAAAATGGATAAGATATTGAAGCGTGACCAAAAGAAAAGATG
ACGGTAAACTCTTGTGAAGAGTATGGTGGATATCAAGGGTACCAAGACTTTGGTGTTGAAGGGTA
TGAGGAGCCACAAGAAGAGTTGAACTATGTTGGAGGTCAAGGATTCCAACCAAGGCCTTTCAACC
AAGGGTTCCAAGCTAGAGGGGCTACTGCTCCAACAAAGACCACCT
Right flanking sequence: Indices 187378 -- 187877
TCAAGGGAGTTCTTCTTCTGCTCCAACTGCACCAGATAGTGAGGTGAAGCTAATGTTGCAACAAT
TCCTTGAAGGACAAAAGAAAAGTACCATTGAGATGAACACAAAGGTGGACAACATGTACAATGAT
CTTAATGGGAAGTTTGAAACTTTGGCCTCTCATGTCAAATCTCTTGACAACCAAGTTGCTCAAAC
CGCCTCTTCATCAAAGAGACCCATGGGAACACTACCCGGTAAACCGGAAGCAAACCCAAGGGAAC
ATTTTACATAATGCTTAGAAGTGGAAAAGAGCTTGAGGAAGTTGTGAGAGATGATAAGGAAGAGG
AGCAAGTTGTTGTGAGAAAGGCTAAACAGATCGTCAACTTTCCCTTGCTTGGCATGCTCTCATCA
GCAAGGTATGGCTTAAGGCGCTGGCCATTCACCGTGAAGTGTTCACCATTGACATCCCAAAGCAC
TACCGCTCCATACGGTTTCACTTCCTTTATGCGAAAGGGTAAAAA
Found at i:187361 original size:24 final size:24
Alignment explanation
Indices: 187329--187377 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
187319 CAACAAAGAC
187329 CACCTTACCAAGCGCCC-TACCAAG
1 CACCTTACCAAGC-CCCTTACCAAG
187353 CACCTTACCAAGCCCCTTACCAAG
1 CACCTTACCAAGCCCCTTACCAAG
187377 C
1 C
187378 TCAAGGGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.29, C:0.47, G:0.10, T:0.14
Consensus pattern (24 bp):
CACCTTACCAAGCCCCTTACCAAG
Left flanking sequence: Indices 186829 -- 187328
CTCAACGATCGGAACTATCTTCTATACGACGAAGGAAGGGTGCGATTGAGTCCGCTGAACTTGGG
CGAGAGATGTGACTTCGTTCCTCTCCTTTCAGTCGAGTTATTTAAACCTCTCCAGAGCTCTGGTG
TCTACGAGAAGCTTCATGAGTCAAACAATTGAGGAAGCCGATACTTATACTTTGGTAGAGAATCT
CGCACAAAGCAATGGGAGTCATGGCTCGGATTATGATCGGACTACAAGGAAAAACAATGATGAAT
CTCATCATGCCATCCAAGAGCTGAATGCAAAAATGGATAAGATATTGAAGCGTGACCAAAAGAAA
AGATGACGGTAAACTCTTGTGAAGAGTATGGTGGATATCAAGGGTACCAAGACTTTGGTGTTGAA
GGGTATGAGGAGCCACAAGAAGAGTTGAACTATGTTGGAGGTCAAGGATTCCAACCAAGGCCTTT
CAACCAAGGGTTCCAAGCTAGAGGGGCTACTGCTCCAACAAAGAC
Right flanking sequence: Indices 187378 -- 187877
TCAAGGGAGTTCTTCTTCTGCTCCAACTGCACCAGATAGTGAGGTGAAGCTAATGTTGCAACAAT
TCCTTGAAGGACAAAAGAAAAGTACCATTGAGATGAACACAAAGGTGGACAACATGTACAATGAT
CTTAATGGGAAGTTTGAAACTTTGGCCTCTCATGTCAAATCTCTTGACAACCAAGTTGCTCAAAC
CGCCTCTTCATCAAAGAGACCCATGGGAACACTACCCGGTAAACCGGAAGCAAACCCAAGGGAAC
ATTTTACATAATGCTTAGAAGTGGAAAAGAGCTTGAGGAAGTTGTGAGAGATGATAAGGAAGAGG
AGCAAGTTGTTGTGAGAAAGGCTAAACAGATCGTCAACTTTCCCTTGCTTGGCATGCTCTCATCA
GCAAGGTATGGCTTAAGGCGCTGGCCATTCACCGTGAAGTGTTCACCATTGACATCCCAAAGCAC
TACCGCTCCATACGGTTTCACTTCCTTTATGCGAAAGGGTAAAAA
Found at i:198632 original size:28 final size:29
Alignment explanation
Indices: 198600--198676 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 29
198590 GGTCCAAGGG
198600 AACTCGACTGAAAGGAGAGGTAC-GGAGT
1 AACTCGACTGAAAGGAGAGGTACTGGAGT
* ***** **
198628 GACTCGACCCTTGGGAGAGGTACTTTAGT
1 AACTCGACTGAAAGGAGAGGTACTGGAGT
198657 AACTCGACTGAAAGGAGAGG
1 AACTCGACTGAAAGGAGAGG
198677 AAGCAGCCGA
Statistics
Matches: 34, Mismatches: 14, Indels: 1
0.69 0.29 0.02
Matches are distributed among these distances:
28 17 0.50
29 17 0.50
ACGTcount: A:0.31, C:0.17, G:0.34, T:0.18
Consensus pattern (29 bp):
AACTCGACTGAAAGGAGAGGTACTGGAGT
Left flanking sequence: Indices 198100 -- 198599
CGAAAAGCAAAGGCGAAGGTGACTTTACATCTCAGTCGAAAGCGGTTAATCCGGATCCATTTCAT
AAGTGGACTGGGGAATCTCAATCTCAAAGGTCTTCGCTCGGTTCCATAGTTCAATCTAAAGCCTG
TGAGGCTGGAAACTTCTACAACAATATTACATATTCCCATCACCAGTAAACGATACAGTAAACCT
TTAAATAGGTTCACTCTCGTCCATGCTCAAGGGCTAAAGCCAGCCGTCCTTCTGAAAGGTCCTCT
TCTACGGCTCAAGGTTCAAGCTAAATCAAGTTCCTTTTCTCACTTAAGCGGATACTCCAAGTAAA
ATCAATGCTTTAAGGAAAGACTTCCCAGCGCAGTCAAGCAAGATAGGATTCTCAACAGGATAAGT
TCCGTGGACAAGGCGAGCTAGCAGCGGTGCTTTCCTTCCGTGCCGTAGGTCAATGAAATTCTCTT
TTTCAGCACGAGAAGTCTCAAATGCTTTCAGAAGAGGTCCAAGGG
Right flanking sequence: Indices 198677 -- 199176
AAGCAGCCGATCCTAGCATGGAATAATGGTAAGAAAGGCCGGGAAGGATTTGATCTTTTTCCGGT
CATGCTTCACTTCAAAGTGGAACAAAACAGATTGGTTCTAGTTTCTATGAGTAGACAGGAGAAGC
ACCGCTCAAAATAGCTTTCGCGAAAGCCGGTCATTTTGACCTTGTTTTCCGAAGGTAGCAGAAAT
CTTCCTTTTTTCAAAAAGTAGACGGGTATTGAATTGTTCTTAGCTTGGCGCGCTTGCTTCCCTCT
AAAGAAGCACAACCATAACGCTTTGAAGTCTTAAGTGAATCACTCAATTCTTTCCGTACCGCCCT
CTCTCGAAGCAGTATTTCCCTCAGCAGCATATCCTGTTTATTCCGAACTAACATATCTTTTTTAT
CCCCTTTTATCCCGCGGATTCCGCTTTTCCCCTCAAATTTGAGCTAGGTCAGTCATAGGATTATT
TCCAGTCTAGTCTAGAATCAACACCAAACCTTCATTACATTACAA
Found at i:200749 original size:19 final size:19
Alignment explanation
Indices: 200696--200749 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
200686 TCTACACCTA
*
200696 CTTTCTACCCCTTCTGTCT
1 CTTTCTACCCCTTCTTTCT
*
200715 C-GTC-ACACCCTTCTTTCT
1 CTTTCTAC-CCCTTCTTTCT
*
200733 CTTTCTACCCCTACTTT
1 CTTTCTACCCCTTCTTT
200750 GATCTTCTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
17 2 0.07
18 13 0.46
19 11 0.39
20 2 0.07
ACGTcount: A:0.09, C:0.43, G:0.04, T:0.44
Consensus pattern (19 bp):
CTTTCTACCCCTTCTTTCT
Left flanking sequence: Indices 200196 -- 200695
CTAAAGTCATCCTTTCCTGTCAGTAGCCGGGTAGCGAAAAGACCTTAGGAGGGAGCGAAAAGCAC
AACTACAAGGGTTTGGTGAATCTCTCTTCCCCAGAGTTGGTATTCTATGTCAGGTCTCAAGTCAA
GAAGTGAATCGATCTATAGAGACAGTGGCAAGTCAAAATAGAACCTCAACTCTTTTTCGGACTTT
CCGCAGCTGGAAGGAACTAGTCTTTGAAATTAGCAAGAGGATCTAGGCACAAGGGCAGTCAGTGA
GGGTGGTTGGAAATCAGCGACAAGCCAGTCTTCTATCACTAGTCAGCTGACCTTAGGAGCGATCG
ATCTCATGGCCAAGCCAGTACCAAAGCTCAAATCCGGACTGAGTGTGAGTGTCGCAACATCGTTG
TTTAGACTGAATTCAGTACAGTAATAGGCAGGTCATTCTTTTAGATTTATGGTATAGCGTAGCTA
GTGAGTGAAGCATCAGTTAATATCTTCTTTCTCTTTCTACACCTA
Right flanking sequence: Indices 200750 -- 201249
GATCTTCTGGAGACAAGTACGGGAAGGTTCTGTTAGTGAGCAATAGCTAGGTGAAAGCGGTTTAC
TCGTGTACTAGCACTAGCGCGTACTTTGCTCTGTGTTAGGTCAGGGAAGAGAATTGCATATCCCA
TAGCCGATCGAGGCGGTAAGAAAACTCGAGATCCTACAGATCTAATGGAAGGGAAGCCTTAACCG
ATAACTTCAATGAACTTCGGTAGGAGCATATCCTTTCTTTGATTAACCGATGGAATAGAATGTTC
CTTTTTTTGTACCGGACATACGCGTCCCTATAGGTAAAAGAGCTACAGGAAGGTAATACCTTACT
TAAGACCCATTGCCGCTAGGCGAAGAAGAGGTACTTTAGTAACTCGACTGAAAGGAGAGGCCGGC
ACTAGAAGGATCGGCAGAATAAATAGCTACAGCTACATTCGAGGATCAAGCGACTGTGCCCCTGA
ACTCCACAAAGGAAGCCTTTCCTTCTTTATATACGCTAATGGAAG
Found at i:214904 original size:19 final size:19
Alignment explanation
Indices: 214880--214917 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
214870 TGTTAGTGAT
214880 GTTCTTCTTGTTCCTACTA
1 GTTCTTCTTGTTCCTACTA
214899 GTTCTTCTTGTTCCTACTA
1 GTTCTTCTTGTTCCTACTA
214918 AAAAAAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.11, T:0.53
Consensus pattern (19 bp):
GTTCTTCTTGTTCCTACTA
Left flanking sequence: Indices 214380 -- 214879
GGGAAGCTGACTACACCTTACCCCTTGACTTCGATTTCCGCAGTGCTCTATGAGACGACTGCGAG
CACATACCTATGGATCTATGTCAACCAAAAGCAACCACTCCAGCAAGTCTACCAACCAGCACAGA
TCCTCCCAAGCAACTTCCAACTGCGCCAACTAGAAAACTTATCCGCTTGTCAATTCTTTCTTATC
TTACGATATTTCTAATTACCTAAAAAAATAATAAATACTGTAGTTAGAGCTAAAGCTCGACTTCC
TTCTTCTTTTGGATCTGCTTTGCCTTGCTTTGCTACCGGGCTTCTAGCTGCCCTTCCTCCACCGT
TAGCTCAGTAGAGCATTTTCTCCTCCACTCATGTCACGGATTCAGTTCAAAAATGACAACAGTCT
CTAGTTTACAATGGCTCAGAAGTATGGTTGGAGATGGTGCTTATCTTCCTATTTCTCATGTCGGT
TCAACAACTCTTGCTACCACAGAAGGTAGAATACCTGTTAGTGAT
Right flanking sequence: Indices 214918 -- 215417
AAAAAAGAATCCTTGCTCTCAGTCTCTCAATTTCCCCCTTGGTCCTAAACCATGCTCAGTCCTTG
ATTGTCAGCTGCTAGAACAAGCACCAGACACCTTTCAAGAAAGAGCAAGGGCGGCCGGGAAAGAG
AAATCGGATTAGCCTTTCATCGATCCCCGAAGAGAAACATTTTGTTGTTGAATCTGTGAGAAAAG
CATAAGGATAGGTGAGGATAGATTCTGTAGATTCACTTTATCGAACGAATGAGAAGCTTAGCAAT
TCATCTCGGTTAAAGGATTCTACGGCGAGGGTTTAAGCGCATAAACTGCTTGGAGAAGGACTTCT
GACAAGGCGGCTATCTTGATAGAAGCAATTCTCTTTTGAAACACTTTCATAGAAGTCTTCTTACA
AAGCAAATAGCATTTCCTATTGATTTGTCCCCTGGACTGGTGGACCTATTCTGATTCTGAATTAT
CCGTCGCTACGCTGTTCCCAAGGACTAGCAAAATCGAAATAGCGA
Found at i:228563 original size:35 final size:35
Alignment explanation
Indices: 228522--228598 Score: 145
Period size: 35 Copynumber: 2.2 Consensus size: 35
228512 TCTCCTTTCA
228522 GTCGAGTTTGTGTTCACAACCTCTCCCAACAAGTG
1 GTCGAGTTTGTGTTCACAACCTCTCCCAACAAGTG
228557 GTCGAGTTTGTGTTCACAACCTCTCCCAACAAGTG
1 GTCGAGTTTGTGTTCACAACCTCTCCCAACAAGTG
*
228592 CTCGAGT
1 GTCGAGT
228599 GACTTCGCCC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (35 bp):
GTCGAGTTTGTGTTCACAACCTCTCCCAACAAGTG
Left flanking sequence: Indices 228022 -- 228521
GTAAGGGCATTGAGACCATAGCATGTTACACGAGGAAAAAAAACCCTTGTAGTGTTGTCACACAG
CTGCCCGCCTAGAAGAGCCACTCGCTCTGTAGTGTTGTCACACAAGATAAGCACGCCGCCCGCCT
GCTGGCCGGGCGAATCGAAGTTCTCTTCCGGTCAACTGTCCACCCAGTCAAGTGCAAAAAACACA
GTAGAATCACGCAACGCACGCTGCTGGTGTGCTTCCTGCCCGCGAGGAAAGAAAGAAGAGCGACA
AGGTTGAGTTCAGATTTGACTGTTTGCAGCATGGGAGCAGATTACCCAAAAAATCCCTGGGAACA
ATGAAAAAAAAAGATATCTCGGTAACAAAAACCATAGGGGGCTGTATTGGCGAGATCCAACGGTG
AACAGCTGCCCAAAATCAAAACCGCCTGGAAGTCCGAGGACCTTTAGTACCGTACCCCCAAACCA
GCAGCCTTCGCGCCAAGCAAGACCGCCCTTGTCCCTCTCCTTTCA
Right flanking sequence: Indices 228599 -- 229098
GACTTCGCCCCTCTCCTTTTCAGTCGAGTTGCTAAAGCACCTCTCGCAATAAGCTCGAGTTCCTC
TTTTATAAGAGTAATAAATACCTGCGGACCTTTCCTTTCTCCATTCCGCCTCATTCATTGTTTTA
TTCCGCAAAGCAAAAGTGGTTCGTATGCCTACTTTACCTACTTGACGAAAGGGAACGCACTTTGT
TGAGTTTCCGGGTTTTTTTATAGATTGGATTCAGTCAGCGTCACGACATAATCAAAAGGAAGGAG
TGAGGCTTTGGTTACTGGCGAACGCTTCCAAAGGCGACCTTCTCGAGTTTCCGGCTGTTTCCTAG
ATTGAAGTAGCCTTTCGTCGCCCTACCAAACGCAAGAAGTCACTATCAAACAGCTCGCCCTACTG
TGACAAAGGTGCGCTCCGCCCGGTGACTAAGAAAGAAATTGGTTTGCGCAACAATTGAAGTGATG
AGGTCGAGGGAAGTAGGGCTCCTATTGACTAAAGATTGGTTCTTC
Found at i:232590 original size:22 final size:22
Alignment explanation
Indices: 232562--232610 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
232552 CTCGCTACGC
232562 TCGAGATCTTTGAACCTTTCAG
1 TCGAGATCTTTGAACCTTTCAG
*
232584 TCGAGATCTTTGAACCTTTTAG
1 TCGAGATCTTTGAACCTTTCAG
232606 TCGAG
1 TCGAG
232611 TGCCTTTGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (22 bp):
TCGAGATCTTTGAACCTTTCAG
Left flanking sequence: Indices 232062 -- 232561
CCGAGCTAACCCCTGTCCAGTGCCTGGCAGAGCTAAGGGGGCTTCAATCCTTATTCCTTATCCCC
ATCTTCGCCCAGGCTAACGGGGCCTTACTTATTCAGGGGGGGAGCCTCGAGAAGCACTGTTGAGA
AGAAGATCCTAGGCCCCTCTTCATTCTCTACAGGGTTTCTTTCTTCAATATAGGTGACAACGAGC
GAGGCAGAGATGGAAGAGATCAAAGACGAGAATAAGAAGCCAGTAAACTTCCTTTTTGATCATTT
TGTTTGATAGAGGGGGATAGAAAAAATGGACAAAACTGACTCGCATTTCTCATCGAACAAATACG
AAAAAAGAATCATATTGAAAACTGAAACCTCACCTCTCCTCTCCTCTCGTTTCACTCTCGTTCCT
CTCCTTACAGTCGAGCTCCTTTGTTCCTATGGACCTCTCTAGACAAGTGCTCGAGTCATGACTTC
GCCCTCTCCTTTTCAGTCGAGTTGCTAAAGCACCTCTCGCTACGC
Right flanking sequence: Indices 232611 -- 233110
TGCCTTTGGCCCTCTCCCAAGGATAAGGTCTCATTAATTAGTTGATGAGGGGTCGAGTTACTGCG
TTCCTAACCCAACCCCTTCCTTCTCCGAGCTTTGTATTATAAGTGATCCGAACCTGCCCGGAGTG
AGCCTCCCATAGAGGCAAGTTGGTGAGCCGTATGATGGGCAACTATCTCCTGCGGTTTGGAGAGG
ACTCAGCTGTTAGTTAGTATCCCCTTGGTTTCGGGGTGGACCCTTTCACTCTATTTTATTATATA
CGCTTAGTGAAAAGAATGTTTTTTGATACACCTAGGACATGGATTCTATATGAACCAATGGATCG
TAATAAGTCGTTACTACTAGCAATGACTTCCTTTTTCATTACTTCATCCTTGCTATACCCCTCTC
CTTTGTTCTCAGTTACTCATCAAATGGCACTCAGTTCATATCTTTAAGTTCGATCATTGACAAGG
TTCAAAGAAAGGGTGGGCCGTCGGTTTGAATCCAATATTATGCAC
Found at i:239158 original size:22 final size:22
Alignment explanation
Indices: 239130--239178 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
239120 GTAAGACTTG
239130 ACTCTTTGTTCACTTTGTTCGA
1 ACTCTTTGTTCACTTTGTTCGA
239152 ACTCTTTGTTCACTTTGTTCGA
1 ACTCTTTGTTCACTTTGTTCGA
239174 ACTCT
1 ACTCT
239179 CTCTCCTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.14, C:0.24, G:0.12, T:0.49
Consensus pattern (22 bp):
ACTCTTTGTTCACTTTGTTCGA
Left flanking sequence: Indices 238630 -- 239129
TCATAAACCAGCTCCTCTCAGAACCCGGGGGAGAGACTCAAAGCTGTCTCTTGAAAAATCCTTCT
TCAATTGAAGTGAAAGACTCACAGGAAAAGAAGAAGTGGCTGTCTGACAACAGATGCGGATTCTT
TAAGAGATTGATTTGTTAGCGTAGCGAGTGGACTTTGCCCCTCCCTACCTAGCTAACAAACTTCC
TTTCCTTGGCTCGCTAACAATTGATACAGAGGGGTTCCTCCACATTCCCAGAAAGGCTCGAAGAC
ATAGGGAATGAAACCCCAACCACGGAATATAGTTATAGTCAAGTGGTAAGCAAAGAGATTTGAAA
ACGCGGCGATAGCCCCTGCTTCAGCTACACCTGCAAAGGGATCACTCAAGAAGTAAGCTGCGATT
AACCAGCTCACTTCCCTCGTTCGAATGGGGAGATAGATAAAAGAAACGAAACTCTATAAAATATC
ATAAGATAAGAAGATTCTCATTCCAGCTTAAATAAGTAAGACTTG
Right flanking sequence: Indices 239179 -- 239678
CTCTCCTTTATTTAGGGGAAATCGTATGTATCATCCATGGCGTATCTGGTGCTCTCGTATATAAG
AGAAGGGCAGCATTTATGAGTAATCGATCTCACAAACTCTCAATTTCATAAGAGAAGACGAAGAC
GGATCAAATTGAATAATCGAAGAGAGATGGGACCCTAGCTACGAGTCATTCCCTCTGACGTCGAA
TGATCTACTTGCTTGTACTTATCTTTGTCGAGATTCAGTTGGTCTTCAGTCTACCACTCCGTGGG
TACAAGATCGAAAAGAATGCATTCCAAGTGAGATGTCCAAGATCAAAGGAACGAGGGTCAGAATC
GACGAGGAATCAATAAGATAGAAGTGAAGTGAATGACAAAGCGTGAGTCGAATTCTCCGAGATGT
TAGAAGGTGCAAAATCAATCGGAGCGGGAGCTGCTACAATTGCTTCAGCGGGAGCTGCTGTCGGT
ATTGGAAACGTCTTCAGTTCTTTAATTAGTGCGGTGGCGCGAAAT
Found at i:248872 original size:34 final size:34
Alignment explanation
Indices: 248790--248887 Score: 169
Period size: 35 Copynumber: 2.9 Consensus size: 34
248780 CGCAACCAGT
*
248790 CAATCATGCTATCCTTACCTTCCAACCAATCGGC
1 CAATCACGCTATCCTTACCTTCCAACCAATCGGC
248824 CAATCCACGCTATCCTTACCTTCCAACCAATCGGC
1 CAAT-CACGCTATCCTTACCTTCCAACCAATCGGC
*
248859 CAATCACGCTATCCTTACCTTTCAACCAA
1 CAATCACGCTATCCTTACCTTCCAACCAA
248888 CCCCTTCGAT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
34 28 0.46
35 33 0.54
ACGTcount: A:0.28, C:0.40, G:0.07, T:0.26
Consensus pattern (34 bp):
CAATCACGCTATCCTTACCTTCCAACCAATCGGC
Left flanking sequence: Indices 248290 -- 248789
ATATAACTCTACTCCGGGTTGTGAGAACATCGTGCCTGTTGCGATTGTGTGGCTTTCCGCATGGT
TGGAGACCCCCTATGAACAAACAGTAGGGTGGTGTAGGAGAACCCCGACTCCCTAATGCAAGATA
GAGCTCTTAGGGTGCGTTTCGTCTTTGTCAGGAAGAAGTGGCAAGAGGAGTGTATCCATACCCGT
ACCGAAGAGATCTTGGGAAGGCATCTCTATAGATTTAGTAGTTGGACTACCAAAGACCCAGACAG
CTTCGAGGTTAGGTCTTCAGTGTTAGGTCAGTTCGAGGTCAGTTGTTCCCTCCGTACTGTTGCTA
GAGAGCTGCTTTCCATCTATCTCCTACATGAAAGGATCTGAGTCCATCCAAATAGCCCAGAAAAT
GACAGCCATCAAAAGGCGCGCAGCCCATATAGCCTCGGCCTGTCCAAATGATGTTCAGCGGTCTC
TACCCAAGTAGCTGTGGCCCATGATCCAAAGGACCCGCAACCAGT
Right flanking sequence: Indices 248888 -- 249387
CCCCTTCGATTCCGCTTCTGCAGCAGTATATAATCTCGGTCCCTTACCTTGATGCCTACAGCTCA
ATTTGTTTTCCAGTGATGGCAAGAATCCGCGAAATACTGCTTTTTCTTTTTCTTCTTCTTGTGTT
GTTTCTGAATGGCATCATAGCTACACGAGGGAAAGCGATGCTGCCCACTCTGCCGCAAAAGGGGG
CCGCTTTCTTCCCCCCAAAAATGCCGGTTCCACCATCAGGGCCCAGCAAGCAGCATAATTCTGTT
CCGAGGCTGCGTTTCATTCCAGCAACAGTAGTATACGGTTCAAAACGCCTTGTTCCATCCGGCGC
GAATCCCCTCCATCACTAGTAAAGTGGAGGTGTTATTTGTATTGCAATAATGAATAAATGTACGA
ACACAAATAATGAGCAGACCTGCCCACGTTTATATGTGGATTCATTTAATAATATATTATTTTTT
AATAAAGAAGCGCTTTGAGGCAGGTTGTGTTTCTCGGTTGATGGA
Found at i:256171 original size:19 final size:19
Alignment explanation
Indices: 256149--256202 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
256139 AGTGATTGGA
256149 TACCAAGCTATGGATTGTC
1 TACCAAGCTATGGATTGTC
*
256168 TACCAAGCTATGTATT-TC
1 TACCAAGCTATGGATTGTC
** *
256186 CCCCAAGGTATGGATTG
1 TACCAAGCTATGGATTG
256203 GATTTCCCGC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (19 bp):
TACCAAGCTATGGATTGTC
Left flanking sequence: Indices 255649 -- 256148
TCGAACCGGTGACGTGTATTCAGCAACACCGGAGAGGAACACCATAAGGAAACTTCTATACATAT
CCGGTAACAGACAAAAAGCACTACTTGAAATAATCACTGATAGAGCTATCGGAGAACAATAGAAA
CAAGGCGTACCGAGCGTACCATAGAAAGACACGTTCGCCCGCCTTCGACAGACCTTCGTTCCTAA
GGACACGTTAGGAACTTCCCTCTTGATCGATAATTCAGTATAAAAGAGGATTCTCTTTCCAGTTA
GCTATTAATCGAGAGAGGACCGACCATAGAAACTTAGCCGAGAGTGGATCACAAGTCCTTCTACG
TAAGGCGATCCCGCGAAGTAGGCAACGGTGCCTCTGATCTTTTCTTACTACTGGAATGGGAATGG
AAACCTTCTTTTCTTTCGGTGGGGAAAAAGACCTTACTCCACTTATACATTGAAGAAAGACCAAT
CCCAAAAGATGAGTGAGTTAGCCCACTTGAAGTAGAGTGATTGGA
Right flanking sequence: Indices 256203 -- 256702
GATTTCCCGCTGAAGAAGATTGGTCTATCCCCCGCTCAAGAAGAGTAAGATTTCCCGCCTCTAAA
TAAAGAGTAGGAGTAGATCGCCCGGGCTCCGAGTTCACCTCGTAAACCCTTACAAAAGGGGCGAA
GCCCACACCACACAGTTGTTCAATTTGAATGTCATTCTCGACTTTATCCCTTCTCTAATCTAATA
TCTAATAGGGCTGGGTGTTTGATTTCAGGCCCTTTCGAGGAGGGTATCTGATTGGTTAATGTCAG
CCCGGCTCGCATGGACTTCCGGTGTTTCTTAGTTGACAACTGCATTGAAATTAGAAGTTCTCCAG
TTACTCCTGCACAAGCAACAGCAGTTATGGATCTGATTGAGGAGCGCTAGGAAGAATGGATCGAA
CGAGAAGGATTAGAGCAAGTTCCGTTCTGGGTGAATCAAGAAAGGAAGTTCCGGGAGTTCTGTGT
CCCGAAGAGAGAAAGCTCACTAAGAACTAGCTTGGCCGTAGTTCC
Found at i:271335 original size:50 final size:50
Alignment explanation
Indices: 271260--271367 Score: 207
Period size: 50 Copynumber: 2.2 Consensus size: 50
271250 CAGTCCCTGG
271260 GCGGCTCTCGGTTCTTGAGCATGTTGGGAGATTAGTCGTCAATTGAAAGA
1 GCGGCTCTCGGTTCTTGAGCATGTTGGGAGATTAGTCGTCAATTGAAAGA
271310 GCGGCTCTCGGTTCTTGAGCATGTTGGGAGATTAGTCGTCAATTGAAAGA
1 GCGGCTCTCGGTTCTTGAGCATGTTGGGAGATTAGTCGTCAATTGAAAGA
*
271360 GCTGCTCT
1 GCGGCTCT
271368 AAAGCTTGAC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (50 bp):
GCGGCTCTCGGTTCTTGAGCATGTTGGGAGATTAGTCGTCAATTGAAAGA
Left flanking sequence: Indices 270760 -- 271259
CTTATTTTCCTTCCTTTAGGCGCTTGCTCTCAAAAAAAAGGGAAAGGGTCAAATAAAAAGCTACC
TTTTATCAAGGCTAATTCCAACGGACTTCGCCCAGATCTTCATTCAATGGGACGACGTCAGTGCA
TCTTTCTGGATGATGAACGCCTGTCTCGCTCATAGATAGAGGAAGAGTACGCGCGCTAGCGCGCT
ACGGCTTACGAAGTTGATCGGGTCAGATAGCCCTTCGGGCAACCAACCGCACAAAAAATTCCGAT
CAACAACTTGGAGGGATGGCTGAGTGGCTTAAGGCATTGGTTTGCTAAATCGACATACAAGAAGA
TTGTATCATGGGTTCGAATCCCATTTCCTCCGGCGCGGAAGTGAAACGGGCGGGCGAAATGAGAA
GAGCACTACTTAGTGACTAGGAGCGGGGAGCCCGTTGCGCGTTTTTTTGTTTGACCGGCCTATCT
TCTTTCTATCTATAAGTAAGCTCCCTATGGCCGTCCAGTCCCTGG
Right flanking sequence: Indices 271368 -- 271601
AAAGCTTGACGAAGAAGTTTTCCCTATTAATTAGATTAGTAAAGGGCTTTTCCCTTACTAGTCAA
GTGGTAAGGTAGGGCGCTCTTCGATGAAGAAAAGAAGAGACTTTTGGAAAAGTGGTTCAGCTCAG
CTGGTTAGAGCAAAGGACTGTAAATCCTTGTGTCAGTGGTTCGAATCCACAACCACTTCTATTCT
CGGAGCTGAGGTATATGAAGAATGGCCTTTTGGTCCTTT
Done.