Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_024290
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: 107730
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Found at i:13603 original size:23 final size:23
Alignment explanation
Indices: 13556--13605 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
13546 AAGTCACTAC
*
13556 AGTCGGAATACTACAGTTAGGAT
1 AGTCGGAATACTACAGGTAGGAT
*
13579 AGTCGGAATACTAC-GGTCGGAAT
1 AGTCGGAATACTACAGGTAGG-AT
13602 AGTC
1 AGTC
13606 AGAGTAGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (23 bp):
AGTCGGAATACTACAGGTAGGAT
Left flanking sequence: Indices 13056 -- 13555
AGGTGGACCAAGTACCAATCTTCGTCCTTCGTCCTGCTGCGCCCTGCAGCCTTATGTATGACAGC
ACTTCATTCGATGACGGCGCGCAGTAGCACCTTGAACCTGGCATGTAACCTGTCTTGGAAGGACG
CAGGCGGACTATATTATATATATTCCATATTGGTGATTGAGAGCCTTAATTGACGTTTTATACTC
TTATACTATTTGAATCAATCGGCGTATAGATGCCATAGAGTGGCATATAGATGCCATAGATAGAG
TGTTTGATTGGCGTACATATGCCATGGAGTGTTGGCATGTGGCGAGTAGCCGATTGATAGAGTGT
TTAATACTGAGATTCATAGTCGACTGATATAGTAAATTCATAGAAGATGTGAAATTCAGTCGTTC
TTCATCAAAAATCAAAAGTTGCTATGTCTTAGACTTCGATCGTCTAGATTCAATGGTTCTAAAGA
GTTGCTGAAATGCAACGAAACGGTCAGACTACTACAAGTCACTAC
Right flanking sequence: Indices 13606 -- 14105
AGAGTAGTGGTTGAGTGCTTGTTTATTTTATTTCATAGAGACTGCATTCCACAATAATGATTCCA
CTCGGCCACTGCTGGGTTCATAGAGATTGTTTCCATTAGTATTAAGATTAGTATTAAGATCGATC
AGTTAAGTCACTCCCAGGACTGAACACGACTTTAAACTGAGAGTTTAAAACACTTATCTTCTTCA
CTCGACTAGCTTGGCAGGACTCTTATTGGGTAATAGTATTGGGTAATAGTATTGGTCAATGGGTA
AGTATTGGCTGTATTGTATGGTTGACCGCATCAAGAGAAGAGGCTGTAGAACAATTAGAAAACAA
TTAGAAATGCTGTTTTTTTGTTAAAGTTTGCTTCGCTGTAGTATTTTAATGTGTTTACTTGCTAG
AAAAAAGAGAGGCCCAGGTGGAATCATTATTTTTGAAATCTCTGATAGCTACTGTACCAAAATGG
ATAGATGAATTGCAAAAATCAAAAGATGAAAATATATTATATACG
Found at i:13722 original size:12 final size:12
Alignment explanation
Indices: 13705--13730 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13695 GATTGTTTCC
13705 ATTAGTATTAAG
1 ATTAGTATTAAG
13717 ATTAGTATTAAG
1 ATTAGTATTAAG
13729 AT
1 AT
13731 CGATCAGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (12 bp):
ATTAGTATTAAG
Left flanking sequence: Indices 13205 -- 13704
ATATTCCATATTGGTGATTGAGAGCCTTAATTGACGTTTTATACTCTTATACTATTTGAATCAAT
CGGCGTATAGATGCCATAGAGTGGCATATAGATGCCATAGATAGAGTGTTTGATTGGCGTACATA
TGCCATGGAGTGTTGGCATGTGGCGAGTAGCCGATTGATAGAGTGTTTAATACTGAGATTCATAG
TCGACTGATATAGTAAATTCATAGAAGATGTGAAATTCAGTCGTTCTTCATCAAAAATCAAAAGT
TGCTATGTCTTAGACTTCGATCGTCTAGATTCAATGGTTCTAAAGAGTTGCTGAAATGCAACGAA
ACGGTCAGACTACTACAAGTCACTACAGTCGGAATACTACAGTTAGGATAGTCGGAATACTACGG
TCGGAATAGTCAGAGTAGTGGTTGAGTGCTTGTTTATTTTATTTCATAGAGACTGCATTCCACAA
TAATGATTCCACTCGGCCACTGCTGGGTTCATAGAGATTGTTTCC
Right flanking sequence: Indices 13731 -- 14230
CGATCAGTTAAGTCACTCCCAGGACTGAACACGACTTTAAACTGAGAGTTTAAAACACTTATCTT
CTTCACTCGACTAGCTTGGCAGGACTCTTATTGGGTAATAGTATTGGGTAATAGTATTGGTCAAT
GGGTAAGTATTGGCTGTATTGTATGGTTGACCGCATCAAGAGAAGAGGCTGTAGAACAATTAGAA
AACAATTAGAAATGCTGTTTTTTTGTTAAAGTTTGCTTCGCTGTAGTATTTTAATGTGTTTACTT
GCTAGAAAAAAGAGAGGCCCAGGTGGAATCATTATTTTTGAAATCTCTGATAGCTACTGTACCAA
AATGGATAGATGAATTGCAAAAATCAAAAGATGAAAATATATTATATACGAATGCTAATCACGTA
TTTGAATTATTATGGTCCTTGAAATATCATAGCAATACACGTTTTGAAGTGTTGATCGATATTTG
TGGAGTTGATTATCCTTCTCGAAAACAAAGATTTGAAGTAGTTTA
Found at i:13842 original size:13 final size:13
Alignment explanation
Indices: 13824--13855 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
13814 GCAGGACTCT
13824 TATTGGGTAATAG
1 TATTGGGTAATAG
13837 TATTGGGTAATAG
1 TATTGGGTAATAG
13850 TATTGG
1 TATTGG
13856 TCAATGGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (13 bp):
TATTGGGTAATAG
Left flanking sequence: Indices 13324 -- 13823
TGGCGTACATATGCCATGGAGTGTTGGCATGTGGCGAGTAGCCGATTGATAGAGTGTTTAATACT
GAGATTCATAGTCGACTGATATAGTAAATTCATAGAAGATGTGAAATTCAGTCGTTCTTCATCAA
AAATCAAAAGTTGCTATGTCTTAGACTTCGATCGTCTAGATTCAATGGTTCTAAAGAGTTGCTGA
AATGCAACGAAACGGTCAGACTACTACAAGTCACTACAGTCGGAATACTACAGTTAGGATAGTCG
GAATACTACGGTCGGAATAGTCAGAGTAGTGGTTGAGTGCTTGTTTATTTTATTTCATAGAGACT
GCATTCCACAATAATGATTCCACTCGGCCACTGCTGGGTTCATAGAGATTGTTTCCATTAGTATT
AAGATTAGTATTAAGATCGATCAGTTAAGTCACTCCCAGGACTGAACACGACTTTAAACTGAGAG
TTTAAAACACTTATCTTCTTCACTCGACTAGCTTGGCAGGACTCT
Right flanking sequence: Indices 13856 -- 14355
TCAATGGGTAAGTATTGGCTGTATTGTATGGTTGACCGCATCAAGAGAAGAGGCTGTAGAACAAT
TAGAAAACAATTAGAAATGCTGTTTTTTTGTTAAAGTTTGCTTCGCTGTAGTATTTTAATGTGTT
TACTTGCTAGAAAAAAGAGAGGCCCAGGTGGAATCATTATTTTTGAAATCTCTGATAGCTACTGT
ACCAAAATGGATAGATGAATTGCAAAAATCAAAAGATGAAAATATATTATATACGAATGCTAATC
ACGTATTTGAATTATTATGGTCCTTGAAATATCATAGCAATACACGTTTTGAAGTGTTGATCGAT
ATTTGTGGAGTTGATTATCCTTCTCGAAAACAAAGATTTGAAGTAGTTTATAATTTACTGAGGGC
GACCGCGAAGTTACCGAATAAAGTGCTCATTTTGAACTAGGACCAAAACCAAAATGAGACGTTGT
AGAGGTCTGCAACGAGACGGGCACGACTTATTTGACGGATATACC
Found at i:22312 original size:13 final size:14
Alignment explanation
Indices: 22289--22317 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22279 TCGTTTATCA
22289 CTTTCCTCTCTCAT
1 CTTTCCTCTCTCAT
22303 CTTT-CTCTCTCAT
1 CTTTCCTCTCTCAT
22316 CT
1 CT
22318 ACGATGATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.07, C:0.41, G:0.00, T:0.52
Consensus pattern (14 bp):
CTTTCCTCTCTCAT
Left flanking sequence: Indices 21789 -- 22288
CGTTTTCCTAGTTCATGGTACAATCTGAACTCTAAGATGGTCATGAGAAAAAAAATATATATATT
TTTTTTTACTGTGGACGTTTTTTGAATTGAAAGGTGCCCCGGTTCCATGCAAAAAGCAGGGCTCC
ACTGGCATAGCTAGTAGAGGCCGAAGGGCTTCGCCTAACAAGCGATCCAGACTTGCTGCATGCTT
TGAAAGCATGCAGCATAGGTCGACTAACCTTTTTCCTGCCAAGTGCCTTCCGGTGCTTTGCGCCC
TTTTGAGTTTGCGCGCCTTACAAAACCAGTTTATTCATGTTTATCTCGATCTACCGATCTATGTG
CGCCAAACCTGGCGGCCGCTCTACTTTACTCTACCCCACTGGCGATATTAGTCAGTGGCTTCGAT
TCATTTTCTTTTCCCTGTCGAATGAGGCAGAAAATAGAGTTTTCACTTTCGGATCCCGATAAAAA
GAAGTGGCACAATCGGCGGCCTGCTTGCCTGTGGCTCGTTTATCA
Right flanking sequence: Indices 22318 -- 22817
ACGATGATTCACTACGTTTGGGAAAATAGCTTAGTTGGTTAGAGTGCTGGTCTGTCACGCCAGAA
GTCGCGGGTTCAAATCCCGTTTTTCCCGGTAAAAAAGTAATGGGTTCAAATCCCATTTCTTTCCT
CCATTCTTTTGGGGGACGTAGTTCAATTGGTAGAGCGCATGTTTTGCAAGCATGAAGCTGTCGGT
TCAAATCCGATCGTCTCCAAATAAACGAGTGATCTACTGGCAGCTTTGCCAGTGCTTGGATGGTA
GTGTTGAGCCAGTGAATTACGGGCTTGAATTAGTAAGTGGCTATATTATATATGGGCCTGCGTAG
CTCAGATGGTAGAGCATTCCCATGGTAAGGGAAAGGTCTCCGGTTCAAGTCCGGTGGTAGGCTCT
AAAAAATGATTAAATATAGCTAAAAGCAAACAAATCAAGAATTTTACTTTGAATTTTGGGCCTCA
ACATCCTACTGCTCATGGTGTTTCACGATTAGTATCGGAATGGAA
Found at i:31643 original size:2 final size:2
Alignment explanation
Indices: 31636--31660 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31626 CGAATAAATC
31636 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
31661 TCTTTTTCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Left flanking sequence: Indices 31136 -- 31635
CGAATCTTTGGAATTGGCCCTAAAAAAGCGATTCAAGTTTGTGATCAATCAGGTCTCAATGATAA
CATTAAAGTTAATAAGTTAACTAAGTATCAAATTGACCGGATTATCAAAATAATAAGTCAAACTT
ATTTGGTCGATTCAGAATTAGCGAGAGTAATTCAGAGGGATATTAAACAATTGATGAGTATTGGT
TGTTATCGTGGTTTTCGCCATAATGCAGGATTGCCCTTACGTGGTCAACGAACTCATACTAATGC
TAAGACTTGTCGCAAATTCAGGAACGGTTCGATTAATCAACGAAGTTGATTCAGGCTGCAGGCTG
TAAATTTTTTTTCATCATTCACAATGAATAATGTGAAGGCGCGAAGCGATGTGTAATTAATTTTA
AATTCAATGACACGTTTTGTTATTGGCTTTTCCCTCGCAAAAACATCGTCGATTGGTAAGGCCGG
CTCCTATTGGCATGCAGGCGCAGCAGGTCGAAGGGCGAATAAATC
Right flanking sequence: Indices 31661 -- 32160
TCTTTTTCGAATCATCGCATATTCTCTATCTATCCCCGCACCGTAACTGCCGAAAGGCGGGGCGA
GCTCAGAGAATATAATATCTGACCCAGAGAACCAAAAGCTGCGGCGTACTCTCTTGTTTAATGGA
TCATTTTGTACAAACTTGTTCTTATTTTCTACAAAATTTATTTTTGATCAGTAAACAGATAAGAT
GGATTGTAAAAAAACCCAATCGATGATATCAAACAAAATCTAAACATTCAAAAAGACTCATGCAG
AAAAAGAAAAAGCACGGTATTGCATATATTCGATCAACTTTAAGTAATACCATCATCACTGTAAC
AGATTATAGAGGAGATACAAAAACTTGGTCCTCCTCAGGTTCATTGGGGTTTAAGGGATCTCGTC
GCTCAACCAATTATGCTGCTCAAGCAACTGCAGAAAATGCCGCCCGAACTGCCATTCAACTGGGA
ATTAAGTCGGTTGAAGTTGAAATAAAAGGGTTAGGTTATGGAAAG
Found at i:38578 original size:21 final size:21
Alignment explanation
Indices: 38552--38591 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
38542 CGAAGTTACC
38552 CTACCACAAGTCCTTCCGCAG
1 CTACCACAAGTCCTTCCGCAG
38573 CTACCACAAGTCCTTCCGC
1 CTACCACAAGTCCTTCCGC
38592 GGGCACCGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.45, G:0.12, T:0.20
Consensus pattern (21 bp):
CTACCACAAGTCCTTCCGCAG
Left flanking sequence: Indices 38052 -- 38551
AGAAACGAATCATCATAGATGAATCATCATATATAGAGCGAATCTGCGTGGCCGACAGAAAGGCT
TAGAAGGGTTGCTATGCGAACGCTCTCTATAAGGCCATTTCCGATGGGTTTATGACCTTTATCGG
GTGCTTCGCACCCGAAAAAACTATTTTGAAGGGCGAAAGCATGGGGAAAAAAGCTCGTACTACTA
CCAGGGGTAAGAAAACATCGTACGGGTAAACCTAAGAATACATCTTATCTTATTCGGCCTGTGGG
CCGCCGTTTGGCCCTTCAGGGGCCCCGTTAGGTTCGTCGTGCTTGTCTATTTGTCCTCAACTGTT
TTATATATATAGAACCTTTGAAGACATCTTTCTTCTTTCTATGGAAAGTATCTTACTTATTATCT
ACTTATTATGGCCCCTTATTATGGTCATTATGGTCTCGGGCAAAGCCCGGGCGGTTATGTCTCCG
GGCTTTACCCGGAGAATCCGCACGAAGTTCCCTCACGAAGTTACC
Right flanking sequence: Indices 38592 -- 39091
GGGCACCGCGGTCGAATGGCTCGGAGAAGACATCTTTTGTGGGTGGAGCGGGCAGCACAACAGTT
TCTTGCTCCACCCAATTTATGATCCCCAGGCCAGCATTTGCTTTCTGGCATCGCGATGCCAGAAA
GCGTCTACAAAACAAAGGAAATACAAGTTATGAAAACAACGTTTAGCCATTTGGATCGAACCGAC
GGTCCAAACAACAATATTACTAATGCAATTTCTTCCGAAAGTAGCTCCGATAGCAAATCTCTGAT
GAAATATCTATTCCATGCTGCGGCCTTTTTGGATAGGAATTACGGCTTTACATTTCTTGCATCAA
GGGCATCATCGAATAGTAGAGATAAAGTCCCCAGCAGCTATAAAACAGAATTCGACTGCTTAGAA
TATACTTCACCCTGCCCCTTCGTTAAGAAGCCACCGGCGCGTCTTCTAACTCTCCGGTGGATCGA
CGATGAGGATGATCGGGCGATGAACACACGCACACCTTCCTTTCA
Found at i:59054 original size:19 final size:20
Alignment explanation
Indices: 59012--59054 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
59002 GGATGTTGGT
* *
59012 CATGACTTTCGAAAAGTTCC
1 CATGACTATCGAAAAGTTCA
*
59032 CATGACTAT-GAAAATTTCA
1 CATGACTATCGAAAAGTTCA
59051 CATG
1 CATG
59055 GAGGAGTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
CATGACTATCGAAAAGTTCA
Left flanking sequence: Indices 58512 -- 59011
AATTTATGGGAGACTTGTCATATTTAGAATCTTTCTGTGGTGTGCTTCGTTTTTTATTATTTTGT
ACATTCTTCTTATCATCCAAATATAGGCGCGATACGTTGGCGAACGAAGGGCGTAGGCTTAGGAT
GGAGGAAATAAAAGCGCGTAAGTGGGCACAGATAAGAAAGCGCCAAGCGCTTTATTGGTCTAACG
AAGAAGAGAAACAAAAAAATGAAAAGAGAGAAAATTTTTATTTTTTATTTTTCTCAAATAAATCA
AAAATATTTTTGATTTATTTGCTGCAATTTTCAAAAACTTTCGGCCTCAACGAAAAAGCCAAAAT
TTTGGCTTTTTATTCTCTGCTCGCTCTTTCGCAAGCTTATTCTTCCGTCCCTGAAAATAAAGCGC
TTGGCGTTTTCTTGATTACACCCAATGGGTGTAAGGAAAACGCCAAGCGCTTTGATTGGAATAGA
TTTTTTATTGTTCGCGCCTTACCAAAAAGACTGATGGATGTTGGT
Right flanking sequence: Indices 59055 -- 59554
GAGGAGTTTGCATCTTTATTATGGGTGTTATTCTGTCGTGCGACCCGGCGGCTTATGTGCGACCA
TCATCGTCTTCAAGCCCACGCCATGTAGGCGTGAACTCTGGTTGAATTCGGGTTCTAAATCCCGC
CGCTGAGATGCTCAGTTGACTCTTGAACCTTGATAAGAAGACGGCTTCTTCCCAAATTAGTGCAA
AAGGTTCAAGGACTTGGGATGAACTATGTGAATGGGTATAAGCTTCGCTGCTCAAAAACACCCAG
TACTGACCACACTGATGAGAGACTTGCCGATGGCAAGAAAGGCCGCGGGTAACGCTAGTTGGCGA
AGTGGCGTTAAGCATTCCTAGCGATACGGAAAGAGAGGTCGTGGTGATGATATCATCTACGTTCG
TACTGCTCCTCGTGGAGTAAATCTCACATCCAACAATCTAACCAGGGAACGGGATAATTCCCACT
AAGTTCCAGTTCCAGTAAAACTGGCAGGCCAGCCCGGCCGTAAGC
Found at i:81400 original size:14 final size:14
Alignment explanation
Indices: 81381--81407 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
81371 AAGAATGTAA
81381 GATTAATACTTGTG
1 GATTAATACTTGTG
81395 GATTAATACTTGT
1 GATTAATACTTGT
81408 TTTCGTTAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (14 bp):
GATTAATACTTGTG
Left flanking sequence: Indices 80881 -- 81380
GCCGGGGATAACAGGCTGATGACTCCCAAGAGCTCTTATCGACGGAGTCGTTTGGCACCTCGATG
TCGACTCATCACATCCTGGGGTTGAAGAAGGTCCCAAGGGTTCGGTTGTTCGCCGATGAAAGTGG
TACGTGAGTTGGGTTTAGAACGTCGTGAGACAGTTCGGTTCCTATCTACCGTTGGTGTTTAAGAG
AGAACTGCGAGAAGCCAACCCTAGTACGAGAGGACTGGGTTGGGTCAACCTATGGTGTACCGGTT
GTTATGCCAATAGCAGCGCCGGGTAGCTAAGTTGGTATAGAAGAACTGCTGAAAGCATCTAAGCG
GGAAATCCTTCTCTATACAGGTTCTCATAAAAGGTGAAAGACCATCACTTTGATAGGCGAGAGGT
GTAAACACCGTGAGGTGTGAAACAAACAAGGCTTACTGCTCTTGTCCAGCTTACTCGTACTAATT
ATCTACTTCCCGTTCCCCATCTAGGTGCCAAGCGCAAGAATGTAA
Right flanking sequence: Indices 81408 -- 81907
TTTCGTTAGTGAAGACCTGCCCCACATCTCCTGATATGATAGATGATAGAATCGGGGTGGGGGAC
AAGGAGTCTTACAAAGAAATGGAAAGAAAGGGCCAGAGACCGAAAGTAAGAAAAAATTTATCATA
GAATATTGTTATAAAAAAAGTTCTTCACATTTCTGTGGATTCTCCAGTAGAGTACCCAAAAATAT
AGTAAGCTACTGGGTCTTTTGGCTGCCCTTTGTTATTTTCAAAATTACTGTAAGAATAGTTACAA
CTGTGTTATTTCCTTTTGGACCATCTTTGGTCCATCATTGGACTTTGGGGGGTGTTCCAAAATGA
CTATTCTAACATAAAAAATTGGACAGTCCATAATGAAATTATAGCATTTTCAAGATGTGTTCTTA
TTTAAGTATCATGATTTTTAGGTTGATTATCGTGTCTATTCAAGAGCCTATCGGATTGTTATGAG
GTTTCGGATAAACTAAACTTTGATCTGATGAAAGTAGCAGGAACC
Found at i:83661 original size:17 final size:17
Alignment explanation
Indices: 83639--83671 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
83629 ATACTTGTTG
*
83639 AGGCCGAAGGGCGCAGC
1 AGGCCGAAGGACGCAGC
83656 AGGCCGAAGGACGCAG
1 AGGCCGAAGGACGCAG
83672 GCCTCAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.45, T:0.00
Consensus pattern (17 bp):
AGGCCGAAGGACGCAGC
Left flanking sequence: Indices 83139 -- 83638
ATAAAGAAAAAGCTATGAAAACAAGCAACATTATTGGGTCAAGTAGGGAGATCTAGTAGTTTTAA
GGGAGGTTGCGGTATTAACGCAGGCCCTGTTATTTATTTCATTGGCGAAAGTTCAAAGCTCGCTC
GGATGGTGGCCTATGTATGACACAAAGGTTAGGCTACCCTCCTTTTTCGTTTGTTATGAGAAGGG
CAGGTAGCTATTGTTTTGGCCTCTTGTAAAGCCCCAAAAAAGTTGTAAAATGTCATAGGAATTCT
GGACGTGGCACCTTTTAGCCACGAACGGAAAAAAAACACCCACCAAGTAAGTTTTAATTCTATGA
GAAGGGGAATAGAAGAAAATAGCAGGGGCATACCATATTGGTAATGAAGACAGGGCTTCCATACA
AGGATACAGAGTAACTAGAAGCAAGGTGAAGGTTAAATAGCTCTGCCCGCGCAGGTAGTTTCAAC
CCTGACGGATAATTAAGAGATTCAACCTACTTTCTATACTTGTTG
Right flanking sequence: Indices 83672 -- 84171
GCCTCAATTTCATCATCGGAAAACGCATAAATGCTCCTATCGAAAAAATGGGCTAGAATATGGGG
CTCGGGGCTGAGTCTCGTGTCTCTTAGCCGAAAGTTCGAAAGAGCAAGAAGGGCCATATGTATGG
CTGGAGATACGAGGTTCGAAGAAAAAATATTTCTCTGTTACACGGTACGCATCACCTGTGGGTCT
AGGGATTAACTGAGCCTCCAGCTATTCGAAGCAATGTCTTGTCATACGATTTTTTAAACCCCCAG
TTTTATGAATTCAAGACGAATATATTCCCGAAGTGATCCTTTTGCCAGTACGTAAGGCAGCTGCT
TAGAATAAAGCCCTGACAAAATTGTCGCGTAGTACGACGCAAGGTTGACCTCACCTCCACTATTT
GTGCTACGCGGTTTATTATCCAGAAAACATAAACCATATTGACAAACATAGCATTTGTTTGATGT
GGAAAAAACCCGGCATCACTTACTCAAATTCGAGGTATGTCGAAA
Found at i:85252 original size:81 final size:81
Alignment explanation
Indices: 85117--85266 Score: 264
Period size: 81 Copynumber: 1.9 Consensus size: 81
85107 AAGATACTCG
* *
85117 CTATCGGATTTGAACCGATAACCCATAGGAACAGATTTTGAGACTGCCGTGTTTACCATTTTCAC
1 CTATCGGACTTGAACCGATAACCCATAGGAACAGATTTTAAGACTGCCGTGTTTACCATTTTCAC
85182 CAAGCGAGTATGCTCA
66 CAAGCGAGTATGCTCA
* *
85198 CTATCGGACTTGAACCGATAACCCATAGGAACAGATTTTAAGTCTGTCGTGTTTACCATTTTCAC
1 CTATCGGACTTGAACCGATAACCCATAGGAACAGATTTTAAGACTGCCGTGTTTACCATTTTCAC
85263 CAAG
66 CAAG
85267 TGAGCTTAAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (81 bp):
CTATCGGACTTGAACCGATAACCCATAGGAACAGATTTTAAGACTGCCGTGTTTACCATTTTCAC
CAAGCGAGTATGCTCA
Left flanking sequence: Indices 84617 -- 85116
TATTTCAACAACTTTTTGAGCTCATCTTTTACCCATATAATTCTTTATGTTCCTGTCTGAACCAG
CCCATACGAGCAGAGTGATCCATCAGCAAAAATGGCTGATGATATCCAAGCGTACGCGTAATGTC
TAACGCCGCTGCGCCCTTTTATGCTTCATCCACTATATGAGAAGAGACAGAAGGATCCAATGGGG
TGACTTAGTCACCAGAGGATAACCACCCAGTAACTGCCCCACTTTGCCAATCAAGGGTGCAGGCT
TGATTGATAGAGCTGGGGCACGTAGTTTATAGCGAAGCTTTTTTTCCAAAATATTTTGGGAAATC
CCCAAAAAATATTTTTTGCTGCGCCCTCGAAGATTGTAAAGATTTAAGCTAATGGATGATTTGTT
TTTTTGGCGAATAACGGGATTCGAACCCGTGTTTTCAAATTCACAATCTGACACTTTCACCTATT
AAGTTATACTCGCCCTTTTTTCCAATTTGGACATTAAGATACTCG
Right flanking sequence: Indices 85267 -- 85766
TGAGCTTAAGGAAGCGAAGCGCAGAGTGGAAACACAATCTTTCGGTTTCGTTTTCTTTCCGCCAT
TTCATTTTCTAGACACCCCCGGCTTATTCCGGCCGGACCTGCGGCATTTTTTCAAATATTTGAAA
AAATCTATATTTTGCTGCGCCCTCTGCCTCAAGGTGTGTAGAGACCCTCCTCTTTATTGATTTGT
ACTAGTCTATATCGGATACGAGATAGTGCTGAAAAAATGACTCAATTTAATCTAACCATGGCCGC
AAAAACCTTGGCAATGGCAATGACTTTTGTACGACATGCAGAATACTTCAATAGAAAGGTAAGCC
TCTCTTGATTTTATTTACAACTAAAAGAAGAGAATGCTTTTCTTTGTTGAAGGCTAGAGAGGAGC
AATAAAGTGCAAAGATTGGAATAAAAAATGCATAAAAAAATTTTGAGCTTTGTTCTACGTAGTTC
TGCCATCTGTATAATATGATATAGTAAGAGATAATAAGTTGGCGA
Found at i:103537 original size:15 final size:15
Alignment explanation
Indices: 103517--103547 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
103507 AAAGATAGTT
103517 TTGTATCTAACTATG
1 TTGTATCTAACTATG
*
103532 TTGTATCTACCTATG
1 TTGTATCTAACTATG
103547 T
1 T
103548 AGTTTCGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (15 bp):
TTGTATCTAACTATG
Left flanking sequence: Indices 103017 -- 103516
AGAAACCACGCAAAGCAAATAAAAAATTATTTTTATTTGCTTTCTTTCATATATATATGAAAAAA
TACCTCCAAGCCCGTATATATAGCCAATATATAGCCAAGCCTGAATTGCTTTACATTTGCGCAGC
GAATAGAGCGTTAATTTCTATTTATGTGTAATAATGAATGGTAACTTTTAAAGGGGAGGCGAAAG
CATGATCAAACCCACAAGCTAAGCACCATCTTTCCAAAATAGAAAGTGAAAAGCGCTCATTTACA
TAACTAATTCATGAATCGTTTAGGAAACAACTCCGAAGAGGCGGTGATGAAAGGCTCCTTAAATC
AGTCTCTCCTTACCTGGCACCTGGCAATGAGTCTATGGCACGAGGAATAAAGTTTATAAATAAAG
ATTTATGAATATGGTCGTTAATTATCATACATGATGAATTTGCTTTTTTATGCAAATTCACGAAT
CAGAAATAATTTCATAACGCAGCTTTCTGCGGGCGAAAGATAGTT
Right flanking sequence: Indices 103548 -- 104047
AGTTTCGTATCTAACCATGTAGTTTCATAGTAGTTTTTATGCGCATTTTTGAATGGTTGGCCATG
CATTTACTATTACGATAGATGGAGATCCAAGATGTTGCCACATGTTTTATCGAAAGTGGCAGCTG
GGGGTTGTTGGGTTATATTCAGTGTTGCTCCGGTTTATTATGGAATGCGGGGGATGCAACAAAAG
GTCGTCTTATTTGATGAAATTCTGTAGGAAAATCGTTTGTGCAGCTGACAAATGGGCGGTGGTGG
TTCCATATCATGGCGTGGTGTAATTGGCCAATTTTGTGTCATAAACACGATCTGTGAATTCAACG
AGGTTTAATGAGTTAAGGGAAGATGGGAAATTGTATTGATTTGTTGTTGTTCATCCCTTTAACTT
ATAACTTAGGGTGTTGGCAGAATCCCTGAGTATTTGTAAGAACTTAGGTGGCCCGCTCCAAAGCA
GAATATCAGGACCGGCTGATAAGGTCCAAAGCAGGTAATGATAAT
Found at i:103559 original size:20 final size:20
Alignment explanation
Indices: 103534--103573 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
103524 TAACTATGTT
103534 GTATCT-ACCTATGTAGTTTC
1 GTATCTAACC-ATGTAGTTTC
103554 GTATCTAACCATGTAGTTTC
1 GTATCTAACCATGTAGTTTC
103574 ATAGTAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (20 bp):
GTATCTAACCATGTAGTTTC
Left flanking sequence: Indices 103034 -- 103533
AATAAAAAATTATTTTTATTTGCTTTCTTTCATATATATATGAAAAAATACCTCCAAGCCCGTAT
ATATAGCCAATATATAGCCAAGCCTGAATTGCTTTACATTTGCGCAGCGAATAGAGCGTTAATTT
CTATTTATGTGTAATAATGAATGGTAACTTTTAAAGGGGAGGCGAAAGCATGATCAAACCCACAA
GCTAAGCACCATCTTTCCAAAATAGAAAGTGAAAAGCGCTCATTTACATAACTAATTCATGAATC
GTTTAGGAAACAACTCCGAAGAGGCGGTGATGAAAGGCTCCTTAAATCAGTCTCTCCTTACCTGG
CACCTGGCAATGAGTCTATGGCACGAGGAATAAAGTTTATAAATAAAGATTTATGAATATGGTCG
TTAATTATCATACATGATGAATTTGCTTTTTTATGCAAATTCACGAATCAGAAATAATTTCATAA
CGCAGCTTTCTGCGGGCGAAAGATAGTTTTGTATCTAACTATGTT
Right flanking sequence: Indices 103574 -- 104073
ATAGTAGTTTTTATGCGCATTTTTGAATGGTTGGCCATGCATTTACTATTACGATAGATGGAGAT
CCAAGATGTTGCCACATGTTTTATCGAAAGTGGCAGCTGGGGGTTGTTGGGTTATATTCAGTGTT
GCTCCGGTTTATTATGGAATGCGGGGGATGCAACAAAAGGTCGTCTTATTTGATGAAATTCTGTA
GGAAAATCGTTTGTGCAGCTGACAAATGGGCGGTGGTGGTTCCATATCATGGCGTGGTGTAATTG
GCCAATTTTGTGTCATAAACACGATCTGTGAATTCAACGAGGTTTAATGAGTTAAGGGAAGATGG
GAAATTGTATTGATTTGTTGTTGTTCATCCCTTTAACTTATAACTTAGGGTGTTGGCAGAATCCC
TGAGTATTTGTAAGAACTTAGGTGGCCCGCTCCAAAGCAGAATATCAGGACCGGCTGATAAGGTC
CAAAGCAGGTAATGATAATGAATGGGCTTTATCTATATTATATGT
Found at i:106022 original size:18 final size:18
Alignment explanation
Indices: 105999--106034 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
105989 TAGGCTCTGT
105999 TTTCTACATATGATTTTC
1 TTTCTACATATGATTTTC
106017 TTTCTACATATGATTTTC
1 TTTCTACATATGATTTTC
106035 ACGGTTAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTCTACATATGATTTTC
Left flanking sequence: Indices 105499 -- 105998
ATTGATATAGGATCTAGTTTTTTACTATAGCATTGTTCAGAGCATGTCTAAAACAATACCTTACC
TTTATTCGGAAACAAATTTAGAAAACGCAGCATGAGCATGGTATAGACTATATCTAAGTTAGGCC
TCATATGGATAAATCTTATGGTTAAACGCAACTCATTCGGGTCTTTTTGGCTCCTATCTATGTAA
GTACGGCATGGTCAAGCTATCGAGCATAAATCGTGTGGATTTTTAATTTTTTTCAAGGCACGCCT
AGCGTTCAATCCCGAACCATGGATCTACTTAGTAGATCCATGGCGTAGCATCTAATTACTATGTT
ATTGCATAACTGAATGAAAGCCAAGTCACTATAATCAACAAGTTGCATAATCTGCTACTTTGAAT
CCCCTTCTTTACAAGCATTGTATTGGTTCGGCCGTTTGCACCTAGATAGATTGGGTTTCCAAGAG
GTTGATTGTACTTAAAGCGAATACCAAAGCCTTTGTAGGCTCTGT
Right flanking sequence: Indices 106035 -- 106534
ACGGTTAACGGGAGAGTCATACTGATCATGTAGAACAGATTCAGTTGTGCCGCCAAGCACTCATA
ATGGATTTATTCACGAAATGCATGATGCATCGTGTTTAGTTTGCTTGTAGCTACCAAGCTATGCG
CGTAGGCGAATAAACTTGCTACACCCGATTGCTCGACCTGTGCTTCGTTCATAGCACGAAAAATA
ACCTAAAGCGATGCTGATGACCTAGAACAATTCAGGAACGCCCTCCTTGGCAGGCTTAATAAAGC
ACTGAAGGCCCATAAAAAAAAGCGAGCCGGGGGGGCTGCGCTTTTTTTCTAAAAGCCCTCTCTAC
TCAAGGAACTTTTTTTTATTTTTTTTTCTCTATGCTGATAAAGACCATCATATTTGTTCAATTAT
GCTAGTTTCGAATACCGAGCAAGAGCATGCATGGCCTATAATTATTCCGAAAAGCTTACTCTATC
CATTGGATCGTTGGTTTGAATCCAGCCTAGAGAGTTAGATCAACG
Done.