Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_043909
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: 156050
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Found at i:11730 original size:17 final size:17
Alignment explanation
Indices: 11708--11745 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
11698 TTTTCAAAGA
11708 TTTTTTTTAAATCCCGC
1 TTTTTTTTAAATCCCGC
11725 TTTTTTTTAAATCCCGC
1 TTTTTTTTAAATCCCGC
11742 TTTT
1 TTTT
11746 ATGTAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.16, C:0.21, G:0.05, T:0.58
Consensus pattern (17 bp):
TTTTTTTTAAATCCCGC
Left flanking sequence: Indices 11208 -- 11707
GTCTTACATCCAAAGGGCCACCCCGCGGGGAGAGCAAAAAAAAATATGTGTATTTTTTGGGGCTC
AAACGGGACTGTCATCAGGTTCTTCGCTGAGGCACGATAGTGGGTGGCACTTGACTCGGTTGGCT
CCTTCGGCCCTTCTTACGCATTTCTTTAGCGGCCCTCTTTGCTTCATTCTTTACTGCTCAATCTG
GTATAAGGAAACCCAAAAAACAATGTCCATTGTTTACTGTTCCTTTGCACATATTTATCTGACTC
TTCTACTTAGATATACGAAAATTATATCAATCTTTGCGTAGTACTTTATTTCCCGATTGCCTTTA
CCACGCTAGACTTCTCGGATATTAACTACTATGTTGCTTTCCCCAATCTCCTCCTCTTCTTCCGC
ATATCCGTTTATTCCATTTCTCTCCCGGGACCGCAATCCAGCCATAAAAGAATGGCTTATTGACA
ATCAACCAATCAATTCAATAAACGCTATCTATGCTTTTTCAAAGA
Right flanking sequence: Indices 11746 -- 12245
ATGTAAATATTTATCGTAAACTTACGAGGTTTCAGATACATTATCTAAAACCTTGTAGGCAAAAG
GGATAAAACCGAAAGCGGAAAAGGAGCGCGTCTGCCGTATAATGGGAATCATTGATGGCGCTTTG
AAAGATGGGGATTTGGTTAGAGTTTTTACATATCTCATTACGAACAAACATATATCGTCACGAGT
CTCTGATTTTGTTTTCCAAATAGCCATAAAAATAAAAGGGTCCAAGGTCTGTCCGACCATCTAAC
CTCAGCAAAGAGGGGGAAGTACCACCCGCGCAGGAGTAGCCAATCCAACCGGTTACGGTCTGTGA
AGTCTTCCCCAACGGGCCACAAAATTAGATGAATGGTTAAATCCTGACGATTTTCATCCATTCAT
CTAATGTGGTGGCCCGTTCCTACCCATTTCTCTAATATGGTGGCCGAGAACTCCTGTCGGATCTC
TTACTTCGTGAACTCATATGATTAAATATTATTATTTGCTCCAAA
Found at i:11752 original size:17 final size:17
Alignment explanation
Indices: 11715--11753 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
11705 AGATTTTTTT
* *
11715 TAAATCCCGCTTTTTTT
1 TAAATCCCGCTTTTATG
11732 TAAATCCCGCTTTTATG
1 TAAATCCCGCTTTTATG
11749 TAAAT
1 TAAAT
11754 ATTTATCGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.08, T:0.46
Consensus pattern (17 bp):
TAAATCCCGCTTTTATG
Left flanking sequence: Indices 11215 -- 11714
ATCCAAAGGGCCACCCCGCGGGGAGAGCAAAAAAAAATATGTGTATTTTTTGGGGCTCAAACGGG
ACTGTCATCAGGTTCTTCGCTGAGGCACGATAGTGGGTGGCACTTGACTCGGTTGGCTCCTTCGG
CCCTTCTTACGCATTTCTTTAGCGGCCCTCTTTGCTTCATTCTTTACTGCTCAATCTGGTATAAG
GAAACCCAAAAAACAATGTCCATTGTTTACTGTTCCTTTGCACATATTTATCTGACTCTTCTACT
TAGATATACGAAAATTATATCAATCTTTGCGTAGTACTTTATTTCCCGATTGCCTTTACCACGCT
AGACTTCTCGGATATTAACTACTATGTTGCTTTCCCCAATCTCCTCCTCTTCTTCCGCATATCCG
TTTATTCCATTTCTCTCCCGGGACCGCAATCCAGCCATAAAAGAATGGCTTATTGACAATCAACC
AATCAATTCAATAAACGCTATCTATGCTTTTTCAAAGATTTTTTT
Right flanking sequence: Indices 11754 -- 12253
ATTTATCGTAAACTTACGAGGTTTCAGATACATTATCTAAAACCTTGTAGGCAAAAGGGATAAAA
CCGAAAGCGGAAAAGGAGCGCGTCTGCCGTATAATGGGAATCATTGATGGCGCTTTGAAAGATGG
GGATTTGGTTAGAGTTTTTACATATCTCATTACGAACAAACATATATCGTCACGAGTCTCTGATT
TTGTTTTCCAAATAGCCATAAAAATAAAAGGGTCCAAGGTCTGTCCGACCATCTAACCTCAGCAA
AGAGGGGGAAGTACCACCCGCGCAGGAGTAGCCAATCCAACCGGTTACGGTCTGTGAAGTCTTCC
CCAACGGGCCACAAAATTAGATGAATGGTTAAATCCTGACGATTTTCATCCATTCATCTAATGTG
GTGGCCCGTTCCTACCCATTTCTCTAATATGGTGGCCGAGAACTCCTGTCGGATCTCTTACTTCG
TGAACTCATATGATTAAATATTATTATTTGCTCCAAATTTACGGA
Found at i:12296 original size:21 final size:21
Alignment explanation
Indices: 12267--12331 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
12257 AACCCTTGCC
* *
12267 TCAATCTCTTGATTTATAGAT
1 TCAATCTCTCGATTTATGGAT
* * *
12288 TGACTCTCTCGACTTATGGAT
1 TCAATCTCTCGATTTATGGAT
12309 TCAATCTCTCGATTTATGGAT
1 TCAATCTCTCGATTTATGGAT
12330 TC
1 TC
12332 GTCGTATATG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.43
Consensus pattern (21 bp):
TCAATCTCTCGATTTATGGAT
Left flanking sequence: Indices 11767 -- 12266
TTACGAGGTTTCAGATACATTATCTAAAACCTTGTAGGCAAAAGGGATAAAACCGAAAGCGGAAA
AGGAGCGCGTCTGCCGTATAATGGGAATCATTGATGGCGCTTTGAAAGATGGGGATTTGGTTAGA
GTTTTTACATATCTCATTACGAACAAACATATATCGTCACGAGTCTCTGATTTTGTTTTCCAAAT
AGCCATAAAAATAAAAGGGTCCAAGGTCTGTCCGACCATCTAACCTCAGCAAAGAGGGGGAAGTA
CCACCCGCGCAGGAGTAGCCAATCCAACCGGTTACGGTCTGTGAAGTCTTCCCCAACGGGCCACA
AAATTAGATGAATGGTTAAATCCTGACGATTTTCATCCATTCATCTAATGTGGTGGCCCGTTCCT
ACCCATTTCTCTAATATGGTGGCCGAGAACTCCTGTCGGATCTCTTACTTCGTGAACTCATATGA
TTAAATATTATTATTTGCTCCAAATTTACGGATTTAACCCTTGCC
Right flanking sequence: Indices 12332 -- 12831
GTCGTATATGCATATATAATGATTATAATTTGCTCCCACCCAAATTTATTGATTTATGTATTATT
ATCTCCGTATACACGAAGCTCCATTACGCTTTCTTCTTCCATTATCTCTCTACCCGGCTCGGTCT
CCCGTTTCATATTATTTTTTCCCCCAAATAGCATCTCATATGCGTTTGTGCCGACGCTGTTGCGA
AAATATTTCATTTGCCGCGGTTCTGACGATTTTATTGACTCGATATAATTGGCTACATCCACCTT
GTTCTTACTTAATGGGTTGGTCGAGTCCTCCATCGAATAATACAACGCTTAAATCCGGTAGACAT
TCGCGGATGCTGGATGATTGCCGATGTGAGCTGTCGCATAACCCCTGCGAAGTATTCCACAAATA
GCTTTGTCATTACCTCGAAGGAAGCGCAAAGGCTGAAATTAAGCCTAGAACGCATCAACCGCAAA
CTGCGCAGACTATCCATCCATGAATAAATGAAAGGCTCGGAAAAG
Found at i:31037 original size:2 final size:2
Alignment explanation
Indices: 31030--31060 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
31020 GGAACATTAC
31030 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31061 CGTGGCAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 30530 -- 31029
CATCTCACAAGGCGGGATATCCATTGCGGCAGCTTTTTGGCCTAAGCGCTAAGTAGGAAAATAAA
CCTTTGATAGATTATGGAATGGCAAAAGTTATCCAAGCAGATATCCCGTGTGATGGGGCTCACGT
CCGCTATAGCCCTTAGTGTCAGGTCGATTAATATAAGATTAAGGTTTTCTGCTGCCTACTCGCAC
GCATCTTTCAAGCCGTATTATGTGCTTCTTTGGTCGACTTACTTTTTGCCCTTTCCTTAATCGTT
TCTCTATTCGTGGCTGACGGGTACCTAGTACTTAGCCTCATATATTGATACATTTTTATGAACAG
AGCAACCCTTTTTCCCGTTCTGTCGCCCCCGAGTGTTTGAGAAGTAGGGGGGCCGAAAGGCGCAC
AGTGGCGCCCTCTTTTCTCGGCAAGCGGGGGAGCCACCGATAATTTTCGAAGAGCGAGTATATTC
ATTCGCTTTGTTCCACCATCGCAATTTAAAAGATTGGAACATTAC
Right flanking sequence: Indices 31061 -- 31560
CGTGGCAATTCATATAGAATAGTTGCTTACGGGCCAAATAGATATATATATATTTCTTTATTTCA
TTTATTTATTTATCTCTCTATATGGTCCAGGAACTTCGAGCCCCTTTCTTTTATACGTAAAATGA
AATTATTATTATTGGACAAGATATTAAGGATAGTAATAATTATTAGGTTCGGAATGAGAACTGAT
ACTACTAAATACTGATAATTTTTGAATGACTAATTCGGGTTTTCAAGTCAAGTCGGGAAACTCGA
CTTCAACTTTTTATAGATAAAACTAAGAAGGGACCTTGACATCCTAGTAAATAATCCCGTTGGAA
CCCTTTGTAATTACGATGGGACAGACTCATTCCTACTACATGATCCGATAAAGGGAACCTGGGAT
ACGGACGCTATGTCCATACTTGAAGCCGAGATAATAAGCTTCCTCGGATTTCCATGACTCCAACA
CTCCGAGAACTGAACACGAATGCCTTTGAGCCAACAAGTCTAGTT
Found at i:34408 original size:21 final size:21
Alignment explanation
Indices: 34384--34429 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
34374 AAATGATAAG
34384 AAGTATGAGCTGAATAGGGAA
1 AAGTATGAGCTGAATAGGGAA
* *
34405 AAGTATGAGCTGGATCGGGAA
1 AAGTATGAGCTGAATAGGGAA
34426 AAGT
1 AAGT
34430 TGGAGTACGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.35, T:0.20
Consensus pattern (21 bp):
AAGTATGAGCTGAATAGGGAA
Left flanking sequence: Indices 33884 -- 34383
AACTCGTAAGTGTTTTAGCAAAAATAGTAACTGTGTTTATAATAATCTACTATCGATTAAGACGC
GATTTTTTGGTGTTTCAAATCACCAAAAATTCGCAAAAAATAATAACGTGGGATTTTATATTGAG
TCAGCTCCGAGGTGCTATTGAGCAACAGTCGGCCGGCTACAAGGGTAATATTGAATTCTCGGGTC
TTTTTTTGTAAATAAACTATCGAACAAATGCTCTTAAATCAGTGATCTTCCCGTTTTTTACAAGG
CCTTCTTATGCTTCAGTTGCAAGAGAAGCACCCGGTGATGGTGGATCTGCGCTGGAGCCGTCGGG
AAATCCGCGGCGGGACAATGAGCAACTGATTAGGTCTATGAAAATTCTGGGGCGTCTATTGCTGT
CATTGTAGGCGGGGTTTTTCGGTTATAAAATATATGTCAATGAGCGTGGAAACGCTCGAAAAGAC
CAAGCCCTGGAGCATAAAGATGAAGAGCTCGCCTAAAATGATAAG
Right flanking sequence: Indices 34430 -- 34929
TGGAGTACGAAAAGTTGAAAAAGAGGGAGGCGGCCATGTAAGATCTTAACGCCCCTGAAAAGACT
CCATAGGATCCACAATCGGTATTTATTAAAAAGCATGGAGCGCTTTCAGCCGGGGGAGCTCGTAA
CAAAAGCCTTTTTGAGCCTACGTTTAATATCTCCGATTTGTTTTTTTTAACTTCCCCAAGAGCAA
CGCTACGCGCCTGGCTTTGTTGTTCTAGCCAAAACTAATCCTATTTTAGCTATTACCCCGTCTAT
TACTATGTTCCCATACGCGGGAATACCCCCATTAGCTGGATTTCGTAGCAAATTCTATTTGTTTT
TTGCCGCTTCAGGCTGTGGGGCCTACCTACTAGCCCTAATAGGAGTAGTTACTAGCGTTATCAGT
TGTTTTTATTATATACGCTTTGTGAAAATAATGTATTTTGATACACCCGAAACATGGATTTTATA
TAAACCCATGGATCGTGAAAAATCCTTACTACTAGCAATCACTGC
Found at i:59640 original size:27 final size:27
Alignment explanation
Indices: 59610--59665 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
59600 ATAAACAATC
* *
59610 ATGCAAGAAAAGCACGGTATTACTAAT
1 ATGCAAAAAAAACACGGTATTACTAAT
* *
59637 ATGCAAAAAAAACACTGTATTACTTAT
1 ATGCAAAAAAAACACGGTATTACTAAT
59664 AT
1 AT
59666 TCAATCAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.27
Consensus pattern (27 bp):
ATGCAAAAAAAACACGGTATTACTAAT
Left flanking sequence: Indices 59110 -- 59609
AGGGAAAAAAAAATAAATCATGTCATATATTTTAGGAACCAATCTGAATTCCAATAAACAGGTGA
AAATTGCCTTAACTCGAATCTTCGGAATTGGGCCTAAAAAGGCAATTCAAGTTTGTGATCGATTA
GGCCTCAGCGATAACATTAAGGTTAATAAGTTAACTAAATATCAATTTGACCAAATTCTAGAAAT
AATAAGTCAAAATTATTTAGTCGATTCGGAATTGGAGAGAGTCATTCAGAGGGACATCAAACGAT
TAATTAGTATTGGTTGTTATCGCGGGTTTCGCCATAATGCAGGATTGCCCTTACGCGGCCAACGG
ACTCATACTAATGCTAAGACTTCTCGCAAATTGAGATACATTTCGATCAGAAGTTGAGAAAAGTT
TTTTTCCAGTTCGTACAAAATATCTCTGTAATTGGTGAACGGATTGGATGGATCATAAAAAAACG
AAATCGATGATATCGAGCAACACCAAAAACATTCAATAAACAATC
Right flanking sequence: Indices 59666 -- 60165
TCAATCAACTTTTGGTAATACAATTATTACTTTAACGGATTATGACGGAAATACAAAAACTTGGT
CCTCCTCGGGTTCAGTGGGGTTTAAGGGATCTCGTCGCTCAACCAATTATGCTGCTCAAGCAACC
GCAGAAAATGCCGCGCGAGCTGCCATTCAACTTGGATTTAAGTTTGTTGAAGTGAGAATCAAAGG
ATTGGGTTATGGAAAGGAATCTTCGCTACGTGGTTCAAAACCAGGAGGTCTTATTATTACCAAAA
TTCGCGATGTAACCCCAACGCCACATAATGGATGCCGACCCCCCAAAAAACGTCGTGTTTAAATA
TCATCATAAAGTGCTATGTCATCATAAAATGGTAAATTGAGGTTCAAGAGTAAAAACAATTTTTT
TAGGGTCCGAGGGATACTTCTTTGGCTTCACGGGGCTTAACCCGTCCTTCGTAAAGGCGAAGAGG
GAAATCTACAAGCCATGTCTGGCCTTCGGCGGCCCTTCGGACCCA
Found at i:88398 original size:2 final size:2
Alignment explanation
Indices: 88386--88438 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
88376 AGATATCTAG
* *
88386 AT AT AT CT AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
88428 AT AG AT AT AT A
1 AT AT AT AT AT A
88439 ATTTATAGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 87886 -- 88385
TGCTAAATGACTAAATTTCGCTAATATGGCTAAATCCCGAGGATTTGTAGATAAATATATGTAAT
TAATACTCTAGAAGCCTCATCGCTAATGACACCTTCGCTAAATGACGCATATTTAGCTAATATGA
CTAAACCTGTTGGGGATCTGTAGTATAATACGGAAAGGAATTAATATGTAATTAAAGGGTCGGGA
GAGGAATATATAATAGGAATCTATATGGGATATGGAAGAATTCCATATAATTGGAAGAGTTAATC
AATTGAATTGGAATAAATAGAATGTATTAATAAATGAAAGAAATTCAAATATATATATACATATT
ATATATTTGTGTATAACGGAGAAAATGCATAAATCAAATAGATTCTATTATTTTCTATTATTTAT
AGGAGAGATTATTAAATTCATGTTTATTCTTTCTCCGCCCATCTTCCAAAAGAAAATGAGCTACT
ATTTTTCTTATTCGAGAGAGACGATGAGCTGCAATAGATATCTAG
Right flanking sequence: Indices 88439 -- 88938
ATTTATAGGTCAGGGGAGGAGATAGCCTTGACCTCTAACCTTTAAAGATACTAAGGACCTGGATC
TTCCCTTACCACGTTCTTGAGATCTGTTACATAGGCCTCTAGTTTTCCCTTGGGAACGCCCAGAG
ACTTTCATCGTAGAAGTGACATAGGAACTCCGGGCGGGGATCATGACTTCTACTAGAACCTTAGG
TACGCTTTCGCTAGGAGCTCAAACTGGACTGGAGATGGGAAGCATAGATCGGGCACGAAGGAACT
ATTTTTTCGGTCACGCGGTACGTACCGCCCGTAGGTCCCTCCCGTAAGCATCTCGTCTTTATGGA
GTTTGTAAACGGTGTCCGCTACATCTGGTTGTTGGTTGCGGGGCGGGGGACTTGGTTTTGTCGGC
TACCATAAAACCGAAAAACTGTCCGACAAAACAAAGGGCACTTACGACCAACTCTGCCTCGGAAT
ACCTTCCAGTAACCTATGGCAACTCCTCCAACTTATTGATGGAAA
Found at i:88408 original size:10 final size:10
Alignment explanation
Indices: 88378--88430 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
88368 GCTGCAATAG
*
88378 ATATCTAGAT
1 ATATCTATAT
88388 ATATCTATATAT
1 ATATC--TATAT
88400 ATATCTATAT
1 ATATCTATAT
*
88410 ATATATATAT
1 ATATCTATAT
*
88420 ATATATATAT
1 ATATCTATAT
88430 A
1 A
88431 GATATATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
10 30 0.77
12 9 0.23
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (10 bp):
ATATCTATAT
Left flanking sequence: Indices 87878 -- 88377
GGAAGCATTGCTAAATGACTAAATTTCGCTAATATGGCTAAATCCCGAGGATTTGTAGATAAATA
TATGTAATTAATACTCTAGAAGCCTCATCGCTAATGACACCTTCGCTAAATGACGCATATTTAGC
TAATATGACTAAACCTGTTGGGGATCTGTAGTATAATACGGAAAGGAATTAATATGTAATTAAAG
GGTCGGGAGAGGAATATATAATAGGAATCTATATGGGATATGGAAGAATTCCATATAATTGGAAG
AGTTAATCAATTGAATTGGAATAAATAGAATGTATTAATAAATGAAAGAAATTCAAATATATATA
TACATATTATATATTTGTGTATAACGGAGAAAATGCATAAATCAAATAGATTCTATTATTTTCTA
TTATTTATAGGAGAGATTATTAAATTCATGTTTATTCTTTCTCCGCCCATCTTCCAAAAGAAAAT
GAGCTACTATTTTTCTTATTCGAGAGAGACGATGAGCTGCAATAG
Right flanking sequence: Indices 88431 -- 88930
GATATATAATTTATAGGTCAGGGGAGGAGATAGCCTTGACCTCTAACCTTTAAAGATACTAAGGA
CCTGGATCTTCCCTTACCACGTTCTTGAGATCTGTTACATAGGCCTCTAGTTTTCCCTTGGGAAC
GCCCAGAGACTTTCATCGTAGAAGTGACATAGGAACTCCGGGCGGGGATCATGACTTCTACTAGA
ACCTTAGGTACGCTTTCGCTAGGAGCTCAAACTGGACTGGAGATGGGAAGCATAGATCGGGCACG
AAGGAACTATTTTTTCGGTCACGCGGTACGTACCGCCCGTAGGTCCCTCCCGTAAGCATCTCGTC
TTTATGGAGTTTGTAAACGGTGTCCGCTACATCTGGTTGTTGGTTGCGGGGCGGGGGACTTGGTT
TTGTCGGCTACCATAAAACCGAAAAACTGTCCGACAAAACAAAGGGCACTTACGACCAACTCTGC
CTCGGAATACCTTCCAGTAACCTATGGCAACTCCTCCAACTTATT
Found at i:99848 original size:2 final size:2
Alignment explanation
Indices: 99796--99832 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
99786 TTTCAAATAC
99796 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
99833 AATGGAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 99296 -- 99795
CCTACACGCGATATGGGCAAATAAAGCTACCCGACACGAAACCGCTAACCAAAAACTGGCAACCG
AGCCAATTCATTGCCCGCCAAAACTGGGAAACGCTTAGAGGCATACGATTGTTTATAACCACGGG
TAAACTTGAGTCGGAGAGCCAGGTGATGGCTAATCATCCCAGCACTTGATGATGATATCGTGAGA
GTGCACGGGGGGGGCTCCGCAATTGAACTCTTTATTCTATGTATTCTGTTGTCCCCGAGGAAGAG
GTAGTTACGATGATAAAAAAAAATCAAATTTTGTAATCCCGCAGGATACAACATACTTCGTTGGC
GAGACTTCTTCGGCTTTACGAAAGGAGCGCCGAAGGCCAGGGTCCGTAAAAAGAGGAGACTCTCT
CCTACGCGCTGCCTTCGTTCAGTGAAAGCCAGTGATATGAAGAGGGGTCCGCTTTTAACCTATCA
GGTTGAAGGCGCTTAAAAATTAATATATATAAATTTTTCAAATAC
Right flanking sequence: Indices 99833 -- 100332
AATGGAAAAAATATATCTACCGGTTTTACGAAAAAAAAGAGACGATTTATGCATAACCAATTGTT
TTTCAAATCTCTGATAGCCACTTTACCGAAATGGATACATAAATGTCAAACATCGAAACATGAAA
ATGTATTATATACCAACCCGAACAGTCTATTTCAATTATTATATTTCCTGAAGTATCATACCAAT
ACGCGTTTTAAAGTTTTGATTGATATTTGTGGCGTTGATCATCCCTCTCGAAAACGAAGATTCGA
AGTAGTTTATAATTTACTTAGTATCGACTACAATACGCGCATACGTATATTAACAGGTGTGGATG
AAATCACTCCAATTTGTTCGGTAGTCGGTATATTCCCATCGGCCGGCTGGTGGGAACGAGAAACT
TGGGATATGTTTGGTGTGTATTTCTCCAATCATCCCGATTTACGACGTATATTAACAGATTATGG
TTTTGAGGGTCATCCATTAAGAAAAGACTTTCCTTTAAGTGGATA
Found at i:105753 original size:21 final size:22
Alignment explanation
Indices: 105721--105762 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
105711 TTAGAGTAAG
105721 AAAAACCACTAC-AAAGAAACA
1 AAAAACCACTACTAAAGAAACA
*
105742 AAAAATCC-CTACTACAGAAAC
1 AAAAA-CCACTACTAAAGAAAC
105763 GTATGAGCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.60, C:0.26, G:0.05, T:0.10
Consensus pattern (22 bp):
AAAAACCACTACTAAAGAAACA
Left flanking sequence: Indices 105221 -- 105720
TATTAATAGTTGTTTCGTCATAAAAGCTAAAATGGATATTTTGCCTGCTTTACAGCTACTGAGAG
AGCTTCGTAGGTTTTACCACGCCCCGGTGGAGCTGTAATTGATGCGACCTTGGCCTTTTCATAGT
TAGTATTCAGAAAGGGTTTAATTATTCGCGGCAGGAAAACTATCTTCCTGTTCCTCTATGGGCGA
CATTGTGCGATGGTTAGAAATAGTCGAAATTTCTGAATGAAACATGCGGCGGTACTTGTTTCGAC
AATAGGCATGTTTGCACAGGGCGGGCTCCGCCCTATAAGGACTAGGTCTGTATAGGGCGGAGCGG
ATCGGTGCTTAAGCTGCACAAATTGCTGAGACGTCTAAATGCTTTCCTTGATAGCTGGAAGTTCT
TCAAAAGTATGAAATGCCGGAGGGCTCGGGACCATCCATTCAAGTGTCGTTGAATTCTGTTCAAC
AGCCCAAGGACTTGGAGCACACTTGTTTTCACTGGTTAGAGTAAG
Right flanking sequence: Indices 105763 -- 106262
GTATGAGCCAAAACTACTAAAGGCATTCCATCCAGCGTAAGCATCTGGATAATCAGGAATGCGAC
GTGGCATACCTGCAAGCGGTTTTTCCCTTATTTATCAAATGTTAATGGATTGTGACTAAATATTT
TTCTTTTGTAAACTTCTTCATCTGGAATTAGTCCCTCAGACGTTTCGGTGTGTTTAAATCCCAAT
GTTGAATCAGTTATTTTATTGGTATTAAGAACTGGTCCAATGATAAATAAGGAATATCCTTTATA
TTTCTAACGAGGCCGGACTATATCTTCACCCTAATTGTCTGGGAGCATCACGTATAGTCTCTGAG
GATCTTATTCGTCGGCGTTGAGATTAGACTTTGGTTTCCTGCTGATTGTCCAATCCCTGAGATGG
TTACTGCTCGAAGTGAGTATCAAGGGCTCTAAGGAATTTCCAGCGTATAGTGATGTTTCACTCCA
AATTTGACTTTGGAAGTGGGCCTAATATTGACCTAGGAAATGCAT
Found at i:120777 original size:17 final size:17
Alignment explanation
Indices: 120755--120791 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
120745 AAGGTACTTC
120755 TATAGAATTTTAAAAAA
1 TATAGAATTTTAAAAAA
*
120772 TATAGAATTTTCAAAAA
1 TATAGAATTTTAAAAAA
120789 TAT
1 TAT
120792 GGACTAAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (17 bp):
TATAGAATTTTAAAAAA
Left flanking sequence: Indices 120255 -- 120754
TTGGACGAGAGACGGATTTACGGGGCCCGGCGGAGACTTCTTTGCCTTTACAGGCACTACGTGCT
TCTTTGGCTTTACAGGGTCCGTTAGTTAGTTTACGATTTACATTCCGTATAGTGACACCGTCTCC
TGGCGAAATATCATTATCATCTCCGAACAAAATAAAATCCGAAAAAGAATCTACAAGAATTGTCC
AAAATATAGCCATTAATCCTAGAAACAAATGAGAAGAAATAAACGCTAACCATATAAACGGTGAA
GAAATAACACACTTGATTTTCGGTGAGCAATTATTATATAATGATACATAAAAGGTAATATAATA
AATACCATAATACGTACGTAATAGAAAAAATGATATAAAGCACGCATAACCGAACGAATTGTGTC
AAATACATAAAGTGATTTGGTTGAGTCCGAAGATGTAGGACCTTAGTTCTACATAACATTTTTTT
TCTACCCGCAAGAGAAATGGAAAGAGTTGGAATATAAGGTACTTC
Right flanking sequence: Indices 120792 -- 121291
GGACTAAAGCCCCGCCGCCGGGCGGGGGAGGCAAAAAAGTTATATCTAGAACCGGACCTCGTGTT
TTGTGGGTCGCTCCCTTCTCGCCCATTTTTTTGGTTCCCCACCCGTTTTTGGCGGGAGTCGGATT
CGAACCCACAACATTCAGATTATGAGCCTGACGAGTTACCAATTACTCTATCCCGCGAACAGCCA
ACGAAAAAAGAGATATATTCATCGCCTTTTATTTATCTATGATGATTCATCATTATTTATTAATG
ATGAATCATCATGATTTATGATAATTTATTACTAATGAGGATTCATCATTATTTATCTACGATGA
TTCATCCAGATTTTCTATTAGGAATCGGACTAGATTCAACCCAGATTTGTCTAGATTCAAAAGGA
AAAAGGGGCGCGCCGCAGCCCGCGCTAGCCCACCGGGTTAAAATGACGGATACAATTTTGGTGTT
TACCCAACTAAAGCGATTGGCTGGAGACGAAACCACGGTAGCTCC
Found at i:121052 original size:24 final size:24
Alignment explanation
Indices: 121015--121070 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
121005 TCATCGCCTT
*
121015 TTATTTATCTATGATGATTCATCA
1 TTATTTATCTATGATGAATCATCA
121039 TTATTTAT-TAATGATGAATCATCA
1 TTATTTATCT-ATGATGAATCATCA
*
121063 TGATTTAT
1 TTATTTAT
121071 GATAATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 1 0.03
24 28 0.97
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (24 bp):
TTATTTATCTATGATGAATCATCA
Left flanking sequence: Indices 120515 -- 121014
GAAATAACACACTTGATTTTCGGTGAGCAATTATTATATAATGATACATAAAAGGTAATATAATA
AATACCATAATACGTACGTAATAGAAAAAATGATATAAAGCACGCATAACCGAACGAATTGTGTC
AAATACATAAAGTGATTTGGTTGAGTCCGAAGATGTAGGACCTTAGTTCTACATAACATTTTTTT
TCTACCCGCAAGAGAAATGGAAAGAGTTGGAATATAAGGTACTTCTATAGAATTTTAAAAAATAT
AGAATTTTCAAAAATATGGACTAAAGCCCCGCCGCCGGGCGGGGGAGGCAAAAAAGTTATATCTA
GAACCGGACCTCGTGTTTTGTGGGTCGCTCCCTTCTCGCCCATTTTTTTGGTTCCCCACCCGTTT
TTGGCGGGAGTCGGATTCGAACCCACAACATTCAGATTATGAGCCTGACGAGTTACCAATTACTC
TATCCCGCGAACAGCCAACGAAAAAAGAGATATATTCATCGCCTT
Right flanking sequence: Indices 121071 -- 121570
GATAATTTATTACTAATGAGGATTCATCATTATTTATCTACGATGATTCATCCAGATTTTCTATT
AGGAATCGGACTAGATTCAACCCAGATTTGTCTAGATTCAAAAGGAAAAAGGGGCGCGCCGCAGC
CCGCGCTAGCCCACCGGGTTAAAATGACGGATACAATTTTGGTGTTTACCCAACTAAAGCGATTG
GCTGGAGACGAAACCACGGTAGCTCCCCCACCCGTGCACAGGTCATGAATTGGGGGTGTTATGAA
GGAGGCACGTGGATTACCTTAGGCAACAACGAGCCCGCCGCAATCGGTAACATAATGAAAAAGTA
CACAGGCACTACGTGCTTCTGGAACATACTTTTTTTAGTTTTCGTCCGGAGCGATAATTGTATGG
AATACAGGAGGCGATAGGGAAGCAGGAAGGTTTATGGAGGGGGTTGAGCTACGAGTTGGGTTTCA
ACCAACCGTAGCTCTACCTCGTTCGCAGGAGGCTGTGACCCCTAA
Found at i:139371 original size:21 final size:21
Alignment explanation
Indices: 139347--139389 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
139337 AAAGAAGAAA
*
139347 TTTACAAAAAAATATTTTTTT
1 TTTACAAAAAAATATTTCTTT
* *
139368 TTTACGAAAATATATTTCTTT
1 TTTACAAAAAAATATTTCTTT
139389 T
1 T
139390 GTTGCTCGCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTACAAAAAAATATTTCTTT
Left flanking sequence: Indices 138847 -- 139346
CCGATGAGAAGCGGGTAACAATGTGTTTGTCCTCCGAGGAAGCCAATCGTGGATTGGAGGTTGCC
CGAGCTAAGCCCTTGGCGTTTTTTCTCGCGTATCCAAGTTCCAAGGCTTTGGTTATTAAGTCCGT
TATGGGAGCAATTAGTTGTGGACGAGATGGGAGTCTTACTCGGTTGACACCGGATATCTTGCCAG
TGCTTGACATTTCCACACTTCGGGTGCCGTAATATATTACTAATGCGCCCAAGTATTTGGCCATC
CCGGACTTTGCGTGTAAGATTTTATGTTCATTTATGTCCAACTCCAGTTCTTCCTGCGGGAAGTT
TTGCACGGCTTTTATAATATCTAGGGCATCTCGTTTGGTGCCCATAACACCTAGAATTATGTTAT
CCGCGTACCGTAGGTACTTAAGTCTTTCTAATCCTTCTTTCTCAGCCATTTCTGGAAGCGTCTTT
CGGCCCAAAGGGCACGAAACTTTAGGGTTTCGAAAAAAGAAGAAA
Right flanking sequence: Indices 139390 -- 139889
GTTGCTCGCGGTTCATCCATTCTAGGTGTTCGATGTTTTTGATGGCCCGCCCTAATTCTGTATAG
TACTCGAAGAAGGCTTTGTATTTTGAATGGATATCAAGCCTTTTCCTACTATATTCTGCCGACGT
GAGGCGCATATTCGCTACATTGTATTTGGGTATGAGTATGTCTTCGACGTAGCAATCCAACTTAT
GTAGGAAGATATTGGTACAAAGCGGGGATAGTATAGAGCCCTGCGGAACGCCCTCTGTGTTGTAT
CCCGCTCGATCCGTAAGGTTATATACATCTATGTATCCTGCGTTGAGTAGCTTTCGCATAAGATC
CTGTAGTGCTTTAGATCGCAGTACTGATCCCATCTCCTTAATAAGCAGGTCGTGATGAATCTTGT
CAAAGTCTTTCTTAATATCAATTTGTACAAGCCAGGTCGGTGCCGTCCACGAGTAACGTAGGGTT
CGCAGGGCTTCATGACAGCTTCTCCCAGGGCGGAACCCGTGGCTT
Done.