Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 227 of 259
Found at i:71468862 original size:11 final size:11
Alignment explanation
Indices: 71468848--71468918 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
71468838 ATAGCTTAAG
*
71468848 AAAATTAATAT
1 AAAATTAAAAT
71468859 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
71468871 AATAA-T-AATT
1 AA-AATTAAAAT
*
71468881 AAAAAT-AAAT
1 AAAATTAAAAT
71468891 AAAATTAAAAT
1 AAAATTAAAAT
*
71468902 AAACTTAAAAT
1 AAAATTAAAAT
*
71468913 AGAATT
1 AAAATT
71468919 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:71468887 original size:16 final size:16
Alignment explanation
Indices: 71468857--71468904 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
71468847 GAAAATTAAT
71468857 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
71468872 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
71468889 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
71468904 A
1 A
71468905 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:71473141 original size:19 final size:18
Alignment explanation
Indices: 71473119--71473166 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 18
71473109 ACGTAAAAAG
71473119 TAAAAAGTAAAAGATGAAA
1 TAAAAA-TAAAAGATGAAA
71473138 TAAAAATAAAAAGATGAAA
1 TAAAAAT-AAAAGATGAAA
71473157 TAAAAATAAA
1 TAAAAATAAA
71473167 TAACAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
TAAAAATAAAAGATGAAA
Found at i:71474091 original size:16 final size:16
Alignment explanation
Indices: 71474061--71474108 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
71474051 GAAAATTAAT
71474061 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
71474076 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
71474093 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
71474108 A
1 A
71474109 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:71474107 original size:11 final size:11
Alignment explanation
Indices: 71474052--71474122 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
71474042 ATAGCTTAAG
*
71474052 AAAATTAATAT
1 AAAATTAAAAT
71474063 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
71474075 AATAA-T-AATT
1 AA-AATTAAAAT
*
71474085 AAAAAT-AAAT
1 AAAATTAAAAT
71474095 AAAATTAAAAT
1 AAAATTAAAAT
*
71474106 AAACTTAAAAT
1 AAAATTAAAAT
*
71474117 AGAATT
1 AAAATT
71474123 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:71477275 original size:34 final size:34
Alignment explanation
Indices: 71477233--71477297 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
71477223 AAATGTAAAA
* * *
71477233 ATATTTTAA-AACATTTTTAAAATTTTTATTTTCT
1 ATATTTTAATAA-ATTTTAAAAAATCTTATTTTCT
71477267 ATATTTTAATAAATTTTAAAAAATCTTATTT
1 ATATTTTAATAAATTTTAAAAAATCTTATTT
71477298 GTAAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 25 0.93
35 2 0.07
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (34 bp):
ATATTTTAATAAATTTTAAAAAATCTTATTTTCT
Found at i:71482217 original size:16 final size:16
Alignment explanation
Indices: 71482192--71482239 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
71482182 CTATTTTAAG
71482192 TTTA-TTTTAATTTTA
1 TTTATTTTTAATTTTA
71482207 TTTATTTTTAATTATTA
1 TTTATTTTTAATT-TTA
*
71482224 -TTATTTTAAATTTTA
1 TTTATTTTTAATTTTA
71482239 T
1 T
71482240 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.24
16 19 0.66
17 3 0.10
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTATTTTTAATTTTA
Found at i:71483175 original size:19 final size:19
Alignment explanation
Indices: 71483128--71483167 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
71483118 TATTTTGTTA
71483128 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
71483147 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
71483166 TT
1 TT
71483168 ACTTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTTTTATTTCATCTT
Found at i:71487422 original size:16 final size:15
Alignment explanation
Indices: 71487397--71487444 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
71487387 CTATTTTAAG
71487397 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
71487412 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
71487429 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
71487444 T
1 T
71487445 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:71488356 original size:19 final size:19
Alignment explanation
Indices: 71488332--71488371 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
71488322 TATTTTGTTA
71488332 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
71488351 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
71488370 TT
1 TT
71488372 ACCTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTTTTATTTCATCTT
Found at i:71492703 original size:13 final size:13
Alignment explanation
Indices: 71492687--71492715 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
71492677 TGTTTAACCA
71492687 AATATAAATTGAT
1 AATATAAATTGAT
71492700 AATATAAATTGAT
1 AATATAAATTGAT
71492713 AAT
1 AAT
71492716 CATTTATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (13 bp):
AATATAAATTGAT
Found at i:71495919 original size:6 final size:6
Alignment explanation
Indices: 71495893--71495938 Score: 65
Period size: 6 Copynumber: 7.3 Consensus size: 6
71495883 ATAAATCTTC
*
71495893 AAAAAT AAATAT AGGAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT A--AAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
71495939 TAAAAAGGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 31 0.86
8 5 0.14
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:71503583 original size:12 final size:12
Alignment explanation
Indices: 71503566--71503591 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
71503556 AAACCACAGA
71503566 AAAAAGTTTCCT
1 AAAAAGTTTCCT
71503578 AAAAAGTTTCCT
1 AAAAAGTTTCCT
71503590 AA
1 AA
71503592 GTATATTGAC
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:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (12 bp):
AAAAAGTTTCCT
Found at i:71505821 original size:3 final size:3
Alignment explanation
Indices: 71505815--71505843 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
71505805 CCTGACTCTC
71505815 CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
71505844 ACAAGCTCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:71509376 original size:12 final size:12
Alignment explanation
Indices: 71509359--71509384 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
71509349 AAAATAGGGC
71509359 TTTAGCGGCGTT
1 TTTAGCGGCGTT
71509371 TTTAGCGGCGTT
1 TTTAGCGGCGTT
71509383 TT
1 TT
71509385 ATCAAAAAAC
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:71510085 original size:24 final size:24
Alignment explanation
Indices: 71510058--71510106 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
71510048 CGTATATTTA
*
71510058 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
71510082 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
71510106 T
1 T
71510107 GTTATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTCTATATAAAAATTAAT
Found at i:71510204 original size:21 final size:22
Alignment explanation
Indices: 71510180--71510225 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
71510170 ATGATTTACA
*
71510180 GTTTATGGTTTAAGG-GTT-GGG
1 GTTTAAGGTTT-AGGTGTTAGGG
71510201 GTTTAAGGTTTAGGTGTTAGGG
1 GTTTAAGGTTTAGGTGTTAGGG
71510223 GTT
1 GTT
71510226 AGGGGTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 13 0.59
22 6 0.27
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.43
Consensus pattern (22 bp):
GTTTAAGGTTTAGGTGTTAGGG
Found at i:71510641 original size:22 final size:21
Alignment explanation
Indices: 71510599--71510656 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
71510589 ATTTTTTTAA
*
71510599 AAAAATTATTTAAAATTAATAT
1 AAAAATTA-TAAAAATTAATAT
71510621 AAAAGA-TATAAAAATTCAATAT
1 AAAA-ATTATAAAAATT-AATAT
71510643 AAAAATTATAAAAA
1 AAAAATTATAAAAA
71510657 AGTCAAACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 8 0.25
22 23 0.72
23 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAAATTATAAAAATTAATAT
Found at i:71510918 original size:20 final size:19
Alignment explanation
Indices: 71510897--71510934 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
71510887 TATTTCTCTC
*
71510897 CCCCGATTCCCTTTTCTTT
1 CCCCAATTCCCTTTTCTTT
71510916 -CCCAATTCCCTTTTCTTT
1 CCCCAATTCCCTTTTCTTT
71510934 C
1 C
71510935 TCATCCTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.42, G:0.03, T:0.47
Consensus pattern (19 bp):
CCCCAATTCCCTTTTCTTT
Found at i:71513884 original size:33 final size:33
Alignment explanation
Indices: 71513828--71513894 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
71513818 ATCCTTTGGA
* *
71513828 TCTCTTTGCTACTAGTTCTAATGCGTATCTTCT
1 TCTCATTGCTACTAGTTCCAATGCGTATCTTCT
* *
71513861 TCTCATTGCTACTGGTTCCAATGCGTATGTTCT
1 TCTCATTGCTACTAGTTCCAATGCGTATCTTCT
71513894 T
1 T
71513895 AAGTATGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.15, C:0.24, G:0.15, T:0.46
Consensus pattern (33 bp):
TCTCATTGCTACTAGTTCCAATGCGTATCTTCT
Found at i:71514342 original size:241 final size:241
Alignment explanation
Indices: 71513919--71514835 Score: 1735
Period size: 241 Copynumber: 3.8 Consensus size: 241
71513909 ATGAATTAAT
*
71513919 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACATT
*
71513984 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCAGGAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
71514049 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
*
71514114 AAAAAGACTTGAAAAAAGTTCTATCAAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
* *
71514160 TTTATTACCATGTAGCTAGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACATT
*
71514225 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGAGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
71514290 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
*
71514355 AAAAAGACTTGAAAAAAGCTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
*
71514401 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGCTGACCTTCTCTCCAACATT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACATT
71514466 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
71514531 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAATGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
71514596 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
*
71514642 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAACTGACCTTCTCTCCAACATT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACATT
*
71514707 TTTTTAAATATTTTAAAGATTTAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
71514772 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
71514836 ACTATATTCA
Statistics
Matches: 661, Mismatches: 15, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
241 661 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACATT
TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:71514978 original size:9 final size:9
Alignment explanation
Indices: 71514955--71515127 Score: 136
Period size: 9 Copynumber: 18.6 Consensus size: 9
71514945 ATTGATCATT
*
71514955 ACTTAAATA
1 ACTTACATA
*
71514964 AATTACATA
1 ACTTACATA
71514973 ACTTACATA
1 ACTTACATA
* *
71514982 ACTCATATA
1 ACTTACATA
71514991 ACTTACATA
1 ACTTACATA
*
71515000 ATTTACATAACA
1 ACTTACAT---A
71515012 ACTTACATA
1 ACTTACATA
71515021 AC--A-ATA
1 ACTTACATA
* *
71515027 ACTCATATA
1 ACTTACATA
71515036 ACTTACATA
1 ACTTACATA
*
71515045 ATTTACATAACA
1 ACTTACAT---A
71515057 ACTTACATA
1 ACTTACATA
*
71515066 ACTCACATA
1 ACTTACATA
71515075 ACTTACATA
1 ACTTACATA
*
71515084 ATTTACATA
1 ACTTACATA
*
71515093 ACTCACATA
1 ACTTACATA
*
71515102 ACGTACATAACA
1 ACTTACAT---A
71515114 ACTTACATA
1 ACTTACATA
71515123 ACTTA
1 ACTTA
71515128 ACTAATACAT
Statistics
Matches: 131, Mismatches: 21, Indels: 24
0.74 0.12 0.14
Matches are distributed among these distances:
6 5 0.04
7 1 0.01
8 1 0.01
9 100 0.76
12 24 0.18
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:71515019 original size:12 final size:12
Alignment explanation
Indices: 71515002--71515067 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
71514992 CTTACATAAT
71515002 TTACATAACAAC
1 TTACATAACAAC
71515014 TTACATAACAA-
1 TTACATAACAAC
* *
71515025 TAAC-TCATATAAC
1 TTACAT-A-ACAAC
*
71515038 TTACAT---AAT
1 TTACATAACAAC
71515047 TTACATAACAAC
1 TTACATAACAAC
71515059 TTACATAAC
1 TTACATAAC
71515068 TCACATAACT
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
9 8 0.19
10 1 0.02
11 4 0.10
12 25 0.60
13 3 0.07
14 1 0.02
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (12 bp):
TTACATAACAAC
Found at i:71515109 original size:45 final size:44
Alignment explanation
Indices: 71514967--71515112 Score: 178
Period size: 45 Copynumber: 3.4 Consensus size: 44
71514957 TTAAATAAAT
71514967 TACATAACTTACATAACTCATATAACTTACATAATTTACATAAC
1 TACATAACTTACATAACTCATATAACTTACATAATTTACATAAC
* * *
71515011 AAC-TTACATAACAATAACTCATATAACTTACATAATTTACAT-A-
1 TACATAAC-TTAC-ATAACTCATATAACTTACATAATTTACATAAC
*
71515054 -AC--AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 TACATAACTTACATAACTCATATAACTTACATAATTTACATAAC
*
71515095 TCACATAACGTACATAAC
1 T-ACATAACTTACATAAC
71515113 AACTTACATA
Statistics
Matches: 87, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
39 28 0.32
40 4 0.05
41 2 0.02
42 2 0.02
43 5 0.06
44 6 0.07
45 40 0.46
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.31
Consensus pattern (44 bp):
TACATAACTTACATAACTCATATAACTTACATAATTTACATAAC
Found at i:71521015 original size:33 final size:33
Alignment explanation
Indices: 71520978--71521055 Score: 79
Period size: 31 Copynumber: 2.4 Consensus size: 33
71520968 AATTAATGTC
* * *
71520978 TTTGGTTGTATTTTTTATGTTAAATTTGCTGTT
1 TTTGGTTGCATTTTTTATATTAAATTTGCTGTA
* * *
71521011 TTTGGCTGCA--TTTTATATTATATTTGTTGTA
1 TTTGGTTGCATTTTTTATATTAAATTTGCTGTA
*
71521042 TTTGGTTGGATTTT
1 TTTGGTTGCATTTT
71521056 AATGCGGGAA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
31 25 0.71
33 10 0.29
ACGTcount: A:0.15, C:0.04, G:0.19, T:0.62
Consensus pattern (33 bp):
TTTGGTTGCATTTTTTATATTAAATTTGCTGTA
Found at i:71521036 original size:31 final size:31
Alignment explanation
Indices: 71520990--71521056 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
71520980 TGGTTGTATT
* *
71520990 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
71521021 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
71521052 TTTTA
1 TTTTA
71521057 ATGCGGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:71521155 original size:43 final size:43
Alignment explanation
Indices: 71521127--71521238 Score: 197
Period size: 43 Copynumber: 2.6 Consensus size: 43
71521117 TTTGTAGAAA
* *
71521127 AAACACCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCAC
*
71521170 AAGCGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCAC
71521213 AAACGCCGCTAAAAGCCTTGACCTTT
1 AAACGCCGCTAAAAGCCTTGACCTTT
71521239 TGTAGAAGCC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCAC
Found at i:71521279 original size:62 final size:62
Alignment explanation
Indices: 71521182--71521302 Score: 206
Period size: 62 Copynumber: 2.0 Consensus size: 62
71521172 GCGCCGCTAA
71521182 AAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTTGTAG
1 AAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTTGTAG
* * * *
71521244 AAGCCTTGATCTTTAGCGGTGTTTTTTCCACAAACGCCGCTAAAAGCCTTGACCTTTTG
1 AAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTTG
71521303 CGGCGCTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (62 bp):
AAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTTGTAG
Found at i:71521320 original size:43 final size:44
Alignment explanation
Indices: 71521244--71521412 Score: 218
Period size: 43 Copynumber: 3.9 Consensus size: 44
71521234 CCTTTTGTAG
* *
71521244 AAGCCTTGATCTTTAGCGGTGTTTTTTCC-ACAAACGCCGCTAA
1 AAGCCTTGACCTTTAGCGGCGTTTTTTCCAACAAACGCCGCTAA
* * *
71521287 AAGCCTTGACCTTTTGCGGCG-CTTTTCCAACAAATGCCGCTAA
1 AAGCCTTGACCTTTAGCGGCGTTTTTTCCAACAAACGCCGCTAA
* * *
71521330 AAGCCTTGACCTTTAGTGGCG-TTTTTCCCACAGACGCCGCTAA
1 AAGCCTTGACCTTTAGCGGCGTTTTTTCCAACAAACGCCGCTAA
* *
71521373 AAGCCTTGACTTTTAGCGGCGTTTTTTTCCAATAAACGCC
1 AAGCCTTGACCTTTAGCGGCG-TTTTTTCCAACAAACGCC
71521413 ACAAATTTTT
Statistics
Matches: 107, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
42 6 0.06
43 87 0.81
45 14 0.13
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (44 bp):
AAGCCTTGACCTTTAGCGGCGTTTTTTCCAACAAACGCCGCTAA
Found at i:71521326 original size:105 final size:105
Alignment explanation
Indices: 71521139--71521343 Score: 329
Period size: 105 Copynumber: 2.0 Consensus size: 105
71521129 ACACCGCTAA
* *
71521139 AAGCCTTGACCTTTAGCGGCGCTTTTCCCGCAAGCGCCGCTAAAAGCCTTGACCTTTAGCGGCGC
1 AAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGC
*
71521204 TTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTTGTAG
66 TTTTCCAACAAACGCCGCTAAAAGCCTTGACCTTTTGTAG
* * * * *
71521244 AAGCCTTGATCTTTAGCGGTGTTTTTTCCACAAACGCCGCTAAAAGCCTTGACCTTTTGCGGCGC
1 AAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGC
*
71521309 TTTTCCAACAAATGCCGCTAAAAGCCTTGACCTTT
66 TTTTCCAACAAACGCCGCTAAAAGCCTTGACCTTT
71521344 AGTGGCGTTT
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 91 1.00
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (105 bp):
AAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGC
TTTTCCAACAAACGCCGCTAAAAGCCTTGACCTTTTGTAG
Found at i:71521722 original size:12 final size:12
Alignment explanation
Indices: 71521705--71521729 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71521695 TTTTAAACCT
71521705 TATTAAATTCTA
1 TATTAAATTCTA
71521717 TATTAAATTCTA
1 TATTAAATTCTA
71521729 T
1 T
71521730 CTATTTGATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (12 bp):
TATTAAATTCTA
Found at i:71525889 original size:18 final size:18
Alignment explanation
Indices: 71525866--71525919 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
71525856 CCACCACCAA
71525866 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
71525884 CTCCACT----AC-C-TA
1 CTCCACTAGCCACACTTG
71525896 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
71525914 CTCCAC
1 CTCCAC
71525920 CACCACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 8 0.29
13 1 0.04
14 2 0.07
16 2 0.07
17 1 0.04
18 14 0.50
ACGTcount: A:0.22, C:0.48, G:0.07, T:0.22
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:71525899 original size:30 final size:30
Alignment explanation
Indices: 71525856--71525924 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
71525846 CTAACCTTTG
71525856 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
71525886 CCACTACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
71525916 CCACCACCA
1 CCACCACCA
71525925 CTTGTACCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.26, C:0.51, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:71526441 original size:23 final size:23
Alignment explanation
Indices: 71526404--71526531 Score: 93
Period size: 23 Copynumber: 5.5 Consensus size: 23
71526394 TTTTTTTTGT
*
71526404 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATACTA
* *
71526427 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATACTA
** * *
71526449 TATTAGGTATATTCTAAATTCTA
1 TATTATATATATTCTTAATACTA
*
71526472 TATTACGTATATA-TATT-ATACTA
1 TATTA--TATATATTCTTAATACTA
* *
71526495 TTTTATGTATATATCTTTAATACTA
1 TATTATATATAT-TC-TTAATACTA
71526520 TATTATATATAT
1 TATTATATATAT
71526532 ATATTTTTTA
Statistics
Matches: 79, Mismatches: 18, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
21 5 0.06
22 17 0.22
23 29 0.37
24 8 0.10
25 20 0.25
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (23 bp):
TATTATATATATTCTTAATACTA
Found at i:71526602 original size:25 final size:25
Alignment explanation
Indices: 71526469--71526613 Score: 102
Period size: 25 Copynumber: 5.8 Consensus size: 25
71526459 ATTCTAAATT
* * *
71526469 CTATATTACGTATATA--TATTATA
1 CTATATTATGTATATATTTTTTACA
* * * *
71526492 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATTTTTTACA
*
71526517 CTATATTATATATATATATTTTTTACA
1 CTATA-T-TATGTATATATTTTTTACA
* *
71526544 TGTTATCTTATGTATATA--TTTTA-A
1 --CTATATTATGTATATATTTTTTACA
* *
71526568 TTATATTATGTATGTATTTTTTACA
1 CTATATTATGTATATATTTTTTACA
*
71526593 CTATATTATGTACATATTTTT
1 CTATATTATGTATATATTTTT
71526614 AATATTATCA
Statistics
Matches: 96, Mismatches: 17, Indels: 16
0.74 0.13 0.12
Matches are distributed among these distances:
22 14 0.15
23 14 0.15
24 6 0.06
25 33 0.34
26 1 0.01
27 24 0.25
28 1 0.01
29 3 0.03
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (25 bp):
CTATATTATGTATATATTTTTTACA
Found at i:71526633 original size:23 final size:23
Alignment explanation
Indices: 71526607--71526655 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
71526597 ATTATGTACA
71526607 TATTTTTAATATTAT-CACATATT
1 TATTTTTAATA-TATGCACATATT
* *
71526630 TATTTTTTATATATGTACATATT
1 TATTTTTAATATATGCACATATT
71526653 TAT
1 TAT
71526656 GTAGTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTTTTAATATATGCACATATT
Found at i:71526792 original size:16 final size:15
Alignment explanation
Indices: 71526768--71526802 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
71526758 TAATTATTAT
71526768 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
71526784 TATTTTAATATTTTA
1 TATTCTAATATTTTA
71526799 TATT
1 TATT
71526803 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:71527608 original size:39 final size:39
Alignment explanation
Indices: 71527554--71527684 Score: 226
Period size: 39 Copynumber: 3.4 Consensus size: 39
71527544 GTATTTGATG
*
71527554 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
71527593 TATATCCGGATTTAGGGTCCGCAAGTTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
71527632 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
71527671 TATATCCGGACTTA
1 TATATCCGGACTTA
71527685 AGTCCCAAAG
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:71527715 original size:40 final size:40
Alignment explanation
Indices: 71527621--71527849 Score: 243
Period size: 39 Copynumber: 5.8 Consensus size: 40
71527611 CCGCAAGTTA
* * * * *
71527621 TGTGCTGGAATTATATCCGGACTTAGGGT-CCGCAGGC-TA
1 TGTGCTGGTATTATATCCGGGCTTA-AGTCCCGAAGGCATT
* * * *
71527660 TGTGCTGGAATTATATCCGGACTTAAGTCCCAAAGGAATT
1 TGTGCTGGTATTATATCCGGGCTTAAGTCCCGAAGGCATT
*
71527700 TGTGCTGGTGTTATATCCGGGC-TAAGTCCCGAAGGCATT
1 TGTGCTGGTATTATATCCGGGCTTAAGTCCCGAAGGCATT
*
71527739 TGTGCTGGTGTTATATCCGGGC-TAAGTCCCGAAGGCATT
1 TGTGCTGGTATTATATCCGGGCTTAAGTCCCGAAGGCATT
* * * * *
71527778 TATGCTGATATTATATCCGAGCTAAAGTCCCGCAGGC-TT
1 TGTGCTGGTATTATATCCGGGCTTAAGTCCCGAAGGCATT
* *
71527817 TATGCTGGTATTATATACGGGCTTAAAGTCCCG
1 TGTGCTGGTATTATATCCGGGCTT-AAGTCCCG
71527850 CATGCTTTCT
Statistics
Matches: 166, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
38 2 0.01
39 124 0.75
40 40 0.24
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (40 bp):
TGTGCTGGTATTATATCCGGGCTTAAGTCCCGAAGGCATT
Found at i:71534674 original size:16 final size:16
Alignment explanation
Indices: 71534645--71534688 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
71534635 ATTTTTTATA
71534645 TACATATT-TAATCATC
1 TACATATTAT-ATCATC
* *
71534661 TATATATTATATCATT
1 TACATATTATATCATC
71534677 TACATATTATAT
1 TACATATTATAT
71534689 TTATTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 23 0.96
17 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (16 bp):
TACATATTATATCATC
Found at i:71538113 original size:39 final size:39
Alignment explanation
Indices: 71538059--71538136 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
71538049 ATGTTTAAAT
71538059 TATTAATGAGCCTATTTTCAATAGAAACAAACGGAAACA
1 TATTAATGAGCCTATTTTCAATAGAAACAAACGGAAACA
* *
71538098 TATTAATGAGTCTATTTTCAATAGAAACAAATGGAAACA
1 TATTAATGAGCCTATTTTCAATAGAAACAAACGGAAACA
71538137 AACGGAAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (39 bp):
TATTAATGAGCCTATTTTCAATAGAAACAAACGGAAACA
Found at i:71543831 original size:46 final size:46
Alignment explanation
Indices: 71543755--71544067 Score: 394
Period size: 46 Copynumber: 6.8 Consensus size: 46
71543745 CGATTTCATA
* * * * *
71543755 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCACGTTGCCATG
* * *** **
71543801 GTATCTTTCAACCATGGTCTTATTTATTTTCCCGTCATATTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGTTGCCATG
* * *
71543848 GTATCTTTCAACCATAGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
* *
71543894 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTACCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
*
71543940 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
* * *
71543986 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
* *
71544032 GTATCTTTCAACCATGGTCTTACACATTCCATATCA
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCA
71544068 GATAGCACAC
Statistics
Matches: 240, Mismatches: 25, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
46 204 0.85
47 36 0.15
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
Found at i:71549248 original size:6 final size:6
Alignment explanation
Indices: 71549237--71549274 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
71549227 ATATTCTGAA
*
71549237 TCTTTT TC-TTT TC-TTT TCTTTT TCCTTT TCTTTT TCTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTT
71549275 ACAATGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TCTTTT
Found at i:71560737 original size:17 final size:17
Alignment explanation
Indices: 71560715--71560772 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 17
71560705 AATGACTTGT
*
71560715 TTAAAAATAGTTTTATC
1 TTAAAAATACTTTTATC
*
71560732 TTAAAAATATATTTTTATC
1 TT-AAAA-ATACTTTTATC
*
71560751 TAAAAAATACTTTT-T-
1 TTAAAAATACTTTTATC
71560766 TTAAAAA
1 TTAAAAA
71560773 AAACTAAGCA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 6 0.17
16 1 0.03
17 9 0.26
18 8 0.23
19 11 0.31
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (17 bp):
TTAAAAATACTTTTATC
Found at i:71560764 original size:18 final size:17
Alignment explanation
Indices: 71560717--71560773 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 17
71560707 TGACTTGTTT
*
71560717 AAAAATAGTTTTATCTTA
1 AAAAATATTTTTATC-TA
71560735 AAAATATATTTTTATCTA
1 AAAA-ATATTTTTATCTA
71560753 AAAAATACTTTTT-T-TA
1 AAAAATA-TTTTTATCTA
71560769 AAAAA
1 AAAAA
71560774 AACTAAGCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
16 7 0.19
17 4 0.11
18 15 0.42
19 10 0.28
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (17 bp):
AAAAATATTTTTATCTA
Found at i:71561029 original size:13 final size:13
Alignment explanation
Indices: 71561013--71561037 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71561003 ATTATTTACA
71561013 AAAATTAAATAAT
1 AAAATTAAATAAT
71561026 AAAATTAAATAA
1 AAAATTAAATAA
71561038 ATTCAATTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATTAAATAAT
Found at i:71565736 original size:17 final size:17
Alignment explanation
Indices: 71565714--71565746 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
71565704 AAAAATATAA
*
71565714 TAATAATATAATAGTAG
1 TAATAACATAATAGTAG
71565731 TAATAACATAATAGTA
1 TAATAACATAATAGTA
71565747 TTAGAAATAT
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:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (17 bp):
TAATAACATAATAGTAG
Found at i:71566019 original size:24 final size:24
Alignment explanation
Indices: 71565974--71566020 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
71565964 ATATTAAAAG
*
71565974 ATATATATATAAAATGTATACATA
1 ATATATATATAAAATATATACATA
*
71565998 ATATA-ATATTAAAATATTTACAT
1 ATATATATA-TAAAATATATACAT
71566021 GGTATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATATATATAAAATATATACATA
Found at i:71566617 original size:39 final size:38
Alignment explanation
Indices: 71566537--71566675 Score: 181
Period size: 39 Copynumber: 3.6 Consensus size: 38
71566527 CCCACGCTAC
* * *
71566537 TTTGTTTTATTATTAATCAAAA-TCACTCCCCATGCTAT
1 TTTGTTTTATTATTAATTAAAACT-ATTCCCCATACTAT
*
71566575 TTTGTTTTATTGTTAATTAAAACTATTTCCCCATACTAT
1 TTTGTTTTATTATTAATTAAAACTA-TTCCCCATACTAT
* *
71566614 TTTGTTTTATTGTTAATTAAAACTACTTCCTCATACTAT
1 TTTGTTTTATTATTAATTAAAACTA-TTCCCCATACTAT
*
71566653 TTTTTTTTATTATTAATTAAAAC
1 TTTGTTTTATTATTAATTAAAAC
71566676 CATACTTTAT
Statistics
Matches: 91, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
38 21 0.23
39 70 0.77
ACGTcount: A:0.29, C:0.15, G:0.04, T:0.51
Consensus pattern (38 bp):
TTTGTTTTATTATTAATTAAAACTATTCCCCATACTAT
Found at i:71567872 original size:45 final size:45
Alignment explanation
Indices: 71567816--71567901 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
71567806 CGATATCTGC
* * *
71567816 TATCTTTGATCTGCCCCCCGTCTACTACAGAGACGTCAAATCTAT
1 TATCTTCGATCTGCCCCCCGTCTAATACAGAGACGCCAAATCTAT
*
71567861 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAAT
1 TATCTTCGATCTGCCCCCCGTCTAATACAGAGACGCCAAAT
71567902 TTGCTTCTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (45 bp):
TATCTTCGATCTGCCCCCCGTCTAATACAGAGACGCCAAATCTAT
Found at i:71580350 original size:3 final size:3
Alignment explanation
Indices: 71580342--71580417 Score: 68
Period size: 3 Copynumber: 25.0 Consensus size: 3
71580332 ATTTTCGGCA
* *
71580342 AAG AAG AAG AAG AAA AAG AGAG AAG AAG GA- AAG AAG -AG AAG AAAG
1 AAG AAG AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG -AAG
*
71580387 AAAG AAG -AG AAG AAG AAG AAAG AAA AAG AAG
1 -AAG AAG AAG AAG AAG AAG -AAG AAG AAG AAG
71580418 GAGAGGCGGA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
2 5 0.08
3 43 0.70
4 13 0.21
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:71580377 original size:24 final size:24
Alignment explanation
Indices: 71580346--71580421 Score: 86
Period size: 24 Copynumber: 3.1 Consensus size: 24
71580336 TCGGCAAAGA
71580346 AGAAGAAGAAAAAGAGAGAAGAAGG
1 AGAAGAAGAAAAAGAGA-AAGAAGG
71580371 A-AAGAAGAGAAGAA-AGAAAGAA-G
1 AGAAGAAGA-AA-AAGAGAAAGAAGG
*
71580394 AGAAGAAGAAGAAAGAAAAAGAAGG
1 AGAAGAAGAA-AAAGAGAAAGAAGG
71580419 AGA
1 AGA
71580422 GGCGGAGAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
23 5 0.11
24 27 0.61
25 10 0.23
26 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (24 bp):
AGAAGAAGAAAAAGAGAAAGAAGG
Found at i:71580386 original size:27 final size:27
Alignment explanation
Indices: 71580342--71580411 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 27
71580332 ATTTTCGGCA
*
71580342 AAGAAGAAGAAGAA-AAAGAGAGAAGA-
1 AAGAAGAAG-AGAAGAAAGAAAGAAGAG
*
71580368 AGGAAAGAAGAGAAGAAAGAAAGAAGAG
1 AAG-AAGAAGAGAAGAAAGAAAGAAGAG
71580396 AAGAAGAAGA-AAGAAA
1 AAGAAGAAGAGAAGAAA
71580412 AAGAAGGAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
26 12 0.32
27 24 0.63
28 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (27 bp):
AAGAAGAAGAGAAGAAAGAAAGAAGAG
Found at i:71580415 original size:16 final size:17
Alignment explanation
Indices: 71580345--71580417 Score: 82
Period size: 16 Copynumber: 4.4 Consensus size: 17
71580335 TTCGGCAAAG
71580345 AAGAAGAAGAAA-AAGA
1 AAGAAGAAGAAAGAAGA
*
71580361 GAGAAGAAGGAAAGAAG-
1 AAGAAGAA-GAAAGAAGA
71580378 -AGAAGAAAGAAAGAAGA
1 AAGAAG-AAGAAAGAAGA
71580395 GAAGAAGAAGAAAGAA-A
1 -AAGAAGAAGAAAGAAGA
71580412 AAGAAG
1 AAGAAG
71580418 GAGAGGCGGA
Statistics
Matches: 50, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
16 26 0.52
17 7 0.14
18 12 0.24
19 5 0.10
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGAAAGAAGA
Found at i:71580422 original size:27 final size:27
Alignment explanation
Indices: 71580342--71580422 Score: 80
Period size: 27 Copynumber: 3.0 Consensus size: 27
71580332 ATTTTCGGCA
71580342 AAGAAGAAG-AAGAAAAAG-A-GAGAAG
1 AAGAAGAAGAAAGAAAAAGAAGGAG-AG
* *
71580367 AAGGA-AAGAAGAGAAGAAAGAAAGAAGAG
1 AAGAAGAAGAA-AGAA-AAAG-AAGGAGAG
71580396 AAGAAGAAGAAAGAAAAAGAAGGAGAG
1 AAGAAGAAGAAAGAAAAAGAAGGAGAG
71580423 GCGGAGAAGG
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
24 3 0.07
25 5 0.11
26 4 0.09
27 11 0.24
28 4 0.09
29 11 0.24
30 7 0.16
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (27 bp):
AAGAAGAAGAAAGAAAAAGAAGGAGAG
Found at i:71580503 original size:14 final size:14
Alignment explanation
Indices: 71580454--71580516 Score: 58
Period size: 14 Copynumber: 4.4 Consensus size: 14
71580444 TGAGAGAAGA
71580454 AAAAAGAA--AAAG
1 AAAAAGAAGGAAAG
71580466 AAAAAGAGAAGGAGAAG
1 -AAAA-AGAAGGA-AAG
* * *
71580483 AAGAAGAGGGAAGG
1 AAAAAGAAGGAAAG
71580497 AAAAAGAAGGAAAG
1 AAAAAGAAGGAAAG
71580511 AAAAAG
1 AAAAAG
71580517 GTAATTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
13 4 0.10
14 23 0.57
15 6 0.15
16 4 0.10
17 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (14 bp):
AAAAAGAAGGAAAG
Found at i:71580503 original size:17 final size:17
Alignment explanation
Indices: 71580459--71580516 Score: 50
Period size: 19 Copynumber: 3.4 Consensus size: 17
71580449 GAAGAAAAAA
*
71580459 GAAAAAGAAAAAGAGAAG
1 GAAAAAG-AAGAGAGAAG
*
71580477 GAGAAGAAGAAGAGGGAAG
1 GA-AA-AAGAAGAGAGAAG
71580496 GAAAAAGAAG-GA-AA-
1 GAAAAAGAAGAGAGAAG
71580510 GAAAAAG
1 GAAAAAG
71580517 GTAATTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 7 0.20
15 2 0.06
16 1 0.03
17 6 0.17
18 4 0.11
19 12 0.34
20 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (17 bp):
GAAAAAGAAGAGAGAAG
Found at i:71581124 original size:134 final size:132
Alignment explanation
Indices: 71580972--71581973 Score: 372
Period size: 145 Copynumber: 6.9 Consensus size: 132
71580962 AATAATATAA
** * * *
71580972 AAAATAAAATATGAAAATAGTATA-ATTAAAAAATTAAAATCCGAAAAAAAAAATACGAACAAGG
1 AAAATAAAATACCAAAATAATATATATTAAAAAA-TAAAATACG---AAAAAAATACGAACAAAG
* *
71581036 TGCCAAAGTCA-GGTTACTTATTAAATTAATATAAAAAA-ACTTAAATAATACATTTGAAAGATT
62 TGCCAAAATCAGGGTTACTTATTAAA-AAATATAAAAAACACTTAAATAATACATTTGAAAGATT
71581099 TTATGCT
126 TTATGCT
* * * * *
71581106 AAAATAAAATACCAAAATAATATATTTTAAAAAATAATATACGAAAAAAATATGAATAAAGTGCT
1 AAAATAAAATACCAAAATAATATATATTAAAAAATAAAATACGAAAAAAATACGAACAAAGTGCC
*
71581171 AAAATCAGGGTTATTTATTAAAAAATATAAAAAACACTTAAATAATACATTTG-AAGCATTATGT
66 AAAATCAGGGTTACTTATTAAAAAATATAAAAAACACTTAAATAATACATTTGAAAG-A-T-T-T
**
71581235 ACTAAAATAATAT
127 --T---AT--GCT
* * *
71581248 AAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAAATTACGAA
1 --A-AAATAAAATACCAAAATAATATATATTAAAAAATAAAATACG-----AAAAAAA-TACGAA
* ** * * * *
71581313 GAAAGTATCAAAATCAGGGTTATTTAGTAAAAAACCCCTTAATATATAGAAACAATTAATTAATA
57 CAAAGTGCCAAAATCAGGGTTACTTATTAAAAAA-----T-ATA-A-A-AAACACTTAAATAATA
*** *
71581378 CATTTGAATTTTTTTTTGCTAAAATAATAT
113 CATTTGAAAGATTTTATGC----------T
** * ** *
71581408 AAAAAATAAAATAAGAAAATAATATATTTTAAAAAATAGTATACGAAAAAAATACGAATAAAGTG
1 --AAAATAAAATACCAAAATAATATATATTAAAAAATAAAATACGAAAAAAATACGAACAAAGTG
* * * * *
71581473 CTAAAATCAGGGATATTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTAT
64 CCAAAATCAGGGTTACTTATT-AAAAAATATAAAAAACACTTAAATAATACATTTG-AA-A-GAT
**
71581538 TTACTAAAATAATAT
125 TT--T---AT--GCT
** * * *
71581553 GAAGAAATAAAATAGGAAAATAATATATTTTAAAAAATAAGATACG-AAAAAATACGAAGAAAGT
1 --A-AAATAAAATACCAAAATAATATATATTAAAAAATAAAATACGAAAAAAATACGAACAAAGT
* * * *
71581617 GTCAAAATCAGGGTTATTTATTAAATTAGTATAAAAAAAACACTTACATAATATACCTAATACAT
63 GCCAAAATCAGGGTTACTTATTAAA--A-AATATAAAAAACAC-T---T-A-A-A--TAATACAT
* *
71581682 TTGAAACATTTTTTGCTAAAATAATAT
116 TTGAAAGATTTTATGC----------T
** * * *
71581709 AAAAAAATAAAATAGGAAAATAATATATTTTAAAAAATAATATACG-AAAAAATACGAATAAAGT
1 ---AAAATAAAATACCAAAATAATATATATTAAAAAATAAAATACGAAAAAAATACGAACAAAGT
* * * *
71581773 GCTAAAATCATGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAAACATA
63 GCCAAAATCAGGGTTACTTATT-AAAAAATATAAAAAACACTTAAATAATACATTTG-AAAGAT-
**
71581838 ATGTACTAAAATAATAT
125 -T-T--T---AT--GCT
* * * *
71581855 AAAGAAATAAAATACGAAAATAATATAT-TT-AAAAA-AAGATACG--AAAAATACAAATAAAGT
1 --A-AAATAAAATACCAAAATAATATATATTAAAAAATAAAATACGAAAAAAATACGAACAAAGT
* * *
71581915 GCTAAAATCA-AGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAA
63 GCCAAAATCAGGGTTACTTATT-AAAAAATATAAAAAACACTTAAATAATACATTTGAAA
71581974 ACATTATGTA
Statistics
Matches: 701, Mismatches: 76, Indels: 176
0.74 0.08 0.18
Matches are distributed among these distances:
131 38 0.05
132 32 0.05
133 1 0.00
134 29 0.04
135 9 0.01
137 1 0.00
140 5 0.01
141 45 0.06
142 27 0.04
143 7 0.01
144 9 0.01
145 115 0.16
146 73 0.10
147 13 0.02
148 11 0.02
149 3 0.00
150 9 0.01
151 37 0.05
152 2 0.00
153 35 0.05
154 28 0.04
155 4 0.01
156 90 0.13
157 9 0.01
158 2 0.00
159 42 0.06
160 24 0.03
161 1 0.00
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (132 bp):
AAAATAAAATACCAAAATAATATATATTAAAAAATAAAATACGAAAAAAATACGAACAAAGTGCC
AAAATCAGGGTTACTTATTAAAAAATATAAAAAACACTTAAATAATACATTTGAAAGATTTTATG
CT
Found at i:71581268 original size:145 final size:144
Alignment explanation
Indices: 71581106--71582168 Score: 1157
Period size: 145 Copynumber: 7.1 Consensus size: 144
71581096 ATTTTATGCT
* *
71581106 AAAATAAAATACCAAAATAATATATTTTAAAAAATAATATACGAAAAAAATATGAATAAAGTGCT
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
* *
71581171 AAAATCAGGGTTATTTATTAAAAAATATAAAAAACACTTAAATAATACATTTGAAGCATTATGTA
66 AAAATCAGGGTTATTTATTAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATTTA
71581236 CTAAAATAATATAA
131 CTAAAATAATATAA
*
71581250 AGAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAAATTACGAAGA
1 A-AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACG-----AAAAAAA-TACGAATA
* * * *
71581315 AAGT-ATCAAAATCAGGGTTATTTAGTAAAAAACCCCTTAATATATAGAAACAATTAATTAATAC
59 AAGTGCT-AAAATCAGGGTTATTTATTAAAAAA-----T-ATA-A-A-AAACACTTAAATAATAC
*** * *
71581379 ATTTGAATTTTTTTTTGCTAAAATAATATAA
114 ATTTGAAACATTATTTACTAAAATAATATAA
* *
71581410 AAAATAAAATAAGAAAATAATATATTTTAAAAAATAGTATACGAAAAAAATACGAATAAAGTGCT
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
* *
71581475 AAAATCAGGGATATTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATTT
66 AAAATCAGGGTTATTTATT-AAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATTT
71581540 ACTAAAATAATATGAA
130 ACTAAAATAATAT-AA
* * * *
71581556 GAAATAAAATAGGAAAATAATATATTTTAAAAAATAAGATACG-AAAAAATACGAAGAAAGTG-T
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
* *
71581619 CAAAATCAGGGTTATTTATTAAATTAGTATAAAAAAAACACTTACATAATATACCTAATACATTT
66 -AAAATCAGGGTTATTTATTAAA--A-AATATAAAAAACAC-T---T-A-A-A--TAATACATTT
* *
71581684 GAAACATTTTTTGCTAAAATAATATAAA
118 GAAACATTATTTACTAAAATAATAT-AA
*
71581712 AAAATAAAATAGGAAAATAATATATTTTAAAAAATAATATACG-AAAAAATACGAATAAAGTGCT
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
* * *
71581776 AAAATCATGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAAACATAATG
66 AAAATCAGGGTTATTTATT-AAAAAATATAAAAAACACTTAAATAATACATTTG-AAACATTATT
71581841 TACTAAAATAATATAA
129 TACTAAAATAATATAA
* *
71581857 AGAAATAAAATACGAAAATAATATA-TTT-AAAAA-AAGATACG--AAAAATACAAATAAAGTGC
1 A-AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGC
*
71581917 TAAAATCA-AGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAAACATTAT
65 TAAAATCAGGGTTATTTATT-AAAAAATATAAAAAACACTTAAATAATACATTTG-AAACATTAT
* *
71581981 GTACTAAAATAAGGGTTTTAA
128 TTACTAAAATAA----TATAA
* *
71582002 AATAA-AATAATACGAAAGTAATATATTTTAAAAAATAAGATACGAAAATAAAAAATACGAA-AA
1 AA-AATAA-AATACGAAAATAATATATTTTAAAAAATAATATACG---A-AAAAAATACGAATAA
* * * * *
71582065 AGTG-TCAAAATCAGTGTTATTTATTAAATTAATATAAAAAAATACTTACATAATACATTTAAAA
60 AGTGCT-AAAATCAGGGTTATTTATTAAA-AAATAT-AAAAAACACTTAAATAATACATTTGAAA
* *
71582129 CATT-TTTGCTAAAAT-ATTTAA
122 CATTATTTACTAAAATAATATAA
*
71582150 AAAATAATATACGAAAATA
1 AAAATAAAATACGAAAATA
71582169 TTTTACTTAT
Statistics
Matches: 796, Mismatches: 66, Indels: 111
0.82 0.07 0.11
Matches are distributed among these distances:
141 66 0.08
142 26 0.03
143 7 0.01
144 13 0.02
145 155 0.19
146 88 0.11
147 30 0.04
148 22 0.03
149 2 0.00
150 9 0.01
151 35 0.04
152 3 0.00
153 55 0.07
154 59 0.07
155 23 0.03
156 113 0.14
157 7 0.01
158 1 0.00
159 41 0.05
160 41 0.05
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (144 bp):
AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
AAAATCAGGGTTATTTATTAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATTTA
CTAAAATAATATAA
Found at i:71581413 original size:12 final size:13
Alignment explanation
Indices: 71581398--71581433 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
71581388 TTTTTTTGCT
71581398 AAAATAATATAA-
1 AAAATAATATAAG
*
71581410 AAAATAAAATAAG
1 AAAATAATATAAG
71581423 AAAATAATATA
1 AAAATAATATA
71581434 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (13 bp):
AAAATAATATAAG
Found at i:71581758 original size:15 final size:14
Alignment explanation
Indices: 71581699--71581762 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 14
71581689 ATTTTTTGCT
71581699 AAAATAATATA-AA
1 AAAATAATATAGAA
*
71581712 AAAATAAAATAGGAA
1 AAAATAATATA-GAA
**
71581727 AATAAT-ATATTTTAA
1 AA-AATAATA-TAGAA
71581742 AAAATAATATACGAA
1 AAAATAATATA-GAA
71581757 AAAATA
1 AAAATA
71581763 CGAATAAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
13 10 0.26
14 4 0.10
15 21 0.54
16 4 0.10
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.25
Consensus pattern (14 bp):
AAAATAATATAGAA
Found at i:71588210 original size:9 final size:9
Alignment explanation
Indices: 71588196--71588221 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
71588186 AGTTTTTTAC
71588196 TAACAATAA
1 TAACAATAA
71588205 TAACAATAA
1 TAACAATAA
71588214 TAACAATA
1 TAACAATA
71588222 TTTTTTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (9 bp):
TAACAATAA
Found at i:71588216 original size:35 final size:36
Alignment explanation
Indices: 71588153--71588246 Score: 113
Period size: 35 Copynumber: 2.7 Consensus size: 36
71588143 TTTAGGTTTT
* **
71588153 TTTTTTAC-AATAATAATAACTAACAATAATTATAG
1 TTTTTTACTAACAATAATAACTAACAATAACAATAG
* *
71588188 TTTTTTACTAACAATAATAAC-AATAATAACAATAT
1 TTTTTTACTAACAATAATAACTAACAATAACAATAG
*
71588223 TTTTTTACTAACAATATTAA-TAAC
1 TTTTTTACTAACAATAATAACTAAC
71588247 TGACAACAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
35 39 0.78
36 11 0.22
ACGTcount: A:0.48, C:0.11, G:0.01, T:0.40
Consensus pattern (36 bp):
TTTTTTACTAACAATAATAACTAACAATAACAATAG
Found at i:71588366 original size:15 final size:16
Alignment explanation
Indices: 71588336--71588405 Score: 54
Period size: 15 Copynumber: 4.2 Consensus size: 16
71588326 AAAAATTATA
*
71588336 CCTTCTTTTTTCCTTCT
1 CCTTCTATTTT-CTTCT
71588353 CCTTCT-TTTTCTTCCTT
1 CCTTCTATTTTCTT-C-T
**
71588370 CTCTTCTCCTTTCTT-T
1 C-CTTCTATTTTCTTCT
*
71588386 CCTTTTATTTTCTTCT
1 CCTTCTATTTTCTTCT
71588402 CCTT
1 CCTT
71588406 GCTGCTGAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
15 13 0.30
16 12 0.27
17 8 0.18
18 5 0.11
19 6 0.14
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.64
Consensus pattern (16 bp):
CCTTCTATTTTCTTCT
Found at i:71588369 original size:19 final size:18
Alignment explanation
Indices: 71588336--71588376 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
71588326 AAAAATTATA
71588336 CCTTC-TTTTTTCCTTCT
1 CCTTCTTTTTTTCCTTCT
71588353 CCTTCTTTTTCTTCCTTCT
1 CCTTCTTTTT-TTCCTTCT
71588372 -CTTCT
1 CCTTCT
71588377 CCTTTCTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.23
18 9 0.41
19 8 0.36
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (18 bp):
CCTTCTTTTTTTCCTTCT
Found at i:71588382 original size:19 final size:19
Alignment explanation
Indices: 71588336--71588389 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
71588326 AAAAATTATA
71588336 CCTTCT-TTT-TTCCTTCT
1 CCTTCTCTTTCTTCCTTCT
*
71588353 CCTTCTTTTTCTTCCTTCT
1 CCTTCTCTTTCTTCCTTCT
71588372 -CTTCTCCTTTCTTTCCTT
1 CCTTCT-CTTTC-TTCCTT
71588390 TTATTTTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
17 6 0.19
18 8 0.25
19 12 0.38
20 6 0.19
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (19 bp):
CCTTCTCTTTCTTCCTTCT
Found at i:71588586 original size:18 final size:18
Alignment explanation
Indices: 71588547--71588589 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
71588537 GTCTAATATT
* **
71588547 TTTTTTTCGTTTTCAGCT
1 TTTTTTTCATTTTCAGAG
71588565 TTTTTTTCATTTTCAGAG
1 TTTTTTTCATTTTCAGAG
71588583 TTTTTTT
1 TTTTTTT
71588590 ACTGTGCGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.09, C:0.12, G:0.09, T:0.70
Consensus pattern (18 bp):
TTTTTTTCATTTTCAGAG
Found at i:71588589 original size:19 final size:18
Alignment explanation
Indices: 71588546--71588580 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
71588536 TGTCTAATAT
*
71588546 TTTTTTTTCGTTTTCAGC
1 TTTTTTTTCATTTTCAGC
71588564 TTTTTTTTCATTTTCAG
1 TTTTTTTTCATTTTCAG
71588581 AGTTTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.14, G:0.09, T:0.69
Consensus pattern (18 bp):
TTTTTTTTCATTTTCAGC
Found at i:71595443 original size:30 final size:30
Alignment explanation
Indices: 71595387--71595444 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
71595377 GTAAATACTC
** *
71595387 AAAATTTAAGGGATTAAAGTGTAAATATAA
1 AAAATTTAAGGGACGAAAGTGCAAATATAA
71595417 AAAATTTAA-GGACGAATAGTGCAAATAT
1 AAAATTTAAGGGACGAA-AGTGCAAATAT
71595445 TTTAAGGGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.52, C:0.03, G:0.17, T:0.28
Consensus pattern (30 bp):
AAAATTTAAGGGACGAAAGTGCAAATATAA
Found at i:71595719 original size:30 final size:30
Alignment explanation
Indices: 71595644--71595719 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
71595634 ATATTGATGA
* *
71595644 TATTTTATAATTATTTAATTAGAAAAATAT
1 TATTTTATTATTATTTAATAAGAAAAATAT
* * **
71595674 TATTTTATTAATATTTAATAAGATATTTAT
1 TATTTTATTATTATTTAATAAGAAAAATAT
71595704 TATTATT-TTATTATTT
1 TATT-TTATTATTATTT
71595720 TATTTAGTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 36 0.95
31 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (30 bp):
TATTTTATTATTATTTAATAAGAAAAATAT
Found at i:71596416 original size:14 final size:14
Alignment explanation
Indices: 71596397--71596425 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
71596387 CAACCAAAAG
71596397 GAGAAGTTTTAATC
1 GAGAAGTTTTAATC
71596411 GAGAAGTTTTAATC
1 GAGAAGTTTTAATC
71596425 G
1 G
71596426 TATTTGGCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.34
Consensus pattern (14 bp):
GAGAAGTTTTAATC
Found at i:71605042 original size:19 final size:19
Alignment explanation
Indices: 71605004--71605042 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
71604994 AAAGATTGGA
*
71605004 TTTTTCTTTTCTTTTTCTT
1 TTTTTCTTTTCTTTTCCTT
71605023 TTTTTCTTTT-TATTTCCTT
1 TTTTTCTTTTCT-TTTCCTT
71605042 T
1 T
71605043 GAAGTGAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTCTTTTCTTTTCCTT
Found at i:71605631 original size:11 final size:11
Alignment explanation
Indices: 71605592--71605641 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
71605582 AGCAATTTAA
71605592 TTTTTTTCTTT
1 TTTTTTTCTTT
* *
71605603 TTATGTTCTTT
1 TTTTTTTCTTT
**
71605614 TAATTTTCTTT
1 TTTTTTTCTTT
71605625 TTTTTTTCTTT
1 TTTTTTTCTTT
71605636 ATTTTT
1 -TTTTT
71605642 CATTTTCTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 27 0.84
12 5 0.16
ACGTcount: A:0.08, C:0.08, G:0.02, T:0.82
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:71605647 original size:22 final size:22
Alignment explanation
Indices: 71605594--71605652 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
71605584 CAATTTAATT
* *
71605594 TTTTTCTTTTTATGTTCTTTTA
1 TTTTTCTTTTTTTTTTCTTTTA
*
71605616 ATTTTCTTTTTTTTTTC-TTTA
1 TTTTTCTTTTTTTTTTCTTTTA
* *
71605637 TTTTTCATTTTCTTTT
1 TTTTTCTTTTTTTTTT
71605653 GCTTCTCCCT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.08, C:0.10, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTTTCTTTTTTTTTTCTTTTA
Found at i:71613123 original size:7 final size:7
Alignment explanation
Indices: 71613111--71613135 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
71613101 TTGATTCTTA
71613111 AAAATTC
1 AAAATTC
71613118 AAAATTC
1 AAAATTC
71613125 AAAATTC
1 AAAATTC
71613132 AAAA
1 AAAA
71613136 AATCTGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATTC
Found at i:71613772 original size:17 final size:17
Alignment explanation
Indices: 71613750--71613785 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
71613740 GTTTTGAAAG
71613750 AAATTA-TATTATTAATA
1 AAATTATTATT-TTAATA
71613767 AAATTATTATTTTAATA
1 AAATTATTATTTTAATA
71613784 AA
1 AA
71613786 TAAATTCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTATTATTTTAATA
Found at i:71615320 original size:17 final size:18
Alignment explanation
Indices: 71615295--71615333 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
71615285 TTTTTTAATT
71615295 TTTTAGTAAATTTATATA
1 TTTTAGTAAATTTATATA
* *
71615313 TTTT-GTAATTTTCTATA
1 TTTTAGTAAATTTATATA
71615330 TTTT
1 TTTT
71615334 CTGTTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (18 bp):
TTTTAGTAAATTTATATA
Found at i:71620657 original size:51 final size:50
Alignment explanation
Indices: 71620570--71620669 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 50
71620560 GGTTGAGGGG
71620570 TTTTAAAATTAGGATTTAATTGAAAATATTTATAAAAATTGAGGGTTAATT
1 TTTTAAAATTAGGATTTAATTGAAAATA-TTATAAAAATTGAGGGTTAATT
* * * * *
71620621 TTTTAAATTTATGATTTAATTGATATAATA-TGTAAAAGTTGATGGTTAA
1 TTTTAAAATTAGGATTTAATTGA-A-AATATTATAAAAATTGAGGGTTAA
71620670 ATTTATTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
51 37 0.88
52 1 0.02
53 4 0.10
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (50 bp):
TTTTAAAATTAGGATTTAATTGAAAATATTATAAAAATTGAGGGTTAATT
Found at i:71623088 original size:17 final size:19
Alignment explanation
Indices: 71623010--71623081 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
71623000 ATAATCTTCA
71623010 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
71623029 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
71623046 ATAAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
71623064 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
71623082 AGATATGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
17 15 0.31
18 15 0.31
19 18 0.38
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:71623107 original size:22 final size:22
Alignment explanation
Indices: 71623060--71623104 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
71623050 TTGCAATCTT
*
71623060 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
71623082 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGCAATATTAGA
71623105 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:71623396 original size:18 final size:17
Alignment explanation
Indices: 71623373--71623408 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
71623363 TTTTCCTGAT
*
71623373 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
71623391 TTTTTTAATAATTTTAA
1 TTTTTTAATAATTTTAA
71623408 T
1 T
71623409 ATCATATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:71632184 original size:286 final size:287
Alignment explanation
Indices: 71631667--71632259 Score: 847
Period size: 286 Copynumber: 2.1 Consensus size: 287
71631657 CAGGCTAAAG
* *
71631667 CATAGCAGATTTGACTTTCAGGTGTTTACGCTGAAGCGAATCCAAGATGATTTAACATCTCTGTA
1 CATAACAGATTTGACTTTCACGTGTTTACGCTGAAGCGAATCCAAGATGATTTAACATCTCTGTA
* * *
71631732 TTGTCAAAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAAG
66 CTGTCAAAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAG
* *
71631797 ACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGTATCTCTGTATTAGAAGGG
131 ACACAGCAGATATGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAAGGG
* * * * *
71631862 GAGCAGATCGAAGACATAACAGATTGAACCTTCATTGAAGCAGATCCAAGATGATTTGTCATC-C
196 GAGCAGATCAAAGACACAACAGATTGAACCTTCATTGAAACAGATCCAAGATAATTTGGCATCTC
*
71631926 TTGCATT-GACAATG-AGCAGATCGAAGA
261 -TGCATTAGAC-AGGAAGCAGATCGAAGA
* * * **
71631953 CATACCAGATTTGGCTTTCACGTGTTTACGCTGAAGC-AGATCTAAGATGATTTGGCATCTCTGT
1 CATAACAGATTTGACTTTCACGTGTTTACGCTGAAGCGA-ATCCAAGATGATTTAACATCTCTGT
* * * *
71632017 ACTGTTAGAGAACAAATTGAAGAAACAGATTTTGCATCTCCATATTCGACAGAGAGCAGATCGAA
65 ACTGTCAAAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAA
*
71632082 GACATAGCAGATATGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACA-
130 GACACAGCAGATATGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGA-AG
*
71632146 GGGAGCAGATCAAAGACACAGCAGATCT-AACCTTCATTGAAACAGATCCAAGATAATTTGGCAT
194 GGGAGCAGATCAAAGACACAACAGAT-TGAACCTTCATTGAAACAGATCCAAGATAATTTGGCAT
* *
71632210 CTCTGTATTAGACGGGAAGCAGATCGAAGA
258 CTCTGCATTAGACAGGAAGCAGATCGAAGA
* *
71632240 CATAACAGATTAGACCTTCA
1 CATAACAGATTTGACTTTCA
71632260 TTGAAGCAGA
Statistics
Matches: 272, Mismatches: 29, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
285 1 0.00
286 236 0.87
287 35 0.13
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (287 bp):
CATAACAGATTTGACTTTCACGTGTTTACGCTGAAGCGAATCCAAGATGATTTAACATCTCTGTA
CTGTCAAAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAG
ACACAGCAGATATGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAAGGG
GAGCAGATCAAAGACACAACAGATTGAACCTTCATTGAAACAGATCCAAGATAATTTGGCATCTC
TGCATTAGACAGGAAGCAGATCGAAGA
Found at i:71632338 original size:78 final size:78
Alignment explanation
Indices: 71632070--71632338 Score: 423
Period size: 78 Copynumber: 3.4 Consensus size: 78
71632060 ATTCGACAGA
* *
71632070 GAGCAGATCGAAGACATAGCAGATATGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
*
71632135 TGTATTAGACAGG
66 TGTATTAGACGGG
* * * *
71632148 GAGCAGATCAAAGACACAGCAGATCTAACCTTCATTGAAACAGATCCAAGATAATTTGGCATCTC
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
71632213 TGTATTAGACGGG
66 TGTATTAGACGGG
* *
71632226 AAGCAGATCGAAGACATAACAGAT-TAGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCT
1 GAGCAGATCGAAGACATAGCAGATCTA-ACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCT
71632290 CTGTATTAGACGGG
65 CTGTATTAGACGGG
* *
71632304 GAGTAGATCGAAGACATAGCAGATCTAACTTTCAT
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCAT
71632339 GTGTTTACAT
Statistics
Matches: 172, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
77 2 0.01
78 168 0.98
79 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (78 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
TGTATTAGACGGG
Found at i:71632431 original size:45 final size:46
Alignment explanation
Indices: 71632361--71632551 Score: 248
Period size: 45 Copynumber: 4.3 Consensus size: 46
71632351 AAGCAGATCC
* *
71632361 AAGATGACAGATTTGGCATCTCTGTATTAGATGGGGAGCAAATCAG
1 AAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAG
* * * *
71632407 -AGATAACAGATTTGGCATATCTGTATTAGACGGAGAGCAGAT-TG
1 AAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAG
* *
71632451 AAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAAATC-G
1 AAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAG
* *
71632495 AAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCA-
1 AAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAG
*
71632540 AAGATAGCAGAT
1 AAGATAACAGAT
71632552 ATCGCATTCC
Statistics
Matches: 127, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
44 39 0.31
45 88 0.69
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.25
Consensus pattern (46 bp):
AAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAG
Found at i:71632486 original size:89 final size:90
Alignment explanation
Indices: 71632278--71632551 Score: 290
Period size: 89 Copynumber: 3.0 Consensus size: 90
71632268 GATCCAAGAT
* * * * ** *
71632278 GATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAAGACATAGCAGATCTAAC-TTTCATGTG
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAG--ATAACAGATTTGGCATATC-TGT-
* * *
71632342 TTTACATC-GA-AGCAGATCCAAGAT-GACA
62 ATTAGA-CGGAGAGCAGATCAAAGATAG-CA
*
71632370 GATTTGGCATCTCTGTATTAGATGGGGAGCAAATC-AGAGATAACAGATTTGGCATATCTGTATT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGA-AGATAACAGATTTGGCATATCTGTATT
**
71632434 AGACGGAGAGCAGATTGAAGA-AGCA
65 AGACGGAGAGCAGATCAAAGATAGCA
* * *
71632459 GATTTGGCGTCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCGTCTCTGTATTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATATCTGTATTA
*
71632524 GACGGGGAGCAGATCAAAGATAGCA
66 GACGGAGAGCAGATCAAAGATAGCA
71632549 GAT
1 GAT
71632552 ATCGCATTCC
Statistics
Matches: 156, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
88 1 0.01
89 84 0.54
90 33 0.21
91 4 0.03
92 34 0.22
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (90 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATATCTGTATTA
GACGGAGAGCAGATCAAAGATAGCA
Found at i:71632898 original size:14 final size:15
Alignment explanation
Indices: 71632879--71632932 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 15
71632869 AATCTTCAAT
71632879 GATATG-CAATCTTA
1 GATATGACAATCTTA
71632893 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
71632910 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
71632928 GATAT
1 GATAT
71632933 AATATGCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.18
15 1 0.03
17 14 0.41
18 13 0.38
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:71632901 original size:19 final size:19
Alignment explanation
Indices: 71632877--71632948 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
71632867 ATAATCTTCA
71632877 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
71632896 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
71632913 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
71632931 ATAATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
71632949 AGATATGATT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
17 16 0.33
18 15 0.31
19 18 0.37
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:71632905 original size:17 final size:17
Alignment explanation
Indices: 71632885--71632948 Score: 83
Period size: 17 Copynumber: 3.6 Consensus size: 17
71632875 CAATGATATG
71632885 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
71632902 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
*
71632920 CAATCTTAGATATAATA
1 CAATCTTAGATATGATA
71632937 TGCAATCTTAGA
1 --CAATCTTAGA
71632949 AGATATGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
17 16 0.39
18 15 0.37
19 10 0.24
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:71632923 original size:35 final size:37
Alignment explanation
Indices: 71632877--71632955 Score: 112
Period size: 35 Copynumber: 2.2 Consensus size: 37
71632867 ATAATCTTCA
*
71632877 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATAATAGCAATCTTAGAT
71632913 ATGAT-TGCAATCTTAGATATAATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATAATA-GCAATCTTAGAT
71632949 A-GATATG
1 ATGATATG
71632956 ATTTTGTGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 21 0.54
36 8 0.21
37 10 0.26
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATAATAGCAATCTTAGAT
Found at i:71635048 original size:3 final size:3
Alignment explanation
Indices: 71635042--71635068 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
71635032 ATGCATGAAT
71635042 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
71635069 AGTAGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:71635168 original size:11 final size:11
Alignment explanation
Indices: 71635154--71635192 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
71635144 AAAATGATGT
*
71635154 ATAATAATTAA
1 ATAATAATGAA
*
71635165 ATAAATAAAGAA
1 AT-AATAATGAA
71635177 ATAATAATGAA
1 ATAATAATGAA
71635188 ATAAT
1 ATAAT
71635193 GAGGTTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (11 bp):
ATAATAATGAA
Found at i:71637132 original size:134 final size:134
Alignment explanation
Indices: 71636966--71637304 Score: 421
Period size: 134 Copynumber: 2.5 Consensus size: 134
71636956 AACTTCCCCT
* * * *
71636966 ACTGCAACTTCAGAGG-GATGAGGACTCGTAACTTCAACCTGCCCCACTGTAACTTTAGGGAGAT
1 ACTGCAACTTCAG-GGAGAT-AGGACTCATAACTTCAACCTGACCCACTGCAACTTCAGGGAGAT
* * * *
71637030 AAGGTTTATAGCTTTAACTTTGCTCTACTGCAATTTTAAAGAGATAAGATTTGCTATCTT-GGAT
64 AAGGTTTATAGCTTTAACTCTGCTCTACTGCAATTTCAAAGAGATAAGATTTGCTAACTTCAG-T
* *
71637094 CCGTTTC
128 CCGCTCC
* * * *
71637101 ACTGCAACTTCAGGGAGATAGGACTCATAACTTCTACCTGTCCCACTGCAACTTGAGGGGGATAA
1 ACTGCAACTTCAGGGAGATAGGACTCATAACTTCAACCTGACCCACTGCAACTTCAGGGAGATAA
* * * *
71637166 GATTTATAGCTTTAACTCTGCTCTACTGCAATTTCAGAGAGATAATATTTGCTAACTTCAGTCTG
66 GGTTTATAGCTTTAACTCTGCTCTACTGCAATTTCAAAGAGATAAGATTTGCTAACTTCAGTCCG
71637231 CTCC
131 CTCC
* ** * * *
71637235 ACTGCAACTTCAAGGAGATAACACTTATAACTTCAACCTGATCCACTGCAACTTCAGAGAGATAA
1 ACTGCAACTTCAGGGAGATAGGACTCATAACTTCAACCTGACCCACTGCAACTTCAGGGAGATAA
71637300 GGTTT
66 GGTTT
71637305 GTGGCTTCAA
Statistics
Matches: 175, Mismatches: 27, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
134 158 0.90
135 17 0.10
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (134 bp):
ACTGCAACTTCAGGGAGATAGGACTCATAACTTCAACCTGACCCACTGCAACTTCAGGGAGATAA
GGTTTATAGCTTTAACTCTGCTCTACTGCAATTTCAAAGAGATAAGATTTGCTAACTTCAGTCCG
CTCC
Found at i:71637314 original size:44 final size:44
Alignment explanation
Indices: 71636870--71637300 Score: 240
Period size: 45 Copynumber: 9.7 Consensus size: 44
71636860 ATAGTTTGAT
* * * * ** **
71636870 CTGCTTCATTGCAACTTCAGGGAGATAAGATCTACTTTCTTCAGT
1 CTGCTCCACTGCAACTTCAGAGAGATAAGATTTA-TAACTTCAAC
* * * *
71636915 CTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAA-
1 CTGCTCCACTGCAACTTCAGAGAGATAAGATTTATAACTTCAAC
* * * * * **
71636958 CTTCCCCTACTGCAACTTCAGAGGGATGAGGACTCGTAACTTCAAC
1 CTGCTCC-ACTGCAACTTCAGAGAGAT-AAGATTTATAACTTCAAC
* * * * * * *
71637004 CTGCCCCACTGTAACTTTAGGGAGATAAGGTTTATAGCTTTAAC
1 CTGCTCCACTGCAACTTCAGAGAGATAAGATTTATAACTTCAAC
* * * * * * * * *
71637048 TTTGCTCTACTGCAATTTTAAAGAGATAAGATTTGCTATCTTGGATC
1 -CTGCTCCACTGCAACTTCAGAGAGATAAGATTT-ATAACTT-CAAC
* * * * * * *
71637095 C-GTTTCACTGCAACTTCAGGGAGATAGGACTCATAACTTCTAC
1 CTGCTCCACTGCAACTTCAGAGAGATAAGATTTATAACTTCAAC
* * * * *
71637138 CTG-TCCCACTGCAACTTGAGGGGGATAAGATTTATAGCTTTAAC
1 CTGCT-CCACTGCAACTTCAGAGAGATAAGATTTATAACTTCAAC
* * * * **
71637182 TCTGCTCTACTGCAATTTCAGAGAGATAATATTTGCTAACTTCAGT
1 -CTGCTCCACTGCAACTTCAGAGAGATAAGATTT-ATAACTTCAAC
* *
71637228 CTGCTCCACTGCAACTTCA-AGGAGATAACACTTATAACTTCAAC
1 CTGCTCCACTGCAACTTCAGA-GAGATAAGATTTATAACTTCAAC
*
71637272 CTGATCCACTGCAACTTCAGAGAGATAAG
1 CTGCTCCACTGCAACTTCAGAGAGATAAG
71637301 GTTTGTGGCT
Statistics
Matches: 288, Mismatches: 85, Indels: 27
0.72 0.21 0.07
Matches are distributed among these distances:
43 8 0.03
44 103 0.36
45 157 0.55
46 18 0.06
47 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGAGAGATAAGATTTATAACTTCAAC
Found at i:71641644 original size:4 final size:4
Alignment explanation
Indices: 71641635--71641663 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
71641625 AGCAAACGTG
71641635 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
71641664 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:71653252 original size:44 final size:43
Alignment explanation
Indices: 71653116--71653259 Score: 110
Period size: 44 Copynumber: 3.3 Consensus size: 43
71653106 NNAATATGAA
* * *
71653116 TTGTGGCTTCGAGCCGCTCTAGTGCCATTTCAGGGAGAAAAGAT
1 TTGTAGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAAA-AT
* ** ** ** * **
71653160 TTGTAGCTTCGATCTACTCCGCTGGAACTTCAATGAGATACAAA-
1 TTGTAGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGA-A-AAAT
*
71653204 TTGTAGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAAGAAAT
1 TTGTAGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAA-AAAT
*
71653248 TTGTATCTTCGA
1 TTGTAGCTTCGA
71653260 TCTACTCCGC
Statistics
Matches: 71, Mismatches: 26, Indels: 6
0.69 0.25 0.06
Matches are distributed among these distances:
43 4 0.06
44 63 0.89
45 2 0.03
46 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (43 bp):
TTGTAGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAAAAT
Found at i:71653263 original size:88 final size:88
Alignment explanation
Indices: 71653113--71653488 Score: 436
Period size: 88 Copynumber: 4.3 Consensus size: 88
71653103 NNNNNAATAT
* * *
71653113 GAATTGTGGCTTCGAGCCGCTCTAGTGCCATTTCAGGGAGAAAAGATTTGTAGCTTCGATCTACT
1 GAATTGTGGCTTCAAGCCGCTCTAATGCCATTTCAGAGAGAAAAGATTTGTAGCTTCGATCTACT
*
71653178 CCGCTGGAACTTCAATGAGATAC
66 CCGCTGGAACTTCAAAGAGATAC
* * * * *
71653201 AAATTGTAGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAAGAA-ATTTGTATCTTCGATCTAC
1 GAATTGTGGCTTCAAGCCGCTCTAATGCCATTTCAGAGAGAA-AAGATTTGTAGCTTCGATCTAC
*
71653265 TCCGCTGAAACTT-AAAGGAGATAC
65 TCCGCTGGAACTTCAAA-GAGATAC
* * *
71653289 GAATTGTGGCTTCCAGCCGCTCTAGTGCCATTTCAGAGAGAAAAGATTTGTAACTTCGATCTACT
1 GAATTGTGGCTTCAAGCCGCTCTAATGCCATTTCAGAGAGAAAAGATTTGTAGCTTCGATCTACT
** *
71653354 CCATTAGAACTTCAAAGAGATAC
66 CCGCTGGAACTTCAAAGAGATAC
* * * * *
71653377 GAATTGTGGCTTTGAA-CCGCTCTAATGGCATTTTAGAGAGAAGAGATTTGTAGCTTTGATCTAC
1 GAATTGTGGC-TTCAAGCCGCTCTAATGCCATTTCAGAGAGAAAAGATTTGTAGCTTCGATCTAC
* * * ** *
71653441 TCCGCTAGAGCTTTATGGAGATAA
65 TCCGCTGGAACTTCAAAGAGATAC
*
71653465 GAATTGTGGTTTCAA-CCTGCTCTA
1 GAATTGTGGCTTCAAGCC-GCTCTA
71653489 CTACTGCTCA
Statistics
Matches: 246, Mismatches: 36, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
87 10 0.04
88 228 0.93
89 8 0.03
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (88 bp):
GAATTGTGGCTTCAAGCCGCTCTAATGCCATTTCAGAGAGAAAAGATTTGTAGCTTCGATCTACT
CCGCTGGAACTTCAAAGAGATAC
Found at i:71653420 original size:176 final size:176
Alignment explanation
Indices: 71653113--71653473 Score: 501
Period size: 176 Copynumber: 2.1 Consensus size: 176
71653103 NNNNNAATAT
* * *
71653113 GAATTGTGGCTTCGAGCCGCTCTAGTGCCATTTCAGGGAGAAAAGATTTGTAGCTTCGATCTACT
1 GAATTGTGGCTTCCAGCCGCTCTAGTGCCATTTCAGAGAGAAAAGATTTGTAACTTCGATCTACT
* * * *
71653178 CCGCTGGAACTTCAATGAGATACAAATTGTAGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAA
66 CCACTAGAACTTCAAAGAGATACAAATTGTAGCTTCAAGCCGCTCCAATGCCATTTCAGAGAGAA
* *
71653243 GAAATTTGTATCTTCGATCTACTCCGCT-GAAACTTAAAGGAGATAC
131 GAAATTTGTAGCTTCGATCTACTCCGCTAG-AACTTAAAGGAGATAA
71653289 GAATTGTGGCTTCCAGCCGCTCTAGTGCCATTTCAGAGAGAAAAGATTTGTAACTTCGATCTACT
1 GAATTGTGGCTTCCAGCCGCTCTAGTGCCATTTCAGAGAGAAAAGATTTGTAACTTCGATCTACT
* * * * * * *
71653354 CCATTAGAACTTCAAAGAGATACGAATTGTGGCTTTGAA-CCGCTCTAATGGCATTTTAGAGAGA
66 CCACTAGAACTTCAAAGAGATACAAATTGTAGC-TTCAAGCCGCTCCAATGCCATTTCAGAGAGA
* * * * *
71653418 AGAGATTTGTAGCTTTGATCTACTCCGCTAGAGCTTTATGGAGATAA
130 AGAAATTTGTAGCTTCGATCTACTCCGCTAGAACTTAAAGGAGATAA
71653465 GAATTGTGG
1 GAATTGTGG
71653474 TTTCAACCTG
Statistics
Matches: 162, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
176 157 0.97
177 5 0.03
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (176 bp):
GAATTGTGGCTTCCAGCCGCTCTAGTGCCATTTCAGAGAGAAAAGATTTGTAACTTCGATCTACT
CCACTAGAACTTCAAAGAGATACAAATTGTAGCTTCAAGCCGCTCCAATGCCATTTCAGAGAGAA
GAAATTTGTAGCTTCGATCTACTCCGCTAGAACTTAAAGGAGATAA
Found at i:71653530 original size:176 final size:176
Alignment explanation
Indices: 71653113--71653532 Score: 420
Period size: 176 Copynumber: 2.4 Consensus size: 176
71653103 NNNNNAATAT
* * * * * * * * *
71653113 GAATTGTGGCTTCGAGCCGCTCTAGTGCCATTTCAGGGAGAAAAGATTTGTAGCTTCGATCTACT
1 GAATTGTGGCTTCCAACCGCTCTACTGACATCTCAGAGAGAAAAGATCTATAACTTCGATCTACT
** * * *
71653178 CCGCTGGAACTTCAATGAGATACAAATTGTAGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAA
66 CCATTAGAACTTCAAAGAGATACAAATTGTAGCTTCAAGCCGCTCCAATGCCATTTCAGAGAGAA
* *
71653243 GAAATTTGTATCTTCGATCTACTCCGCTGAAACTTAAAGGAGATAC
131 GAAATTTGTAGCTTCGATCTACTCCGCTGAAACTTAAAGGAGATAA
* * * * * *
71653289 GAATTGTGGCTTCCAGCCGCTCTAGTGCCATTTCAGAGAGAAAAGATTTGTAACTTCGATCTACT
1 GAATTGTGGCTTCCAACCGCTCTACTGACATCTCAGAGAGAAAAGATCTATAACTTCGATCTACT
* * * * * *
71653354 CCATTAGAACTTCAAAGAGATACGAATTGTGGCTTTGAA-CCGCTCTAATGGCATTTTAGAGAGA
66 CCATTAGAACTTCAAAGAGATACAAATTGTAGC-TTCAAGCCGCTCCAATGCCATTTCAGAGAGA
* * * * *
71653418 AGAGATTTGTAGCTTTGATCTACTCCGCT-AGAGCTTTATGGAGATAA
130 AGAAATTTGTAGCTTCGATCTACTCCGCTGA-AACTTAAAGGAGATAA
* * *
71653465 GAATTGTGG-TTTCAACCTGCTCTACT-AC-TGCTCAGGGAGACAAGATCTATAATCTTC-AGTC
1 GAATTGTGGCTTCCAACC-GCTCTACTGACAT-CTCAGAGAGAAAAGATCTATAA-CTTCGA-TC
71653526 TACTCCA
62 TACTCCA
71653533 CTATTGTTTA
Statistics
Matches: 208, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
174 1 0.00
175 26 0.12
176 177 0.85
177 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (176 bp):
GAATTGTGGCTTCCAACCGCTCTACTGACATCTCAGAGAGAAAAGATCTATAACTTCGATCTACT
CCATTAGAACTTCAAAGAGATACAAATTGTAGCTTCAAGCCGCTCCAATGCCATTTCAGAGAGAA
GAAATTTGTAGCTTCGATCTACTCCGCTGAAACTTAAAGGAGATAA
Found at i:71653603 original size:85 final size:85
Alignment explanation
Indices: 71653481--71653681 Score: 269
Period size: 85 Copynumber: 2.3 Consensus size: 85
71653471 TGGTTTCAAC
* * * * *
71653481 CTGCTCTACTACTGCTCAGGGAGACAAGATCTATAATCTTCAGTCTACTCCACTATTGTTTAGTG
1 CTGCTCCACTACTGCTTA-GGAGACAAGATCTATAATCTTCAGCCTACTCCACTACTGCTTAG-G
*
71653546 -ATATAGGATAGTGGCTTAAAT
64 AAGATAGGATAGTGGCTTAAAT
* *
71653567 CTGCTCCACTACTGCTTAGGAGACCAGATCTGTAATCTTCAGCCTACTCCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGAGACAAGATCTATAATCTTCAGCCTACTCCACTACTGCTTAGGAA
*
71653632 GATAGGATGGTGGCTTAAAT
66 GATAGGATAGTGGCTTAAAT
* *
71653652 CTACTCCACTACTGCTTAGGGAGATAAGAT
1 CTGCTCCACTACTGCTTA-GGAGACAAGAT
71653682 ATGTGAATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
84 1 0.01
85 75 0.74
86 25 0.25
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (85 bp):
CTGCTCCACTACTGCTTAGGAGACAAGATCTATAATCTTCAGCCTACTCCACTACTGCTTAGGAA
GATAGGATAGTGGCTTAAAT
Found at i:71653669 original size:42 final size:41
Alignment explanation
Indices: 71653524--71653682 Score: 140
Period size: 42 Copynumber: 3.8 Consensus size: 41
71653514 TAATCTTCAG
* * *
71653524 TCTACTCCACTATTGTTTAGTGATATAGGATAGTGGCTTAAA
1 TCTACTCCACTACTGCTTAG-GAGATAGGATAGTGGCTTAAA
* * * ** * *
71653566 TCTGCTCCACTACTGCTTAGGAGACCA-GATCTGTAATCTTCAG
1 TCTACTCCACTACTGCTTAGGAGA-TAGGAT-AGT-GGCTTAAA
* *
71653609 CCTACTCCACTACTGCTTAGGAAGATAGGATGGTGGCTTAAA
1 TCTACTCCACTACTGCTTAGG-AGATAGGATAGTGGCTTAAA
*
71653651 TCTACTCCACTACTGCTTAGGGAGATAAGATA
1 TCTACTCCACTACTGCTTA-GGAGATAGGATA
71653683 TGTGAATTCA
Statistics
Matches: 90, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
41 6 0.07
42 50 0.56
43 28 0.31
44 6 0.07
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (41 bp):
TCTACTCCACTACTGCTTAGGAGATAGGATAGTGGCTTAAA
Found at i:71654385 original size:30 final size:30
Alignment explanation
Indices: 71654340--71654398 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
71654330 CTTAACAAGA
71654340 AAATACCTCTAAAATAAT-AATAAAATTAAC
1 AAATACCTCTAAAATAATGAA-AAAATTAAC
* *
71654370 AAATGCCTTTAAAATAATGAAAAAATTAA
1 AAATACCTCTAAAATAATGAAAAAATTAA
71654399 TAATAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATACCTCTAAAATAATGAAAAAATTAAC
Found at i:71661546 original size:2 final size:2
Alignment explanation
Indices: 71661541--71661577 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
71661531 GTTCTCTCGG
71661541 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
71661578 AGACGAAGCC
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:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:71663840 original size:26 final size:26
Alignment explanation
Indices: 71663782--71663840 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
71663772 AAAAATTTTA
*
71663782 AAATTTTAAATTAATAAAAATAAAAT
1 AAATTTTAAATTAATAAAAATAAAAG
* ** *
71663808 AATATTTTAATTTCTTAAAAATAATAG
1 AA-ATTTTAAATTAATAAAAATAAAAG
71663835 AAATTT
1 AAATTT
71663841 GATTTAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (26 bp):
AAATTTTAAATTAATAAAAATAAAAG
Found at i:71664468 original size:21 final size:21
Alignment explanation
Indices: 71664444--71664486 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
71664434 TAACTTAAAG
*
71664444 ATTAATTAATTTATTCAAATT
1 ATTAATTAATTAATTCAAATT
* *
71664465 ATTATTTAATTAATTGAAATT
1 ATTAATTAATTAATTCAAATT
71664486 A
1 A
71664487 AATAACTGAA
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:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTAATTAATTAATTCAAATT
Found at i:71665604 original size:15 final size:15
Alignment explanation
Indices: 71665579--71665627 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
71665569 TTATTTTATT
71665579 TTATTTT-ATATATA
1 TTATTTTAATATATA
71665593 TTATTTTAATATATA
1 TTATTTTAATATATA
* *
71665608 CTATTTTGAAT-TATT
1 TTATTTT-AATATATA
71665623 TTATT
1 TTATT
71665628 GATTTTGCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 7 0.23
15 20 0.67
16 3 0.10
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (15 bp):
TTATTTTAATATATA
Found at i:71673011 original size:132 final size:132
Alignment explanation
Indices: 71672709--71673108 Score: 500
Period size: 132 Copynumber: 3.0 Consensus size: 132
71672699 AAATGGCGGG
** * *
71672709 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGTTACCAGCCTTATCTCTGTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTATGAGGTAGCA
* * * * * ** * * *
71672774 AGAGAGCAGGTTAAAAAT-CCAGGTCTTATCTTCCTGAGGTAGCAAGG-AAGCAGGCTAAAAATT
66 AGAGAGCAGGTTGAAGATACGA-GCCTTAACCCCCT-AAGAAGTAAGGTAA-CAGGCTAAAAATT
71672837 ACAGA
128 ACAGA
* * *
71672842 TCTTATTTCCATGTATCGGCTATAGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTATGAGGTAGCA
* * * * *
71672907 AGAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTAAGCAGTAGGGTAACGGGCTGAAATTTACA
66 AGAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTAAGAAGTAAGGTAACAGGCTAAAAATTACA
71672972 GA
131 GA
* * *
71672974 TCTTATCTCTATGTATCGGCTATGGAGTAGATTTTAGCCACCGACCTTATCTCTATGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTATGAGGTAGCA
* *
71673039 AGAGAGTAGGTTGAAGATATGAGCCTTAACCCCCTAAGAAGTAAGGTAACAGGCTATAAAA-TAC
66 AGAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTAAGAAGTAAGGTAACAGGCTA-AAAATTAC
71673103 AGA
130 AGA
71673106 TCT
1 TCT
71673109 CCCTTAAACA
Statistics
Matches: 231, Mismatches: 33, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
132 140 0.61
133 89 0.39
134 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (132 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTATGAGGTAGCA
AGAGAGCAGGTTGAAGATACGAGCCTTAACCCCCTAAGAAGTAAGGTAACAGGCTAAAAATTACA
GA
Found at i:71673900 original size:20 final size:18
Alignment explanation
Indices: 71673875--71673911 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
71673865 ATTGCTAAGT
71673875 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
71673895 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
71673912 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:71674520 original size:46 final size:46
Alignment explanation
Indices: 71674470--71674643 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
71674460 GTTGAGCATC
*
71674470 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGAT
* * * *
71674516 CGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCAT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G-AT
* * **
71674562 CTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 C-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGAT
*
71674609 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71674644 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 18
0.77 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.58
47 25 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGAT
Found at i:71674624 original size:93 final size:93
Alignment explanation
Indices: 71674465--71674635 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
71674455 GGATGGTTGA
* **
71674465 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
71674530 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
71674558 GCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
71674623 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
71674636 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:71677276 original size:22 final size:23
Alignment explanation
Indices: 71677251--71677296 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
71677241 CAACCAAATC
71677251 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
71677273 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
71677296 A
1 A
71677297 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:71677302 original size:23 final size:23
Alignment explanation
Indices: 71677258--71677302 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
71677248 ATCAATTCAA
*
71677258 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
71677281 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
71677303 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:71680765 original size:5 final size:5
Alignment explanation
Indices: 71680755--71680818 Score: 51
Period size: 5 Copynumber: 13.0 Consensus size: 5
71680745 AGTTCATATC
* * * * *
71680755 TTATT TTATT TTATT TTATT TTA-T ATATA TTATT TTAAT ATATA TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
*
71680804 TTGA-A TTATT TTATT
1 TT-ATT TTATT TTATT
71680819 GATTTTGCAC
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
4 4 0.09
5 39 0.89
6 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (5 bp):
TTATT
Found at i:71680788 original size:29 final size:29
Alignment explanation
Indices: 71680750--71680805 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
71680740 GTTTTAGTTC
* * * *
71680750 ATATCTTATTTTATTTTATTTTATTTTAT
1 ATATATTATTTTAATATATATTATTTTAT
71680779 ATATATTATTTTAATATATATTATTTT
1 ATATATTATTTTAATATATATTATTTT
71680806 GAATTATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (29 bp):
ATATATTATTTTAATATATATTATTTTAT
Found at i:71680798 original size:19 final size:18
Alignment explanation
Indices: 71680761--71680803 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
71680751 TATCTTATTT
* *
71680761 TATT-TTATTTTATTTTA
1 TATTATTATTTTAATATA
71680778 TATATATTATTTTAATATA
1 TAT-TATTATTTTAATATA
71680797 TATTATT
1 TATTATT
71680804 TTGAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 5 0.23
19 14 0.64
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTATTATTTTAATATA
Found at i:71680817 original size:15 final size:15
Alignment explanation
Indices: 71680750--71680818 Score: 70
Period size: 15 Copynumber: 4.7 Consensus size: 15
71680740 GTTTTAGTTC
* *
71680750 ATATCTTATTTTATT
1 ATATATTATTTTAAT
* *
71680765 TTATTTTATTTT-AT
1 ATATATTATTTTAAT
71680779 ATATATTATTTTAAT
1 ATATATTATTTTAAT
71680794 ATATATTATTTTGAAT
1 ATATATTATTTT-AAT
*
71680810 -TATTTTATT
1 ATATATTATT
71680819 GATTTTGCAC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
14 11 0.24
15 32 0.70
16 3 0.07
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (15 bp):
ATATATTATTTTAAT
Found at i:71683524 original size:9 final size:9
Alignment explanation
Indices: 71683512--71683659 Score: 55
Period size: 9 Copynumber: 15.6 Consensus size: 9
71683502 ATTAGAAAAA
71683512 AAAAATTAT
1 AAAAATTAT
*
71683521 AAAAATAAT
1 AAAAATTAT
** *
71683530 AAATTTTAG
1 AAAAATTAT
71683539 AAAAATTATT
1 AAAAATTA-T
**
71683549 AAATTTTGAT
1 AAAAATT-AT
*
71683559 AAAAATATAA
1 AAAAAT-TAT
71683569 AAAAATTA-
1 AAAAATTAT
*
71683577 AAAATTTATT
1 AAAAATTA-T
*
71683587 AAAAATTAG
1 AAAAATTAT
***
71683596 AATTTTTTTAT
1 AA--AAATTAT
*
71683607 AAAAATTGTAA
1 AAAAA-T-TAT
* *
71683618 AAAAATAAA
1 AAAAATTAT
*
71683627 AAAAATTGT
1 AAAAATTAT
*
71683636 AAAATTTTAT
1 AAAA-ATTAT
71683646 AAAAATTAT
1 AAAAATTAT
71683655 AAAAA
1 AAAAA
71683660 AATTAATGGC
Statistics
Matches: 98, Mismatches: 31, Indels: 20
0.66 0.21 0.13
Matches are distributed among these distances:
8 7 0.07
9 44 0.45
10 33 0.34
11 14 0.14
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:71683562 original size:19 final size:20
Alignment explanation
Indices: 71683519--71683569 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
71683509 AAAAAAAATT
71683519 ATAAAAATAATAAATTTTAG
1 ATAAAAATAATAAATTTTAG
* *
71683539 A-AAAATTATTAAATTTT-G
1 ATAAAAATAATAAATTTTAG
71683557 ATAAAAAT-ATAAA
1 ATAAAAATAATAAA
71683570 AAAATTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 6 0.23
19 19 0.73
20 1 0.04
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (20 bp):
ATAAAAATAATAAATTTTAG
Found at i:71683649 original size:20 final size:20
Alignment explanation
Indices: 71683601--71683650 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
71683591 ATTAGAATTT
71683601 TTTTAT-AAAAATTGTAAAA
1 TTTTATAAAAAATTGTAAAA
*** *
71683620 AAATAAAAAAAATTGTAAAA
1 TTTTATAAAAAATTGTAAAA
71683640 TTTTATAAAAA
1 TTTTATAAAAA
71683651 TTATAAAAAA
Statistics
Matches: 22, Mismatches: 8, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (20 bp):
TTTTATAAAAAATTGTAAAA
Found at i:71683881 original size:19 final size:19
Alignment explanation
Indices: 71683859--71683936 Score: 65
Period size: 19 Copynumber: 4.2 Consensus size: 19
71683849 TTCTTACGGA
71683859 TTTATAAAATTTTATATTT
1 TTTATAAAATTTTATATTT
*
71683878 TTTAT---ATTTCTATATAT
1 TTTATAAAATTT-TATATTT
**
71683895 TTTATAATTTTTTACTA-TT
1 TTTATAAAATTTTA-TATTT
* *
71683914 TTTATAAAATTTAATACTT
1 TTTATAAAATTTTATATTT
71683933 TTTA
1 TTTA
71683937 CTATTTTTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
16 4 0.09
17 11 0.23
18 2 0.04
19 25 0.53
20 5 0.11
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTATAAAATTTTATATTT
Found at i:71683897 original size:17 final size:16
Alignment explanation
Indices: 71683867--71683915 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
71683857 GATTTATAAA
*
71683867 ATTTTATATTTTTTAT
1 ATTTTATATATTTTAT
71683883 ATTTCTATATATTTTAT
1 ATTT-TATATATTTTAT
*
71683900 AATTTTTTACTATTTT
1 -ATTTTATA-TATTTT
71683916 TATAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 4 0.14
17 14 0.50
18 10 0.36
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTTATATATTTTAT
Done.