Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 38 of 185
Found at i:10629349 original size:29 final size:29
Alignment explanation
Indices: 10629275--10629341 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
10629265 CACACAAATG
* **
10629275 TGTCACACACGGGCTGTCACACGGTTGTG
1 TGTCACACACGGGCTGTCACACGGTCGCA
10629304 TGTCACACACGGGCTGTCACACGGTCGCA
1 TGTCACACACGGGCTGTCACACGGTCGCA
*
10629333 TGTCCCACA
1 TGTCACACA
10629342 TGGTCTGTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.19, C:0.33, G:0.27, T:0.21
Consensus pattern (29 bp):
TGTCACACACGGGCTGTCACACGGTCGCA
Found at i:10637123 original size:30 final size:30
Alignment explanation
Indices: 10637079--10637136 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10637069 CACAGTCTGG
*
10637079 CACATGGGCGTGTGTCCAACCCGTGTGGCT
1 CACACGGGCGTGTGTCCAACCCGTGTGGCT
* *
10637109 CACACGGGCTTGTGTCCAGCCCGTGTGG
1 CACACGGGCGTGTGTCCAACCCGTGTGG
10637137 AAATGCCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.12, C:0.31, G:0.34, T:0.22
Consensus pattern (30 bp):
CACACGGGCGTGTGTCCAACCCGTGTGGCT
Found at i:10638965 original size:6 final size:6
Alignment explanation
Indices: 10638956--10639023 Score: 61
Period size: 6 Copynumber: 11.3 Consensus size: 6
10638946 TAAGTCTAAG
* *
10638956 AAAATA AAAATA AAGCAACTA AAAACA AAAATA AAGATA AAAAT- AAAAT-
1 AAAATA AAAATA AA--AA-TA AAAATA AAAATA AAAATA AAAATA AAAATA
*
10639005 AAAATA AAAA-C AAAATA AA
1 AAAATA AAAATA AAAATA AA
10639024 CTTAATGATA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
5 14 0.27
6 29 0.57
7 2 0.04
8 2 0.04
9 4 0.08
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:10639006 original size:11 final size:11
Alignment explanation
Indices: 10638977--10639023 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
10638967 AAAGCAACTA
*
10638977 AAAACAAAAAT
1 AAAATAAAAAT
10638988 AAAGATAAAAAT
1 AAA-ATAAAAAT
10639000 AAAAT-AAAAT
1 AAAATAAAAAT
10639010 AAAA-ACAAAAT
1 AAAATA-AAAAT
10639021 AAA
1 AAA
10639024 CTTAATGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 9 0.28
11 13 0.41
12 10 0.31
ACGTcount: A:0.81, C:0.04, G:0.02, T:0.13
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:10639231 original size:14 final size:14
Alignment explanation
Indices: 10639212--10639241 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10639202 AATATATAAT
10639212 AATAAAATAAAGAA
1 AATAAAATAAAGAA
10639226 AATAAAATAAAGAA
1 AATAAAATAAAGAA
10639240 AA
1 AA
10639242 GTGTAAAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (14 bp):
AATAAAATAAAGAA
Found at i:10640831 original size:29 final size:29
Alignment explanation
Indices: 10640789--10640847 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
10640779 ATACTCATCC
10640789 TAGTTTGTTAGGGTTTCCTAAGACCTAAT
1 TAGTTTGTTAGGGTTTCCTAAGACCTAAT
10640818 TAGTTTGTTAGGGTTTCCTAAGACCTAAT
1 TAGTTTGTTAGGGTTTCCTAAGACCTAAT
10640847 T
1 T
10640848 GCTTAAACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (29 bp):
TAGTTTGTTAGGGTTTCCTAAGACCTAAT
Found at i:10651049 original size:48 final size:48
Alignment explanation
Indices: 10650990--10651239 Score: 196
Period size: 48 Copynumber: 5.0 Consensus size: 48
10650980 GAGTAAAGTG
10650990 ACCCTGCTCCCAGACACATGGGGGAGGCTTATGAAAAGTAATAATATA
1 ACCCTGCTCCCAGACACATGGGGGAGGCTTATGAAAAGTAATAATATA
* * *
10651038 ACCCTGCTCCCAGATGA-ATAGGGGGAAGCTTATGGAAAGTAATATTATAAATAATATA
1 ACCCTGCTCCCAGA-CACAT-GGGGGAGGCTTAT-G--A--AA-A--GT-AATAATATA
* * * *
10651096 ACCCTGCTCTCAAACACATGTGGGGAGACTTATGGAAAGTAATAATATA
1 ACCCTGCTCCCAGACACATG-GGGGAGGCTTATGAAAAGTAATAATATA
** * * * ** *
10651145 GTCCTGTTCCCGGACGCATGATGGAGGCTTACGAAAAGTAATAATATA
1 ACCCTGCTCCCAGACACATGGGGGAGGCTTATGAAAAGTAATAATATA
* * * * * *
10651193 ACCCTACTCTCAAACACATGGGGAAGGCTTACGAAAAGTAACAATAT
1 ACCCTGCTCCCAGACACATGGGGGAGGCTTATGAAAAGTAATAATAT
10651240 TCTTGTATTT
Statistics
Matches: 155, Mismatches: 34, Indels: 26
0.72 0.16 0.12
Matches are distributed among these distances:
48 74 0.48
49 35 0.23
50 2 0.01
52 2 0.01
53 2 0.01
54 2 0.01
55 1 0.01
57 4 0.03
58 33 0.21
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (48 bp):
ACCCTGCTCCCAGACACATGGGGGAGGCTTATGAAAAGTAATAATATA
Found at i:10651121 original size:58 final size:58
Alignment explanation
Indices: 10651029--10651144 Score: 148
Period size: 58 Copynumber: 2.0 Consensus size: 58
10651019 TATGAAAAGT
** *
10651029 AATAATATAACCCTGCTCCCAGATGAATAGGGGGA-AGCTTATGGAAAGTAATATTATA
1 AATAATATAACCCTGCTCCCAGAACAATAGGGGGAGA-CTTATGGAAAGTAATAATATA
*
10651087 AATAATATAACCCTGCTCTCA-AACACAT-GTGGGGAGACTTATGGAAAGTAATAATATA
1 AATAATATAACCCTGCTCCCAGAACA-ATAG-GGGGAGACTTATGGAAAGTAATAATATA
10651145 GTCCTGTTCC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
57 3 0.06
58 47 0.92
59 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.26
Consensus pattern (58 bp):
AATAATATAACCCTGCTCCCAGAACAATAGGGGGAGACTTATGGAAAGTAATAATATA
Found at i:10652706 original size:18 final size:18
Alignment explanation
Indices: 10652683--10652720 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
10652673 ACTATCAGCG
10652683 CTAGCCCAAGCGAGAGCC
1 CTAGCCCAAGCGAGAGCC
*
10652701 CTAGCCCAAGCGGGAGCC
1 CTAGCCCAAGCGAGAGCC
10652719 CT
1 CT
10652721 GAGGAAAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.39, G:0.29, T:0.08
Consensus pattern (18 bp):
CTAGCCCAAGCGAGAGCC
Found at i:10671693 original size:26 final size:26
Alignment explanation
Indices: 10671668--10671722 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
10671658 ATTATCAATA
10671668 ATAAATATT-TT-AATCATATTTAAAT
1 ATAAATATTCTTAAAT-ATATTTAAAT
* *
10671693 ATAATTATTCTTAAATATATTTTAAT
1 ATAAATATTCTTAAATATATTTAAAT
10671719 -TAAA
1 ATAAA
10671723 ATATATAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
25 11 0.44
26 11 0.44
27 3 0.12
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (26 bp):
ATAAATATTCTTAAATATATTTAAAT
Found at i:10671728 original size:18 final size:17
Alignment explanation
Indices: 10671707--10671741 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10671697 TTATTCTTAA
*
10671707 ATATATTTTAATTAAAAT
1 ATATAGTTTAA-TAAAAT
10671725 ATATAGTTTAATAAAAT
1 ATATAGTTTAATAAAAT
10671742 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
ATATAGTTTAATAAAAT
Found at i:10671795 original size:157 final size:157
Alignment explanation
Indices: 10671594--10671910 Score: 544
Period size: 157 Copynumber: 2.0 Consensus size: 157
10671584 TAGAATACCC
* * *
10671594 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGATAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
* * * * *
10671659 TTATCAATAATAAATATTTTAATCATATTTAAATATAATTATTCTTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
*
10671724 TATATAGTTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
10671751 TTAGCAGAAATTTGTTTTGATAAATTATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGATAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
10671816 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
10671881 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
10671908 TTA
1 TTA
10671911 ATATTCTTAT
Statistics
Matches: 150, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 150 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGATAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:10671871 original size:82 final size:82
Alignment explanation
Indices: 10671628--10671881 Score: 213
Period size: 79 Copynumber: 3.2 Consensus size: 82
10671618 TGATTATTGT
* * *
10671628 TATTGTTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAAT
1 TATTATTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAAT
*
10671693 ATAATTATTCTTAAATA
66 ATAATTATTATTAAATA
* * * * * * * * ** * * *
10671710 TATT-TTAATTAAAATAT-AT-AGTTTAATAAAATTC-TTAATAATTAGCA-GAAAT-TTGTTTT
1 TATTATTATTTAAATTTTAATAAGATTATTAATA-TCAATAATAAATA--ATTTAATCATATTTA
* *
10671769 GATA-AATTATTATT--GT-
63 AATATAATTATTATTAAATA
*
10671785 TATTATTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAAC
1 TATTATTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAAT
10671850 ATAATTATTATTAAATA
66 ATAATTATTATTAAATA
* *
10671867 TATTATAATTAAAAT
1 TATTATTATTTAAAT
10671882 ATATAATTTA
Statistics
Matches: 123, Mismatches: 36, Indels: 26
0.66 0.19 0.14
Matches are distributed among these distances:
75 4 0.03
76 12 0.10
77 7 0.06
78 32 0.26
79 33 0.27
80 7 0.06
81 11 0.09
82 17 0.14
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (82 bp):
TATTATTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAAT
ATAATTATTATTAAATA
Found at i:10671881 original size:16 final size:16
Alignment explanation
Indices: 10671844--10671885 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
10671834 TTAATCATAT
*
10671844 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
10671860 TT-AAATATATTATAA
1 TTAAAATATATTATAA
10671875 TTAAAATATAT
1 TTAAAATATAT
10671886 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:10671892 original size:14 final size:15
Alignment explanation
Indices: 10671853--10672014 Score: 58
Period size: 15 Copynumber: 10.9 Consensus size: 15
10671843 TTTAAACATA
*
10671853 ATTATTATTAAATAT
1 ATTATAATTAAATAT
10671868 ATTATAATTAAAATAT
1 ATTATAATT-AAATAT
* *
10671884 ATAATTTAATAAAAT-T
1 AT--TATAATTAAATAT
*
10671900 CTTAATAATT-AATATT
1 ATT-ATAATTAAATA-T
* * *
10671916 CTTAT-A-TGAATTT
1 ATTATAATTAAATAT
*
10671929 ACTCA-AATTATAATAT
1 A-TTATAATTA-AATAT
* *
10671945 ATGATACTGTAAA-AT
1 ATTATAAT-TAAATAT
10671960 A-TA-AATTAACATA-
1 ATTATAATTAA-ATAT
*
10671973 ATTATTATTAAATAT
1 ATTATAATTAAATAT
10671988 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
10672002 A-TATAATTTAATA
1 ATTATAATTAAATA
10672015 AAATTCTTAA
Statistics
Matches: 110, Mismatches: 18, Indels: 39
0.66 0.11 0.23
Matches are distributed among these distances:
12 3 0.03
13 15 0.14
14 22 0.20
15 36 0.33
16 23 0.21
17 6 0.05
18 5 0.05
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:10671944 original size:61 final size:61
Alignment explanation
Indices: 10671873--10672066 Score: 195
Period size: 61 Copynumber: 3.2 Consensus size: 61
10671863 AATATATTAT
10671873 AATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
1 AATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
* * * * * * * * *
10671934 AATTATAATATATGATACT-GTAAAA-T-AT-A-AATTAACATAATTATTAT-TAAATATA-TTA
1 AATTAAAATATATAAT-TTAATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTACTCA
10671992 TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
1 -AATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
* *
10672054 AATCATAATATAT
1 AATTAAAATATAT
10672067 GATACTATAA
Statistics
Matches: 101, Mismatches: 20, Indels: 24
0.70 0.14 0.17
Matches are distributed among these distances:
57 4 0.04
58 5 0.05
59 28 0.28
60 16 0.16
61 39 0.39
62 5 0.05
63 4 0.04
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (61 bp):
AATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
Found at i:10671977 original size:120 final size:121
Alignment explanation
Indices: 10671842--10672139 Score: 496
Period size: 120 Copynumber: 2.5 Consensus size: 121
10671832 ATTTAATCAT
*
10671842 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
10671907 ATTAATATTCTTATATGAATTTACTCAAATTATAATATATGATACTGTAAAAT-ATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AA
10671964 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
10672027 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
* * *
10672083 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
10672140 TAAAATAATT
Statistics
Matches: 168, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
119 7 0.04
120 156 0.93
121 4 0.02
122 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
Found at i:10672226 original size:24 final size:25
Alignment explanation
Indices: 10672180--10672227 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
10672170 TATGAATTTG
10672180 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
10672206 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
10672228 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:10672279 original size:91 final size:90
Alignment explanation
Indices: 10672155--10672362 Score: 267
Period size: 91 Copynumber: 2.3 Consensus size: 90
10672145 TAATTATAAC
* * * *
10672155 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATT-TATTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAAT-A
* *
10672219 TTAATAT-TAAATTTCATAAAATTCTTGA
63 GTAATATAT-AATTTCATAAAATTCTTAA
* *
10672247 TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGTG
1 TAATAAATTTATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGTA
10672312 ATATATAATTTCATAAAATTCTTAA
66 ATATATAATTTCATAAAATTCTTAA
*
10672337 TAATAAAATGTTTTTATATGAATTTA
1 TAAT-AAAT-TTATTATATGAATTTA
10672363 CTAAAATCAA
Statistics
Matches: 103, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
90 28 0.27
91 48 0.47
92 27 0.26
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (90 bp):
TAATAAATTTATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGTA
ATATATAATTTCATAAAATTCTTAA
Found at i:10675418 original size:33 final size:33
Alignment explanation
Indices: 10675379--10675454 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
10675369 ATTATAAAGC
*
10675379 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
10675412 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
10675445 ATGTATAATT
1 ATGTATAATT
10675455 CAAGTTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTAT
Found at i:10675552 original size:37 final size:37
Alignment explanation
Indices: 10675497--10675583 Score: 147
Period size: 37 Copynumber: 2.4 Consensus size: 37
10675487 GTATAAATAT
* * *
10675497 ATTGATTAGTTCATTAAAGCATGTTCAAAGTTTTAAC
1 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
10675534 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
1 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
10675571 ATTGATTAGTTTA
1 ATTGATTAGTTTA
10675584 TTTATTTATG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (37 bp):
ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
Found at i:10678786 original size:7 final size:7
Alignment explanation
Indices: 10678774--10678814 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
10678764 GAAAAAGAAA
10678774 AGAAGGT
1 AGAAGGT
10678781 AGAAGGT
1 AGAAGGT
10678788 AGAAGGT
1 AGAAGGT
10678795 AGAAGGT
1 AGAAGGT
10678802 AGAAGGT
1 AGAAGGT
10678809 AGAAGG
1 AGAAGG
10678815 AAATCGGTCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (7 bp):
AGAAGGT
Found at i:10681370 original size:19 final size:19
Alignment explanation
Indices: 10681346--10681383 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
10681336 GGTAAGAGTA
10681346 TAAGTAGTGTAAAGATGTG
1 TAAGTAGTGTAAAGATGTG
10681365 TAAGTAGTGTAAAGATGTG
1 TAAGTAGTGTAAAGATGTG
10681384 AGATGTGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.32
Consensus pattern (19 bp):
TAAGTAGTGTAAAGATGTG
Found at i:10681904 original size:15 final size:18
Alignment explanation
Indices: 10681871--10681908 Score: 55
Period size: 15 Copynumber: 2.3 Consensus size: 18
10681861 AGAAAAATGC
10681871 TTAATAAAATATGATTAT
1 TTAATAAAATATGATTAT
10681889 TTAA-AAAA-ATGA-TAT
1 TTAATAAAATATGATTAT
10681904 TTAAT
1 TTAAT
10681909 CGTAATATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 7 0.37
16 4 0.21
17 4 0.21
18 4 0.21
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TTAATAAAATATGATTAT
Found at i:10682569 original size:20 final size:20
Alignment explanation
Indices: 10682546--10682656 Score: 64
Period size: 20 Copynumber: 5.5 Consensus size: 20
10682536 GGTCGAGCCA
10682546 CCAGTAATGCAAATAAACTG
1 CCAGTAATGCAAATAAACTG
* * **
10682566 CCAGTAGTGTAGAA-AAGTTG
1 CCAGTAATGCA-AATAAACTG
* * *
10682586 CCAGTATTGTAGATAAACTG
1 CCAGTAATGCAAATAAACTG
*** * * *
10682606 CCAGTAATG-TGGTCAAGTCA
1 CCAGTAATGCAAATAAACT-G
*
10682626 CCAGTGATGCAAATAAACTG
1 CCAGTAATGCAAATAAACTG
10682646 CCAGTAATGCA
1 CCAGTAATGCA
10682657 GACAATGCTA
Statistics
Matches: 65, Mismatches: 22, Indels: 8
0.68 0.23 0.08
Matches are distributed among these distances:
19 6 0.09
20 53 0.82
21 6 0.09
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (20 bp):
CCAGTAATGCAAATAAACTG
Found at i:10682590 original size:40 final size:40
Alignment explanation
Indices: 10682544--10682654 Score: 132
Period size: 40 Copynumber: 2.8 Consensus size: 40
10682534 GTGGTCGAGC
*
10682544 CACCAGTAATGCAAATAAACTGCCAGTAGTGTAGAAAAGT
1 CACCAGTAATGCAAATAAACTGCCAGTAATGTAGAAAAGT
** * * * * **
10682584 TGCCAGTATTGTAGATAAACTGCCAGTAATGTGGTCAAGT
1 CACCAGTAATGCAAATAAACTGCCAGTAATGTAGAAAAGT
*
10682624 CACCAGTGATGCAAATAAACTGCCAGTAATG
1 CACCAGTAATGCAAATAAACTGCCAGTAATG
10682655 CAGACAATGC
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (40 bp):
CACCAGTAATGCAAATAAACTGCCAGTAATGTAGAAAAGT
Found at i:10685374 original size:31 final size:31
Alignment explanation
Indices: 10685304--10685784 Score: 539
Period size: 31 Copynumber: 15.7 Consensus size: 31
10685294 GTATATGTTT
* * * * *
10685304 TATACATTTCCAAATTTGATTTTTTTATAGATA
1 TATACATTGCCGAATTTGATTTGTATAT-G-GA
** * * *
10685337 TATACATTTTCGAAATTGATTTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* * *
10685368 TATACATTGCCGAATTTGAATTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* *
10685399 TATACATTGTCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATGGA
*
10685430 TATACATTGCCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATGGA
* * *
10685461 TATACATTGTCGAATTTGATTTGTATAGGGT
1 TATACATTGCCGAATTTGATTTGTATATGGA
*
10685492 TATACATTGCCGAA--T--TTT-TATATAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* *
10685518 TATACATTGTCGAA-TTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* * *
10685548 TATAAATTGCTGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATGGA
*
10685579 TATACATTGTCGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* **
10685610 TATACGTTGCCGAA-TTGATTTGTATATATA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* * *
10685640 TATACATTTCTGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATGGA
10685671 TATACATTGCCGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* * *
10685702 TATTCATTGCCGAA-TTGATTTGTATGTAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
*
10685732 TATACATTGCCGAATTTGATTCGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* *
10685763 TATATATTGCTGAA-TTGATTTG
1 TATACATTGCCGAATTTGATTTG
10685785 AGCATTGGAT
Statistics
Matches: 386, Mismatches: 55, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
26 18 0.05
27 4 0.01
29 4 0.01
30 78 0.20
31 258 0.67
33 24 0.06
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTGTATATGGA
Found at i:10685637 original size:92 final size:92
Alignment explanation
Indices: 10685293--10685784 Score: 584
Period size: 92 Copynumber: 5.4 Consensus size: 92
10685283 TGAATTTAAA
* * * * * * **
10685293 TGTATATGTTTTATACATTTCCAAATTTGATTTTTTTATAGATATATACATTTTCGAAATTGATT
1 TGTATATG-GTTATACATTGCCGAATTTGATTTGTATAT-G-GATATACATTGCCG-AATTGATT
* * *
10685358 TGTTTATAGATATACATTGCCGAATTTGAAT
62 TGTATATAGATATACATTGCTGAATTTGATT
* * * * *
10685389 TGTTTATAGATATACATTGTCGAATTTGATTTGTATATGGTTATACATTGCCGAATTTGATTTGT
1 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAA-TTGATTTGT
* *
10685454 ATATGGTTATACATTG-TCGAATTTGATT
65 ATATAGATATACATTGCT-GAATTTGATT
* * *
10685482 TGTATAGGGTTATACATTGCCGAA--T--TTT-TATATAGATATACATTGTCGAATTGATTTGTA
1 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTGTA
*
10685542 TATAGATATAAATTGCTGAATTTGATT
66 TATAGATATACATTGCTGAATTTGATT
* *
10685569 TGTATATGGTTATACATTGTCGAATTTGATTTGTATATGGATATACGTTGCCGAATTGATTTGTA
1 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTGTA
* *
10685634 TATATATATACATTTCTGAATTTGATT
66 TATAGATATACATTGCTGAATTTGATT
*
10685661 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATTCATTGCCGAATTGATTTGTA
1 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTGTA
* *
10685726 TGTAGATATACATTGCCGAATTTGATT
66 TATAGATATACATTGCTGAATTTGATT
* * * *
10685753 CGTATATGGATATATATTGCTGAA-TTGATTTG
1 TGTATATGGTTATACATTGCCGAATTTGATTTG
10685785 AGCATTGGAT
Statistics
Matches: 340, Mismatches: 48, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
87 54 0.16
88 20 0.06
89 4 0.01
91 12 0.04
92 160 0.47
93 60 0.18
94 1 0.00
95 23 0.07
96 6 0.02
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (92 bp):
TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTGTA
TATAGATATACATTGCTGAATTTGATT
Found at i:10686701 original size:10 final size:10
Alignment explanation
Indices: 10686686--10686714 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
10686676 TGTGATAAAT
10686686 GACTGTGTTA
1 GACTGTGTTA
10686696 GACTGTGTTA
1 GACTGTGTTA
10686706 GACTGTGTT
1 GACTGTGTT
10686715 GAGTTAGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.17, C:0.10, G:0.31, T:0.41
Consensus pattern (10 bp):
GACTGTGTTA
Found at i:10690657 original size:5 final size:5
Alignment explanation
Indices: 10690649--10690680 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
10690639 AATACATTGG
10690649 TAAAA TAAAA TAAAA TAAAA TAAAA GTAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA -TAAAA T
10690681 CCTTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:10693210 original size:43 final size:43
Alignment explanation
Indices: 10693039--10693210 Score: 172
Period size: 43 Copynumber: 4.0 Consensus size: 43
10693029 ATAGGATTTC
* * *
10693039 CGATATGTGTTTTCGTGTAAGACCACATCTAGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCAT
* * * * * * *
10693082 CAATTTGTGTTTACGTGTAAGACCATGTCTGGGACATTGTCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCAT
* * *
10693125 CG-TATTTGATT-TGTGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGATATGTGATTACGTGTAAGACCAC-GTCTAGGAC-GTTGGCAT
*
10693166 CGATATGTGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCAT
10693209 CG
1 CG
10693211 TACGAGCCTT
Statistics
Matches: 103, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
41 26 0.25
42 15 0.15
43 61 0.59
44 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (43 bp):
CGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCAT
Found at i:10702527 original size:14 final size:15
Alignment explanation
Indices: 10702502--10702530 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10702492 CATGGTAGAT
10702502 GGTACTATATTGATC
1 GGTACTATATTGATC
10702517 GGTAC-ATATTGATC
1 GGTACTATATTGATC
10702531 TGTTCCTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (15 bp):
GGTACTATATTGATC
Found at i:10712477 original size:215 final size:215
Alignment explanation
Indices: 10712106--10712540 Score: 791
Period size: 215 Copynumber: 2.0 Consensus size: 215
10712096 TTTGGATATG
* * *
10712106 ATAGTAAAATTTTGAGCTTATAAGGTTATATAATGGCATGTTATTATAGAGTAATTAGTGTATAT
1 ATAGTAAAATTTTGAACTTATAAGGTTATATAATGACATGTAATTATAGAGTAATTAGTGTATAT
*
10712171 ATATGGTCCAATTGGGAGATAGTTGGAAAGTATGGACATCACATATATAATAAGGGTAATTACAT
66 ATATGGTCCAAGTGGGAGATAGTTGGAAAGTATGGACATCACATATATAATAAGGGTAATTACAT
*
10712236 GTTATTATTTACTATCATAATAGGTTAGCCCAAATTAAAAGTGATCTAATTTGGTTAAGGTTTAT
131 GTTATTATTTACTATCATAATAGGTTAGCCCAAATTAAAAGTGATCTAATTTGATTAAGGTTTAT
* *
10712301 TGGGCTTTATTTTTTAAATA
196 TGGGCTTTAATTATTAAATA
10712321 ATAGTAAAATTTTGAACTTATAAGGTTATATAATGACATGTAATTATAGAGTAATTAGTGTATAT
1 ATAGTAAAATTTTGAACTTATAAGGTTATATAATGACATGTAATTATAGAGTAATTAGTGTATAT
*
10712386 ATATGGTCCAAGTGGGAGATTGTTGGAAAGTATGGACATCACATATATAATAAGGGTAATTACAT
66 ATATGGTCCAAGTGGGAGATAGTTGGAAAGTATGGACATCACATATATAATAAGGGTAATTACAT
10712451 GTTATTATTTACTATCATAATAGGTTAGCCCAAATTAAAAGTGATCTAATTTGATTAAGGTTTAT
131 GTTATTATTTACTATCATAATAGGTTAGCCCAAATTAAAAGTGATCTAATTTGATTAAGGTTTAT
10712516 TGGGCTTTAATTATTAAATA
196 TGGGCTTTAATTATTAAATA
10712536 A-AGTA
1 ATAGTA
10712541 TGGGTCAAAT
Statistics
Matches: 212, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
214 4 0.02
215 208 0.98
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.38
Consensus pattern (215 bp):
ATAGTAAAATTTTGAACTTATAAGGTTATATAATGACATGTAATTATAGAGTAATTAGTGTATAT
ATATGGTCCAAGTGGGAGATAGTTGGAAAGTATGGACATCACATATATAATAAGGGTAATTACAT
GTTATTATTTACTATCATAATAGGTTAGCCCAAATTAAAAGTGATCTAATTTGATTAAGGTTTAT
TGGGCTTTAATTATTAAATA
Found at i:10721764 original size:129 final size:129
Alignment explanation
Indices: 10721534--10721794 Score: 441
Period size: 129 Copynumber: 2.0 Consensus size: 129
10721524 CGTCGGGACT
*
10721534 GAGCCACAGAATGATACAGTAGAAAACAGAACACTTATAGACTTTTAACGGATAATTCGAATCGA
1 GAGCCACAGAATGATACAGTACAAAACAGAACACTTATAGACTTTTAACGGATAATTCGAATCGA
* *
10721599 AAATAATTAACTATCATAATACGAATCACATATAACAAATTTAAACCTTTATCGAGCTTAATAC
66 AAATAATTAACTATCATAATACGAATCACACATAACAAATTTAAACCTTTATCGAGCTTAACAC
* * * * *
10721663 GAGCCATATAATGCTACAGTACAAAACATAACACTTATAGACTTTTAACGGATAATTTGAATCGA
1 GAGCCACAGAATGATACAGTACAAAACAGAACACTTATAGACTTTTAACGGATAATTCGAATCGA
*
10721728 AAATAATTAACTATCATAATATGAATCACACATAACAAATTTAAACCTTTATCGAGCTTAACAC
66 AAATAATTAACTATCATAATACGAATCACACATAACAAATTTAAACCTTTATCGAGCTTAACAC
10721792 GAG
1 GAG
10721795 TTTACGTGAG
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 123 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.27
Consensus pattern (129 bp):
GAGCCACAGAATGATACAGTACAAAACAGAACACTTATAGACTTTTAACGGATAATTCGAATCGA
AAATAATTAACTATCATAATACGAATCACACATAACAAATTTAAACCTTTATCGAGCTTAACAC
Found at i:10728448 original size:13 final size:13
Alignment explanation
Indices: 10728432--10728476 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
10728422 TTTTTATTTT
10728432 TATTTTAAATATA
1 TATTTTAAATATA
* *
10728445 TATTTTTAAGACT-
1 TATTTTAAATA-TA
10728458 TATTTTAAATATA
1 TATTTTAAATATA
10728471 TATTTT
1 TATTTT
10728477 TAAGACTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 1 0.04
13 24 0.92
14 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (13 bp):
TATTTTAAATATA
Found at i:10728460 original size:26 final size:26
Alignment explanation
Indices: 10728431--10728490 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
10728421 TTTTTTATTT
10728431 TTATTTTAAATATATATTTTTAAGAC
1 TTATTTTAAATATATATTTTTAAGAC
10728457 TTATTTTAAATATATATTTTTAAGAC
1 TTATTTTAAATATATATTTTTAAGAC
10728483 TTATTTTA
1 TTATTTTA
10728491 TTTTTGGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (26 bp):
TTATTTTAAATATATATTTTTAAGAC
Found at i:10728487 original size:13 final size:13
Alignment explanation
Indices: 10728445--10728489 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
10728435 TTTAAATATA
10728445 TATTTTTAAGACT
1 TATTTTTAAGACT
* *
10728458 TATTTTAAATA-T
1 TATTTTTAAGACT
10728470 ATATTTTTAAGACT
1 -TATTTTTAAGACT
10728484 TATTTT
1 TATTTT
10728490 ATTTTTGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 1 0.04
13 24 0.92
14 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (13 bp):
TATTTTTAAGACT
Found at i:10742108 original size:25 final size:26
Alignment explanation
Indices: 10742080--10742197 Score: 86
Period size: 25 Copynumber: 4.7 Consensus size: 26
10742070 AAATCCTCTA
10742080 GAAAGCCTTTGTGG-AAAATACTTTG
1 GAAAGCCTTTGTGGCAAAATACTTTG
* * *
10742105 GAAATCCTTTATGGCAAACAAAC--TG
1 GAAAGCCTTTGTGGCAAA-ATACTTTG
* ** *
10742130 GAAAGCTTTTGTGG-TGAATACTTTA
1 GAAAGCCTTTGTGGCAAAATACTTTG
* * *
10742155 GAGTA-CCTTTGTGGCGAAAT-CTCTG
1 GA-AAGCCTTTGTGGCAAAATACTTTG
10742180 GAAAGCCTTTGTGGCAAA
1 GAAAGCCTTTGTGGCAAA
10742198 CTCTTTCTCT
Statistics
Matches: 68, Mismatches: 18, Indels: 14
0.68 0.18 0.14
Matches are distributed among these distances:
23 3 0.04
24 2 0.03
25 53 0.78
26 7 0.10
27 3 0.04
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (26 bp):
GAAAGCCTTTGTGGCAAAATACTTTG
Found at i:10749987 original size:27 final size:27
Alignment explanation
Indices: 10749944--10750009 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
10749934 TAATCCGCCT
10749944 AATTAAA-TAAAAGAACAT-AAATTAA
1 AATTAAATTAAAAGAACATAAAATTAA
**
10749969 GAATTAAATTAAATTAACATAAAATTAA
1 -AATTAAATTAAAAGAACATAAAATTAA
10749997 AGA-TAAATTAAAA
1 A-ATTAAATTAAAA
10750010 TCAAACAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 7 0.21
27 19 0.56
28 8 0.24
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (27 bp):
AATTAAATTAAAAGAACATAAAATTAA
Found at i:10754471 original size:16 final size:16
Alignment explanation
Indices: 10754450--10754485 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
10754440 TTTGGTTTGC
*
10754450 TGTATTGGATTAGAGG
1 TGTATTGAATTAGAGG
10754466 TGTATTGAATTAGAGG
1 TGTATTGAATTAGAGG
10754482 TGTA
1 TGTA
10754486 ATAGCTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTATTGAATTAGAGG
Found at i:10754738 original size:16 final size:16
Alignment explanation
Indices: 10754701--10754755 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
10754691 TTAATCATAT
*
10754701 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
10754717 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
10754732 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
10754750 -TAAAAT
1 TTAAAAT
10754756 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:10754748 original size:18 final size:18
Alignment explanation
Indices: 10754707--10754755 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
10754697 ATATTTAAAC
10754707 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
10754725 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
10754741 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
10754756 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:10754898 original size:156 final size:157
Alignment explanation
Indices: 10754608--10754922 Score: 506
Period size: 156 Copynumber: 2.0 Consensus size: 157
10754598 TAGAATACCC
* * *
10754608 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * * *
10754673 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATAATTAAATACATTATAATTAAAA
10754738 TATATAATTTAATAAAATTCTT-ATAA
131 TATATAATTTAATAAAATTCTTAATAA
10754764 TTAGCAGAAAATTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* ****
10754829 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATACATTATAATTTTGG
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATAATTAAATACATTATAATTAAAA
10754894 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
10754921 TT
1 TT
10754923 CATATTCTTA
Statistics
Matches: 145, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
156 139 0.96
157 6 0.04
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAAATTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATAATTAAATACATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:10761156 original size:17 final size:17
Alignment explanation
Indices: 10761134--10761168 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10761124 AACAAAGAAA
10761134 GAAAGGAGAAGAATTTG
1 GAAAGGAGAAGAATTTG
10761151 GAAAGGAGAAGAATTTG
1 GAAAGGAGAAGAATTTG
10761168 G
1 G
10761169 GGCTTCTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.37, T:0.17
Consensus pattern (17 bp):
GAAAGGAGAAGAATTTG
Found at i:10761208 original size:79 final size:79
Alignment explanation
Indices: 10761072--10761230 Score: 300
Period size: 79 Copynumber: 2.0 Consensus size: 79
10761062 AAAAAAGAAA
* *
10761072 GAAATGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCGGTATGTTACAGAAAACAAAGAAAGAA
1 GAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCAGTATGTTACAGAAAACAAAGAAAGAA
10761137 AGGAGAAGAATTTG
66 AGGAGAAGAATTTG
10761151 GAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCAGTATGTTACAGAAAACAAAGAAAGAA
1 GAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCAGTATGTTACAGAAAACAAAGAAAGAA
10761216 AGGAGAAGAATTTG
66 AGGAGAAGAATTTG
10761230 G
1 G
10761231 GGCTTCTGGG
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.42, C:0.08, G:0.28, T:0.22
Consensus pattern (79 bp):
GAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCAGTATGTTACAGAAAACAAAGAAAGAA
AGGAGAAGAATTTG
Found at i:10761222 original size:62 final size:62
Alignment explanation
Indices: 10761151--10761278 Score: 247
Period size: 62 Copynumber: 2.1 Consensus size: 62
10761141 GAAGAATTTG
10761151 GAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCAGTATGTTACAGAAAACAAAGAAA
1 GAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCAGTATGTTACAGAAAACAAAGAAA
*
10761213 GAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCGGTATGTTACAGAAAACAAAGAAA
1 GAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCAGTATGTTACAGAAAACAAAGAAA
10761275 GAAA
1 GAAA
10761279 AATAGAAGCA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.42, C:0.09, G:0.27, T:0.22
Consensus pattern (62 bp):
GAAAGGAGAAGAATTTGGGGCTTCTGGGTTAAAACTTCAGTATGTTACAGAAAACAAAGAAA
Found at i:10764304 original size:16 final size:16
Alignment explanation
Indices: 10764285--10764319 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
10764275 TTTATTCTTC
*
10764285 ATTTATTATATTTTGT
1 ATTTATTATATTTTAT
10764301 ATTTATTATATTTTAT
1 ATTTATTATATTTTAT
10764317 ATT
1 ATT
10764320 ATAATTGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
ATTTATTATATTTTAT
Found at i:10766654 original size:21 final size:21
Alignment explanation
Indices: 10766630--10766670 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
10766620 CCCTCTACAC
10766630 GGGTGTGTGTAGCCTTCACAT
1 GGGTGTGTGTAGCCTTCACAT
*
10766651 GGGTGTGTGTGGCCTTCACA
1 GGGTGTGTGTAGCCTTCACA
10766671 GTGACGTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.20, G:0.37, T:0.32
Consensus pattern (21 bp):
GGGTGTGTGTAGCCTTCACAT
Found at i:10766679 original size:23 final size:21
Alignment explanation
Indices: 10766632--10766679 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
10766622 CTCTACACGG
*
10766632 GTGTGTGTAGCCTTCACATGG
1 GTGTGTGTAGCCTTCACATGC
*
10766653 GTGTGTGTGGCCTTCACAGTGAC
1 GTGTGTGTAGCCTTCACA-TG-C
10766676 GTGT
1 GTGT
10766680 AGACCCCCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 17 0.74
22 2 0.09
23 4 0.17
ACGTcount: A:0.12, C:0.19, G:0.35, T:0.33
Consensus pattern (21 bp):
GTGTGTGTAGCCTTCACATGC
Found at i:10768530 original size:16 final size:16
Alignment explanation
Indices: 10768496--10768530 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10768486 TTTATTCTTC
*
10768496 ATTTATTATATTCTGT
1 ATTTATTATATTCTAT
*
10768512 ATTTATTATATTTTAT
1 ATTTATTATATTCTAT
10768528 ATT
1 ATT
10768531 ATAATTGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (16 bp):
ATTTATTATATTCTAT
Found at i:10770782 original size:20 final size:21
Alignment explanation
Indices: 10770738--10770782 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
10770728 CCCTCTACAC
*
10770738 GGGTGTGTGTAGCCTTCACAT
1 GGGTATGTGTAGCCTTCACAT
*
10770759 GGGTATGTGTGGCCTTCA-AT
1 GGGTATGTGTAGCCTTCACAT
10770779 GGGT
1 GGGT
10770783 TTGTAGACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.13, C:0.16, G:0.38, T:0.33
Consensus pattern (21 bp):
GGGTATGTGTAGCCTTCACAT
Found at i:10778412 original size:20 final size:21
Alignment explanation
Indices: 10778377--10778418 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
10778367 CTACAACTAG
*
10778377 TAGTTGCAGAAAAAATGTCAT
1 TAGTTACAGAAAAAATGTCAT
10778398 TAGTTACAG-AAAAATGTCAT
1 TAGTTACAGAAAAAATGTCAT
10778418 T
1 T
10778419 CTTTTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.31
Consensus pattern (21 bp):
TAGTTACAGAAAAAATGTCAT
Found at i:10781847 original size:26 final size:26
Alignment explanation
Indices: 10781812--10781898 Score: 83
Period size: 26 Copynumber: 3.4 Consensus size: 26
10781802 AACTTGATTC
10781812 AAATTATCCTTCAAGTTACATTTCAA
1 AAATTATCCTTCAAGTTACATTTCAA
* * **
10781838 AAATTTTCCTTTC---TCT-CTTTTGTA
1 AAATTATCC-TTCAAGT-TACATTTCAA
10781862 AAATTATCCTTCAAGTTACATTTCAA
1 AAATTATCCTTCAAGTTACATTTCAA
*
10781888 AAATTTTCCTT
1 AAATTATCCTT
10781899 TCTCTCTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
23 3 0.07
24 14 0.30
25 2 0.04
26 24 0.52
27 3 0.07
ACGTcount: A:0.31, C:0.20, G:0.03, T:0.46
Consensus pattern (26 bp):
AAATTATCCTTCAAGTTACATTTCAA
Found at i:10781866 original size:50 final size:50
Alignment explanation
Indices: 10781812--10781915 Score: 208
Period size: 50 Copynumber: 2.1 Consensus size: 50
10781802 AACTTGATTC
10781812 AAATTATCCTTCAAGTTACATTTCAAAAATTTTCCTTTCTCTCTTTTGTA
1 AAATTATCCTTCAAGTTACATTTCAAAAATTTTCCTTTCTCTCTTTTGTA
10781862 AAATTATCCTTCAAGTTACATTTCAAAAATTTTCCTTTCTCTCTTTTGTA
1 AAATTATCCTTCAAGTTACATTTCAAAAATTTTCCTTTCTCTCTTTTGTA
10781912 AAAT
1 AAAT
10781916 CTTTCTTTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.30, C:0.19, G:0.04, T:0.47
Consensus pattern (50 bp):
AAATTATCCTTCAAGTTACATTTCAAAAATTTTCCTTTCTCTCTTTTGTA
Found at i:10781871 original size:24 final size:24
Alignment explanation
Indices: 10781837--10781920 Score: 73
Period size: 24 Copynumber: 3.4 Consensus size: 24
10781827 TTACATTTCA
10781837 AAAATTTTCCTTTCTCTCTTTTGT
1 AAAATTTTCCTTTCTCTCTTTTGT
* * **
10781861 AAAATTATCC-TTCAAGT-TACATTTCA
1 AAAATTTTCCTTTC---TCT-CTTTTGT
10781887 AAAATTTTCCTTTCTCTCTTTTGT
1 AAAATTTTCCTTTCTCTCTTTTGT
10781911 AAAATCTTTC
1 AAAAT-TTTC
10781921 TTTTATTACT
Statistics
Matches: 45, Mismatches: 8, Indels: 13
0.68 0.12 0.20
Matches are distributed among these distances:
23 3 0.07
24 19 0.42
25 6 0.13
26 14 0.31
27 3 0.07
ACGTcount: A:0.26, C:0.20, G:0.04, T:0.50
Consensus pattern (24 bp):
AAAATTTTCCTTTCTCTCTTTTGT
Found at i:10782102 original size:15 final size:16
Alignment explanation
Indices: 10782082--10782111 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10782072 TGGGAAAGTC
10782082 AAAATTA-TTTATTTT
1 AAAATTATTTTATTTT
10782097 AAAATTATTTTATTT
1 AAAATTATTTTATTT
10782112 AAATTCTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AAAATTATTTTATTTT
Found at i:10782759 original size:22 final size:22
Alignment explanation
Indices: 10782734--10782783 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
10782724 TTATTAATTA
10782734 TATTTGGGAAATTTAGAA-AATC
1 TATTTGGGAAATTTA-AAGAATC
* *
10782756 TATTTGTGAACTTTAAAGAATC
1 TATTTGGGAAATTTAAAGAATC
10782778 TATTTG
1 TATTTG
10782784 ATGATGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (22 bp):
TATTTGGGAAATTTAAAGAATC
Found at i:10783338 original size:40 final size:40
Alignment explanation
Indices: 10783226--10783343 Score: 139
Period size: 40 Copynumber: 3.0 Consensus size: 40
10783216 TCTGTAAGCG
* * * * * *
10783226 ATCTTTTGCGGACCCTTGAATGACTTTGTCTGTAGATGCG
1 ATCTTTTGCGAACCTTTGAATGATTTTGTCTATAAATGCA
* *
10783266 ATCTTTTGCGAA-CTCTTGAATGATTTTATCTATAAATGTA
1 ATCTTTTGCGAACCT-TTGAATGATTTTGTCTATAAATGCA
*
10783306 ATTTTTTGCGAACCTTTGAATGATTTTGTCTATAAATG
1 ATCTTTTGCGAACCTTTGAATGATTTTGTCTATAAATG
10783344 ATCTGTAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
39 1 0.02
40 63 0.95
41 2 0.03
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (40 bp):
ATCTTTTGCGAACCTTTGAATGATTTTGTCTATAAATGCA
Found at i:10784923 original size:28 final size:30
Alignment explanation
Indices: 10784879--10784937 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 30
10784869 GTGAAATATT
10784879 TTTTTAAATTTGATTAAA-ATAT-TTTTAA
1 TTTTTAAATTTGATTAAAGATATATTTTAA
*
10784907 TTTTTAATTTTTG-TTAAAGATATATTTTAA
1 TTTTTAA-ATTTGATTAAAGATATATTTTAA
10784937 T
1 T
10784938 ATTAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 12 0.44
29 8 0.30
30 7 0.26
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (30 bp):
TTTTTAAATTTGATTAAAGATATATTTTAA
Found at i:10784942 original size:29 final size:29
Alignment explanation
Indices: 10784887--10784942 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
10784877 TTTTTTTAAA
*
10784887 TTTGATTAAAATATTTTTAATTTTTAATT
1 TTTGATTAAAATATTTTTAATTATTAATT
10784916 TTTG-TTAAAGATATATTTTAA-TATTAA
1 TTTGATTAAA-ATAT-TTTTAATTATTAA
10784943 AATATTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 5 0.21
29 13 0.54
30 6 0.25
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (29 bp):
TTTGATTAAAATATTTTTAATTATTAATT
Found at i:10788514 original size:43 final size:43
Alignment explanation
Indices: 10788465--10788576 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
10788455 TGTTTTCGTT
**
10788465 TAAGACCACGTCTGGGACATTGGCATCGACTTGTGTTTACGA-G
1 TAAGACCACGTCTGGGACATTGGCATCGACTTGTGAATAC-ATG
* *
10788508 TAAGACC-CTGTCTGGGACAGTGGCATCGATTTGTGAATACATG
1 TAAGACCAC-GTCTGGGACATTGGCATCGACTTGTGAATACATG
* *
10788551 CAAGACCACGTCTGGGACGTTGGCAT
1 TAAGACCACGTCTGGGACATTGGCAT
10788577 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 2 0.03
43 56 0.95
44 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (43 bp):
TAAGACCACGTCTGGGACATTGGCATCGACTTGTGAATACATG
Found at i:10789465 original size:2 final size:2
Alignment explanation
Indices: 10789454--10789486 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
10789444 TAGTGAAGGG
10789454 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10789487 TTGTACTGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:10792072 original size:67 final size:68
Alignment explanation
Indices: 10792013--10792141 Score: 190
Period size: 67 Copynumber: 1.9 Consensus size: 68
10792003 TTTAATGTTT
*
10792013 TGGCGAACTCCATATGTTTCCATAGCTGA-GCTATGGTCTTACATAATATAACCCATGTTT-ATC
1 TGGCGAACTCCATATGTTTCCATAG-TCACGCTATGGTCTTACATAATATAACCCATGTTTAATC
10792076 GCCA
65 GCCA
* * *
10792080 TGGCGGATTCCATTTGTTTCCATAGTCACGCTATGGTCTTACATAATATAACCCCATGTTTA
1 TGGCGAACTCCATATGTTTCCATAGTCACGCTATGGTCTTACATAATATAA-CCCATGTTTA
10792142 TCGTCCTGGT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
66 2 0.04
67 44 0.80
68 9 0.16
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (68 bp):
TGGCGAACTCCATATGTTTCCATAGTCACGCTATGGTCTTACATAATATAACCCATGTTTAATCG
CCA
Found at i:10792172 original size:68 final size:68
Alignment explanation
Indices: 10792042--10792255 Score: 245
Period size: 68 Copynumber: 3.2 Consensus size: 68
10792032 CCATAGCTGA
* * * **
10792042 GCTATGGTCTTACATAATATAA-CCCATGTTTATCG-CCATGGCGGATTCCATTTGTTTCCATAG
1 GCTATGGTCTTACATAATATAACCCCATGTTTATCGTCC-TGGTGGACTCTATTTGTTAACATAG
*
10792105 TCAC
65 CCAC
*
10792109 GCTATGGTCTTACATAATATAACCCCATGTTTATCGTCCTGGTAGACTCTATTTGTTAACATAGC
1 GCTATGGTCTTACATAATATAACCCCATGTTTATCGTCCTGGTGGACTCTATTTGTTAACATAGC
*
10792174 CAT
66 CAC
* * * * * ** *
10792177 GCTATGGTCTTGCACAAAATAACCTCATGTTTATCGTCCTGGTGGACTTTATTTGTTGCCAAAGC
1 GCTATGGTCTTACATAATATAACCCCATGTTTATCGTCCTGGTGGACTCTATTTGTTAACATAGC
10792242 CGA-
66 C-AC
10792245 GCTATGGTCTT
1 GCTATGGTCTT
10792256 GTAGAAAAAA
Statistics
Matches: 127, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
67 22 0.17
68 102 0.80
69 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (68 bp):
GCTATGGTCTTACATAATATAACCCCATGTTTATCGTCCTGGTGGACTCTATTTGTTAACATAGC
CAC
Found at i:10795603 original size:11 final size:11
Alignment explanation
Indices: 10795589--10795615 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10795579 AAAAAATAAA
10795589 AAAATTATTTT
1 AAAATTATTTT
10795600 AAAATTATTTT
1 AAAATTATTTT
10795611 AAAAT
1 AAAAT
10795616 AAAAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:10796282 original size:15 final size:15
Alignment explanation
Indices: 10796259--10796296 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
10796249 TTATAACGAT
10796259 AATATAAAA-AATAA
1 AATATAAAACAATAA
*
10796273 AATAATAAAACAATCA
1 AAT-ATAAAACAATAA
10796289 AATATAAA
1 AATATAAA
10796297 TATTTCAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 11 0.52
16 7 0.33
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (15 bp):
AATATAAAACAATAA
Found at i:10796324 original size:25 final size:23
Alignment explanation
Indices: 10796290--10796344 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 23
10796280 AAACAATCAA
10796290 ATATA-AATATTTCAGTTTTCTTAT
1 ATATATAATATTTCA-TTTTCTT-T
*
10796314 ATTTATAATATTTCATTTTCTTT
1 ATATATAATATTTCATTTTCTTT
10796337 ATATATAA
1 ATATATAA
10796345 AATCCATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 8 0.29
24 11 0.39
25 9 0.32
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATATAATATTTCATTTTCTTT
Found at i:10796404 original size:14 final size:15
Alignment explanation
Indices: 10796374--10796407 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
10796364 TTTAGCTCGA
10796374 TATAATATATCCATT
1 TATAATATATCCATT
*
10796389 TATAATAT-TTCATT
1 TATAATATATCCATT
10796403 TATAA
1 TATAA
10796408 AATGCTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (15 bp):
TATAATATATCCATT
Found at i:10798322 original size:67 final size:67
Alignment explanation
Indices: 10798214--10798343 Score: 190
Period size: 67 Copynumber: 1.9 Consensus size: 67
10798204 AAAATTGAGG
* *
10798214 CCAACTACAATGATATCGTGATACCGAGTATCAGGTATTATGAGACCGAAACCTCTAAAACTTTC
1 CCAACTACAATGATATCGCGATACCGAGTATCAGGTATTATGAGACCGAAACCCCTAAAACTTTC
10798279 AA
66 AA
* * * *
10798281 CCAACTACAATGATATCGCGATACTGAGTAAT-GGGTATTATGATACCGAGACCCCTAAAACTT
1 CCAACTACAATGATATCGCGATACCGAGT-ATCAGGTATTATGAGACCGAAACCCCTAAAACTT
10798344 CCAATCTCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
67 54 0.96
68 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.25
Consensus pattern (67 bp):
CCAACTACAATGATATCGCGATACCGAGTATCAGGTATTATGAGACCGAAACCCCTAAAACTTTC
AA
Found at i:10798622 original size:25 final size:26
Alignment explanation
Indices: 10798578--10798627 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
10798568 AGGTTTGTTT
*
10798578 TCTTTTCATTTTTAAGTTAGATTTTC
1 TCTTTTCATTTTTAAATTAGATTTTC
10798604 TCTTTTC-TTTTTAAATTAGATTTT
1 TCTTTTCATTTTTAAATTAGATTTT
10798628 ATTTTTGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.20, C:0.10, G:0.06, T:0.64
Consensus pattern (26 bp):
TCTTTTCATTTTTAAATTAGATTTTC
Found at i:10804513 original size:10 final size:10
Alignment explanation
Indices: 10804498--10804523 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
10804488 TGTATTGACA
10804498 TGATATGGGT
1 TGATATGGGT
10804508 TGATATGGGT
1 TGATATGGGT
10804518 TGATAT
1 TGATAT
10804524 TGTTTATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (10 bp):
TGATATGGGT
Found at i:10821497 original size:22 final size:23
Alignment explanation
Indices: 10821471--10821525 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
10821461 AGGATATGTT
**
10821471 TGATATGTTATGTGATAT-ACTC
1 TGATATGTTATAAGATATGACTC
*
10821493 TGATATGCTATAAGATATGACTC
1 TGATATGTTATAAGATATGACTC
10821516 TGATATGTTA
1 TGATATGTTA
10821526 AGCAATATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 15 0.54
23 13 0.46
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (23 bp):
TGATATGTTATAAGATATGACTC
Found at i:10821535 original size:23 final size:21
Alignment explanation
Indices: 10821484--10821527 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
10821474 TATGTTATGT
10821484 GATAT-ACTCTGATATGCTATAA
1 GATATGACTCTGATATG-T-TAA
10821506 GATATGACTCTGATATGTTAA
1 GATATGACTCTGATATGTTAA
10821527 G
1 G
10821528 CAATATGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 6 0.29
23 11 0.52
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.36
Consensus pattern (21 bp):
GATATGACTCTGATATGTTAA
Found at i:10829354 original size:19 final size:18
Alignment explanation
Indices: 10829311--10829354 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
10829301 TGTGTTTCTT
*
10829311 TACTCAAGCCGAGCCACC
1 TACTCAAGCCGAGCCACA
10829329 T--TCAAGCCGAGCCATCA
1 TACTCAAGCCGAGCCA-CA
10829346 TACTCAAGC
1 TACTCAAGC
10829355 TATTCTGAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 13 0.59
17 2 0.09
18 1 0.05
19 6 0.27
ACGTcount: A:0.30, C:0.39, G:0.16, T:0.16
Consensus pattern (18 bp):
TACTCAAGCCGAGCCACA
Found at i:10833675 original size:25 final size:25
Alignment explanation
Indices: 10833615--10833712 Score: 76
Period size: 25 Copynumber: 4.0 Consensus size: 25
10833605 CTCTCAAGTC
10833615 ATATAACGGGAAGCTCATGTGAGCT
1 ATATAACGGGAAGCTCATGTGAGCT
* * * *
10833640 ATGTAATGGGAAGCTTAT-TCGGGCT
1 ATATAACGGGAAGCTCATGT-GAGCT
* **
10833665 GTATAACGGGAAGCTCATAAGAG-T
1 ATATAACGGGAAGCTCATGTGAGCT
* *
10833689 CATAT-TCAGGAAGCTCATGTGAGC
1 -ATATAACGGGAAGCTCATGTGAGC
10833713 CAATAATGGG
Statistics
Matches: 54, Mismatches: 15, Indels: 8
0.70 0.19 0.10
Matches are distributed among these distances:
24 16 0.30
25 38 0.70
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.26
Consensus pattern (25 bp):
ATATAACGGGAAGCTCATGTGAGCT
Found at i:10841805 original size:17 final size:17
Alignment explanation
Indices: 10841765--10841806 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
10841755 TATTTATAAA
*
10841765 TAATATATTTTATTATT
1 TAATATATGTTATTATT
*
10841782 TATTATATGTTATT-TT
1 TAATATATGTTATTATT
10841798 TAAATATAT
1 T-AATATAT
10841807 ATTTATATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
TAATATATGTTATTATT
Found at i:10841817 original size:20 final size:19
Alignment explanation
Indices: 10841754--10841820 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
10841744 AGTTAAATAC
*
10841754 TTATTTATAAATAATATATT
1 TTATTTTTAAAT-ATATATT
*
10841774 TTATTATTT--AT-TATATG
1 TTATT-TTTAAATATATATT
10841791 TTATTTTTAAATATATATT
1 TTATTTTTAAATATATATT
10841810 TATATTTTTAA
1 T-TATTTTTAA
10841821 TTTGTGGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
16 3 0.08
17 10 0.26
18 2 0.05
19 8 0.21
20 14 0.36
21 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (19 bp):
TTATTTTTAAATATATATT
Found at i:10842180 original size:23 final size:24
Alignment explanation
Indices: 10842151--10842195 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
10842141 GTTTTATGGC
*
10842151 TTTTAGG-GTTAAGGGTGCAGGCT
1 TTTTAGGAGTTAAGGGTCCAGGCT
*
10842174 TTTTAGGAGTTAGGGGTCCAGG
1 TTTTAGGAGTTAAGGGTCCAGG
10842196 AAAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.18, C:0.09, G:0.40, T:0.33
Consensus pattern (24 bp):
TTTTAGGAGTTAAGGGTCCAGGCT
Found at i:10842365 original size:124 final size:124
Alignment explanation
Indices: 10842237--10842491 Score: 361
Period size: 124 Copynumber: 2.1 Consensus size: 124
10842227 AAATAGTGGG
** * * * *
10842237 AAATCGCTTCTACTAGAATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGAATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
*
10842302 TCGCTACAG-TGGTCATGT-GAGAAATAATTTTTTTTGACGTTTTCTGAGGAAATAGTATA
66 TCGCTACAGTTGGTCATGTAG-GAAATAATTTTTTTTGACG-TTTCTGAGCAAATAGTATA
* * *
10842361 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGAATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
* * *
10842426 TCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTTACGTTTCTGAGCAAATAGTGTC
66 TCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
10842485 AAATCGC
1 AAATCGC
10842492 ACCCTCGTGG
Statistics
Matches: 116, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
124 88 0.76
125 27 0.23
126 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (124 bp):
AAATCGCTGATACCAGAATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
TCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
Found at i:10844323 original size:85 final size:85
Alignment explanation
Indices: 10844200--10844535 Score: 537
Period size: 85 Copynumber: 3.9 Consensus size: 85
10844190 TAAAATAAGA
*
10844200 TTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTT
1 TTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTAGGTTAGGTTAGGGTT
10844265 TTTAATTTAAGTAGGTTAGG
66 TTTAATTTAAGTAGGTTAGG
* **
10844285 TTAGGGTTTTTAATTTAATTAAAATAAGGTTAGAGTTTTTAATTTAATTAAATTAGGTTAGGGTT
1 TTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTAGGTTAGGTTAGGGTT
*
10844350 TTTAATTAAATTAGGTTAGGTTAGGG
66 TTTAA-T---TTAAG-TAGGTTA-GG
*
10844376 TTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTAGGTTAGGTTAGGATT
1 TTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTAGGTTAGGTTAGGGTT
10844441 TTTAATTTAAGTAGGTTAGG
66 TTTAATTTAAGTAGGTTAGG
* * *
10844461 TTAGGATTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTAGGTTAGTTTAGGGCT
1 TTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTAGGTTAGGTTAGGGTT
10844526 TTTAATTTAA
66 TTTAATTTAA
10844536 TTAAATTAGG
Statistics
Matches: 231, Mismatches: 14, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
85 139 0.60
86 8 0.03
87 4 0.02
89 4 0.02
90 8 0.03
91 68 0.29
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.47
Consensus pattern (85 bp):
TTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTAGGTTAGGTTAGGGTT
TTTAATTTAAGTAGGTTAGG
Found at i:10844465 original size:176 final size:176
Alignment explanation
Indices: 10844200--10844538 Score: 597
Period size: 176 Copynumber: 1.9 Consensus size: 176
10844190 TAAAATAAGA
*
10844200 TTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTT
1 TTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGATT
*
10844265 TTTAATTTAAGTAGGTTAGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGAGTTTTTAATTT
66 TTTAATTTAAGTAGGTTAGGTTAGGATTTTTAATTTAATTAAAATAAGGTTAGAGTTTTTAATTT
*
10844330 AATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGG
131 AATTAAATTAGGTTAGGGCTTTTAATTAAATTAGGTTAGGTTAGGG
*
10844376 TTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTAGGTTAGGTTAGGATT
1 TTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGATT
*
10844441 TTTAATTTAAGTAGGTTAGGTTAGGATTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTT
66 TTTAATTTAAGTAGGTTAGGTTAGGATTTTTAATTTAATTAAAATAAGGTTAGAGTTTTTAATTT
** * *
10844506 AATTAGGTTAGTTTAGGGCTTTTAATTTAATTA
131 AATTAAATTAGGTTAGGGCTTTTAATTAAATTA
10844539 AATTAGGGTT
Statistics
Matches: 154, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
176 154 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.47
Consensus pattern (176 bp):
TTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGATT
TTTAATTTAAGTAGGTTAGGTTAGGATTTTTAATTTAATTAAAATAAGGTTAGAGTTTTTAATTT
AATTAAATTAGGTTAGGGCTTTTAATTAAATTAGGTTAGGTTAGGG
Found at i:10844544 original size:28 final size:28
Alignment explanation
Indices: 10844176--10844545 Score: 407
Period size: 28 Copynumber: 12.8 Consensus size: 28
10844166 GATGTCAAGT
* *
10844176 GTTTTTAATTTAATTAAAATAAGATTAGG
1 GTTTTTAATTTAATT-AAATTAGGTTAGG
*
10844205 GTTTTTAATTTAATTAAAATAAGGTTAGG
1 GTTTTTAATTTAATT-AAATTAGGTTAGG
* **
10844234 GTTTTTAATTTAAGTAGGTTAGGTTAGG
1 GTTTTTAATTTAATTAAATTAGGTTAGG
* **
10844262 GTTTTTAATTTAAGTAGGTTAGGTTAGG
1 GTTTTTAATTTAATTAAATTAGGTTAGG
* *
10844290 GTTTTTAATTTAATTAAAATAAGGTTAGA
1 GTTTTTAATTTAATT-AAATTAGGTTAGG
10844319 GTTTTTAATTTAATTAAATTAGGTTAGG
1 GTTTTTAATTTAATTAAATTAGGTTAGG
* *
10844347 GTTTTTAATTAAATTAGGTTAGGTTAGGGTTAGG
1 GTTTTTAATTTAATTA----A-ATTA-GGTTAGG
*
10844381 GTTTTTAATTTAATTAAAATAAGGTTAGG
1 GTTTTTAATTTAATT-AAATTAGGTTAGG
**
10844410 GTTTTTAATTTAATTAGGTTAGGTTAGG
1 GTTTTTAATTTAATTAAATTAGGTTAGG
* * **
10844438 ATTTTTAATTTAAGTAGGTTAGGTTAGG
1 GTTTTTAATTTAATTAAATTAGGTTAGG
* *
10844466 ATTTTTAATTTAATTAAAATAAGGTTAGG
1 GTTTTTAATTTAATT-AAATTAGGTTAGG
** *
10844495 GTTTTTAATTTAATTAGGTTAGTTTAGG
1 GTTTTTAATTTAATTAAATTAGGTTAGG
*
10844523 GCTTTTAATTTAATTAAATTAGG
1 GTTTTTAATTTAATTAAATTAGG
10844546 GTTTTTAATT
Statistics
Matches: 297, Mismatches: 35, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
28 156 0.53
29 112 0.38
30 2 0.01
31 1 0.00
32 1 0.00
33 3 0.01
34 21 0.07
35 1 0.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (28 bp):
GTTTTTAATTTAATTAAATTAGGTTAGG
Found at i:10844564 original size:17 final size:18
Alignment explanation
Indices: 10844531--10844565 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
10844521 GGGCTTTTAA
*
10844531 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
10844549 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
10844566 AGGGATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:10844567 original size:23 final size:23
Alignment explanation
Indices: 10844474--10844577 Score: 75
Period size: 23 Copynumber: 4.3 Consensus size: 23
10844464 GGATTTTTAA
* *
10844474 TTTAATTAAAATAAGGTTAGGGTT
1 TTTAATT-AATTAGGGTTAGGGTT
*
10844498 TTTAATTTAATTAGGTTAGTTTAGGGCT
1 TTTAA-TTAATTAGG---G-TTAGGGTT
**
10844526 TTTAATTTAATTA-AATTAGGGTT
1 TTTAA-TTAATTAGGGTTAGGGTT
* *
10844549 TTTAATTAAGTAGGGTTAGGGAT
1 TTTAATTAATTAGGGTTAGGGTT
10844572 TTTAAT
1 TTTAAT
10844578 CAAATAATGT
Statistics
Matches: 64, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
22 6 0.09
23 25 0.39
24 10 0.16
25 2 0.03
27 1 0.02
28 20 0.31
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (23 bp):
TTTAATTAATTAGGGTTAGGGTT
Found at i:10846979 original size:22 final size:22
Alignment explanation
Indices: 10846949--10846990 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10846939 ATTTGGAGAT
*
10846949 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
10846971 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
10846991 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:10847022 original size:22 final size:23
Alignment explanation
Indices: 10846992--10847061 Score: 92
Period size: 22 Copynumber: 3.2 Consensus size: 23
10846982 ATTTGAGAGT
10846992 TTGAGAG-AATTTTAGAAGGAAA
1 TTGAGAGAAATTTTAGAAGGAAA
* *
10847014 TTGATAGAAATTTTA-AAGGGAA
1 TTGAGAGAAATTTTAGAAGGAAA
*
10847036 TTGAGAGAAATTTT-GAAAGAAA
1 TTGAGAGAAATTTTAGAAGGAAA
10847058 TTGA
1 TTGA
10847062 TATTGAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
22 34 0.83
23 7 0.17
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (23 bp):
TTGAGAGAAATTTTAGAAGGAAA
Found at i:10847040 original size:52 final size:51
Alignment explanation
Indices: 10846940--10847042 Score: 120
Period size: 52 Copynumber: 2.0 Consensus size: 51
10846930 TTAATATGGA
* * * *
10846940 TTTGGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAAGGAATTTGAGAG
1 TTTGGAGAATTTTAGAAGGAAATTGAGAGAATTTTGAAAGGAATTTGAGAG
*
10846991 TTTGAGAGAATTTTAGAAGGAAATTGATAGAAATTTT-AAAGGGAA-TTGAGAG
1 TTTG-GAGAATTTTAGAAGGAAATTGAGAG-AATTTTGAAA-GGAATTTGAGAG
10847043 AAATTTTGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
51 4 0.09
52 31 0.70
53 9 0.20
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTAGAAGGAAATTGAGAGAATTTTGAAAGGAATTTGAGAG
Found at i:10856102 original size:36 final size:36
Alignment explanation
Indices: 10856062--10856139 Score: 129
Period size: 36 Copynumber: 2.2 Consensus size: 36
10856052 CTCTGGAATC
*
10856062 AACACAACCTAAACTTGATACAAAAGAGAATCCCAA
1 AACACAACCTAAACCTGATACAAAAGAGAATCCCAA
**
10856098 AACACAACCTAAACCTGATACAAAAGAGAATCCTGA
1 AACACAACCTAAACCTGATACAAAAGAGAATCCCAA
10856134 AACACA
1 AACACA
10856140 GCCGGTGCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.53, C:0.26, G:0.09, T:0.13
Consensus pattern (36 bp):
AACACAACCTAAACCTGATACAAAAGAGAATCCCAA
Found at i:10869096 original size:8 final size:8
Alignment explanation
Indices: 10869083--10869109 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
10869073 AAAAAACTCT
10869083 ATTTGAGC
1 ATTTGAGC
10869091 ATTTGAGC
1 ATTTGAGC
10869099 ATTTGAGC
1 ATTTGAGC
10869107 ATT
1 ATT
10869110 AGTCGATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (8 bp):
ATTTGAGC
Found at i:10873795 original size:9 final size:9
Alignment explanation
Indices: 10873781--10873808 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
10873771 TTTTGTTACA
10873781 ACAATTAAT
1 ACAATTAAT
10873790 ACAATTAAT
1 ACAATTAAT
10873799 ACAATTAAT
1 ACAATTAAT
10873808 A
1 A
10873809 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:10873860 original size:68 final size:68
Alignment explanation
Indices: 10873751--10873960 Score: 388
Period size: 68 Copynumber: 3.1 Consensus size: 68
10873741 TCAAGTTTGT
*
10873751 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
10873816 AAA
66 AAA
10873819 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
10873884 AAA
66 AAA
10873887 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
10873950 AAT
66 AAA
10873953 TTTACTAA
1 TTTACTAA
10873961 CAATTAATTT
Statistics
Matches: 140, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
66 27 0.19
67 1 0.01
68 112 0.80
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:10873861 original size:9 final size:9
Alignment explanation
Indices: 10873849--10873876 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
10873839 TTTTATTACA
10873849 ACAATTAAT
1 ACAATTAAT
10873858 ACAATTAAT
1 ACAATTAAT
10873867 ACAATTAAT
1 ACAATTAAT
10873876 A
1 A
10873877 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:10873970 original size:16 final size:16
Alignment explanation
Indices: 10873949--10873990 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
10873939 AATAATTTGA
*
10873949 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
10873965 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
10873981 TAGTTTTAAT
1 TAATTTTAAT
10873991 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:10873974 original size:22 final size:23
Alignment explanation
Indices: 10873964--10874025 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
10873954 TTACTAACAA
* * *
10873964 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
10873986 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
10874009 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
10874026 TGGGTCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:10877588 original size:5 final size:5
Alignment explanation
Indices: 10877529--10877570 Score: 75
Period size: 5 Copynumber: 8.2 Consensus size: 5
10877519 TTCTATATGA
10877529 ATTTT ACTTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT A-TTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A
10877571 CCACTATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 31 0.86
6 5 0.14
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:10898541 original size:45 final size:45
Alignment explanation
Indices: 10898454--10898641 Score: 186
Period size: 45 Copynumber: 4.2 Consensus size: 45
10898444 AATAATAACA
* * * * * *
10898454 GATACACGGTGG-ATCAACACATAGC-ACCACCCTTATAGTCAAT
1 GATACCCGGTGGAATCAGCACACAACAACCACCTTTATAATCAAT
* * * * *
10898497 GATACTCAGTGGAATCAGCAGATAACAACCA-CTTTCCTAATCAAT
1 GATACCCGGTGGAATCAGCACACAACAACCACCTTT-ATAATCAAT
*
10898542 -AGTACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAAT
1 GA-TACCCGGTGGAATCAGCACACAACAACCACCTTTATAATCAAT
* * *
10898587 GATACCCGGTGGAATCAACACACAGCAGCCACCTTTATAATCAAT
1 GATACCCGGTGGAATCAGCACACAACAACCACCTTTATAATCAAT
*
10898632 GGTACCCGGT
1 GATACCCGGT
10898642 ACACATAGTA
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
43 10 0.08
44 14 0.11
45 93 0.76
46 5 0.04
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (45 bp):
GATACCCGGTGGAATCAGCACACAACAACCACCTTTATAATCAAT
Found at i:10898637 original size:90 final size:88
Alignment explanation
Indices: 10898460--10898641 Score: 213
Period size: 90 Copynumber: 2.0 Consensus size: 88
10898450 AACAGATACA
* * * * * *
10898460 CGGTGGATCAACACATAGCACCACCCTTATAGTCAATGATACTCAGTGGAATCAGCAGATAACAA
1 CGGTGGATCAACACACAGCACCACCCTTATAATCAATGATACCCAGTGGAATCAACACACAACAA
*
10898525 CCACTTTCCTAATCAATAGTACC
66 CCACTTTCATAATCAATAGTACC
* * * *
10898548 CGGTGGAATCAGCACACAGCAACCACCTTTATAATCAATGATACCCGGTGGAATCAACACACAGC
1 CGGTGG-ATCAACACACAGC-ACCACCCTTATAATCAATGATACCCAGTGGAATCAACACACAAC
* *
10898613 AGCCACCTTT-ATAATCAATGGTACC
64 AACCA-CTTTCATAATCAATAGTACC
10898638 CGGT
1 CGGT
10898642 ACACATAGTA
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
88 6 0.08
89 11 0.14
90 57 0.73
91 4 0.05
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.21
Consensus pattern (88 bp):
CGGTGGATCAACACACAGCACCACCCTTATAATCAATGATACCCAGTGGAATCAACACACAACAA
CCACTTTCATAATCAATAGTACC
Found at i:10900061 original size:6 final size:6
Alignment explanation
Indices: 10900050--10900094 Score: 72
Period size: 6 Copynumber: 7.3 Consensus size: 6
10900040 TGGTTTTCTC
*
10900050 AAAATG AAAATG AAAATG AAAACG AAAATG AAAATG AGAAATG AA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG AA
10900095 TTCATTTAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 30 0.83
7 6 0.17
ACGTcount: A:0.67, C:0.02, G:0.18, T:0.13
Consensus pattern (6 bp):
AAAATG
Found at i:10900385 original size:113 final size:114
Alignment explanation
Indices: 10900196--10900422 Score: 366
Period size: 113 Copynumber: 2.0 Consensus size: 114
10900186 CATGTGATCA
* * *
10900196 TAGTGAACAAGTTGAGTAGTGAAATATTAAACATATTTTCTCAAAAAAAATTTATTAGGGGTAAA
1 TAGTGAACAAGCTGAATAGTAAAATATTAAACATATTTTCTC-AAAAAAATTTATTAGGGGTAAA
* *
10900261 AACATCATAATTTTACCTAGGGTAAAATTAGGACGAGAAAATTATTTAAT
65 AACATCATAATTTTACCTAGGATAAAATGAGGACGAGAAAATTATTTAAT
* *
10900311 TAGTGAACAAGCTGAATAGTAAAATATTAAATATATTTTCTC-AAAAATTTTATTAGGGGTAAAA
1 TAGTGAACAAGCTGAATAGTAAAATATTAAACATATTTTCTCAAAAAAATTTATTAGGGGTAAAA
*
10900375 TCATCATAATTTTACCTAGGATAAAATGAGGACGAGAAAATTATTTAA
66 ACATCATAATTTTACCTAGGATAAAATGAGGACGAGAAAATTATTTAA
10900423 CTAAATATAA
Statistics
Matches: 104, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
113 66 0.63
115 38 0.37
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (114 bp):
TAGTGAACAAGCTGAATAGTAAAATATTAAACATATTTTCTCAAAAAAATTTATTAGGGGTAAAA
ACATCATAATTTTACCTAGGATAAAATGAGGACGAGAAAATTATTTAAT
Found at i:10901829 original size:163 final size:163
Alignment explanation
Indices: 10901559--10901858 Score: 415
Period size: 163 Copynumber: 1.8 Consensus size: 163
10901549 ATTGTTTAAT
**
10901559 TCTTATTGGTTCTTTAGTTGTGCTCTTTCGAACCCAAGTTCCTTTACCCTCAGTTAAAAAATCGA
1 TCTTATTGGTTCTTTAGTTGTGCTCTTTCGAACCCAAGTTCCTCAACCCTCAGTTAAAAAATCGA
* * *
10901624 TGATCGCTTCATAATTCACCTCTTTTTCATGTAAGTTTTCATAAAAATCCAGGTTATACCAAGGT
66 TGATCGCATCATAATTCACCTCTTCTTCATGTAAGTTTTCATAAAAATCCAGGTTATACCAACGT
*
10901689 TTCTTATGGACGGCTTCGATCACAATTAGAGAA
131 GTCTTATGGACGGCTTCGATCACAATTAGAGAA
* * * * *
10901722 TCTTATTGGTTTTTTAGTTACG-GCT-TTTCGAACCTAATTTTCTCAACCTTCAGTTAAAAAATC
1 TCTTATTGGTTCTTTAGTT--GTGCTCTTTCGAACCCAAGTTCCTCAACCCTCAGTTAAAAAATC
* * * ** *
10901785 GATGATCTCATCATAATTTACCTCTTCTTCGTGTAAGTTTTCATAAAAATCTGGGTTATAGCAAC
64 GATGATCGCATCATAATTCACCTCTTCTTCATGTAAGTTTTCATAAAAATCCAGGTTATACCAAC
10901850 GTGTCTTAT
129 GTGTCTTAT
10901859 AGTTATCTTT
Statistics
Matches: 118, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
163 114 0.97
164 3 0.03
165 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.40
Consensus pattern (163 bp):
TCTTATTGGTTCTTTAGTTGTGCTCTTTCGAACCCAAGTTCCTCAACCCTCAGTTAAAAAATCGA
TGATCGCATCATAATTCACCTCTTCTTCATGTAAGTTTTCATAAAAATCCAGGTTATACCAACGT
GTCTTATGGACGGCTTCGATCACAATTAGAGAA
Found at i:10916891 original size:23 final size:22
Alignment explanation
Indices: 10916839--10916891 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
10916829 TCCACGTCTT
*
10916839 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
10916861 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
10916884 TTTCTTTT
1 TTTCTTTT
10916892 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:10919876 original size:185 final size:186
Alignment explanation
Indices: 10919549--10919916 Score: 585
Period size: 185 Copynumber: 2.0 Consensus size: 186
10919539 GAAAACAAAG
10919549 AGATCAAAGGCATACTCGAGAAGGTAGTTTGCCCAAACCAACGAGATTGGTCCAAAAGACTGGAT
1 AGATCAAAGGCATACTCGAGAAGGTAGTTTGCCCAAACCAACGAGATTGGTCCAAAAGACTGGAT
* * * * *
10919614 GATGCTTTATTGTCCTACAGGATAGCATAAAAGACACCTTTAGGGATGTCACCCTATAGGTTGGT
66 GATGCTTTATGGGCCTACAGGATAGCATAAAAGACACATTTAGGGATGTCACCCTAGAGGTTGAT
*
10919679 CTTTGGGAAAGCCTGTCATCTGCCCTTAGAGTTAGAACACAAATCTTACTAGGCTC
131 CTTTGGGAAAGCCTGTCATCTGCCCTTAAAGTTAGAACACAAATCTTACTAGGCTC
*** * *
10919735 AGATCAAAGGCATACTCGAGAAGGTAGTTTGCTTGAACCGACGAGATTGGTCCAAAAGATTGG-T
1 AGATCAAAGGCATACTCGAGAAGGTAGTTTGCCCAAACCAACGAGATTGGTCCAAAAGACTGGAT
* * * *
10919799 GGTGCTTTATGGGCCTATAGGATAGCATACAAGCCACATTTAGGGATGTCACCCTAGAGGTTGAT
66 GATGCTTTATGGGCCTACAGGATAGCATAAAAGACACATTTAGGGATGTCACCCTAGAGGTTGAT
*
10919864 CTTTGGGAAAGCCTGTCATCTGCCTTTAAAGTTAGAACACAAATCTTACTAGG
131 CTTTGGGAAAGCCTGTCATCTGCCCTTAAAGTTAGAACACAAATCTTACTAGG
10919917 TTCTCCAAGA
Statistics
Matches: 166, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
185 108 0.65
186 58 0.35
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (186 bp):
AGATCAAAGGCATACTCGAGAAGGTAGTTTGCCCAAACCAACGAGATTGGTCCAAAAGACTGGAT
GATGCTTTATGGGCCTACAGGATAGCATAAAAGACACATTTAGGGATGTCACCCTAGAGGTTGAT
CTTTGGGAAAGCCTGTCATCTGCCCTTAAAGTTAGAACACAAATCTTACTAGGCTC
Found at i:10920728 original size:22 final size:19
Alignment explanation
Indices: 10920703--10920744 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
10920693 TGATAATCAT
10920703 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
10920725 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
10920744 T
1 T
10920745 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:10921285 original size:21 final size:20
Alignment explanation
Indices: 10921261--10921302 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
10921251 TCACACCGCG
10921261 CCTTG-CTACTCGCACCAACAC
1 CCTTGCCTA-TCGCACC-ACAC
10921282 CCTTGCCTATCGCACCACAC
1 CCTTGCCTATCGCACCACAC
10921302 C
1 C
10921303 ATCAAGACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 12 0.60
22 3 0.15
ACGTcount: A:0.21, C:0.50, G:0.10, T:0.19
Consensus pattern (20 bp):
CCTTGCCTATCGCACCACAC
Found at i:10921726 original size:3 final size:3
Alignment explanation
Indices: 10921718--10921742 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10921708 AAGGATCCCA
10921718 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
10921743 TCCCATAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10923929 original size:21 final size:23
Alignment explanation
Indices: 10923898--10923942 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
10923888 ATTATGTGTA
10923898 TTAATTTTTAATATAA-TTAATT
1 TTAATTTTTAATATAATTTAATT
*
10923920 TTAA-TTTTAATCTAATTTAATT
1 TTAATTTTTAATATAATTTAATT
10923942 T
1 T
10923943 GGGTTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TTAATTTTTAATATAATTTAATT
Found at i:10923930 original size:16 final size:16
Alignment explanation
Indices: 10923897--10923942 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
10923887 GATTATGTGT
*
10923897 ATTAATTTTTAA-TATA
1 ATTAA-TTTTAATTTTA
10923913 ATTAATTTTAATTTTA
1 ATTAATTTTAATTTTA
10923929 ATCTAA-TTTAATTT
1 AT-TAATTTTAATTT
10923943 GGGTTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 6 0.22
16 18 0.67
17 3 0.11
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTAATTTTAATTTTA
Found at i:10925309 original size:5 final size:5
Alignment explanation
Indices: 10925299--10925323 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10925289 GCATTGGAAC
10925299 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
10925324 CTTTGTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:10928331 original size:17 final size:16
Alignment explanation
Indices: 10928309--10928340 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
10928299 TTATAGATAA
10928309 TTGGAAGCTCGATCGAT
1 TTGGAAGCTCG-TCGAT
10928326 TTGGAAGCTCGTCGA
1 TTGGAAGCTCGTCGA
10928341 AGATCTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (16 bp):
TTGGAAGCTCGTCGAT
Found at i:10932582 original size:73 final size:73
Alignment explanation
Indices: 10932463--10932609 Score: 276
Period size: 73 Copynumber: 2.0 Consensus size: 73
10932453 ATAGATTTCA
10932463 TTTATAGGCTAGGTAGGGGGTGAGTATTATTTTAAACATATTGGCACAGCAAATTAAAAGAATGA
1 TTTATAGGCTAGGTAGGGGGTGAGTATTATTTTAAACATATTGGCACAGCAAATTAAAAGAATGA
10932528 TATAGTGG
66 TATAGTGG
* *
10932536 TTTATAGGCTAGGTAGTGGGTGAGTATTATTTTAAACCTATTGGCACAGCAAATTAAAAGAATGA
1 TTTATAGGCTAGGTAGGGGGTGAGTATTATTTTAAACATATTGGCACAGCAAATTAAAAGAATGA
10932601 TATAGTGG
66 TATAGTGG
10932609 T
1 T
10932610 AGCTGCTTCA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (73 bp):
TTTATAGGCTAGGTAGGGGGTGAGTATTATTTTAAACATATTGGCACAGCAAATTAAAAGAATGA
TATAGTGG
Found at i:10935256 original size:16 final size:18
Alignment explanation
Indices: 10935235--10935268 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10935225 TATAATTCTA
10935235 TTTA-TTAA-AAAATATT
1 TTTATTTAATAAAATATT
10935251 TTTATTTAATAAAATATT
1 TTTATTTAATAAAATATT
10935269 ATTACTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 4 0.25
18 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTATTTAATAAAATATT
Found at i:10935821 original size:21 final size:22
Alignment explanation
Indices: 10935785--10935826 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
10935775 ATTTAACATC
10935785 TTGGGTTTAAAAGTTTAGGGTA
1 TTGGGTTTAAAAGTTTAGGGTA
* *
10935807 TTGGG-TTAAAGGTTTGGGGT
1 TTGGGTTTAAAAGTTTAGGGT
10935827 CTAAGGTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.40
Consensus pattern (22 bp):
TTGGGTTTAAAAGTTTAGGGTA
Found at i:10936243 original size:222 final size:220
Alignment explanation
Indices: 10935859--10936272 Score: 605
Period size: 222 Copynumber: 1.9 Consensus size: 220
10935849 TTATTTCTAA
* ** * *
10935859 TTAATTATGTTTAAATAAAGTTGTTAGTATTTATTTATAAGTCTCCCAATGTTTTTTTTATTTAA
1 TTAATTATATTTAAATAAAGTAATTAGTATTTATTTATAAATCTCCCAATATTTTTTTTATTTAA
* * * * *
10935924 TGATGAAATGTCATGCTATTATTCATCGATGATGTGTGAGACTTATACACTAACAGTGCATCAAA
66 TGATGAAATGCCATGCTATTATTCATCGATGATGCGTGAGACTTATACACCAACAATGAATCAAA
*
10935989 TATTTTCTCATATTTAAAACTTAAAAAATTAAATAAATGAGACATTTGTCACTATTTTAACATTG
131 TATTTTCTCATATTTAAAACTTAAAAAATTAAATAAATGAGACATTTATCACTATTTTAACATTG
10936054 GTATTTATTTATAATTAATTATTAT
196 GTATTTATTTATAATTAATTATTAT
* * *
10936079 TTAATTATATTTAAATAAAGTAATTAGTATTTATTTATAAATCTCTCACTATTTTTTGTTTTTGT
1 TTAATTATATTTAAATAAAGTAATTAGTATTTATTTATAAATCTCCCAATATTTTTT-TTATT-T
* * * *
10936144 AACT-ATGAGATGCCATGTTATTATTTATCGATGGTGCGTGAGACTTATACACCAACAATGAATC
64 AA-TGATGAAATGCCATGCTATTATTCATCGATGATGCGTGAGACTTATACACCAACAATGAATC
* * *
10936208 GAATATTTTCTCATATTTAAAAGTTAAAAAATTAAATAAATGGGACATTTATCACTATTTTAACA
128 AAATATTTTCTCATATTTAAAACTTAAAAAATTAAATAAATGAGACATTTATCACTATTTTAACA
10936273 CTTTGAAGTG
Statistics
Matches: 170, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
220 50 0.29
221 4 0.02
222 115 0.68
223 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (220 bp):
TTAATTATATTTAAATAAAGTAATTAGTATTTATTTATAAATCTCCCAATATTTTTTTTATTTAA
TGATGAAATGCCATGCTATTATTCATCGATGATGCGTGAGACTTATACACCAACAATGAATCAAA
TATTTTCTCATATTTAAAACTTAAAAAATTAAATAAATGAGACATTTATCACTATTTTAACATTG
GTATTTATTTATAATTAATTATTAT
Found at i:10936531 original size:30 final size:26
Alignment explanation
Indices: 10936496--10936565 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 26
10936486 AATAAACAGG
*
10936496 AAATTAGGACAATATGTTGTTTTTGAAAA
1 AAATTAGGAAAATAT-TT-TTTTT-AAAA
*
10936525 ATAATTAAGAAAATATTTTTTTTAAAA
1 A-AATTAGGAAAATATTTTTTTTAAAA
*
10936552 AAAATAGGAAAATA
1 AAATTAGGAAAATA
10936566 GGTCATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 11 0.31
27 5 0.14
28 5 0.14
29 3 0.08
30 12 0.33
ACGTcount: A:0.51, C:0.01, G:0.11, T:0.36
Consensus pattern (26 bp):
AAATTAGGAAAATATTTTTTTTAAAA
Found at i:10936545 original size:27 final size:26
Alignment explanation
Indices: 10936515--10936565 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
10936505 CAATATGTTG
*
10936515 TTTTTGAAAAATAATTAAGAAAATATT
1 TTTTTGAAAAA-AAATAAGAAAATATT
* *
10936542 TTTTTTAAAAAAAATAGGAAAATA
1 TTTTTGAAAAAAAATAAGAAAATA
10936566 GGTCATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 11 0.52
27 10 0.48
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (26 bp):
TTTTTGAAAAAAAATAAGAAAATATT
Found at i:10940904 original size:6 final size:6
Alignment explanation
Indices: 10940884--10940933 Score: 73
Period size: 6 Copynumber: 8.3 Consensus size: 6
10940874 AAGGTAACGT
* * *
10940884 TGGAGA TGAAGA TGGAAA TGGAGA TAGAGA TGGAGA TGGAGA TGGAGA
1 TGGAGA TGGAGA TGGAGA TGGAGA TGGAGA TGGAGA TGGAGA TGGAGA
10940932 TG
1 TG
10940934 ATGATAATGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.38, C:0.00, G:0.44, T:0.18
Consensus pattern (6 bp):
TGGAGA
Found at i:10942392 original size:41 final size:41
Alignment explanation
Indices: 10942267--10942392 Score: 189
Period size: 41 Copynumber: 3.1 Consensus size: 41
10942257 CCGGCCTCCC
* *
10942267 GATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTATAACCC
1 GATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCT
* * *
10942308 AATTCAGATCTCCGGCACTTAGCCTGCTAGGCTTATAAACT
1 GATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCT
* *
10942349 GATTCAGATCACCGGCGCTTAGCCTGCTAGGCTTATAGCCT
1 GATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCT
10942390 GAT
1 GAT
10942393 AATCTCAGAT
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (41 bp):
GATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCT
Found at i:10942632 original size:64 final size:63
Alignment explanation
Indices: 10942508--10942688 Score: 253
Period size: 64 Copynumber: 2.9 Consensus size: 63
10942498 GCAAACAAAC
* *
10942508 ATTCGAACCACATATGTA-T-AATTTACA-ACATTAAAATTCAGTTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTATTAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTA
10942569 T
63 T
10942570 ATTCGAACCACATATGTATGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAT-TAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* *
10942634 ATTTGAACCACATATGTATACAAAATTCATACATTAAATTCAGCTCAAGAACTTT
1 ATTCGAACCACATATGTAT-TAAAATTCATACATTAAATTCAGCTCAAGAACTTT
10942689 AAATATATAT
Statistics
Matches: 109, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
62 18 0.17
63 5 0.05
64 77 0.71
65 9 0.08
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (63 bp):
ATTCGAACCACATATGTATTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:10946495 original size:18 final size:18
Alignment explanation
Indices: 10946474--10946509 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10946464 TTGTTTTCAG
*
10946474 CTTCCTCTTCATTCTCAA
1 CTTCCTCTTCATTATCAA
*
10946492 CTTCCTTTTCATTATCAA
1 CTTCCTCTTCATTATCAA
10946510 ACCTAGTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.47
Consensus pattern (18 bp):
CTTCCTCTTCATTATCAA
Found at i:10950572 original size:9 final size:9
Alignment explanation
Indices: 10950560--10950624 Score: 53
Period size: 10 Copynumber: 6.9 Consensus size: 9
10950550 TTAAATTTTA
10950560 ATAAAAAAT
1 ATAAAAAAT
10950569 AT-AAAAAT
1 ATAAAAAAT
* *
10950577 ATTAAAACT
1 ATAAAAAAT
10950586 -TAGAAAAAT
1 ATA-AAAAAT
10950595 ATATAAAAAT
1 ATA-AAAAAT
10950605 CATAAAAAAATT
1 -AT-AAAAAA-T
10950617 ATAAAAAA
1 ATAAAAAA
10950625 ATTGTAAAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
8 9 0.20
9 12 0.26
10 14 0.30
11 9 0.20
12 2 0.04
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.25
Consensus pattern (9 bp):
ATAAAAAAT
Done.