Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 300 of 316
Found at i:98987636 original size:15 final size:15
Alignment explanation
Indices: 98987616--98987724 Score: 89
Period size: 15 Copynumber: 6.9 Consensus size: 15
98987606 TTAATATTTA
98987616 AATATAAATAATAAT
1 AATATAAATAATAAT
98987631 AATATAAATAATAAT
1 AATATAAATAATAAT
98987646 ATATATAAA-AATAAT
1 A-ATATAAATAATAAT
*
98987661 ACATAATAAATAATATGT
1 A-AT-ATAAATAATA-AT
98987679 AATAATAATATAAATATAT
1 AAT-ATAA-AT-AATA-AT
* *
98987698 AATA-GAATACAAAAT
1 AATATAAATA-ATAAT
98987713 AATAT-AATAATA
1 AATATAAATAATA
98987725 TAGTAAAAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 17
0.78 0.06 0.17
Matches are distributed among these distances:
14 2 0.03
15 36 0.45
16 16 0.20
17 12 0.15
18 5 0.06
19 9 0.11
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (15 bp):
AATATAAATAATAAT
Found at i:98987645 original size:18 final size:18
Alignment explanation
Indices: 98987622--98987726 Score: 94
Period size: 18 Copynumber: 5.8 Consensus size: 18
98987612 TTTAAATATA
98987622 AATAATAATAATATAAAT
1 AATAATAATAATATAAAT
98987640 AATAAT-AT-ATATAAA-
1 AATAATAATAATATAAAT
*
98987655 AATAATACATAATAAATAAT
1 AATAATA-ATAATATA-AAT
*
98987675 ATGTAATAATAATATAAAT
1 A-ATAATAATAATATAAAT
* *
98987694 ATATAAT-AGAATACAAAAT
1 A-ATAATAATAATA-TAAAT
98987713 AAT-ATAATAATATA
1 AATAATAATAATATA
98987727 GTAAAAAACA
Statistics
Matches: 71, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
15 6 0.08
16 7 0.10
17 7 0.10
18 22 0.31
19 16 0.23
20 8 0.11
21 5 0.07
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
AATAATAATAATATAAAT
Found at i:98987701 original size:29 final size:29
Alignment explanation
Indices: 98987623--98987719 Score: 98
Period size: 27 Copynumber: 3.5 Consensus size: 29
98987613 TTAAATATAA
98987623 ATAATAATAATATAAATA-ATAAT-ATAT
1 ATAATAATAATATAAATATATAATAATAT
* * *
98987650 ATAAAAATAATACATA-ATA-AATAATAT
1 ATAATAATAATATAAATATATAATAATAT
*
98987677 GTAATAATAATATAAATATATAATAGA-AT
1 ATAATAATAATATAAATATATAATA-ATAT
*
98987706 ACAA-AATAATATAA
1 ATAATAATAATATAA
98987720 TAATATAGTA
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
26 4 0.07
27 30 0.54
28 13 0.23
29 8 0.14
30 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (29 bp):
ATAATAATAATATAAATATATAATAATAT
Found at i:98990725 original size:17 final size:17
Alignment explanation
Indices: 98990703--98990783 Score: 146
Period size: 17 Copynumber: 4.8 Consensus size: 17
98990693 AATAGGCCGT
98990703 GTGTGGGCCACACAGGC
1 GTGTGGGCCACACAGGC
98990720 GTGTGGGCCACACAGGC
1 GTGTGGGCCACACAGGC
98990737 GTGTGGGCCACACAGGC
1 GTGTGGGCCACACAGGC
*
98990754 GTGTGGGCCACATAGGC
1 GTGTGGGCCACACAGGC
98990771 GTGTGGGCC-CACA
1 GTGTGGGCCACACA
98990784 CGGGTGAACC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
16 3 0.05
17 59 0.95
ACGTcount: A:0.17, C:0.28, G:0.41, T:0.14
Consensus pattern (17 bp):
GTGTGGGCCACACAGGC
Found at i:98990880 original size:18 final size:18
Alignment explanation
Indices: 98990852--98990895 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
98990842 AGGCCAATTT
*
98990852 TGTGA-CCCACATGGGCG
1 TGTGAGCCCACACGGGCG
*
98990869 TGTGGGCCCACACGGGCG
1 TGTGAGCCCACACGGGCG
98990887 TGTGAGCCC
1 TGTGAGCCC
98990896 CTTTAATCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.14, C:0.32, G:0.39, T:0.16
Consensus pattern (18 bp):
TGTGAGCCCACACGGGCG
Found at i:98993682 original size:59 final size:59
Alignment explanation
Indices: 98993590--98993703 Score: 210
Period size: 59 Copynumber: 1.9 Consensus size: 59
98993580 GTATGTCTTT
*
98993590 GTTATATTTTTTTAGTTCATTTTCTGATAGATATTAAAAAACATTATAGCCAATAGCAA
1 GTTATATTTTTTTAGTTCATTTTCTGATAGATATTAAAAAAAATTATAGCCAATAGCAA
*
98993649 GTTATATTTTTTTAGTTCATTTTCTGATAGATATTAAAAAAAATTATATCCAATA
1 GTTATATTTTTTTAGTTCATTTTCTGATAGATATTAAAAAAAATTATAGCCAATA
98993704 ACAAAGCGTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.45
Consensus pattern (59 bp):
GTTATATTTTTTTAGTTCATTTTCTGATAGATATTAAAAAAAATTATAGCCAATAGCAA
Found at i:98993918 original size:22 final size:21
Alignment explanation
Indices: 98993893--98993949 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
98993883 ATATTAGTTG
*
98993893 AAATTAAAAATATTATTTTAAA
1 AAATTAAAAATATT-TTGTAAA
98993915 AAATGTAAAAGA-ATTTTGTAAA
1 AAAT-TAAAA-ATATTTTGTAAA
98993937 AAATTTAAAAATA
1 AAA-TTAAAAATA
98993950 ATTAAAAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
21 1 0.03
22 19 0.63
23 9 0.30
24 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
AAATTAAAAATATTTTGTAAA
Found at i:98995064 original size:28 final size:28
Alignment explanation
Indices: 98995033--98995086 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
98995023 ATTTAGTATA
*
98995033 CAATATGATATATG-AATTTTGGTTTGCG
1 CAAT-TGATAAATGTAATTTTGGTTTGCG
* *
98995061 CAATTTATAAATGTAATTTTTGTTTG
1 CAATTGATAAATGTAATTTTGGTTTG
98995087 ATTCAATTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.30, C:0.06, G:0.17, T:0.48
Consensus pattern (28 bp):
CAATTGATAAATGTAATTTTGGTTTGCG
Found at i:98999766 original size:16 final size:16
Alignment explanation
Indices: 98999745--98999781 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
98999735 TTAAAAAAAT
98999745 TAAAATATATA-ATTTC
1 TAAAATATATAGA-TTC
98999761 TAAAATATATAGATTC
1 TAAAATATATAGATTC
98999777 TAAAA
1 TAAAA
98999782 ATGTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (16 bp):
TAAAATATATAGATTC
Found at i:99000325 original size:17 final size:17
Alignment explanation
Indices: 99000305--99000372 Score: 59
Period size: 18 Copynumber: 3.9 Consensus size: 17
99000295 ATTTTTGGAT
99000305 ATTTAAATTTTTATAAA
1 ATTTAAATTTTTATAAA
*
99000322 ATTT-AATTTTCT-TGAA
1 ATTTAAATTTT-TATAAA
*
99000338 TTTTATAATTTTTAATAAA
1 ATTTA-AATTTTT-ATAAA
**
99000357 AAATAAATTTTTATAA
1 ATTTAAATTTTTATAA
99000373 TTTGTTTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
16 12 0.30
17 10 0.25
18 13 0.32
19 5 0.12
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
ATTTAAATTTTTATAAA
Found at i:99005988 original size:14 final size:14
Alignment explanation
Indices: 99005969--99005995 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
99005959 TAATGAGTTA
99005969 GAATAAGTGTGTTG
1 GAATAAGTGTGTTG
99005983 GAATAAGTGTGTT
1 GAATAAGTGTGTT
99005996 AAAAAAATCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.37
Consensus pattern (14 bp):
GAATAAGTGTGTTG
Found at i:99010011 original size:19 final size:19
Alignment explanation
Indices: 99009986--99010056 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
99009976 AATTACAAAA
*
99009986 AAAAAATCAAAATTATTTTC
1 AAAAATTCAAAA-TATTTTC
*
99010006 AAAAATTCAAAATATTTTTT
1 AAAAATTCAAAATA-TTTTC
* *
99010026 TAAAATACAAAATATTTAT-
1 AAAAATTCAAAATATTT-TC
99010045 AAAAATTCAAAA
1 AAAAATTCAAAA
99010057 GAATATATAC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
19 15 0.35
20 28 0.65
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATATTTTC
Found at i:99010909 original size:31 final size:31
Alignment explanation
Indices: 99010873--99010974 Score: 113
Period size: 31 Copynumber: 3.4 Consensus size: 31
99010863 TAATCACATT
*
99010873 AATATTAAATTAATAAAATATTATCTAGATA
1 AATATTAAATTAATAAAATAATATCTAGATA
* ** *
99010904 AATATTTAATT--TAATTTAATATCT--ATT
1 AATATTAAATTAATAAAATAATATCTAGATA
*
99010931 AATATTAAATTAATAAAATACTATCTAGATA
1 AATATTAAATTAATAAAATAATATCTAGATA
*
99010962 AATAGTAAATTAA
1 AATATTAAATTAA
99010975 ATTTAATATT
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
27 12 0.21
29 20 0.36
31 24 0.43
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (31 bp):
AATATTAAATTAATAAAATAATATCTAGATA
Found at i:99010960 original size:58 final size:58
Alignment explanation
Indices: 99010870--99010983 Score: 192
Period size: 58 Copynumber: 2.0 Consensus size: 58
99010860 AATTAATCAC
* * * *
99010870 ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTTAATTTAATTTAATATCT
1 ATTAATATTAAATTAATAAAATACTATCTAGATAAATAGTAAATTAAATTTAATATCT
99010928 ATTAATATTAAATTAATAAAATACTATCTAGATAAATAGTAAATTAAATTTAATAT
1 ATTAATATTAAATTAATAAAATACTATCTAGATAAATAGTAAATTAAATTTAATAT
99010984 TAAATTTATT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.43
Consensus pattern (58 bp):
ATTAATATTAAATTAATAAAATACTATCTAGATAAATAGTAAATTAAATTTAATATCT
Found at i:99011666 original size:23 final size:22
Alignment explanation
Indices: 99011629--99011693 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
99011619 AGAGATATGC
99011629 AATCTTA-A-ATATGATATGTA
1 AATCTTAGAGATATGATATGTA
*
99011649 AATCTTAGAAGATATGATTCTGT-
1 AATCTTAG-AGATATGA-TATGTA
* *
99011672 AATCTTAGAGATTTGATTTGTA
1 AATCTTAGAGATATGATATGTA
99011694 GATAGCTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 7 0.19
21 4 0.11
22 8 0.22
23 14 0.38
24 4 0.11
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.42
Consensus pattern (22 bp):
AATCTTAGAGATATGATATGTA
Found at i:99011688 original size:22 final size:22
Alignment explanation
Indices: 99011637--99011693 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
99011627 GCAATCTTAA
*
99011637 ATATGATATGTAAATCTTAGAAG
1 ATATGATTTGT-AATCTTAGAAG
99011660 ATATGATTCTGTAATCTTAG-AG
1 ATATGATT-TGTAATCTTAGAAG
*
99011682 ATTTGATTTGTA
1 ATATGATTTGTA
99011694 GATAGCTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 4 0.13
22 9 0.29
23 15 0.48
24 3 0.10
ACGTcount: A:0.35, C:0.05, G:0.18, T:0.42
Consensus pattern (22 bp):
ATATGATTTGTAATCTTAGAAG
Found at i:99012808 original size:40 final size:40
Alignment explanation
Indices: 99012774--99012859 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
99012764 CCCGGATGTC
*
99012774 ATTCCAGCACGAAGCCTGCGTGTCTTTAAGCCCGGATACG
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACG
* *
99012814 ATTTCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACG
99012854 ATTCCA
1 ATTCCA
99012860 CATCAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACG
Found at i:99021028 original size:40 final size:40
Alignment explanation
Indices: 99020950--99021062 Score: 167
Period size: 40 Copynumber: 2.9 Consensus size: 40
99020940 TATCTAGCAC
* * *
99020950 AGCCTGCAGGTTTTTAA-CCCGGATGTC-ATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGAT-ACAATTCCAGCACGA
*
99020989 AGCCTGCGGGTCTTTAAGCCTGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
99021029 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
99021063 CATCAAATAA
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
39 16 0.24
40 51 0.76
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
Found at i:99025089 original size:9 final size:9
Alignment explanation
Indices: 99025075--99025104 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
99025065 TTGTGTGTTC
99025075 TTTATTTTA
1 TTTATTTTA
99025084 TTTATTTTA
1 TTTATTTTA
99025093 TTTATTTTA
1 TTTATTTTA
99025102 TTT
1 TTT
99025105 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTATTTTA
Found at i:99038354 original size:126 final size:126
Alignment explanation
Indices: 99038194--99038426 Score: 439
Period size: 126 Copynumber: 1.8 Consensus size: 126
99038184 GTTTTAGCCT
*
99038194 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGAGCACGATT
99038259 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAATTTTTTTAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAATTTTTTTAGAGTGAACTGG
* *
99038320 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGTGAAACCCAGTACGTTAGAGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGAGCACGATT
99038385 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAA
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAA
99038427 AATTTTGAGA
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 104 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (126 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGAGCACGATT
CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAATTTTTTTAGAGTGAACTGG
Found at i:99038916 original size:14 final size:14
Alignment explanation
Indices: 99038897--99038927 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
99038887 ATATATTTAC
*
99038897 ATAATAAATATATA
1 ATAATAAATAAATA
99038911 ATAATAAATAAATA
1 ATAATAAATAAATA
99038925 ATA
1 ATA
99038928 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:99038928 original size:19 final size:18
Alignment explanation
Indices: 99038899--99038935 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
99038889 ATATTTACAT
99038899 AATAAATATATAATAATA
1 AATAAATATATAATAATA
99038917 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
99038936 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:99038978 original size:56 final size:58
Alignment explanation
Indices: 99038917--99039049 Score: 139
Period size: 58 Copynumber: 2.3 Consensus size: 58
99038907 TATAATAATA
* *
99038917 AATAAATAATATAATAAT-ATGAAACAT-AA-CTCAAATTAATTAAATTAATAG-AAAAT
1 AATAAA-AATATAAAAATGATGAAA-ATAAAGCTCAAATTAATTAAATTAACAGTAAAAT
* *
99038973 AATAAAAAATATATAAAAATGATGAGAATAAAGCTCAAATTAATTAATTTAACAGTAAAAT
1 AAT--AAAA-ATATAAAAATGATGAAAATAAAGCTCAAATTAATTAAATTAACAGTAAAAT
* *
99039034 AACAAAAATAAAAAAA
1 AATAAAAATATAAAAA
99039050 AGGGTTAAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
56 3 0.05
57 1 0.02
58 22 0.34
59 11 0.17
60 20 0.31
61 7 0.11
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.26
Consensus pattern (58 bp):
AATAAAAATATAAAAATGATGAAAATAAAGCTCAAATTAATTAAATTAACAGTAAAAT
Found at i:99039013 original size:60 final size:60
Alignment explanation
Indices: 99038910--99039041 Score: 162
Period size: 60 Copynumber: 2.2 Consensus size: 60
99038900 ATAAATATAT
* *
99038910 AATAATAAATAAATAATATAATAATATGAAACATAACTCAAATTAATTAAATTAATAG-AA
1 AATAATAAA-AAATAATATAAAAATATGAAACATAACTCAAATTAATTAAATTAACAGTAA
* *
99038970 AATAATAAAAAAT-ATATAAAAATGATGAGA-ATAAAGCTCAAATTAATTAATTTAACAGTAA
1 AATAATAAAAAATAATATAAAAAT-ATGAAACAT-AA-CTCAAATTAATTAAATTAACAGTAA
*
99039031 AATAACAAAAA
1 AATAATAAAAA
99039042 TAAAAAAAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
58 11 0.17
59 11 0.17
60 29 0.46
61 12 0.19
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (60 bp):
AATAATAAAAAATAATATAAAAATATGAAACATAACTCAAATTAATTAAATTAACAGTAA
Found at i:99039345 original size:18 final size:18
Alignment explanation
Indices: 99039322--99039394 Score: 69
Period size: 18 Copynumber: 4.0 Consensus size: 18
99039312 ATAACAAGTA
*
99039322 GGGTGATGGAGTTAGTGG
1 GGGTGATGGAGGTAGTGG
99039340 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
* * *
99039358 ATGGTTCA-GTAGAGT-GTGG
1 --GGGTGATGGAG-GTAGTGG
99039377 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
99039395 ATGGTTTAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
17 6 0.14
18 24 0.56
19 7 0.16
20 6 0.14
ACGTcount: A:0.18, C:0.01, G:0.55, T:0.26
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:99039386 original size:37 final size:37
Alignment explanation
Indices: 99039336--99039406 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
99039326 GATGGAGTTA
99039336 GTGGGGGTGATGGAGGTAGTGGATGGTTCAGTAGAGT
1 GTGGGGGTGATGGAGGTAGTGGATGGTTCAGTAGAGT
*
99039373 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAG
1 GTGGGGGTGATGGAGGTAGTGGATGGTTCAGTAG
99039407 GGTGATGGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.18, C:0.01, G:0.52, T:0.28
Consensus pattern (37 bp):
GTGGGGGTGATGGAGGTAGTGGATGGTTCAGTAGAGT
Found at i:99039430 original size:29 final size:29
Alignment explanation
Indices: 99039377--99039433 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
99039367 TAGAGTGTGG
* *
99039377 GGGTGATGGAGGTAGTGGATGGTTTAGTA
1 GGGTGATGGAGCTAGTGGATAGTTTAGTA
99039406 GGGTGATGGAGCTAGTGG-TCAGTTTAGT
1 GGGTGATGGAGCTAGTGGAT-AGTTTAGT
99039434 GGAGTGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.19, C:0.04, G:0.46, T:0.32
Consensus pattern (29 bp):
GGGTGATGGAGCTAGTGGATAGTTTAGTA
Found at i:99039802 original size:7 final size:7
Alignment explanation
Indices: 99039790--99039815 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
99039780 GTTTGAAATT
99039790 TTTATTA
1 TTTATTA
99039797 TTTATTA
1 TTTATTA
99039804 TTTATTA
1 TTTATTA
99039811 TTTAT
1 TTTAT
99039816 GAGTTAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATTA
Found at i:99041188 original size:33 final size:33
Alignment explanation
Indices: 99041146--99041289 Score: 101
Period size: 33 Copynumber: 4.3 Consensus size: 33
99041136 GAATTGACAG
*
99041146 ATAAGACCATAACTGGGTTATGGCACTATGAAT
1 ATAAGACCATAACTGGGCTATGGCACTATGAAT
*** * * * * *
99041179 ATAAGACCATGGTTGGACTATGGTAGTGTTTATAT
1 ATAAGACCATAACTGGGCTATGGCACT-ATGA-AT
* * * *
99041214 GTAAGACCATAGCTGGGCTATGACACTCTG-AT
1 ATAAGACCATAACTGGGCTATGGCACTATGAAT
* * *
99041246 GATAAGACCATAACTAGGTTATGGCACTACGAAT
1 -ATAAGACCATAACTGGGCTATGGCACTATGAAT
*
99041280 GTAAGACCAT
1 ATAAGACCAT
99041290 GGTTGGACCA
Statistics
Matches: 81, Mismatches: 26, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
32 2 0.02
33 52 0.64
34 5 0.06
35 22 0.27
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (33 bp):
ATAAGACCATAACTGGGCTATGGCACTATGAAT
Found at i:99041303 original size:33 final size:33
Alignment explanation
Indices: 99041266--99041338 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
99041256 TAACTAGGTT
*
99041266 ATGGCACTACGA-ATGTAAGACCATGGTTGGACC
1 ATGGCACTAC-ATATGTAAGACCATAGTTGGACC
* * * *
99041299 ATGGCAATGCATGTGTAAGACCATAGTTGGACT
1 ATGGCACTACATATGTAAGACCATAGTTGGACC
99041332 ATGGCAC
1 ATGGCAC
99041339 AAAGAAAACG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
32 1 0.03
33 32 0.97
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (33 bp):
ATGGCACTACATATGTAAGACCATAGTTGGACC
Found at i:99043262 original size:21 final size:22
Alignment explanation
Indices: 99043223--99043274 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 22
99043213 AGTGCTTAAA
99043223 ACGACACACGAGGTGCCTG-AT
1 ACGACACACGAGGTGCCTGAAT
99043244 ACGACACACGAGGTGCCTGACAT
1 ACGACACACGAGGTGCCTGA-AT
99043267 ACGACACA
1 ACGACACA
99043275 TAAAGTGCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 19 0.66
23 10 0.34
ACGTcount: A:0.33, C:0.31, G:0.25, T:0.12
Consensus pattern (22 bp):
ACGACACACGAGGTGCCTGAAT
Found at i:99043282 original size:23 final size:22
Alignment explanation
Indices: 99043200--99043286 Score: 79
Period size: 21 Copynumber: 4.0 Consensus size: 22
99043190 CCTGATCAGT
* *
99043200 ATACGACACATAAAGTG-CTTA
1 ATACGACACACAAAGTGCCTGA
* * *
99043221 AAACGACACACGAGGTGCCTG-
1 ATACGACACACAAAGTGCCTGA
* *
99043242 ATACGACACACGAGGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
*
99043264 CATACGACACATAAAGTGCCTGA
1 -ATACGACACACAAAGTGCCTGA
99043287 TCGATAAAGC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
21 33 0.61
22 2 0.04
23 19 0.35
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (22 bp):
ATACGACACACAAAGTGCCTGA
Found at i:99043682 original size:15 final size:15
Alignment explanation
Indices: 99043657--99043714 Score: 82
Period size: 15 Copynumber: 3.8 Consensus size: 15
99043647 TCATATATAT
99043657 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
99043673 TATAAATTCAATCAA
1 TATAAATTCAATCAA
*
99043688 AAT-AATTCCAATCAA
1 TATAAATT-CAATCAA
99043703 TATAAATTCAAT
1 TATAAATTCAAT
99043715 AAAATCATCG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
14 4 0.11
15 26 0.68
16 8 0.21
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:99043702 original size:30 final size:28
Alignment explanation
Indices: 99043660--99043719 Score: 102
Period size: 30 Copynumber: 2.1 Consensus size: 28
99043650 TATATATTAT
99043660 ATAATTCAATCAATATAAATTCAATCAAA
1 ATAATTCAATCAATATAAATTCAAT-AAA
99043689 ATAATTCCAATCAATATAAATTCAATAAA
1 ATAATT-CAATCAATATAAATTCAATAAA
99043718 AT
1 AT
99043720 CATCGCATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.37
30 19 0.63
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATTCAATCAATATAAATTCAATAAA
Found at i:99046807 original size:17 final size:17
Alignment explanation
Indices: 99046785--99046820 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
99046775 TAAATAAGAG
* *
99046785 AAAATAAAATTGAAATA
1 AAAATAAAAATAAAATA
99046802 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAATA
99046819 AA
1 AA
99046821 GGGACTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:99048441 original size:6 final size:6
Alignment explanation
Indices: 99048430--99048472 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
99048420 TGAGTAAATG
* *
99048430 AAATAA AAATAA AAATAA AAAT-A AAATAG TAAT-A AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
99048473 AAAGGAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
5 8 0.26
6 23 0.74
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:99048449 original size:11 final size:11
Alignment explanation
Indices: 99048425--99048472 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
99048415 ATAAATGAGT
*
99048425 AAATGAAATAA
1 AAATAAAATAA
99048436 AAATAAAAATAA
1 AAAT-AAAATAA
*
99048448 AAATAAAATAG
1 AAATAAAATAA
*
99048459 TAATAAAATAA
1 AAATAAAATAA
99048470 AAA
1 AAA
99048473 AAAGGAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 21 0.68
12 10 0.32
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:99048456 original size:17 final size:17
Alignment explanation
Indices: 99048425--99048472 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
99048415 ATAAATGAGT
*
99048425 AAATGAAATAAAAATAA
1 AAATAAAATAAAAATAA
*
99048442 AAATAAAA-ATAAAATAG
1 AAATAAAATA-AAAATAA
*
99048459 TAATAAAATAAAAA
1 AAATAAAATAAAAA
99048473 AAAGGAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 24 0.92
18 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (17 bp):
AAATAAAATAAAAATAA
Found at i:99048713 original size:19 final size:19
Alignment explanation
Indices: 99048691--99048730 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
99048681 AGGGAAGAAG
*
99048691 AAAAGGGAAAGAAGAAGGA
1 AAAAAGGAAAGAAGAAGGA
* *
99048710 AAAAATGACAGAAGAAGGA
1 AAAAAGGAAAGAAGAAGGA
99048729 AA
1 AA
99048731 GAAAAAAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.65, C:0.03, G:0.30, T:0.03
Consensus pattern (19 bp):
AAAAAGGAAAGAAGAAGGA
Found at i:99048741 original size:19 final size:20
Alignment explanation
Indices: 99048698--99048750 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
99048688 AAGAAAAGGG
*
99048698 AAAGAAGAAGGAAA-AAATG
1 AAAGAAGAAGGAAAGAAATA
*
99048717 ACAGAAGAAGGAAAGAAA-A
1 AAAGAAGAAGGAAAGAAATA
*
99048736 AAAGAA-AAAGAAAGA
1 AAAGAAGAAGGAAAGA
99048751 GAAAGAGGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 8 0.28
19 18 0.62
20 3 0.10
ACGTcount: A:0.72, C:0.02, G:0.25, T:0.02
Consensus pattern (20 bp):
AAAGAAGAAGGAAAGAAATA
Found at i:99056062 original size:76 final size:76
Alignment explanation
Indices: 99055932--99056132 Score: 294
Period size: 76 Copynumber: 2.6 Consensus size: 76
99055922 TTATTTGACT
* * *
99055932 AGCGCTAGGTGCAAATCTTTGTCGATTTATTCAACTAGTGTTAGGTACACAATTAATATCGTCAG
1 AGCGCTAGGTGCAAATCTTTGTCGATTTATTCGACTAGTGCTAGGCACACAATTAATATCGTCAG
99055997 CTAATCTAACA
66 CTAATCTAACA
* * *
99056008 AGCTCTAGGCGCAAATCTTTGTCGATTTATTCGACTAGTGCTGGGCACACAATTAATATCGTCAG
1 AGCGCTAGGTGCAAATCTTTGTCGATTTATTCGACTAGTGCTAGGCACACAATTAATATCGTCAG
* * *
99056073 TTAATCTGACT
66 CTAATCTAACA
* * *
99056084 AGCGCTGGGTGCAAATCTTTGTTGATTTATTCGACTAGTGCAAGGCACA
1 AGCGCTAGGTGCAAATCTTTGTCGATTTATTCGACTAGTGCTAGGCACA
99056133 TCTAATGTCA
Statistics
Matches: 110, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 110 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (76 bp):
AGCGCTAGGTGCAAATCTTTGTCGATTTATTCGACTAGTGCTAGGCACACAATTAATATCGTCAG
CTAATCTAACA
Found at i:99060362 original size:17 final size:17
Alignment explanation
Indices: 99060340--99060373 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
99060330 ATCTGAAATT
*
99060340 TTCAGTAGTTGCTTTGG
1 TTCAGTAATTGCTTTGG
99060357 TTCAGTAATTGCTTTGG
1 TTCAGTAATTGCTTTGG
99060374 CAACGAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.12, G:0.26, T:0.47
Consensus pattern (17 bp):
TTCAGTAATTGCTTTGG
Found at i:99063876 original size:10 final size:10
Alignment explanation
Indices: 99063861--99063892 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
99063851 TAAATACATT
99063861 TAATTAAAGA
1 TAATTAAAGA
99063871 TAATTAAAGA
1 TAATTAAAGA
99063881 TAATTAAA-A
1 TAATTAAAGA
99063890 TAA
1 TAA
99063893 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:99077710 original size:18 final size:18
Alignment explanation
Indices: 99077678--99077807 Score: 134
Period size: 18 Copynumber: 7.2 Consensus size: 18
99077668 TAAATAAAAG
*
99077678 TACTGAATGACTGATTGT
1 TACTGAATAACTGATTGT
* * *
99077696 TATTGAATAATTGATCGT
1 TACTGAATAACTGATTGT
*
99077714 TACTGAATAACTGATCGT
1 TACTGAATAACTGATTGT
*
99077732 TACTGAATAACTGATTGC
1 TACTGAATAACTGATTGT
** *
99077750 TACTGAGCAAATGATTGT
1 TACTGAATAACTGATTGT
* *
99077768 TACTGAATAACTAATTGC
1 TACTGAATAACTGATTGT
* * *
99077786 TACTGAATGATTGAATGT
1 TACTGAATAACTGATTGT
99077804 TACT
1 TACT
99077808 AAATGAAACT
Statistics
Matches: 90, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 90 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (18 bp):
TACTGAATAACTGATTGT
Found at i:99081985 original size:26 final size:25
Alignment explanation
Indices: 99081938--99081987 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
99081928 AAGATGCATG
99081938 TATATAAAATTTTAATAAATTAAAAA
1 TATATAAAATTTTAAT-AATTAAAAA
99081964 TATATAAAATTATTAGAT-ATTAAA
1 TATATAAAATT-TTA-ATAATTAAA
99081988 TTAATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 17 0.77
27 3 0.14
28 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
TATATAAAATTTTAATAATTAAAAA
Found at i:99086966 original size:14 final size:13
Alignment explanation
Indices: 99086947--99086983 Score: 58
Period size: 12 Copynumber: 2.8 Consensus size: 13
99086937 TATAGTTTAA
99086947 ATTTAATAATATAT
1 ATTTAATAAT-TAT
99086961 ATTTAAT-ATTAT
1 ATTTAATAATTAT
99086973 ATTTAATAATT
1 ATTTAATAATT
99086984 TTCAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.45
13 5 0.23
14 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTAATAATTAT
Found at i:99089640 original size:24 final size:27
Alignment explanation
Indices: 99089593--99089641 Score: 77
Period size: 24 Copynumber: 1.9 Consensus size: 27
99089583 ACTTATAATT
99089593 TTAATATTTAATATATATAACTTTATA
1 TTAATATTTAATATATATAACTTTATA
99089620 TTAA-ATTTAAT-T-TATAACTTTA
1 TTAATATTTAATATATATAACTTTA
99089642 CTTTTGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
25 1 0.05
26 7 0.32
27 4 0.18
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (27 bp):
TTAATATTTAATATATATAACTTTATA
Found at i:99098668 original size:21 final size:21
Alignment explanation
Indices: 99098642--99098682 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
99098632 ATCTGCTCAA
* *
99098642 ACTCCACCTATTTTGGAGTAC
1 ACTCCACCTACTGTGGAGTAC
99098663 ACTCCACCTACTGTGGAGTA
1 ACTCCACCTACTGTGGAGTA
99098683 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (21 bp):
ACTCCACCTACTGTGGAGTAC
Found at i:99102829 original size:12 final size:12
Alignment explanation
Indices: 99102783--99102844 Score: 79
Period size: 12 Copynumber: 5.2 Consensus size: 12
99102773 TGGGGCAGAT
*
99102783 GCTGAAGCTGAA
1 GCTGAAGCTGGA
*
99102795 GCTGAAGCTGCA
1 GCTGAAGCTGGA
*
99102807 GCTGCAGCTGGA
1 GCTGAAGCTGGA
99102819 GCTGAAGCTGGA
1 GCTGAAGCTGGA
* *
99102831 GATGGAGCTGGA
1 GCTGAAGCTGGA
99102843 GC
1 GC
99102845 GGCGCCAGCA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.24, C:0.19, G:0.40, T:0.16
Consensus pattern (12 bp):
GCTGAAGCTGGA
Found at i:99102836 original size:18 final size:18
Alignment explanation
Indices: 99102783--99102840 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
99102773 TGGGGCAGAT
*
99102783 GCTGAAGCTGAAGCTGAA
1 GCTGAAGCTGAAGCTGGA
* *
99102801 GCTGCAGCTGCAGCTGGA
1 GCTGAAGCTGAAGCTGGA
* *
99102819 GCTGAAGCTGGAGATGGA
1 GCTGAAGCTGAAGCTGGA
99102837 GCTG
1 GCTG
99102841 GAGCGGCGCC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.24, C:0.19, G:0.40, T:0.17
Consensus pattern (18 bp):
GCTGAAGCTGAAGCTGGA
Found at i:99102844 original size:6 final size:6
Alignment explanation
Indices: 99102783--99102828 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
99102773 TGGGGCAGAT
* * *
99102783 GCTGAA GCTGAA GCTGAA GCTGCA GCTGCA GCTGGA GCTGAA GCTG
1 GCTGAA GCTGAA GCTGAA GCTGAA GCTGAA GCTGAA GCTGAA GCTG
99102829 GAGATGGAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.24, C:0.22, G:0.37, T:0.17
Consensus pattern (6 bp):
GCTGAA
Found at i:99107499 original size:6 final size:6
Alignment explanation
Indices: 99107447--99107507 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
99107437 TGGGGCAGCT
* * * * * *
99107447 GCTGAA GCTGAA GCTGAA GCTGCA CCTGGA GCTGAA GCTGGA GCTGGA
1 GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA
99107495 GCTGGA GC-GGA GC
1 GCTGGA GCTGGA GC
99107508 CAGCAGCCAG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
5 5 0.10
6 44 0.90
ACGTcount: A:0.23, C:0.21, G:0.41, T:0.15
Consensus pattern (6 bp):
GCTGGA
Found at i:99108714 original size:15 final size:15
Alignment explanation
Indices: 99108694--99108747 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
99108684 ATACTACAAA
99108694 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
99108709 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
99108726 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
99108743 ATATT
1 ATATT
99108748 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:99108854 original size:22 final size:22
Alignment explanation
Indices: 99108829--99108874 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
99108819 TAAAAGTGAA
*
99108829 ATATTTATTAAAATAATAAATT
1 ATATTAATTAAAATAATAAATT
* * *
99108851 ATATTAATTATATTAATAATTT
1 ATATTAATTAAAATAATAAATT
99108873 AT
1 AT
99108875 TATATGACTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATTAATTAAAATAATAAATT
Found at i:99108947 original size:13 final size:14
Alignment explanation
Indices: 99108925--99108956 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
99108915 TATATTGAAA
99108925 AATA-TAATATTTT
1 AATATTAATATTTT
99108938 -ATATTAATATTTT
1 AATATTAATATTTT
99108951 AATATT
1 AATATT
99108957 TTTAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 9 0.53
14 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATATTAATATTTT
Found at i:99114418 original size:18 final size:18
Alignment explanation
Indices: 99114378--99114420 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
99114368 TGGGGCAGCT
*
99114378 GCTGAAGCTGAAGCTGCA
1 GCTGGAGCTGAAGCTGCA
* *
99114396 CCTGGAGCTGAAGCTGGA
1 GCTGGAGCTGAAGCTGCA
99114414 GCTGGAG
1 GCTGGAG
99114421 ATGGAGCGCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.40, T:0.16
Consensus pattern (18 bp):
GCTGGAGCTGAAGCTGCA
Found at i:99115876 original size:19 final size:18
Alignment explanation
Indices: 99115854--99115897 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
99115844 ATTATTGAAC
*
99115854 TTAAAACATATTTAAATAT
1 TTAAAACATAATTAAA-AT
*
99115873 TTAATACATAATTAAAAT
1 TTAAAACATAATTAAAAT
99115891 TATAAAA
1 T-TAAAA
99115898 AAATATTGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
TTAAAACATAATTAAAAT
Found at i:99116797 original size:26 final size:26
Alignment explanation
Indices: 99116767--99116819 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
99116757 TTTTAAAAAG
*
99116767 ATTGAAAATAGTAAGACAAGTAACAA
1 ATTGAAAATAGTAAGACAAATAACAA
99116793 ATTGAAAATAGTAAGACAAATAACAA
1 ATTGAAAATAGTAAGACAAATAACAA
99116819 A
1 A
99116820 AACTAAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.60, C:0.08, G:0.13, T:0.19
Consensus pattern (26 bp):
ATTGAAAATAGTAAGACAAATAACAA
Found at i:99116827 original size:26 final size:26
Alignment explanation
Indices: 99116771--99116827 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
99116761 AAAAAGATTG
* ***
99116771 AAAATAGTAAGACAAGTAACAAATTG
1 AAAATAGTAAGACAAATAACAAAAAC
99116797 AAAATAGTAAGACAAATAACAAAAAC
1 AAAATAGTAAGACAAATAACAAAAAC
*
99116823 TAAAT
1 AAAAT
99116828 TGAAGTGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.63, C:0.09, G:0.11, T:0.18
Consensus pattern (26 bp):
AAAATAGTAAGACAAATAACAAAAAC
Found at i:99129354 original size:12 final size:12
Alignment explanation
Indices: 99129339--99129367 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
99129329 GTGAATAAAG
99129339 AAGATAAATGGA
1 AAGATAAATGGA
99129351 AAGAT-AATGGA
1 AAGATAAATGGA
99129362 AAGATA
1 AAGATA
99129368 GAACGTGGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.17
Consensus pattern (12 bp):
AAGATAAATGGA
Found at i:99129545 original size:26 final size:27
Alignment explanation
Indices: 99129516--99129566 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
99129506 TTGTTAAAAC
* *
99129516 TCTTCTAAAAAAAATTC-AAGAGAAAT
1 TCTTCAAAAAAAAACTCAAAGAGAAAT
*
99129542 TCTTGAAAAAAAAACTCAAAGAGAA
1 TCTTCAAAAAAAAACTCAAAGAGAA
99129567 TTTATTAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.57, C:0.12, G:0.10, T:0.22
Consensus pattern (27 bp):
TCTTCAAAAAAAAACTCAAAGAGAAAT
Found at i:99145180 original size:16 final size:16
Alignment explanation
Indices: 99145161--99145191 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
99145151 CTTCTTCACT
99145161 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
99145177 TACTTACTTACTTAA
1 TACTCACTTACTTAA
99145192 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:99145197 original size:20 final size:20
Alignment explanation
Indices: 99145158--99145197 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
99145148 AAACTTCTTC
* *
99145158 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
99145178 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
99145198 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:99145470 original size:31 final size:31
Alignment explanation
Indices: 99145435--99145497 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
99145425 TTTTGAAACT
99145435 TACCATTGCCATGTCTCGACATGGTCTTACA
1 TACCATTGCCATGTCTCGACATGGTCTTACA
99145466 TACCATTGCCATGTCTCGACATGGTCTTACA
1 TACCATTGCCATGTCTCGACATGGTCTTACA
99145497 T
1 T
99145498 GGTATCCTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (31 bp):
TACCATTGCCATGTCTCGACATGGTCTTACA
Found at i:99145596 original size:55 final size:54
Alignment explanation
Indices: 99145466--99145669 Score: 243
Period size: 55 Copynumber: 3.8 Consensus size: 54
99145456 TGGTCTTACA
* * * *
99145466 TACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAAACT
* * *
99145519 CACCAATGCCATGCCTTGACATGGTTTTACATGGGA-CCTTTGCCTTATTAAAACT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTA-TAAAACT
** * *
99145574 TATTAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-AAAACCT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAAA-CT
*
99145628 TACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 TACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
99145670 AAACCCTAAT
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
52 2 0.02
53 42 0.33
54 7 0.06
55 73 0.58
56 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (54 bp):
TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAAACT
Found at i:99152533 original size:61 final size:58
Alignment explanation
Indices: 99152385--99152551 Score: 194
Period size: 61 Copynumber: 2.8 Consensus size: 58
99152375 TGTAATATTA
* **
99152385 TATATTATTTTTATT-AATTCATATTTTAATAATTATTATATTAAGAATATTATTAAATTG
1 TATATTATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAA-AATAGAATTAAATTG
* *
99152445 TATATTATTATTGTTAAATTATATTTAATAATAAATT-TATTAAAATAGAATTAAATTATG
1 TATATTATTTTTATTAAATTATATTTAATAAT-AATTATATTAAAATAGAATTAAA-T-TG
* *
99152505 TATTATTGTTTTTATTAAATTATATTTAATAATAATTCTATTAAAAT
1 TA-TATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAAT
99152552 TTAATAACAA
Statistics
Matches: 93, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
58 10 0.11
59 16 0.17
60 27 0.29
61 40 0.43
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (58 bp):
TATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATAGAATTAAATTG
Found at i:99152535 original size:58 final size:57
Alignment explanation
Indices: 99152385--99152551 Score: 160
Period size: 60 Copynumber: 2.8 Consensus size: 57
99152375 TGTAATATTA
**
99152385 TATATTATTTTTATT-AATTCATATTTTAATAATTATTATATTAAGAATATTATTAAATTG
1 TATATTATTTTTATTAAATT-ATATTTTAATAA--ATTATATTAA-AATAGAATTAAATTG
* *
99152445 TATATTATTATTGTTAAATTATATTTAATAATAAATT-TATTAAAATAGAATTAAATTATG
1 TATATTATTTTTATTAAATTATATTT--TAATAAATTATATTAAAATAGAATTAAA-T-TG
* *
99152505 TATTATTGTTTTTATTAAATTATA-TTTAATAATAATTCTATTAAAAT
1 TA-TATTATTTTTATTAAATTATATTTTAAT-A-AATTATATTAAAAT
99152552 TTAATAACAA
Statistics
Matches: 91, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
58 14 0.15
59 8 0.09
60 32 0.35
61 31 0.34
62 6 0.07
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (57 bp):
TATATTATTTTTATTAAATTATATTTTAATAAATTATATTAAAATAGAATTAAATTG
Found at i:99152743 original size:16 final size:16
Alignment explanation
Indices: 99152700--99152748 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
99152690 TCAACTCTAA
99152700 TACAACTCTATTCCAT
1 TACAACTCTATTCCAT
** *
99152716 TACAGTTTTATTCCAT
1 TACAACTCTATTCCAT
*
99152732 TACAACCCTATTCCAT
1 TACAACTCTATTCCAT
99152748 T
1 T
99152749 GTACTGAACT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.29, C:0.29, G:0.02, T:0.41
Consensus pattern (16 bp):
TACAACTCTATTCCAT
Found at i:99160028 original size:83 final size:84
Alignment explanation
Indices: 99159884--99160053 Score: 243
Period size: 83 Copynumber: 2.0 Consensus size: 84
99159874 CTTTTTTATG
* * *
99159884 GGGTAGAAATAGTCAAGGTATGACCAACATGTTTAATGATAGGAAATGGTGCATTTATTTGAAGT
1 GGGTAGAAATAGTCAAGGTATGACCAACATGTTTAATGACAGGAAATAGTACATTTATTTGAAGT
99159949 TTTATTTATTTTACTAATT
66 TTTATTTATTTTACTAATT
* ** *
99159968 GGGTAGAAATAGT-GAGGTATGATTAACATGTTTAATGACAGGAAATAGTACATTTTTTTGAAGT
1 GGGTAGAAATAGTCAAGGTATGACCAACATGTTTAATGACAGGAAATAGTACATTTATTTGAAGT
* * *
99160032 TTTATTTGTTTTGCTCATT
66 TTTATTTATTTTACTAATT
99160051 GGG
1 GGG
99160054 GCTGAGATTA
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
83 63 0.83
84 13 0.17
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.40
Consensus pattern (84 bp):
GGGTAGAAATAGTCAAGGTATGACCAACATGTTTAATGACAGGAAATAGTACATTTATTTGAAGT
TTTATTTATTTTACTAATT
Found at i:99160339 original size:33 final size:33
Alignment explanation
Indices: 99160301--99160367 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
99160291 AAAAATAAAA
99160301 AATCATGTCATCTATCATGGTCATACATTGATT
1 AATCATGTCATCTATCATGGTCATACATTGATT
99160334 AATCATGTCATCTATCATGGTCATACATTGATT
1 AATCATGTCATCTATCATGGTCATACATTGATT
99160367 A
1 A
99160368 TCTTTATTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (33 bp):
AATCATGTCATCTATCATGGTCATACATTGATT
Found at i:99165985 original size:21 final size:22
Alignment explanation
Indices: 99165956--99166002 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
99165946 CAGAAGGAGT
*
99165956 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
99165978 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
99165999 GAGT
1 GAGT
99166003 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:99168600 original size:23 final size:23
Alignment explanation
Indices: 99168554--99168596 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
99168544 TACATTAATC
99168554 ATATTAATATTTTGTAATATTAA
1 ATATTAATATTTTGTAATATTAA
99168577 ATATTAATATTTT-T-ATATTA
1 ATATTAATATTTTGTAATATTA
99168597 TAAAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
22 1 0.05
23 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATTAATATTTTGTAATATTAA
Found at i:99169148 original size:14 final size:14
Alignment explanation
Indices: 99169125--99169158 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
99169115 AAAAATGTGT
99169125 AAAACATTTTCC-A
1 AAAACATTTTCCGA
99169138 AAAATCATTTTCCGA
1 AAAA-CATTTTCCGA
99169153 AAAACA
1 AAAACA
99169159 AGTACACCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 10 0.53
15 5 0.26
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (14 bp):
AAAACATTTTCCGA
Found at i:99173554 original size:17 final size:18
Alignment explanation
Indices: 99173532--99173568 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
99173522 TAATAAAAAT
99173532 ATAATTTCAT-TATTT-TA
1 ATAATTT-ATATATTTATA
99173549 ATAATTTATATATTTATA
1 ATAATTTATATATTTATA
99173567 AT
1 AT
99173569 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 12 0.67
18 4 0.22
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
ATAATTTATATATTTATA
Found at i:99175365 original size:23 final size:22
Alignment explanation
Indices: 99175337--99175379 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
99175327 ATTTCACAGC
*
99175337 AAGAAAACAAAACTAAAAAAAAA
1 AAGAAAACAAAA-GAAAAAAAAA
*
99175360 AAGAAAATAAAAGAAAAAAA
1 AAGAAAACAAAAGAAAAAAA
99175380 GGAATCTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.84, C:0.05, G:0.07, T:0.05
Consensus pattern (22 bp):
AAGAAAACAAAAGAAAAAAAAA
Found at i:99175366 original size:18 final size:18
Alignment explanation
Indices: 99175340--99175380 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
99175330 TCACAGCAAG
*
99175340 AAAACAAAACTAAAA-AAA
1 AAAAGAAAA-TAAAAGAAA
99175358 AAAAGAAAATAAAAGAAA
1 AAAAGAAAATAAAAGAAA
99175376 AAAAG
1 AAAAG
99175381 GAATCTACCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.83, C:0.05, G:0.07, T:0.05
Consensus pattern (18 bp):
AAAAGAAAATAAAAGAAA
Found at i:99176885 original size:95 final size:96
Alignment explanation
Indices: 99176786--99176960 Score: 264
Period size: 94 Copynumber: 1.8 Consensus size: 96
99176776 GAGTTCAATC
*
99176786 TATTAAGAATAAATAATATTAATTAAATTATTAATAATAGGTAAAATTTTATCAAT-AT-TATTT
1 TATTAAGAATAAATAATATTAATT-AATTATTAATAATAGATAAAATTTTATCAATAATATATTT
* *
99176849 TTTTTATTTTTTTATAAAAATCTGGTTAAAAT
65 ATTTTATGTTTTTATAAAAATCTGGTTAAAAT
* * * *
99176881 TATTAAGAATAAGTAATGTTAATTAATTTTTAATAATAGATAAAATTTTATTAATAATATATTTA
1 TATTAAGAATAAATAATATTAATTAATTATTAATAATAGATAAAATTTTATCAATAATATATTTA
99176946 TTTTATGTTTTTATA
66 TTTTATGTTTTTATA
99176961 TAATTGAATT
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
94 28 0.39
95 24 0.34
96 19 0.27
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (96 bp):
TATTAAGAATAAATAATATTAATTAATTATTAATAATAGATAAAATTTTATCAATAATATATTTA
TTTTATGTTTTTATAAAAATCTGGTTAAAAT
Found at i:99180230 original size:6 final size:6
Alignment explanation
Indices: 99180154--99180226 Score: 92
Period size: 6 Copynumber: 12.2 Consensus size: 6
99180144 CAATACGTAT
* *
99180154 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ATATAT
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
* * * *
99180202 ATATAC ATATAC ATATAC ATATAC A
1 ACATAC ACATAC ACATAC ACATAC A
99180227 TATAAAGACG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (6 bp):
ACATAC
Found at i:99180623 original size:219 final size:219
Alignment explanation
Indices: 99180244--99180687 Score: 834
Period size: 219 Copynumber: 2.0 Consensus size: 219
99180234 ACGATACATC
99180244 TACAGATTGCTAGGGCTGCAGATGTTATTGAATGATATGTAATTTTTCTGCACATAAATGTACAC
1 TACAGATTGCTAGGGCTGCAGATGTTATTGAATGATATGTAATTTTTCTGCACATAAATGTACAC
*
99180309 CTATGAACAAAGGATAACTCTAGTTCATAATATAATATGGAGATGTATGGTTTTCCTAGTCAAGG
66 CTATGAACAAAGGATAACTCTAGTTCATAATATAATATGGAGATGTATGCTTTTCCTAGTCAAGG
99180374 AGAAGCTATGTAGAAGTAATGCAGGTTGCCAACTTTTTACAAAGTTGTTGAATGTCAAATGATGG
131 AGAAGCTATGTAGAAGTAATGCAGGTTGCCAACTTTTTACAAAGTTGTTGAATGTCAAATGATGG
99180439 ATCATTCAAAGCTATATCAGAAAG
196 ATCATTCAAAGCTATATCAGAAAG
* * *
99180463 TACAGATTGTTAGGGCTGCAGATGTTATTGAATGATATGTAATTTTTCTGCTCATAAATTTACAC
1 TACAGATTGCTAGGGCTGCAGATGTTATTGAATGATATGTAATTTTTCTGCACATAAATGTACAC
*
99180528 CTATGAACCAAGGATAACTCTAGTTCATAATATAATATGGAGATGTATGCTTTTCCTAGTCAAGG
66 CTATGAACAAAGGATAACTCTAGTTCATAATATAATATGGAGATGTATGCTTTTCCTAGTCAAGG
*
99180593 AGAAGCTATGTAGAAGTAATGCATGTTGCCAACTTTTTACAAAGTTGTTGAATGTCAAATGATGG
131 AGAAGCTATGTAGAAGTAATGCAGGTTGCCAACTTTTTACAAAGTTGTTGAATGTCAAATGATGG
99180658 ATCATTCAAAGCTATATCAGAAAG
196 ATCATTCAAAGCTATATCAGAAAG
99180682 TACAGA
1 TACAGA
99180688 CCTCGCTTCT
Statistics
Matches: 219, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
219 219 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (219 bp):
TACAGATTGCTAGGGCTGCAGATGTTATTGAATGATATGTAATTTTTCTGCACATAAATGTACAC
CTATGAACAAAGGATAACTCTAGTTCATAATATAATATGGAGATGTATGCTTTTCCTAGTCAAGG
AGAAGCTATGTAGAAGTAATGCAGGTTGCCAACTTTTTACAAAGTTGTTGAATGTCAAATGATGG
ATCATTCAAAGCTATATCAGAAAG
Found at i:99189465 original size:37 final size:37
Alignment explanation
Indices: 99189415--99189525 Score: 213
Period size: 37 Copynumber: 3.0 Consensus size: 37
99189405 CTCCACTGTA
99189415 ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
1 ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
*
99189452 ACGCATGATAATGCATCAACATCCTATTTTCATTTCT
1 ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
99189489 ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
1 ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
99189526 GGGACTATAG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (37 bp):
ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
Found at i:99194480 original size:19 final size:20
Alignment explanation
Indices: 99194443--99194482 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
99194433 AATATAAAAT
*
99194443 AATTCAAAATAATTTTTAAA
1 AATTCAAAATAACTTTTAAA
99194463 AATTCAAAAT-ACTTTTAAA
1 AATTCAAAATAACTTTTAAA
99194482 A
1 A
99194483 TTTTGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTCAAAATAACTTTTAAA
Found at i:99198100 original size:13 final size:13
Alignment explanation
Indices: 99198082--99198106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99198072 AAAATGTCAT
99198082 AATATTAATATTA
1 AATATTAATATTA
99198095 AATATTAATATT
1 AATATTAATATT
99198107 TACAGGCTTG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATATTAATATTA
Found at i:99198128 original size:66 final size:66
Alignment explanation
Indices: 99198022--99198147 Score: 243
Period size: 66 Copynumber: 1.9 Consensus size: 66
99198012 TAGCTTCGTA
99198022 AATATTAAATATTAATATTTACAGACTTGGTTTACAAAAATAGGGTTTTGAAAATGTCATAATAT
1 AATATTAAATATTAATATTTACAGACTTGGTTTACAAAAATAGGGTTTTGAAAATGTCATAATAT
99198087 T
66 T
*
99198088 AATATTAAATATTAATATTTACAGGCTTGGTTTACAAAAATAGGGTTTTGAAAATGTCAT
1 AATATTAAATATTAATATTTACAGACTTGGTTTACAAAAATAGGGTTTTGAAAATGTCAT
99198148 TTTCAGCACT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.39
Consensus pattern (66 bp):
AATATTAAATATTAATATTTACAGACTTGGTTTACAAAAATAGGGTTTTGAAAATGTCATAATAT
T
Found at i:99210884 original size:225 final size:223
Alignment explanation
Indices: 99210493--99210945 Score: 852
Period size: 225 Copynumber: 2.0 Consensus size: 223
99210483 ATATTTGATA
99210493 AAAGAATAATCATATTACATGTGGGTGTTTGTTATGATATAAGAGTTTCATTTAATATTTTATTT
1 AAAGAATAATCATATTACATGTGGGTGTTTGTTATGATATAAGAGTTTCATTTAATATTTTATTT
* *
99210558 AATTAGGCCGATTGAGTCTTGGCTCAGTTGGCATTGGTATTGTTCTCTATATATGAAGACGTGGG
66 AATTAGGCCGATTGAGTCTTGGCTCAGTTGGCATTGGTATTGTTCTCTATACAGGAAGACGTGGG
99210623 TTCAAGTGGTGCGCTGAAGTGTATTATCCTCCTATTTATAGGTTGAGGAGAGGTTATGGGTAGTT
131 TTCAAGTGGTGCGCTGAAGTGTATTATCCTCCTATTTATAGGTTGAGGAGAGGTTATGGGTAGTT
99210688 CTAGGCATTGAGTGAAAAAAAAAAGAAAAG
196 CTAGGCATTGAGTG--AAAAAAAAGAAAAG
99210718 AAAGAATAATCATATTACATGTGGGTGTTTGTTATGATATAAGAGTTTCATTTAATATTTTATTT
1 AAAGAATAATCATATTACATGTGGGTGTTTGTTATGATATAAGAGTTTCATTTAATATTTTATTT
* *
99210783 AATTAGGCCGATTGAGTCTTGGCTCAGTTGGTATTGGTATTGTTGTCTATACAGGAAGACGTGGG
66 AATTAGGCCGATTGAGTCTTGGCTCAGTTGGCATTGGTATTGTTCTCTATACAGGAAGACGTGGG
99210848 TTCAAGTGGTGCGCTGAAGTGTATTATCCTCCTATTTATAGGTTGAGGAGAGGTTATGGGTAGTT
131 TTCAAGTGGTGCGCTGAAGTGTATTATCCTCCTATTTATAGGTTGAGGAGAGGTTATGGGTAGTT
99210913 CTAGGCATTGAGTGAAAAAAAAGAAAAG
196 CTAGGCATTGAGTGAAAAAAAAGAAAAG
99210941 AAAGA
1 AAAGA
99210946 TATGATTAGA
Statistics
Matches: 224, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
223 19 0.08
225 205 0.92
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (223 bp):
AAAGAATAATCATATTACATGTGGGTGTTTGTTATGATATAAGAGTTTCATTTAATATTTTATTT
AATTAGGCCGATTGAGTCTTGGCTCAGTTGGCATTGGTATTGTTCTCTATACAGGAAGACGTGGG
TTCAAGTGGTGCGCTGAAGTGTATTATCCTCCTATTTATAGGTTGAGGAGAGGTTATGGGTAGTT
CTAGGCATTGAGTGAAAAAAAAGAAAAG
Found at i:99212316 original size:23 final size:23
Alignment explanation
Indices: 99212289--99212334 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
99212279 CATTTTGTAG
99212289 CAACCCTTTTAAATAAGAATTCT
1 CAACCCTTTTAAATAAGAATTCT
*
99212312 CAACCCTTTTAAATGAGAATTCT
1 CAACCCTTTTAAATAAGAATTCT
99212335 TCTTCTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.35
Consensus pattern (23 bp):
CAACCCTTTTAAATAAGAATTCT
Found at i:99218964 original size:40 final size:37
Alignment explanation
Indices: 99218898--99219032 Score: 170
Period size: 35 Copynumber: 3.7 Consensus size: 37
99218888 CATGGAAAAG
99218898 TGTGAAATGTAGGTATGGTA--TCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
99218933 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATT-TC--ATCCATACTGAGT
** * *
99218973 TAAGAAATGTAGGTATGGCATTTC--CCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
*
99219008 TGTAAAATGTAGGTATGGTATTTCA
1 TGTGAAATGTAGGTATGGTATTTCA
99219033 ATGAGAAAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
35 50 0.58
38 2 0.02
39 2 0.02
40 32 0.37
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (37 bp):
TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
Found at i:99220020 original size:22 final size:21
Alignment explanation
Indices: 99219979--99220035 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
99219969 AAATATATAC
99219979 ATAATAA-TATTAA-AAT-AAA
1 ATAATAAGTA-TAATAATGAAA
99219998 ATAATAAGTGATAATAATGAAA
1 ATAATAAGT-ATAATAATGAAA
*
99220020 ATAATAGGTATAATAA
1 ATAATAAGTATAATAA
99220036 ATAATATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 7 0.21
20 4 0.12
21 11 0.33
22 11 0.33
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (21 bp):
ATAATAAGTATAATAATGAAA
Found at i:99220044 original size:21 final size:22
Alignment explanation
Indices: 99219991--99220045 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
99219981 AATAATATTA
99219991 AAATAAAATAATAAGTGATAAT
1 AAATAAAATAATAAGTGATAAT
*
99220013 -AATGAAAATAATAGGT-ATAAT
1 AAAT-AAAATAATAAGTGATAAT
*
99220034 AAATAATATAAT
1 AAATAAAATAAT
99220046 GATATATGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (22 bp):
AAATAAAATAATAAGTGATAAT
Found at i:99221715 original size:28 final size:27
Alignment explanation
Indices: 99221667--99221724 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
99221657 GTTTAGGTTA
99221667 TTTATTTGGGCTGAAGGTGTAAAATGGG
1 TTTATTTGGGCTGAAGGTGT-AAATGGG
*
99221695 TTTA-TTGGGCT-AATGGTTGTAACTGGG
1 TTTATTTGGGCTGAA-GG-TGTAAATGGG
99221722 TTT
1 TTT
99221725 GAATGTAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 2 0.07
27 18 0.67
28 7 0.26
ACGTcount: A:0.21, C:0.05, G:0.33, T:0.41
Consensus pattern (27 bp):
TTTATTTGGGCTGAAGGTGTAAATGGG
Found at i:99224644 original size:23 final size:23
Alignment explanation
Indices: 99224614--99224659 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
99224604 CAAAGAACCA
99224614 TATCGAGAAGCTCACGAAGAGCC
1 TATCGAGAAGCTCACGAAGAGCC
99224637 TATCGAGAAGCTCACGAAGAGCC
1 TATCGAGAAGCTCACGAAGAGCC
99224660 ATATATCGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.26, G:0.26, T:0.13
Consensus pattern (23 bp):
TATCGAGAAGCTCACGAAGAGCC
Found at i:99226820 original size:18 final size:20
Alignment explanation
Indices: 99226793--99226841 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
99226783 TAATTAATAA
* *
99226793 TAAAATAATAAAATATCTCAT
1 TAAAATAAT-ATATATCTAAT
99226814 TAAAATAATATATATCTAAT
1 TAAAATAATATATATCTAAT
99226834 T-AAATAAT
1 TAAAATAAT
99226842 CATAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 7 0.27
20 10 0.38
21 9 0.35
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATAATATATATCTAAT
Found at i:99226830 original size:20 final size:21
Alignment explanation
Indices: 99226793--99226852 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
99226783 TAATTAATAA
*
99226793 TAAAATAATAAAATATCTCAT
1 TAAAATAATAAAATATCTAAT
*
99226814 TAAAATAAT-ATATATCTAAT
1 TAAAATAATAAAATATCTAAT
*
99226834 TAAATAATCATAAAATATC
1 T-AA-AATAATAAAATATC
99226853 ATCAACATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.31
21 11 0.34
22 5 0.16
23 6 0.19
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATAATAAAATATCTAAT
Found at i:99227394 original size:42 final size:42
Alignment explanation
Indices: 99227335--99227419 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
99227325 TTGCTTTCCG
99227335 TTTAGCTCTTACGAGCTTCCGTTAACTCATATGAGTTTCAGT
1 TTTAGCTCTTACGAGCTTCCGTTAACTCATATGAGTTTCAGT
99227377 TTTAGCTCTTACGAGCTTCCGTTAACTCATATGAGTTTCAGT
1 TTTAGCTCTTACGAGCTTCCGTTAACTCATATGAGTTTCAGT
99227419 T
1 T
99227420 AACCCTTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.41
Consensus pattern (42 bp):
TTTAGCTCTTACGAGCTTCCGTTAACTCATATGAGTTTCAGT
Found at i:99227422 original size:20 final size:20
Alignment explanation
Indices: 99227355--99227422 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
99227345 ACGAGCTTCC
99227355 GTTAACTCATATGAGTTTCA
1 GTTAACTCATATGAGTTTCA
* * * * *
99227375 GTTTTAGCTCTTACGAGCTTCC
1 G--TTAACTCATATGAGTTTCA
99227397 GTTAACTCATATGAGTTTCA
1 GTTAACTCATATGAGTTTCA
99227417 GTTAAC
1 GTTAAC
99227423 CCTTTTGGGG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
20 21 0.58
22 15 0.42
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (20 bp):
GTTAACTCATATGAGTTTCA
Found at i:99227499 original size:39 final size:39
Alignment explanation
Indices: 99227453--99227592 Score: 235
Period size: 39 Copynumber: 3.6 Consensus size: 39
99227443 GCTCTGATAA
*
99227453 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTGTGT
*
99227492 GCTTCAGTTAGCCTTCGGACTTCCGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTGTGT
*
99227531 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTGTGT
* *
99227570 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
99227593 AGATCATGAT
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 95 1.00
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTGTGT
Found at i:99243954 original size:31 final size:31
Alignment explanation
Indices: 99243919--99243977 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
99243909 ACAATTATTA
99243919 AACTATTCGAAAA-TTTTCATTTAAGTCATTG
1 AACTATTC-AAAAGTTTTCATTTAAGTCATTG
*
99243950 AACTATTCAAAAGTTTTTATTTAAGTCA
1 AACTATTCAAAAGTTTTCATTTAAGTCA
99243978 CTAGGCTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.42
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTCATTTAAGTCATTG
Found at i:99249340 original size:3 final size:3
Alignment explanation
Indices: 99249332--99249362 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
99249322 CCACATAGTA
99249332 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
99249363 TCCGCATAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:99249602 original size:15 final size:14
Alignment explanation
Indices: 99249582--99249628 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
99249572 TTTATCAGTA
99249582 AATAATATATAAAAT
1 AATAATAT-TAAAAT
99249597 AATAATATTGAAAAT
1 AATAATATT-AAAAT
* *
99249612 AATTATTTTAAAAT
1 AATAATATTAAAAT
99249626 AAT
1 AAT
99249629 TAAAAATGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 9 0.31
15 20 0.69
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
AATAATATTAAAAT
Found at i:99249987 original size:5 final size:5
Alignment explanation
Indices: 99249977--99250009 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
99249967 CAAATTACTT
99249977 ATATA ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATA
99250010 GAGGTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:99258142 original size:21 final size:21
Alignment explanation
Indices: 99258107--99258161 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 21
99258097 TTTAGTTTTC
99258107 GTTTGATGTCACTAAAATTAGTT
1 GTTTGAT-T-ACTAAAATTAGTT
* *
99258130 GTTTGTTTACTAAATTTAGTT
1 GTTTGATTACTAAAATTAGTT
99258151 GTTTGATTACT
1 GTTTGATTACT
99258162 CGTTATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 22 0.76
22 1 0.03
23 6 0.21
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.51
Consensus pattern (21 bp):
GTTTGATTACTAAAATTAGTT
Found at i:99261812 original size:14 final size:14
Alignment explanation
Indices: 99261789--99261818 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
99261779 TTGAAAATAT
99261789 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
99261803 GTTGATTTGGATTG
1 GTTGAATTGGATTG
99261817 GT
1 GT
99261819 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:99265705 original size:18 final size:18
Alignment explanation
Indices: 99265682--99265722 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
99265672 TACTTTTCTC
99265682 TTTCTA-TCACAATTCCAA
1 TTTCTATTCACAATT-CAA
*
99265700 TTTCTATTCATAATTCAA
1 TTTCTATTCACAATTCAA
99265718 TTTCT
1 TTTCT
99265723 TTTTTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCTATTCACAATTCAA
Found at i:99265886 original size:39 final size:39
Alignment explanation
Indices: 99265833--99265967 Score: 107
Period size: 39 Copynumber: 3.4 Consensus size: 39
99265823 ACCAATATGG
* *
99265833 CACCTAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
99265872 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
99265910 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATTTAG-TGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAA--TAGTTGA
*
99265951 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
99265968 ACTCGAGGTC
Statistics
Matches: 74, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
38 19 0.26
39 34 0.46
40 3 0.04
41 16 0.22
42 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:99266910 original size:25 final size:24
Alignment explanation
Indices: 99266865--99266920 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 24
99266855 CCCTATTTTC
* * *
99266865 TCTTTTTCTTTCTTTTTTTTTACT
1 TCTTTTACTTTCATTTGTTTTACT
*
99266889 TCTTTTACGTTTCATTTGTTTTATT
1 TCTTTTAC-TTTCATTTGTTTTACT
*
99266914 TATTTTA
1 TCTTTTA
99266921 TGTTATATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.11, C:0.12, G:0.04, T:0.73
Consensus pattern (24 bp):
TCTTTTACTTTCATTTGTTTTACT
Found at i:99272097 original size:14 final size:14
Alignment explanation
Indices: 99272074--99272103 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
99272064 TTGAAAATAT
99272074 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
99272088 GTTGATTTGGATTG
1 GTTGAATTGGATTG
99272102 GT
1 GT
99272104 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:99273813 original size:17 final size:17
Alignment explanation
Indices: 99273791--99273834 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
99273781 ACAGGGAAGG
99273791 AAAGAAAGAAAAAGAGA
1 AAAGAAAGAAAAAGAGA
99273808 AAAGAAAGAAAAAGAGA
1 AAAGAAAGAAAAAGAGA
*
99273825 AAGGAAAGAA
1 AAAGAAAGAA
99273835 GAAAACAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
AAAGAAAGAAAAAGAGA
Found at i:99274334 original size:51 final size:51
Alignment explanation
Indices: 99274249--99274363 Score: 167
Period size: 51 Copynumber: 2.3 Consensus size: 51
99274239 TTGTGTCGAC
* * *
99274249 TACTGTTACTGTTCCGGATTCGTTTCGAAGAGGTACTCTGTACTTTACTGT
1 TACTGTTACTGTTCCGGATTCGTTCCGAAAAGGTACTCTGTACCTTACTGT
* *
99274300 TACTGTTACTGTTTCGGATTTGTTCCGAAAAGGTACTCTGTACCTTACTGT
1 TACTGTTACTGTTCCGGATTCGTTCCGAAAAGGTACTCTGTACCTTACTGT
* *
99274351 TACTATTAATGTT
1 TACTGTTACTGTT
99274364 ACTGTTCCGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.43
Consensus pattern (51 bp):
TACTGTTACTGTTCCGGATTCGTTCCGAAAAGGTACTCTGTACCTTACTGT
Found at i:99274354 original size:57 final size:59
Alignment explanation
Indices: 99274289--99274429 Score: 180
Period size: 57 Copynumber: 2.4 Consensus size: 59
99274279 AGGTACTCTG
* * * *
99274289 TACT-TTACTGTTACTGTTACTGTTTCGGATTTGTTCCGAAAAGGTAC-TCTGTACC-T
1 TACTGTTACTATTAATGTTACTGTTCCGGATTTGTTCCGAAAAGGTACTTCTGTACCGC
** *
99274345 TACTGTTACTATTAATGTTACTGTTCCGGATTTGTTCCGATGAGGTACTTTGTGTACCGC
1 TACTGTTACTATTAATGTTACTGTTCCGGATTTGTTCCGAAAAGGTAC-TTCTGTACCGC
*
99274405 TACTGTTACTATTATTGTTACTGTT
1 TACTGTTACTATTAATGTTACTGTT
99274430 ACCGTTACTG
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
56 4 0.05
57 38 0.52
59 7 0.10
60 24 0.33
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (59 bp):
TACTGTTACTATTAATGTTACTGTTCCGGATTTGTTCCGAAAAGGTACTTCTGTACCGC
Found at i:99274585 original size:18 final size:18
Alignment explanation
Indices: 99274562--99274596 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
99274552 TATTAAAGAC
99274562 TGACTGCTACTGAATAAT
1 TGACTGCTACTGAATAAT
*
99274580 TGACTGTTACTGAATAA
1 TGACTGCTACTGAATAA
99274597 ATCATTGTTA
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:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (18 bp):
TGACTGCTACTGAATAAT
Found at i:99274605 original size:18 final size:18
Alignment explanation
Indices: 99274564--99274610 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
99274554 TTAAAGACTG
* * *
99274564 ACTGCTACTGAATAATTG
1 ACTGTTACTGAATAAATC
99274582 ACTGTTACTGAATAAATC
1 ACTGTTACTGAATAAATC
*
99274600 ATTGTTACTGA
1 ACTGTTACTGA
99274611 TTAACCAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (18 bp):
ACTGTTACTGAATAAATC
Found at i:99278073 original size:6 final size:6
Alignment explanation
Indices: 99278042--99278108 Score: 55
Period size: 6 Copynumber: 11.2 Consensus size: 6
99278032 ATAGAAGAAC
* * * * * *
99278042 AAGATG AAAATG AAGAT- AACGTTG AAGATG AATATG GAGATG GAGGTG
1 AAGATG AAGATG AAGATG AA-GATG AAGATG AAGATG AAGATG AAGATG
*
99278090 AAGGTG AAGATG AAGATG A
1 AAGATG AAGATG AAGATG A
99278109 TAATAATGAT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
5 2 0.04
6 45 0.92
7 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.34, T:0.19
Consensus pattern (6 bp):
AAGATG
Found at i:99281886 original size:20 final size:20
Alignment explanation
Indices: 99281861--99281900 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
99281851 TTTCAAAAAG
99281861 TTAGAAAAGATCAGACATGA
1 TTAGAAAAGATCAGACATGA
*
99281881 TTAGAAAAGATCGGACATGA
1 TTAGAAAAGATCAGACATGA
99281901 CTCACAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.20
Consensus pattern (20 bp):
TTAGAAAAGATCAGACATGA
Found at i:99284942 original size:5 final size:5
Alignment explanation
Indices: 99284932--99284963 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
99284922 CTATCTGTGA
99284932 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
99284964 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:99284957 original size:9 final size:9
Alignment explanation
Indices: 99284933--99284963 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
99284923 TATCTGTGAA
99284933 AAATAAAAT
1 AAATAAAAT
99284942 AAAATAAAAT
1 -AAATAAAAT
99284952 AAATAAAAT
1 AAATAAAAT
99284961 AAA
1 AAA
99284964 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:99294662 original size:21 final size:22
Alignment explanation
Indices: 99294638--99294692 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
99294628 TATAATTTAC
*
99294638 ATAAATTTTTTTTGAAATT-TT
1 ATAAATTTTTTTTAAAATTATT
* *
99294659 ATAAAATTTTATTAAAATTATT
1 ATAAATTTTTTTTAAAATTATT
*
99294681 A-AGATTTTTTTT
1 ATAAATTTTTTTT
99294693 TTCAATTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (22 bp):
ATAAATTTTTTTTAAAATTATT
Found at i:99294857 original size:8 final size:9
Alignment explanation
Indices: 99294827--99294856 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
99294817 TTTGAAACTT
99294827 TTTTATAAA
1 TTTTATAAA
99294836 TTTTATAAA
1 TTTTATAAA
99294845 TTTT-TAAA
1 TTTTATAAA
99294853 TTTT
1 TTTT
99294857 TGTAGAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTATAAA
Found at i:99295072 original size:3 final size:3
Alignment explanation
Indices: 99295064--99295094 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
99295054 TGTTTCAAGG
99295064 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
99295095 ATACTCTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:99295242 original size:29 final size:29
Alignment explanation
Indices: 99295210--99295278 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
99295200 TGAGAAATAT
* *
99295210 ATTATATATTTAATTTTTTTAAAAATTAA
1 ATTATAAATTTAATTATTTTAAAAATTAA
* *
99295239 ATTA-AAATTTTATTATTTTAAAGATTAA
1 ATTATAAATTTAATTATTTTAAAAATTAA
*
99295267 AATATAAATTTA
1 ATTATAAATTTA
99295279 TTGTATACTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 23 0.70
29 10 0.30
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (29 bp):
ATTATAAATTTAATTATTTTAAAAATTAA
Found at i:99310334 original size:72 final size:72
Alignment explanation
Indices: 99310217--99310360 Score: 234
Period size: 72 Copynumber: 2.0 Consensus size: 72
99310207 TCGAGCACAT
* * * *
99310217 TGTCGTCCAAGCCATCCACTTTTAGCTAGAATACACTCATCTACATGGGGGACCACTAAGGGACT
1 TGTCGTCCAAGCCACCCACTTTTAGCTAGAACACACTCATCTACATAGGGGACCACTAAGAGACT
99310282 ACAAAGG
66 ACAAAGG
* *
99310289 TGTCGTCCAGGCCACCCACTTTTAGCTAGAACCCACTCATCTACATAGGGGACCACTAAGAGACT
1 TGTCGTCCAAGCCACCCACTTTTAGCTAGAACACACTCATCTACATAGGGGACCACTAAGAGACT
99310354 ACAAAGG
66 ACAAAGG
99310361 CGTAACAACT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (72 bp):
TGTCGTCCAAGCCACCCACTTTTAGCTAGAACACACTCATCTACATAGGGGACCACTAAGAGACT
ACAAAGG
Found at i:99319116 original size:13 final size:12
Alignment explanation
Indices: 99319093--99319124 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
99319083 TTAATATAAC
99319093 GAAAAAGAAAGA
1 GAAAAAGAAAGA
99319105 GAAAAAGAAA-A
1 GAAAAAGAAAGA
99319116 G-AAAAGAAA
1 GAAAAAGAAA
99319125 ATAAGTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 8 0.40
11 2 0.10
12 10 0.50
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
GAAAAAGAAAGA
Done.