Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 201 of 255
Found at i:66990790 original size:104 final size:104
Alignment explanation
Indices: 66990666--66990889 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
66990656 AATGGATATC
66990666 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
66990731 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
66990770 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
66990835 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
66990874 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
66990890 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:66996001 original size:70 final size:71
Alignment explanation
Indices: 66995885--66996035 Score: 241
Period size: 72 Copynumber: 2.1 Consensus size: 71
66995875 GGGGAATCAT
*
66995885 CACTTAGCAACCCCTCGGGGGAATCAGCAATAGCAACCCCCTTTT-CATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGGAATCAGCAATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
66995949 ATATCG
66 ATATCG
* ***
66995955 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCA-ATAGCAACCCCCTTTTACATTTCAAAGATACAATG
66996020 GATATCG
65 GATATCG
66996027 CACTTAGCA
1 CACTTAGCA
66996036 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 29 0.39
71 15 0.20
72 30 0.41
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCAATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:66996067 original size:77 final size:71
Alignment explanation
Indices: 66995885--66996072 Score: 227
Period size: 72 Copynumber: 2.6 Consensus size: 71
66995875 GGGGAATCAT
* * *
66995885 CACTTAGCAACCCCTCGGGGGAATCAGCA-ATAGCAACCCCCTTTTCATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
66995949 ATATCG
66 ATATCG
* ***
66995955 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACAATG
66996020 GATATCG
65 GATATCG
*
66996027 CACTTAGC-ACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCC
1 CACTTAGCAACC-CC--T---CCGGGGAATCAGCACATAGCAACCCC
66996073 TCGGGGGAAT
Statistics
Matches: 103, Mismatches: 7, Indels: 9
0.87 0.06 0.08
Matches are distributed among these distances:
70 29 0.28
71 18 0.17
72 31 0.30
74 1 0.01
77 24 0.23
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.21
Consensus pattern (71 bp):
CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:66996078 original size:104 final size:104
Alignment explanation
Indices: 66995954--66996177 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
66995944 AATGGATATC
66995954 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
66996019 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
66996058 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
66996123 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
66996162 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
66996178 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:67007483 original size:130 final size:129
Alignment explanation
Indices: 67007318--67007667 Score: 400
Period size: 131 Copynumber: 2.7 Consensus size: 129
67007308 TATTTAGTCT
* * * * *
67007318 AACGAGAAAATCGAAACCCAGCAC-AGTAGGGCACGACTCCTCGAATTTCTAGATATCGAACATC
1 AACGAG-AAATCGCAACCCAGCACGA-TAGGGCACGATTCC-CGAATTGCCAAATATCGAACATC
* ** *
67007382 GCCTTCGCTTAAAGAATTTTTAAAGACATGGGTGAAATTCCAAAGGAATATTCGATTATTTTGAA
63 GCCTTCGCTTAAAGAATTTTTAAAAACATGAATGAAATTCCAAAGGAACATTCGATTATTTTGAA
*
67007447 CG
128 CA
* * * *
67007449 AACGGGAAATCGCAACCCAGCACGATAGGGCACGATTCCCAAATTGCCAAACATCGAGTAC-T-A
1 AACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCCCGAATTGCCAAATATCGA--ACATCG
* *
67007512 CCTTCGCTTTAAAGAGTTTTTAGAAAACATGAATGAAATTCCAAAGGGACATTCGATTATTTTGA
64 CCTTCGC-TTAAAGAATTTTTA-AAAACATGAATGAAATTCCAAAGGAACATTCGATTATTTTGA
*
67007577 GCA
127 ACA
* * * *
67007580 AACGAGAAATTGCAACTCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGC
1 AACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCC-CGAATTGCCAAATATCGAACATCGC
*
67007645 CTTCGTTTTAAAGAATTTTTAAA
65 CTTCG-CTTAAAGAATTTTTAAA
67007668 TGAACAATTG
Statistics
Matches: 183, Mismatches: 27, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
129 20 0.11
130 45 0.25
131 83 0.45
132 35 0.19
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.25
Consensus pattern (129 bp):
AACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCCCGAATTGCCAAATATCGAACATCGCC
TTCGCTTAAAGAATTTTTAAAAACATGAATGAAATTCCAAAGGAACATTCGATTATTTTGAACA
Found at i:67012543 original size:68 final size:68
Alignment explanation
Indices: 67012435--67012623 Score: 195
Period size: 68 Copynumber: 2.8 Consensus size: 68
67012425 AATCGAAAGA
* * * * *
67012435 CTGCCAGGACA-TAAACATTAATTCATAATGTGTAAGACCATAGCTCGGCTATTG-CAACATGTA
1 CTGCCAGGACATTAAACATGAATTCATAATATGTAAGACCATAGCTCGACTA-TGAAAACATATA
67012498 GAGT
65 GAGT
** * * *
67012502 CTGCCAGGACATTAAACATGGTTTCTTAATATGTAAGACCATAGCTCGATTATGAAAACATATGG
1 CTGCCAGGACATTAAACATGAATTCATAATATGTAAGACCATAGCTCGACTATGAAAACATATAG
67012567 AGT
66 AGT
* * ** * *
67012570 CTGCCAGGACATTAAACAT-AGCTTTATGTTGTGTAAGACCATAGCTCGATTATG
1 CTGCCAGGACATTAAACATGA-ATTCATAATATGTAAGACCATAGCTCGACTATG
67012624 GTAGCATGTG
Statistics
Matches: 102, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
67 13 0.13
68 89 0.87
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (68 bp):
CTGCCAGGACATTAAACATGAATTCATAATATGTAAGACCATAGCTCGACTATGAAAACATATAG
AGT
Found at i:67015836 original size:47 final size:47
Alignment explanation
Indices: 67015784--67016295 Score: 675
Period size: 47 Copynumber: 10.6 Consensus size: 47
67015774 GATAATTGTG
* *
67015784 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
67015831 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
67015878 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
67015927 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG-
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
67015973 ATGTGAAAGTGTATATATGTGATGTATATATGTGATAAGGCCTAATGGCCTATGTGATGA
1 ATGTGAAAGTGTATATA--TG-TG-ATA-A---G----GCCT-AATGGCCGATGTGATGA
* *
67016033 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
67016080 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
67016129 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
67016176 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
67016223 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGTCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
67016270 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
67016296 TCCCGAAGGG
Statistics
Matches: 416, Mismatches: 31, Indels: 36
0.86 0.06 0.07
Matches are distributed among these distances:
46 17 0.04
47 256 0.62
48 4 0.01
49 92 0.22
50 3 0.01
51 1 0.00
52 1 0.00
54 1 0.00
55 1 0.00
56 3 0.01
57 2 0.00
58 4 0.01
59 14 0.03
60 17 0.04
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:67015891 original size:96 final size:96
Alignment explanation
Indices: 67015784--67016295 Score: 750
Period size: 96 Copynumber: 5.3 Consensus size: 96
67015774 GATAATTGTG
67015784 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
67015847 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
67015878 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
67015943 ATGTGATAAGGCCTAATAGCCGATGTGATG-
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
*
67015973 ATGTGAAAGTGTATATATGTGATGTATATATGTGATAAGGCCTAATGGCCTATGTGATGAATGTG
1 ATGTGAAA--G------TGT-A--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
67016038 AAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
55 AAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
67016080 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
67016145 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
*
67016176 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * *
67016239 ATGTGACAGGGCCGAGTGTCCAACGTGATGG
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
67016270 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
67016296 TCCCGAAGGG
Statistics
Matches: 380, Mismatches: 22, Indels: 32
0.88 0.05 0.07
Matches are distributed among these distances:
94 98 0.26
95 11 0.03
96 175 0.46
97 1 0.00
98 1 0.00
99 3 0.01
103 3 0.01
104 1 0.00
105 1 0.00
106 78 0.21
107 8 0.02
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:67016000 original size:13 final size:13
Alignment explanation
Indices: 67015982--67016008 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
67015972 GATGTGAAAG
67015982 TGTATATATGTGA
1 TGTATATATGTGA
67015995 TGTATATATGTGA
1 TGTATATATGTGA
67016008 T
1 T
67016009 AAGGCCTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTATATATGTGA
Found at i:67016005 original size:59 final size:60
Alignment explanation
Indices: 67015936--67016055 Score: 215
Period size: 59 Copynumber: 2.0 Consensus size: 60
67015926 AATGTGAAAG
67015936 TGTATATATGTGATAAGGCCTAATAGCCGATGTGATG-ATGTGAAAGTGTATATATGTGA
1 TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
67015995 TGTATATATGTGATAAGGCCTAATGGCCTATGTGATGAATGTGAAAGTGTATATATGTGA
1 TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
67016055 T
1 T
67016056 AAGGCCGAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
59 35 0.60
60 23 0.40
ACGTcount: A:0.32, C:0.07, G:0.27, T:0.35
Consensus pattern (60 bp):
TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:67016012 original size:202 final size:200
Alignment explanation
Indices: 67015790--67016295 Score: 822
Period size: 202 Copynumber: 2.6 Consensus size: 200
67015780 TGTGATGTGA
*
67015790 ATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
1 ATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
67015855 AGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
66 AGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
67015920 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG-ATGTGAAAGTG
131 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
67015984 TATAT
196 TATAT
*
67015989 ATGTGATGTATATATGTGATAAGGCCTAATGGCCTATGTGATGAATGTGAAAGTGTATATATGTG
1 A--TG-TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
67016054 ATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
63 ATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
67016119 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
128 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
67016184 GTGTATAT
193 GTGTATAT
*
67016192 ATGTG-----A--TG---AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACA
1 ATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
* * * * *
67016247 GGGCCGAGTGTCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 AGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
67016296 TCCCGAAGGG
Statistics
Matches: 294, Mismatches: 9, Indels: 19
0.91 0.03 0.06
Matches are distributed among these distances:
188 10 0.03
189 1 0.00
190 78 0.27
193 2 0.01
195 1 0.00
199 1 0.00
200 2 0.01
201 4 0.01
202 178 0.61
203 17 0.06
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (200 bp):
ATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
AGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
TATAT
Found at i:67020293 original size:20 final size:20
Alignment explanation
Indices: 67020268--67020311 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
67020258 GTAGTTATTA
67020268 ATTTCAACAATGCTATTTTC
1 ATTTCAACAATGCTATTTTC
67020288 ATTTCAACAATGCTATTTTC
1 ATTTCAACAATGCTATTTTC
67020308 ATTT
1 ATTT
67020312 GAAAGCGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.48
Consensus pattern (20 bp):
ATTTCAACAATGCTATTTTC
Found at i:67023829 original size:32 final size:29
Alignment explanation
Indices: 67023788--67023854 Score: 80
Period size: 32 Copynumber: 2.2 Consensus size: 29
67023778 GAACTGTTCA
* *
67023788 GAAAATTTTAATTATGCCCTCTCAAATTTTTT
1 GAAAATTTTAAATAT-CACT-TCAAA-TTTTT
*
67023820 GAAAATTTTAAATCTCACTTCAAATTTTT
1 GAAAATTTTAAATATCACTTCAAATTTTT
67023849 GAAAAT
1 GAAAAT
67023855 CTTATTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 11 0.34
30 5 0.16
31 3 0.09
32 13 0.41
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.43
Consensus pattern (29 bp):
GAAAATTTTAAATATCACTTCAAATTTTT
Found at i:67025074 original size:20 final size:21
Alignment explanation
Indices: 67025017--67025075 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
67025007 TGATGTAGAA
* *
67025017 TTTTTT-TTTATTTTTTTAAC
1 TTTTTTATATATTTTTATAAC
67025037 TTTTTTATATATTCTTTATAA-
1 TTTTTTATATATT-TTTATAAC
67025058 TTTTTCTATA-ATTTTTAT
1 TTTTT-TATATATTTTTAT
67025076 TTTTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 11 0.32
21 13 0.38
22 10 0.29
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTTTATATATTTTTATAAC
Found at i:67026881 original size:25 final size:25
Alignment explanation
Indices: 67026847--67026917 Score: 99
Period size: 25 Copynumber: 2.8 Consensus size: 25
67026837 GGGACGGTGG
* *
67026847 AATTATTTAATA-TAATTATAATTAT
1 AATTATTTAATATTAA-TATAATAAC
67026872 AATTATTTAATATTAATATAATAAC
1 AATTATTTAATATTAATATAATAAC
*
67026897 AATGATTTAATATTAATATAA
1 AATTATTTAATATTAATATAA
67026918 AATTTAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
25 39 0.93
26 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (25 bp):
AATTATTTAATATTAATATAATAAC
Found at i:67030859 original size:22 final size:24
Alignment explanation
Indices: 67030816--67030860 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
67030806 GTGTTGCAAT
*
67030816 TATTTTATATTTTATAATAATAAA
1 TATTTTATATTTTATAAAAATAAA
67030840 TATTTTAT-TTTTA-AAAAATAA
1 TATTTTATATTTTATAAAAATAA
67030861 TTTTCGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 5 0.25
24 8 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TATTTTATATTTTATAAAAATAAA
Found at i:67035734 original size:14 final size:14
Alignment explanation
Indices: 67035715--67035741 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
67035705 CGCGAAAACT
67035715 AAGAAAGATAAAAA
1 AAGAAAGATAAAAA
67035729 AAGAAAGATAAAA
1 AAGAAAGATAAAA
67035742 TTTTTAATAA
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:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (14 bp):
AAGAAAGATAAAAA
Found at i:67036549 original size:19 final size:18
Alignment explanation
Indices: 67036500--67036551 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
67036490 TAACTTTTAC
*
67036500 ATAATTATAAATTTAAAA
1 ATAATTATTAATTTAAAA
* *
67036518 ATATTTTTATAATTTAAAA
1 ATAATTAT-TAATTTAAAA
67036537 ATAATTAATTAATTT
1 ATAATT-ATTAATTT
67036552 TATGAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 6 0.22
19 20 0.74
20 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATAATTATTAATTTAAAA
Found at i:67036563 original size:19 final size:19
Alignment explanation
Indices: 67036541--67036589 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
67036531 TTAAAAATAA
67036541 TTAATTAATTTTATGA-ATT
1 TTAA-TAATTTTATGATATT
* *
67036560 TTAAGAACTTTATGATATT
1 TTAATAATTTTATGATATT
*
67036579 TTTATAATTTT
1 TTAATAATTTT
67036590 TTAAAAATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (19 bp):
TTAATAATTTTATGATATT
Found at i:67037516 original size:9 final size:9
Alignment explanation
Indices: 67037500--67037569 Score: 113
Period size: 9 Copynumber: 7.8 Consensus size: 9
67037490 GGTATTTTTC
67037500 GGTAATTCG
1 GGTAATTCG
*
67037509 GTTAATTCG
1 GGTAATTCG
*
67037518 GTTAATTCG
1 GGTAATTCG
*
67037527 GTTAATTCG
1 GGTAATTCG
67037536 GGTAATTCG
1 GGTAATTCG
67037545 GGTAATTCG
1 GGTAATTCG
67037554 GGTAATTCG
1 GGTAATTCG
67037563 GGTAATT
1 GGTAATT
67037570 TTTAACCAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.39
Consensus pattern (9 bp):
GGTAATTCG
Found at i:67038638 original size:173 final size:173
Alignment explanation
Indices: 67038349--67038699 Score: 693
Period size: 173 Copynumber: 2.0 Consensus size: 173
67038339 TTCTTTGCTA
67038349 TTAGAATTATTTTCGAAAGTTAATATTTATTAGTCTTTATTTGCAAAGATGGCATATTGATTTTA
1 TTAGAATTATTTTCGAAAGTTAATATTTATTAGTCTTTATTTGCAAAGATGGCATATTGATTTTA
67038414 GAAATAAATCCATTTAAAGGGAAATTTGATTTCATCTAATGATGAAGTCTTATTCTAATCAGATA
66 GAAATAAATCCATTTAAAGGGAAATTTGATTTCATCTAATGATGAAGTCTTATTCTAATCAGATA
67038479 TGACTTTTAACATGACTATTTAGAGTGATTGATACATAAACGG
131 TGACTTTTAACATGACTATTTAGAGTGATTGATACATAAACGG
67038522 TTAGAATTATTTTCGAAAGTTAATATTTATTAGTCTTTATTTGCAAAGATGGCATATTGATTTTA
1 TTAGAATTATTTTCGAAAGTTAATATTTATTAGTCTTTATTTGCAAAGATGGCATATTGATTTTA
67038587 GAAATAAATCCATTTAAAGGGAAATTTGATTTCATCTAATGATGAAGTCTTATTCTAATCAGATA
66 GAAATAAATCCATTTAAAGGGAAATTTGATTTCATCTAATGATGAAGTCTTATTCTAATCAGATA
67038652 TGACTTTTAACATGACTATTTAGAGTGATTGATACATAAACGG
131 TGACTTTTAACATGACTATTTAGAGTGATTGATACATAAACGG
*
67038695 ATAGA
1 TTAGA
67038700 GTGAAATTTA
Statistics
Matches: 177, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
173 177 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (173 bp):
TTAGAATTATTTTCGAAAGTTAATATTTATTAGTCTTTATTTGCAAAGATGGCATATTGATTTTA
GAAATAAATCCATTTAAAGGGAAATTTGATTTCATCTAATGATGAAGTCTTATTCTAATCAGATA
TGACTTTTAACATGACTATTTAGAGTGATTGATACATAAACGG
Found at i:67054763 original size:12 final size:12
Alignment explanation
Indices: 67054742--67054781 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
67054732 AAAACCTGTC
*
67054742 AAAAGCAAATAA
1 AAAAGAAAATAA
*
67054754 AAAAGAAAATTAG
1 AAAAGAAAA-TAA
67054767 AAAAGAAAATAA
1 AAAAGAAAATAA
67054779 AAA
1 AAA
67054782 TTTAAATTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.78, C:0.03, G:0.10, T:0.10
Consensus pattern (12 bp):
AAAAGAAAATAA
Found at i:67061548 original size:25 final size:25
Alignment explanation
Indices: 67061515--67061565 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
67061505 ACATCATCAA
67061515 CAAAATTAGGGTCACACAGCCAAGT
1 CAAAATTAGGGTCACACAGCCAAGT
**
67061540 CAAAATTAGGGTCACATGGCCAAGT
1 CAAAATTAGGGTCACACAGCCAAGT
67061565 C
1 C
67061566 TCACGCCCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.18
Consensus pattern (25 bp):
CAAAATTAGGGTCACACAGCCAAGT
Found at i:67062870 original size:48 final size:48
Alignment explanation
Indices: 67062795--67062991 Score: 200
Period size: 48 Copynumber: 4.1 Consensus size: 48
67062785 CACATGGTAG
* * * *
67062795 GATGTCAATACCATATT-CCAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCAT-TTCCCAGACATGGTCTTACATGGGATCACAGATC
* * * **
67062843 GATGCCAATGTCATTTCCCAGACATGGTCTTATAGGGGATCGTAGATC
1 GATGCCAATGCCATTTCCCAGACATGGTCTTACATGGGATCACAGATC
* * * ***
67062891 GATGCCAACGCCATGTCCCAGACATGGTCTTATATGGGATTGTAGATC
1 GATGCCAATGCCATTTCCCAGACATGGTCTTACATGGGATCACAGATC
* * *
67062939 GATGCCGATGCCATGTT-CTAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCAT-TTCCCAGACATGGTCTTACATGGGATCACAGATC
67062987 GATGC
1 GATGC
67062992 TGATAGCCCA
Statistics
Matches: 124, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
47 2 0.02
48 121 0.98
49 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (48 bp):
GATGCCAATGCCATTTCCCAGACATGGTCTTACATGGGATCACAGATC
Found at i:67063661 original size:11 final size:11
Alignment explanation
Indices: 67063647--67063674 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
67063637 GTAACAGATG
67063647 TTAAACACACA
1 TTAAACACACA
67063658 TTAAACACACA
1 TTAAACACACA
67063669 TTAAAC
1 TTAAAC
67063675 TTTCATATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.25, G:0.00, T:0.21
Consensus pattern (11 bp):
TTAAACACACA
Found at i:67066758 original size:101 final size:101
Alignment explanation
Indices: 67066583--67066785 Score: 379
Period size: 101 Copynumber: 2.0 Consensus size: 101
67066573 TTCCATCATC
*
67066583 TATTCTAGACATTTAAGCCACTTATTGAAGGGTTCTTGCACTACAAATCTAGTGCCTAGATAGAT
1 TATTCTAGACATTTAAGCCACTTATTGAAGGGTTCATGCACTACAAATCTAGTGCCTAGATAGAT
*
67066648 AGCACATTCTTGTATATGAAGTATAAGGAGAAACTT
66 AGCACATTCTTGTATACGAAGTATAAGGAGAAACTT
67066684 TATTCTAGACATTTAAGCCACTTATTGAAGGGTTCATGCACTACAAATCTAGTGCCTAGATAGAT
1 TATTCTAGACATTTAAGCCACTTATTGAAGGGTTCATGCACTACAAATCTAGTGCCTAGATAGAT
*
67066749 AGCACATTCTTGTATGCGAAGTATAAGGAGAAACTT
66 AGCACATTCTTGTATACGAAGTATAAGGAGAAACTT
67066785 T
1 T
67066786 TTGTAACTAT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (101 bp):
TATTCTAGACATTTAAGCCACTTATTGAAGGGTTCATGCACTACAAATCTAGTGCCTAGATAGAT
AGCACATTCTTGTATACGAAGTATAAGGAGAAACTT
Found at i:67071172 original size:44 final size:44
Alignment explanation
Indices: 67071112--67071199 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
67071102 TATGTATGAG
* *
67071112 GCATCCGAGCTTGTTGAGTTGGTCCAAGTTCATTATGGATGCGA
1 GCATCCAAGCTCGTTGAGTTGGTCCAAGTTCATTATGGATGCGA
*
67071156 GCATCCAAGCTCGTTGAGTTGGTCCTAGTTCATTATGGATGCGA
1 GCATCCAAGCTCGTTGAGTTGGTCCAAGTTCATTATGGATGCGA
67071200 TACATGTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.32
Consensus pattern (44 bp):
GCATCCAAGCTCGTTGAGTTGGTCCAAGTTCATTATGGATGCGA
Found at i:67076838 original size:19 final size:21
Alignment explanation
Indices: 67076814--67076855 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
67076804 TTATGGCAAA
67076814 TACATGGG-GT-TGAAGAGGC
1 TACATGGGAGTCTGAAGAGGC
*
67076833 TACATGGGAGTCTGAGGAGGC
1 TACATGGGAGTCTGAAGAGGC
67076854 TA
1 TA
67076856 TGAGGAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 2 0.10
21 10 0.50
ACGTcount: A:0.26, C:0.12, G:0.40, T:0.21
Consensus pattern (21 bp):
TACATGGGAGTCTGAAGAGGC
Found at i:67081545 original size:72 final size:72
Alignment explanation
Indices: 67081428--67081571 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
67081418 CCTTATTTTA
*
67081428 ATGAGATTGATAGCAGGAATGAGGAGTATAAACTCCTCAAACCACCATGATCATTCAACAGAGAG
1 ATGAGATTGATAGCAGGAATGAAGAGTATAAACTCCTCAAACCACCATGATCATTCAACAGAGAG
67081493 GTAAGTC
66 GTAAGTC
67081500 ATGAGATTGATAGCAGGAATGAAGAGTATAAACTCCTCAAACCACCATGATCATTCAACAGAGAG
1 ATGAGATTGATAGCAGGAATGAAGAGTATAAACTCCTCAAACCACCATGATCATTCAACAGAGAG
67081565 GTAAGTC
66 GTAAGTC
67081572 GAGCTTAGAC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.21
Consensus pattern (72 bp):
ATGAGATTGATAGCAGGAATGAAGAGTATAAACTCCTCAAACCACCATGATCATTCAACAGAGAG
GTAAGTC
Found at i:67086458 original size:14 final size:14
Alignment explanation
Indices: 67086439--67086466 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
67086429 AGTTTGCAAA
67086439 CTGCTTAGATCTAT
1 CTGCTTAGATCTAT
67086453 CTGCTTAGATCTAT
1 CTGCTTAGATCTAT
67086467 ATATGAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (14 bp):
CTGCTTAGATCTAT
Found at i:67088750 original size:10 final size:10
Alignment explanation
Indices: 67088735--67088773 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
67088725 TGCTTTTGTA
67088735 CATGATATGC
1 CATGATATGC
67088745 CATGATATGC
1 CATGATATGC
67088755 ACATGATATGC
1 -CATGATATGC
67088766 CATGATAT
1 CATGATAT
67088774 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:67088759 original size:21 final size:21
Alignment explanation
Indices: 67088734--67088773 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
67088724 CTGCTTTTGT
67088734 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
67088755 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
67088774 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:67091695 original size:18 final size:19
Alignment explanation
Indices: 67091661--67091697 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
67091651 TTATGGATAG
*
67091661 TTAATTAAAGTTTAATTAA
1 TTAATTAAAGGTTAATTAA
67091680 TTAATT-AAGGTTAATTAA
1 TTAATTAAAGGTTAATTAA
67091698 CTTTTAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (19 bp):
TTAATTAAAGGTTAATTAA
Found at i:67107718 original size:22 final size:22
Alignment explanation
Indices: 67107674--67107718 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
67107664 TTTGACGACG
* *
67107674 TGGAAGAAGTGGCATCACGACA
1 TGGAAGAAGTGACATCACAACA
* *
67107696 TGGAAGAAGTGACGTCATAACA
1 TGGAAGAAGTGACATCACAACA
67107718 T
1 T
67107719 TGACCTTGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.29, T:0.18
Consensus pattern (22 bp):
TGGAAGAAGTGACATCACAACA
Found at i:67124609 original size:20 final size:20
Alignment explanation
Indices: 67124573--67124610 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
67124563 TTAAAATAAA
*
67124573 ATAAAAGTAAAAGTAAAAAC
1 ATAAAAGTAAAAATAAAAAC
67124593 ATAAAA-TAATAAATAAAA
1 ATAAAAGTAA-AAATAAAA
67124611 GTTTTTAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (20 bp):
ATAAAAGTAAAAATAAAAAC
Found at i:67133321 original size:87 final size:87
Alignment explanation
Indices: 67133175--67133351 Score: 336
Period size: 87 Copynumber: 2.0 Consensus size: 87
67133165 ATAATACACA
* *
67133175 AAAGTTTATCTCATTTTAAAAATGTCAAGTATTGTTGTCGGATTCATCCGTTAACTTCATCATTG
1 AAAGTTTATCTCATTTTAAAAATGTCAAGTATTGCTGCCGGATTCATCCGTTAACTTCATCATTG
67133240 TACACATGGATATGCTTTTAAT
66 TACACATGGATATGCTTTTAAT
67133262 AAAGTTTATCTCATTTTAAAAATGTCAAGTATTGCTGCCGGATTCATCCGTTAACTTCATCATTG
1 AAAGTTTATCTCATTTTAAAAATGTCAAGTATTGCTGCCGGATTCATCCGTTAACTTCATCATTG
67133327 TACACATGGATATGCTTTTAAT
66 TACACATGGATATGCTTTTAAT
67133349 AAA
1 AAA
67133352 TTTTCTATTC
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.40
Consensus pattern (87 bp):
AAAGTTTATCTCATTTTAAAAATGTCAAGTATTGCTGCCGGATTCATCCGTTAACTTCATCATTG
TACACATGGATATGCTTTTAAT
Found at i:67137100 original size:27 final size:27
Alignment explanation
Indices: 67137070--67137247 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
67137060 ATATTGAGTC
* * * *
67137070 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
67137097 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
67137124 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
67137152 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
67137179 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
67137206 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
67137233 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
67137248 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:67137209 original size:82 final size:81
Alignment explanation
Indices: 67137091--67137246 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
67137081 TGCTATATAA
* *
67137091 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
67137156 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
67137173 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
67137237 CACTTAGTGC
65 CACTTAGTGC
67137247 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:67145184 original size:27 final size:27
Alignment explanation
Indices: 67145154--67145331 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
67145144 ATATTGAGTC
* *
67145154 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
67145181 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
67145208 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
67145236 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
67145263 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
67145290 CACACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
67145317 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
67145332 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:67145296 original size:82 final size:81
Alignment explanation
Indices: 67145175--67145330 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
67145165 TGCTATATAA
* * *
67145175 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCACACACTTAGTGCAACATAGTCAAA-TCGCA
67145240 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
67145257 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCACACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCACACACTTAGTGCAACATAGTCAAATCGCA
67145321 CACTTAGTGC
65 CACTTAGTGC
67145331 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCACACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:67151896 original size:47 final size:47
Alignment explanation
Indices: 67151843--67151972 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 47
67151833 GTATGAATAA
* * *
67151843 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCAC-TGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTC-CGGGAGAAGT
* *
67151890 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGAGAAGT
* * **
67151937 TACCTTAATTTGGCTATGGGTTATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
67151973 TATCTATTGT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 1 0.01
47 71 0.99
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGAGAAGT
Found at i:67174205 original size:40 final size:40
Alignment explanation
Indices: 67174161--67174388 Score: 375
Period size: 40 Copynumber: 5.7 Consensus size: 40
67174151 GCAAACACAT
* * *
67174161 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
67174201 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
67174241 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
67174281 TTGCCTTCGGGTCATAGCCCGGACATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
67174321 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
67174361 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
67174389 TCCAATGCTC
Statistics
Matches: 180, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 180 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:67177627 original size:29 final size:28
Alignment explanation
Indices: 67177568--67177628 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
67177558 TTCAAATTAT
* *
67177568 TGGTTAAATTGTGAAATATGAAAACTTTG
1 TGGTTAAAATGTGAAATATGAAAAC-ATG
67177597 TGGTTAAAATGTGAAATAAATGAAAA-ATG
1 TGGTTAAAATGTGAAAT--ATGAAAACATG
67177626 TGG
1 TGG
67177629 GCTACTAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 21 0.75
31 7 0.25
ACGTcount: A:0.43, C:0.02, G:0.23, T:0.33
Consensus pattern (28 bp):
TGGTTAAAATGTGAAATATGAAAACATG
Found at i:67179752 original size:94 final size:94
Alignment explanation
Indices: 67179623--67179837 Score: 238
Period size: 94 Copynumber: 2.3 Consensus size: 94
67179613 AAGCTAACAC
**
67179623 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGC-AACCTCGATGCATGTCCCAGACATGT
1 CATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCGAACCT-GATGCATGTCCCAGACATGT
67179687 CCTACACTAGCTCTCGTCTCAATGCTGATG
65 CCTACACTAGCTCTCGTCTCAATGCTGATG
* * * * * ** *
67179717 CATGTCCTATACATGTCTTACACTGGCTTAAATATCTCGAGGCTGATGCATGTCCCAGACGTGTC
1 CATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCGAACCTGATGCATGTCCCAGACATGTC
* * * *
67179782 TTACACTAGCTCTCATACT--GTGGTTGATG
66 CTACACTAGCTCTCGT-CTCAAT-GCTGATG
* *
67179811 CATGTCCCAGACATGTCTTATACTAGC
1 CATGTCCCAGACAGGTCTTACACTAGC
67179838 ACACATATCA
Statistics
Matches: 100, Mismatches: 18, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
93 1 0.01
94 94 0.94
95 5 0.05
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (94 bp):
CATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCGAACCTGATGCATGTCCCAGACATGTC
CTACACTAGCTCTCGTCTCAATGCTGATG
Found at i:67179819 original size:46 final size:47
Alignment explanation
Indices: 67179623--67179837 Score: 190
Period size: 48 Copynumber: 4.6 Consensus size: 47
67179613 AAGCTAACAC
* * ***
67179623 CATGTCCCAGACAGGTCTTACACTAGCT-TGTATA-TCGCAACCTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATACTCG-TGGCT-GATG
* * *
67179671 CATGTCCCAGACATGTCCTACACTAGCTCTCGT-CTCAAT-GCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATACTC-GTGGCTGATG
* * * * *
67179717 CATGTCCTATACATGTCTTACACTGGCT-TAAATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATA-CTCGTGGCTGATG
* *
67179765 CATGTCCCAGACGTGTCTTACACTAGCTCTCATACT-GTGGTTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATACTCGTGGCTGATG
*
67179811 CATGTCCCAGACATGTCTTATACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
67179838 ACACATATCA
Statistics
Matches: 135, Mismatches: 24, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
45 1 0.01
46 62 0.46
47 4 0.03
48 66 0.49
49 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATACTCGTGGCTGATG
Found at i:67181137 original size:29 final size:28
Alignment explanation
Indices: 67181090--67181144 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
67181080 AAGTTATACC
67181090 GATTTGGCTTCCGGCCATGATTATCAACT
1 GATTTGGCTTCCGGCCATGA-TATCAACT
*
67181119 GATTTGGCTT-CGAGTCATGATATCAA
1 GATTTGGCTTCCG-GCCATGATATCAA
67181145 TACTTCGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (28 bp):
GATTTGGCTTCCGGCCATGATATCAACT
Found at i:67190237 original size:34 final size:34
Alignment explanation
Indices: 67190199--67190270 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
67190189 GTGACAGTCC
* *
67190199 AGTATCAGT-TAGGGCCGT-AGCCCATTACAGTATT
1 AGTATCAGTGT-GGGCC-TCAGCCCAATACAGTAAT
67190233 AGTATCAGTGTGGGCCTCAGCCCAATACAGTAAT
1 AGTATCAGTGTGGGCCTCAGCCCAATACAGTAAT
67190267 AGTA
1 AGTA
67190271 ACATTAATGC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 1 0.03
34 32 0.94
35 1 0.03
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (34 bp):
AGTATCAGTGTGGGCCTCAGCCCAATACAGTAAT
Found at i:67193001 original size:47 final size:48
Alignment explanation
Indices: 67192893--67193066 Score: 187
Period size: 47 Copynumber: 3.7 Consensus size: 48
67192883 CGTGTAAGCC
* * * **
67192893 AGTGTAAGACCATATCCGGGACATGGCATCGG-CATTGAGATGAGGGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-AGAGATGATAGCT
*
67192941 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAAGAGATGATAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAAGAGATGATAGCT
* * ** *
67192987 AGTGTAAGACCATGTCTGGGACATGGCATTGACTTA-AGCT-ATGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAAGAGATGAT-AGCT
*
67193034 AGTGTAAGACTATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
67193067 ACTTAACCCA
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
46 27 0.25
47 64 0.60
48 16 0.15
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAAGAGATGATAGCT
Found at i:67193015 original size:94 final size:94
Alignment explanation
Indices: 67192893--67193066 Score: 246
Period size: 94 Copynumber: 1.8 Consensus size: 94
67192883 CGTGTAAGCC
* *
67192893 AGTGTAAGACCATATCCGGGACATGGCATCGGCATTGAG-ATGAGGGCTAGTGTAAGAC-ATGTC
1 AGTGTAAGACCATATCCGGGACATGGCATCGAC-TTAAGCATGA--GCTAGTGTAAGACTATGTC
67192956 TGGGACAT-GCATCGGCCAAGAGATGATAGTT
63 TGGGACATGGCATCGGCCAAGAGATGATAGTT
* * *
67192987 AGTGTAAGACCATGTCTGGGACATGGCATTGACTTAAGCTATGAGCTAGTGTAAGACTATGTCTG
1 AGTGTAAGACCATATCCGGGACATGGCATCGACTTAAGC-ATGAGCTAGTGTAAGACTATGTCTG
67193052 GGACATGGCATCGGC
65 GGACATGGCATCGGC
67193067 ACTTAACCCA
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
93 17 0.24
94 42 0.59
95 12 0.17
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACCATATCCGGGACATGGCATCGACTTAAGCATGAGCTAGTGTAAGACTATGTCTGG
GACATGGCATCGGCCAAGAGATGATAGTT
Found at i:67194170 original size:21 final size:22
Alignment explanation
Indices: 67194125--67194178 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
67194115 GGGTGTGGGG
*
67194125 CACGAACGTGTTACCCTTCCCA
1 CACGAGCGTGTTACCCTTCCCA
67194147 CACGAGCGTGTTACCCTT-CCA
1 CACGAGCGTGTTACCCTTCCCA
67194168 CACGAGCGTGT
1 CACGAGCGTGT
67194179 GGCCTATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 14 0.45
22 17 0.55
ACGTcount: A:0.20, C:0.37, G:0.20, T:0.22
Consensus pattern (22 bp):
CACGAGCGTGTTACCCTTCCCA
Found at i:67208292 original size:22 final size:21
Alignment explanation
Indices: 67208245--67208293 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
67208235 ATGGAGAGAA
*
67208245 TCAAAAGAAAAACTTGAAACC
1 TCAAAAGAAAAACTTCAAACC
*
67208266 CCAAAAGAAAAACCTTTCAAA-C
1 TCAAAAGAAAAA-C-TTCAAACC
67208288 TCAAAA
1 TCAAAA
67208294 CACAAAATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 11 0.48
22 7 0.30
23 5 0.22
ACGTcount: A:0.57, C:0.22, G:0.06, T:0.14
Consensus pattern (21 bp):
TCAAAAGAAAAACTTCAAACC
Found at i:67227514 original size:29 final size:29
Alignment explanation
Indices: 67227451--67227518 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
67227441 TAATCAACCG
*
67227451 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
67227480 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
67227509 CGCACACTTA
1 CGCACACTTA
67227519 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:67227630 original size:174 final size:174
Alignment explanation
Indices: 67227340--67227667 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
67227330 AACTCAAGGT
* *
67227340 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
67227405 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGCTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
67227470 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
67227514 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
67227579 GAAAATATATATTGGGCTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGCTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
67227644 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
67227668 TGTACAATTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGCTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:67227661 original size:29 final size:30
Alignment explanation
Indices: 67227627--67227698 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
67227617 ATCAACCGCG
*
67227627 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
67227656 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
67227685 CACACTTAGTGCCA
1 CACACTTAGTGCCA
67227699 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:67230113 original size:10 final size:10
Alignment explanation
Indices: 67230100--67230130 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
67230090 GCTTAAGGTT
67230100 AGTTTAATTA
1 AGTTTAATTA
67230110 AGTTTAATTA
1 AGTTTAATTA
*
67230120 AGATTAATTA
1 AGTTTAATTA
67230130 A
1 A
67230131 AAGTTAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (10 bp):
AGTTTAATTA
Found at i:67234482 original size:29 final size:26
Alignment explanation
Indices: 67234419--67234482 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 26
67234409 AGTGTGTCTT
67234419 TTTTATAATTACATTAATCATAAAAAA
1 TTTTATAATTACATTAAT-ATAAAAAA
*
67234446 TTATATAACTTACTAATTAAT-TAAAAATA
1 TTTTATAA-TTAC--ATTAATATAAAAA-A
67234475 TTTTATAA
1 TTTTATAA
67234483 ATATTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
27 7 0.23
28 10 0.32
29 8 0.26
30 6 0.19
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (26 bp):
TTTTATAATTACATTAATATAAAAAA
Found at i:67236894 original size:29 final size:29
Alignment explanation
Indices: 67236861--67236920 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
67236851 GATAGTGGAT
67236861 TTGTTGTCACAAAATATCTCTGTTGCACA
1 TTGTTGTCACAAAATATCTCTGTTGCACA
67236890 TTGTTGTCACAAAATATCTCTGTTGCACA
1 TTGTTGTCACAAAATATCTCTGTTGCACA
67236919 TT
1 TT
67236921 TCTACTCTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (29 bp):
TTGTTGTCACAAAATATCTCTGTTGCACA
Found at i:67239882 original size:6 final size:6
Alignment explanation
Indices: 67239867--67239898 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
67239857 ATCATTCCTT
*
67239867 CCTCTG CCTCTA CCTCTA CCTCTA CCTCTA CC
1 CCTCTA CCTCTA CCTCTA CCTCTA CCTCTA CC
67239899 ATAACCACGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.12, C:0.53, G:0.03, T:0.31
Consensus pattern (6 bp):
CCTCTA
Found at i:67251096 original size:26 final size:26
Alignment explanation
Indices: 67251067--67251118 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
67251057 GGGGATGGAT
67251067 TGAACTCTGTTTAACATGGCCTACTC
1 TGAACTCTGTTTAACATGGCCTACTC
67251093 TGAACTCTGTTTAACATGGCCTACTC
1 TGAACTCTGTTTAACATGGCCTACTC
67251119 CACCGGCCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (26 bp):
TGAACTCTGTTTAACATGGCCTACTC
Found at i:67262774 original size:21 final size:20
Alignment explanation
Indices: 67262735--67262787 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
67262725 AGAAAAGAAG
*
67262735 ATAAAAAAA-ATAA-GGAAA
1 ATAAAAAAATAAAAGGGAAA
*
67262753 ATAAAAGAGATAAAAGGGAAA
1 ATAAAA-AAATAAAAGGGAAA
67262774 ATAAAAAAATAAAA
1 ATAAAAAAATAAAA
67262788 AAATATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 6 0.21
19 2 0.07
20 10 0.34
21 11 0.38
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.11
Consensus pattern (20 bp):
ATAAAAAAATAAAAGGGAAA
Found at i:67275567 original size:26 final size:27
Alignment explanation
Indices: 67275521--67275578 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 27
67275511 TAATATGTTT
* *
67275521 TATTCTAAATTATTTCGTATAT-TATC
1 TATTCCAAATTATTTCCTATATATATC
67275547 TATTCCAAATT-TCTTCCTATATAATATC
1 TATTCCAAATTAT-TTCCTATAT-ATATC
67275575 TATT
1 TATT
67275579 TTAATAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 1 0.04
26 18 0.67
28 8 0.30
ACGTcount: A:0.31, C:0.16, G:0.02, T:0.52
Consensus pattern (27 bp):
TATTCCAAATTATTTCCTATATATATC
Found at i:67276350 original size:128 final size:125
Alignment explanation
Indices: 67276075--67276406 Score: 373
Period size: 128 Copynumber: 2.6 Consensus size: 125
67276065 TACAATTTTT
* * * * *
67276075 TATTTGAAAATTTACTAAAACAAAGGTAATGATT-GATGTTTGGGAACTCGAGGAATCGTGCCCT
1 TATTTCAAAA-TTCCTAAAAC-AAGGCAATG-TTCGATGTTTGGAAATTCGAGGAATCGTGCCCT
* * * *
67276139 ACTGTGCTGGGTTTCAATTTTCTGTTTGTCCAAATAATCAAATATTCCTTGAAATTTCATCCG
63 ACTGTGCTGGGTTGCAATTTCCCGTTTGTCAAAATAATCAAATATTCCTTGAAATTTCATCCG
* *
67276202 TACTTTGAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCT
1 TA-TTTCAAAATTCC-TAAAAC-AAGGCAATGTTCGATGTTTGGAAATTCGAGGAATCGTGCCCT
* * *
67276267 ATTGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCA
63 ACTGTGCTGGGTTGCAATTTCCCGTTTG-TCAAAATAATCAAATATTCCTTGA-AATTTCA-TC-
*
67276332 TG
124 CG
* * * * *
67276334 T-TTTCTAAATT-CTAAAACAAGGCAATGCTCAATGTTTAGAAATTCGAGGAATCGTACCCTACT
1 TATTTCAAAATTCCTAAAACAAGGCAATGTTCGATGTTTGGAAATTCGAGGAATCGTGCCCTACT
67276397 GTGCTGGGTT
66 GTGCTGGGTT
67276407 TCGGTTTTTT
Statistics
Matches: 176, Mismatches: 22, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
127 56 0.32
128 79 0.45
129 22 0.12
130 15 0.09
131 2 0.01
132 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (125 bp):
TATTTCAAAATTCCTAAAACAAGGCAATGTTCGATGTTTGGAAATTCGAGGAATCGTGCCCTACT
GTGCTGGGTTGCAATTTCCCGTTTGTCAAAATAATCAAATATTCCTTGAAATTTCATCCG
Found at i:67276400 original size:127 final size:127
Alignment explanation
Indices: 67276122--67276406 Score: 362
Period size: 127 Copynumber: 2.2 Consensus size: 127
67276112 GTTTGGGAAC
* * * *
67276122 TCGAGGAATCGTGCCCTACTGTGCTGGGTTTCAATTTTCTGTTTGTCCAAATAATCAAATATTCC
1 TCGAGGAATCGTGCCCTACTGTGCTGGGTTGCAATTTCCCGTTTGTCAAAATAATCAAATATTCC
* * * *
67276187 TTGAAATTTCATCCGTACTTTGAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGAAAT
66 TTGAAATTTCATCCGTA-TTTCAAAATTCCTTAAAACGAAGGCAATGCTCAATGTTTAGAAAT
* * *
67276250 TCGGGGAATCGTGCCCTATTGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTC
1 TCGAGGAATCGTGCCCTACTGTGCTGGGTTGCAATTTCCCGTTTG-TCAAAATAATCAAATATTC
* * *
67276315 CTTTAGAATTTCACTCATGT-TTTCTAAATT-C-TAAAAC-AAGGCAATGCTCAATGTTTAGAAA
65 CTTGA-AATTTCA-TC-CGTATTTCAAAATTCCTTAAAACGAAGGCAATGCTCAATGTTTAGAAA
67276376 T
127 T
*
67276377 TCGAGGAATCGTACCCTACTGTGCTGGGTT
1 TCGAGGAATCGTGCCCTACTGTGCTGGGTT
67276407 TCGGTTTTTT
Statistics
Matches: 136, Mismatches: 17, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
127 49 0.36
128 46 0.34
129 22 0.16
130 15 0.11
131 2 0.01
132 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (127 bp):
TCGAGGAATCGTGCCCTACTGTGCTGGGTTGCAATTTCCCGTTTGTCAAAATAATCAAATATTCC
TTGAAATTTCATCCGTATTTCAAAATTCCTTAAAACGAAGGCAATGCTCAATGTTTAGAAAT
Found at i:67277720 original size:9 final size:9
Alignment explanation
Indices: 67277706--67277770 Score: 94
Period size: 9 Copynumber: 7.2 Consensus size: 9
67277696 TCGGGTATTT
*
67277706 TTCGGTTAA
1 TTCGGGTAA
*
67277715 TTCGGTTAA
1 TTCGGGTAA
*
67277724 TTCGGTTAA
1 TTCGGGTAA
67277733 TTCGGGTAA
1 TTCGGGTAA
67277742 TTCGGGTAA
1 TTCGGGTAA
*
67277751 TTCGGATAA
1 TTCGGGTAA
67277760 TTCGGGTAA
1 TTCGGGTAA
67277769 TT
1 TT
67277771 TTTAACCAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.23, C:0.11, G:0.26, T:0.40
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:67277948 original size:12 final size:12
Alignment explanation
Indices: 67277931--67277955 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67277921 AGTAATTTCG
67277931 GGTCGGTTAACC
1 GGTCGGTTAACC
67277943 GGTCGGTTAACC
1 GGTCGGTTAACC
67277955 G
1 G
67277956 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:67294430 original size:60 final size:62
Alignment explanation
Indices: 67294327--67294474 Score: 174
Period size: 60 Copynumber: 2.4 Consensus size: 62
67294317 TAATTCACTA
** * *
67294327 TTTATTGTATAAAACCACACAGCCAGGGACACAGGCGTGTGCCTAGGCCGTCTAACTCACAG
1 TTTATTGTATAAAACCACATGGCCAGGAACACAGGCGTATGCCTAGGCCGTCTAACTCACAG
* * * * *
67294389 TTTA-TGTATAAAACCACATGGTCA-GAACACAGGCGTATGCCTAGGCTGTGTAACTTACTG
1 TTTATTGTATAAAACCACATGGCCAGGAACACAGGCGTATGCCTAGGCCGTCTAACTCACAG
* *
67294449 TTCATTGCATAAAATCCACATGGCCA
1 TTTATTGTATAAAA-CCACATGGCCA
67294475 AGGCATATGG
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
60 33 0.46
61 25 0.35
62 14 0.19
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (62 bp):
TTTATTGTATAAAACCACATGGCCAGGAACACAGGCGTATGCCTAGGCCGTCTAACTCACAG
Found at i:67304364 original size:17 final size:18
Alignment explanation
Indices: 67304342--67304375 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
67304332 GAACTTGTCA
*
67304342 AAATTAAGTTA-AAAAGG
1 AAATTAAATTAGAAAAGG
67304359 AAATTAAATTAGAAAAG
1 AAATTAAATTAGAAAAG
67304376 TAATATAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (18 bp):
AAATTAAATTAGAAAAGG
Found at i:67305679 original size:30 final size:30
Alignment explanation
Indices: 67305594--67305679 Score: 84
Period size: 30 Copynumber: 2.9 Consensus size: 30
67305584 GTATTTTTTT
* * *
67305594 ATTATGA-AAAAGCATGTTTATATTTATTAT
1 ATTATGAGAAAA-TATGTTTATATTAATTAC
* *
67305624 ATTATGAGAAAATATTTTTACATTAATTAC
1 ATTATGAGAAAATATGTTTATATTAATTAC
* * *
67305654 GTTATGAGAAAGTGTGTTTATATTAA
1 ATTATGAGAAAATATGTTTATATTAA
67305680 CAATCTCACG
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
30 41 0.91
31 4 0.09
ACGTcount: A:0.40, C:0.03, G:0.13, T:0.44
Consensus pattern (30 bp):
ATTATGAGAAAATATGTTTATATTAATTAC
Found at i:67308397 original size:19 final size:16
Alignment explanation
Indices: 67308357--67308390 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
67308347 TTTAAAATTA
*
67308357 AAAATAAAAATAGAGT
1 AAAATAAAAAAAGAGT
67308373 AAAATAGAAAAAAGAGT
1 AAAATA-AAAAAAGAGT
67308390 A
1 A
67308391 TGAAATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (16 bp):
AAAATAAAAAAAGAGT
Found at i:67316947 original size:49 final size:50
Alignment explanation
Indices: 67316885--67317011 Score: 179
Period size: 49 Copynumber: 2.6 Consensus size: 50
67316875 CATTAAAGTT
*
67316885 GATGCCATGTCCCAAACAGGTCTTACACTA-ACTTTCATATATCGAG-GCC
1 GATGCCATGTCCCAAACAGGTCTTACACTAGACTCTCATATATCG-GTGCC
* * *
67316934 GATGCCATCTCCCAAACAGGTCTTACAC-AGACTCTCATTTATCGGTGTC
1 GATGCCATGTCCCAAACAGGTCTTACACTAGACTCTCATATATCGGTGCC
*
67316983 GATGCCATGTCCCAGACAGGTCTTACACT
1 GATGCCATGTCCCAAACAGGTCTTACACT
67317012 GACATAGAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
48 2 0.03
49 67 0.97
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (50 bp):
GATGCCATGTCCCAAACAGGTCTTACACTAGACTCTCATATATCGGTGCC
Found at i:67319925 original size:16 final size:16
Alignment explanation
Indices: 67319906--67319938 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
67319896 ATGGCCGAGT
67319906 TAGCCTATACATGCCA
1 TAGCCTATACATGCCA
67319922 TAGCCTATACATGCCA
1 TAGCCTATACATGCCA
67319938 T
1 T
67319939 TATACCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.27
Consensus pattern (16 bp):
TAGCCTATACATGCCA
Found at i:67329115 original size:16 final size:16
Alignment explanation
Indices: 67329096--67329129 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
67329086 TTCCAACTCC
* *
67329096 ACACGGTCGTGCGGAA
1 ACACGGCCGTGCGAAA
67329112 ACACGGCCGTGCGAAA
1 ACACGGCCGTGCGAAA
67329128 AC
1 AC
67329130 GGGGTAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.32, T:0.09
Consensus pattern (16 bp):
ACACGGCCGTGCGAAA
Found at i:67341733 original size:28 final size:28
Alignment explanation
Indices: 67341686--67341777 Score: 150
Period size: 28 Copynumber: 3.3 Consensus size: 28
67341676 AAAATAACTC
*
67341686 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
*
67341714 TAGAGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
67341742 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
67341770 TAGGGGTA
1 TAGGGGTA
67341778 CTCTAGTACA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 1 0.02
28 59 0.98
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:67350245 original size:44 final size:43
Alignment explanation
Indices: 67350187--67350285 Score: 105
Period size: 43 Copynumber: 2.3 Consensus size: 43
67350177 AATGTGATAT
* * *
67350187 TCGGGCCTC-GGCCTAACAAGCTTTAA-GCTGGTGA-ATAATATTA
1 TCGGGCTTCGGGCCTAACAAGCTATAATGCCGGTGAGAT-A-A-TA
* *
67350230 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATAATA
1 TCGGGCTTCGGGCCTAACAAGCTATAATGCCGGTGAGATAATA
67350273 TCGGGCTTCGGGC
1 TCGGGCTTCGGGC
67350286 TTCAGGCCTA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
43 23 0.48
44 15 0.31
45 8 0.17
46 2 0.04
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.25
Consensus pattern (43 bp):
TCGGGCTTCGGGCCTAACAAGCTATAATGCCGGTGAGATAATA
Found at i:67350275 original size:43 final size:43
Alignment explanation
Indices: 67350223--67350358 Score: 139
Period size: 50 Copynumber: 3.0 Consensus size: 43
67350213 GCTGGTGAAT
*
67350223 AATATTATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
*
67350266 GATAATATCGGGCTTCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGA
1 AATAATATCGGGCTTC--G-----GGCCTAGCAGGCTATAATGCCGGTGA
* ** * *
67350316 AATGATATCGGGCTTCAAGCCTGGCAGGCGA-AATGCCGGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
67350358 A
1 A
67350359 TGAGTTCAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
42 12 0.15
43 25 0.32
45 1 0.01
50 40 0.51
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (43 bp):
AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
Found at i:67350284 original size:50 final size:50
Alignment explanation
Indices: 67350230--67350331 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
67350220 AATAATATTA
* *
67350230 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATAATATCGGGCT
1 TCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGCT
*
67350280 TCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCT
1 TCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGCT
67350330 TC
1 TC
67350332 AAGCCTGGCA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.25
Consensus pattern (50 bp):
TCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGCT
Found at i:67350439 original size:40 final size:41
Alignment explanation
Indices: 67350279--67350438 Score: 144
Period size: 40 Copynumber: 3.9 Consensus size: 41
67350269 AATATCGGGC
* *
67350279 TTCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATG-A
1 TTCGGGCTTAAAGCCTAGCAGGCTA-AATGCCGGTG-AATGAA
* * * *
67350321 TATCGGGCTTCAAGCCTGGCAGGCGAAATGCCGGTGAATGAG
1 T-TCGGGCTTAAAGCCTAGCAGGCTAAATGCCGGTGAATGAA
*** * ***
67350363 TTCAAACTTAAAGTCTAGCAGGCTTCGTGCCGGTG-ATGAA
1 TTCGGGCTTAAAGCCTAGCAGGCTAAATGCCGGTGAATGAA
* *
67350403 TTCGGGTTTAAAACCTAGCAGGCTAAATGCCGGTGA
1 TTCGGGCTTAAAGCCTAGCAGGCTAAATGCCGGTGA
67350439 TTTGATAAAA
Statistics
Matches: 91, Mismatches: 24, Indels: 7
0.75 0.20 0.06
Matches are distributed among these distances:
40 30 0.33
41 28 0.31
42 12 0.13
43 21 0.23
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.24
Consensus pattern (41 bp):
TTCGGGCTTAAAGCCTAGCAGGCTAAATGCCGGTGAATGAA
Found at i:67356596 original size:122 final size:122
Alignment explanation
Indices: 67356379--67356624 Score: 483
Period size: 122 Copynumber: 2.0 Consensus size: 122
67356369 CTCAATGTGA
*
67356379 GTCTGGTGTTGAGTCAGATTTTCGAATTAGTCCTGATGGATGTTTAATGTTTAGAGATAGAGTTT
1 GTCTGGTGTTGAGTCAGATTTCCGAATTAGTCCTGATGGATGTTTAATGTTTAGAGATAGAGTTT
67356444 GTGTACCTAAAGACAATGAACTTATTCAGAAGATTTTTCAAGAAGCACATAATAGTC
66 GTGTACCTAAAGACAATGAACTTATTCAGAAGATTTTTCAAGAAGCACATAATAGTC
67356501 GTCTGGTGTTGAGTCAGATTTCCGAATTAGTCCTGATGGATGTTTAATGTTTAGAGATAGAGTTT
1 GTCTGGTGTTGAGTCAGATTTCCGAATTAGTCCTGATGGATGTTTAATGTTTAGAGATAGAGTTT
67356566 GTGTACCTAAAGACAATGAACTTATTCAGAAGATTTTTCAAGAAGCACATAATAGTC
66 GTGTACCTAAAGACAATGAACTTATTCAGAAGATTTTTCAAGAAGCACATAATAGTC
67356623 GT
1 GT
67356625 TTGTCTGTTC
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 123 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (122 bp):
GTCTGGTGTTGAGTCAGATTTCCGAATTAGTCCTGATGGATGTTTAATGTTTAGAGATAGAGTTT
GTGTACCTAAAGACAATGAACTTATTCAGAAGATTTTTCAAGAAGCACATAATAGTC
Found at i:67362643 original size:21 final size:21
Alignment explanation
Indices: 67362603--67362660 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
67362593 TGAATATGCC
67362603 AACAGAAGCTCG-AA-AGCTG
1 AACAGAAGCTCGTAAGAGCTG
67362622 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
*
67362643 AACAGAAGCTCATAAGAG
1 AACAGAAGCTCGTAAGAG
67362661 ATGATACACC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 12 0.33
20 2 0.06
21 22 0.61
ACGTcount: A:0.43, C:0.19, G:0.26, T:0.12
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:67365917 original size:21 final size:21
Alignment explanation
Indices: 67365850--67365917 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
67365840 TTTACTTTCC
*
67365850 GTTTAGCTCTCA-CGAGCTTCT
1 GTTTAGCTCT-ATTGAGCTTCT
** *
67365871 GTTTAAATC-ATATGAGTTTTCT
1 GTTTAGCTCTAT-TGAG-CTTCT
67365893 -TTTAGCTCTATTGAGCTTCT
1 GTTTAGCTCTATTGAGCTTCT
67365913 GTTTA
1 GTTTA
67365918 ACCCTTATGG
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
19 1 0.03
20 4 0.11
21 24 0.69
22 6 0.17
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (21 bp):
GTTTAGCTCTATTGAGCTTCT
Found at i:67365946 original size:20 final size:20
Alignment explanation
Indices: 67365917--67365971 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
67365907 GCTTCTGTTT
67365917 AACCCTTATGGGTTCCATTC
1 AACCCTTATGGGTTCCATTC
* * * *
67365937 AGCTCTTATGAGCTTCCGTTC
1 AACCCTTATG-GGTTCCATTC
67365958 AACCCTTATGGGTT
1 AACCCTTATGGGTT
67365972 TTTGTTTAGC
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.36
Consensus pattern (20 bp):
AACCCTTATGGGTTCCATTC
Found at i:67366000 original size:42 final size:41
Alignment explanation
Indices: 67365904--67366000 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
67365894 TTAGCTCTAT
* *
67365904 TGAGCTTCTGTTTAACCCTTATGGGTTCCATTCAGCTCTTA
1 TGAGCTTCTGTTCAACCCTTATGGGTTCCATTCAGCACTTA
* *** *
67365945 TGAGCTTCCGTTCAACCCTTATGGGTTTTTGTTTAGCACTTA
1 TGAGCTTCTGTTCAACCCTTATGGG-TTCCATTCAGCACTTA
*
67365987 TGTGCTTCTGTTCA
1 TGAGCTTCTGTTCA
67366001 GTGTTCGAGC
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 23 0.50
42 23 0.50
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (41 bp):
TGAGCTTCTGTTCAACCCTTATGGGTTCCATTCAGCACTTA
Found at i:67371888 original size:46 final size:46
Alignment explanation
Indices: 67371838--67372008 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
67371828 GTTGAGCATT
* *
67371838 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
1 CGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTC
* * * *
67371884 CGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAA--A--CGTC
* * *
67371931 CGAACTCGTTGAGTTGAGTCCAAGTTCATTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTC
* *
67371977 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CGAACTCGTTGAGTTGAGTCCAAGTTCACTTA
67372009 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 57 0.55
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTC
Found at i:67371985 original size:93 final size:93
Alignment explanation
Indices: 67371833--67372003 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
67371823 GGATGGTTGA
* * * *
67371833 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
67371898 TGAGTCCAAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* * *
67371926 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
67371991 TGAGTCCGAGTTC
66 TGAGTCCAAGTTC
67372004 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:67386388 original size:13 final size:13
Alignment explanation
Indices: 67386366--67386403 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
67386356 ATATATTATA
*
67386366 TATATTAAAAATT
1 TATATAAAAAATT
67386379 TATATAAAAAA-T
1 TATATAAAAAATT
*
67386391 AATATAAAAAATT
1 TATATAAAAAATT
67386404 AATACGGGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TATATAAAAAATT
Found at i:67386406 original size:13 final size:13
Alignment explanation
Indices: 67386367--67386407 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
67386357 TATATTATAT
* *
67386367 ATATTAAAAATTT
1 ATATAAAAAATTA
67386380 ATATAAAAAA-TA
1 ATATAAAAAATTA
67386392 ATATAAAAAATTA
1 ATATAAAAAATTA
67386405 ATA
1 ATA
67386408 CGGGCGGGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATATAAAAAATTA
Found at i:67386850 original size:13 final size:13
Alignment explanation
Indices: 67386802--67386850 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
67386792 CTTAAACCAA
67386802 ACTTCTCAAAATC
1 ACTTCTCAAAATC
* *
67386815 ACTTTTCCAAATC
1 ACTTCTCAAAATC
* *
67386828 ACTT-TTAAAAAC
1 ACTTCTCAAAATC
67386840 ACTTCTCAAAA
1 ACTTCTCAAAA
67386851 GTAATGTTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
12 9 0.31
13 20 0.69
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.33
Consensus pattern (13 bp):
ACTTCTCAAAATC
Found at i:67393853 original size:22 final size:21
Alignment explanation
Indices: 67393815--67393857 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
67393805 TGAGTTTTAA
*
67393815 ATTTTTTTTATACAATAATAAT
1 ATTTTTTTTATAAAAT-ATAAT
67393837 ATTTTATTTT-TAAAATATAAT
1 ATTTT-TTTTATAAAATATAAT
67393858 TCTATATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTTTTTATAAAATATAAT
Found at i:67395506 original size:37 final size:37
Alignment explanation
Indices: 67395456--67395526 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
67395446 TTTAAATTAC
67395456 AAGTATATGGTTATTTGATATGTGAACGAAAATGAAT
1 AAGTATATGGTTATTTGATATGTGAACGAAAATGAAT
*
67395493 AAGTATATGGTTATTTGATATGTGTACGAAAATG
1 AAGTATATGGTTATTTGATATGTGAACGAAAATG
67395527 TTCAAAAGAA
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:0.38, C:0.03, G:0.23, T:0.37
Consensus pattern (37 bp):
AAGTATATGGTTATTTGATATGTGAACGAAAATGAAT
Found at i:67396940 original size:21 final size:20
Alignment explanation
Indices: 67396916--67396954 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
67396906 CTATATAAAA
67396916 CAAAACTCATACGTTATAAGC
1 CAAAACTCAT-CGTTATAAGC
* *
67396937 CAAATCTCATGGTTATAA
1 CAAAACTCATCGTTATAA
67396955 TCACAACTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (20 bp):
CAAAACTCATCGTTATAAGC
Found at i:67397454 original size:47 final size:47
Alignment explanation
Indices: 67397401--67397530 Score: 161
Period size: 47 Copynumber: 2.8 Consensus size: 47
67397391 CACAATGATA
*
67397401 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCGG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGG
* ** * * * ***
67397448 AGTACCTATATCATGGCCTATAGCCAAATCAATGTATCTCCTCTTTG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGG
*
67397495 AATACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
67397531 TTATTCGCAC
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGG
Found at i:67398972 original size:51 final size:51
Alignment explanation
Indices: 67398860--67398973 Score: 128
Period size: 51 Copynumber: 2.2 Consensus size: 51
67398850 GTTATTAAAT
** * *
67398860 TTTAATAGGATTATTATTAAAATGATTTAATAATAAATAATATAATCATAT
1 TTTAATATAATTATTATTAAAATAATTTAATAATAAATAATATAATCATAA
67398911 TTTAATATAATTATTATTAAATATAATTTAATAA-AAAT-ATA-AAT-ATAAAA
1 TTTAATATAATTATTATTAAA-ATAATTTAATAATAAATAATATAATCAT--AA
67398961 TTTAATAATAATT
1 TTTAAT-ATAATT
67398974 TAATATAATT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
48 2 0.04
49 3 0.05
50 10 0.18
51 29 0.53
52 11 0.20
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.44
Consensus pattern (51 bp):
TTTAATATAATTATTATTAAAATAATTTAATAATAAATAATATAATCATAA
Found at i:67399427 original size:18 final size:18
Alignment explanation
Indices: 67399403--67399445 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
67399393 TCGATGGCAA
67399403 AGATTCTGCATATATTGC
1 AGATTCTGCATATATTGC
*
67399421 GGATTCTGCATATATTGC
1 AGATTCTGCATATATTGC
67399439 AGATTCT
1 AGATTCT
67399446 TCACAGCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (18 bp):
AGATTCTGCATATATTGC
Found at i:67404081 original size:46 final size:48
Alignment explanation
Indices: 67403927--67404281 Score: 220
Period size: 46 Copynumber: 7.5 Consensus size: 48
67403917 TTTGTGTGCT
* * * *
67403927 AGTGTAAGA-CATGTCTGGGACATACATCGACCAC-ATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGA-GATGTAGAGCC
* * * * * *
67403973 AGTGTAAGACCATGTTTGGGACATGGCATTGGCATTGAGACG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGTAGAGCC
67404021 AGTGTATA-A-CATGTCTGGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTA-AGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAGAGCC
* * * *
67404067 AGTGTGAGA-CATGTCTGGGACATGCATCAG-CTACGAGAT-T--TGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGATGTAGAGCC
* * * *
67404111 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGTAAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGT-AGAGCC
* * * ** * *
67404161 AGTGTAAGACCATATCTGGGACATGGCGTCGACCTCGATTTCG-ATAGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGAT-GTAGAGCC
* * * * * *
67404210 AGTGTAAGACCATGTATAGGACATAGCATC-GACT--TGATGGATGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-GAGCC
*
67404257 AGTGTAAGACTATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
67404282 GTATCAGTAT
Statistics
Matches: 239, Mismatches: 53, Indels: 34
0.73 0.16 0.10
Matches are distributed among these distances:
44 10 0.04
45 19 0.08
46 70 0.29
47 52 0.22
48 21 0.09
49 30 0.13
50 36 0.15
51 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAGAGCC
Found at i:67410953 original size:62 final size:62
Alignment explanation
Indices: 67410851--67410991 Score: 185
Period size: 62 Copynumber: 2.3 Consensus size: 62
67410841 CACCACGTTG
* * ** * *
67410851 TGGCCAAGCCACTAAATGTTGCAGTCAAGCTACATGTTGTGGACAAGCCACTCATAGA-GTTA
1 TGGCCAAGCCACTCAATGTTACAGTCAAGCTACACATTGTGAACAAGCCACTCATA-ACATTA
* *
67410913 TGGCCAAGCCACTCAATGTTACAGTCAAGCTGCACATTGTGAACAAGCCACTCATAACATTG
1 TGGCCAAGCCACTCAATGTTACAGTCAAGCTACACATTGTGAACAAGCCACTCATAACATTA
*
67410975 TGGACAAGCCACTCAAT
1 TGGCCAAGCCACTCAAT
67410992 TTTTGTAGTA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
61 1 0.01
62 68 0.99
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.23
Consensus pattern (62 bp):
TGGCCAAGCCACTCAATGTTACAGTCAAGCTACACATTGTGAACAAGCCACTCATAACATTA
Found at i:67410976 original size:23 final size:23
Alignment explanation
Indices: 67410946--67410989 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
67410936 GTCAAGCTGC
67410946 ACATTGTGAACAAGCCACTCATA
1 ACATTGTGAACAAGCCACTCATA
*
67410969 ACATTGTGGACAAGCCACTCA
1 ACATTGTGAACAAGCCACTCA
67410990 ATTTTTGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.20
Consensus pattern (23 bp):
ACATTGTGAACAAGCCACTCATA
Found at i:67411208 original size:83 final size:83
Alignment explanation
Indices: 67411083--67411235 Score: 216
Period size: 83 Copynumber: 1.8 Consensus size: 83
67411073 TTTCAATAGG
* * *
67411083 CATGCTTAACATGCGAATCAAATCTAAGATCAACATAGTCGACATGCTTAACATGCAAATCAAAT
1 CATGCTTAACATGCAAATCAAATATAAGATCAACATAATCGACATGCTTAACATGCAAATCAAAT
67411148 ATCAGCTTATCATAATGA
66 ATCAGCTTATCATAATGA
* * * * * *
67411166 CATGCTTAATATGCAAATCAAATATCAGTTTATCATAATCGACATGCTTAATATGCAAATCAAAT
1 CATGCTTAACATGCAAATCAAATATAAGATCAACATAATCGACATGCTTAACATGCAAATCAAAT
*
67411231 CTCAG
66 ATCAG
67411236 TTAATAAATC
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
83 60 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.29
Consensus pattern (83 bp):
CATGCTTAACATGCAAATCAAATATAAGATCAACATAATCGACATGCTTAACATGCAAATCAAAT
ATCAGCTTATCATAATGA
Found at i:67411236 original size:42 final size:42
Alignment explanation
Indices: 67411083--67411237 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
67411073 TTTCAATAGG
* * * * * * *
67411083 CATGCTTAACATGCGAATCAAATCTAAGATCAACATAGTCGA
1 CATGCTTAACATGCAAATCAAATATCAGTTTATCATAATCGA
*
67411125 CATGCTTAACATGCAAATCAAATATCAGCTTATCATAAT-GA
1 CATGCTTAACATGCAAATCAAATATCAGTTTATCATAATCGA
*
67411166 CATGCTTAATATGCAAATCAAATATCAGTTTATCATAATCGA
1 CATGCTTAACATGCAAATCAAATATCAGTTTATCATAATCGA
* *
67411208 CATGCTTAATATGCAAATCAAATCTCAGTT
1 CATGCTTAACATGCAAATCAAATATCAGTT
67411238 AATAAATCAG
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 39 0.38
42 63 0.62
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (42 bp):
CATGCTTAACATGCAAATCAAATATCAGTTTATCATAATCGA
Found at i:67414293 original size:2 final size:2
Alignment explanation
Indices: 67414286--67414312 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
67414276 CTATTAGGTT
67414286 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
67414313 GAAAAAGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:67415435 original size:13 final size:13
Alignment explanation
Indices: 67415417--67415443 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
67415407 CTTTTCAATG
67415417 TTAATTCCTGCCA
1 TTAATTCCTGCCA
67415430 TTAATTCCTGCCA
1 TTAATTCCTGCCA
67415443 T
1 T
67415444 AGAAGGTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.30, G:0.07, T:0.41
Consensus pattern (13 bp):
TTAATTCCTGCCA
Found at i:67418262 original size:37 final size:36
Alignment explanation
Indices: 67418196--67418315 Score: 102
Period size: 37 Copynumber: 3.2 Consensus size: 36
67418186 ATATCGGTAT
* * *
67418196 TTTATTTTTC-AATCTAGAAACATAGTTGTGAGGTCC
1 TTTATTTTTCTATTC-AGAAACTTAATTGTGAGGTCC
* *
67418232 TTTAATTTTTC-AGTTCA-AATGCTTAATTGTGAGCTCCC
1 TTT-ATTTTTCTA-TTCAGAA-ACTTAATTGTGAGGT-CC
* *
67418270 TTTATTTTTCTATTCAGAAACTTAGTTGTGAAGTCC
1 TTTATTTTTCTATTCAGAAACTTAATTGTGAGGTCC
67418306 TTTTATTTTT
1 -TTTATTTTT
67418316 TTGTTAAAAG
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
36 7 0.10
37 51 0.75
38 10 0.15
ACGTcount: A:0.24, C:0.14, G:0.13, T:0.48
Consensus pattern (36 bp):
TTTATTTTTCTATTCAGAAACTTAATTGTGAGGTCC
Found at i:67419678 original size:3 final size:3
Alignment explanation
Indices: 67419670--67419715 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
67419660 TTGTAAGCTT
67419670 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
67419716 CAGAATTCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:67419999 original size:11 final size:11
Alignment explanation
Indices: 67419983--67420019 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
67419973 ACATCAACTA
67419983 ATATTTTTGAT
1 ATATTTTTGAT
67419994 ATATTTTTGAT
1 ATATTTTTGAT
67420005 ATATTTTTGAT
1 ATATTTTTGAT
67420016 ATAT
1 ATAT
67420020 AATATTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (11 bp):
ATATTTTTGAT
Found at i:67422684 original size:35 final size:35
Alignment explanation
Indices: 67422644--67422855 Score: 255
Period size: 35 Copynumber: 6.1 Consensus size: 35
67422634 CATGGTAAAA
* *
67422644 TTATGACATGTAGGTATAGTATTATCCATACTGAG
1 TTATGACACGTAGGTATGGTATTATCCATACTGAG
*
67422679 TTATGACACGTAGGTATGGTATTATCCATTCTGAG
1 TTATGACACGTAGGTATGGTATTATCCATACTGAG
* *
67422714 TTATTACACGTAGGTATGGTATTATCCATAATGAG
1 TTATGACACGTAGGTATGGTATTATCCATACTGAG
*
67422749 TTATGATACGTAGGTATGGTATTATCCATACTGAG
1 TTATGACACGTAGGTATGGTATTATCCATACTGAG
* * * ** *
67422784 CTATAATACAAAGGTATGGTATT-TCCCATACCGAG
1 TTATGACACGTAGGTATGGTATTAT-CCATACTGAG
* * * * *
67422819 TTGTGAAATGTAAGTATGGTATTAACCATACTGAG
1 TTATGACACGTAGGTATGGTATTATCCATACTGAG
67422854 TT
1 TT
67422856 GTGAATCGTG
Statistics
Matches: 151, Mismatches: 24, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
34 1 0.01
35 150 0.99
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.36
Consensus pattern (35 bp):
TTATGACACGTAGGTATGGTATTATCCATACTGAG
Found at i:67431618 original size:12 final size:12
Alignment explanation
Indices: 67431601--67431633 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
67431591 CGGCCGGCCC
67431601 ATATTAATTTTT
1 ATATTAATTTTT
67431613 ATATT-ATTTTT
1 ATATTAATTTTT
67431624 ATA-TAATTTT
1 ATATTAATTTT
67431634 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:67431794 original size:30 final size:32
Alignment explanation
Indices: 67431758--67431822 Score: 98
Period size: 30 Copynumber: 2.1 Consensus size: 32
67431748 ACTTAACAAG
*
67431758 CAAATGTCTCTAAAATAAT-A-ACAAAATTAA
1 CAAATGTCTCTAAAATAATAATAAAAAATTAA
*
67431788 CAAATGTCTTTAAAATAATAATAAAAAATTAA
1 CAAATGTCTCTAAAATAATAATAAAAAATTAA
67431820 CAA
1 CAA
67431823 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 18 0.58
31 1 0.03
32 12 0.39
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.28
Consensus pattern (32 bp):
CAAATGTCTCTAAAATAATAATAAAAAATTAA
Found at i:67441719 original size:21 final size:20
Alignment explanation
Indices: 67441695--67441734 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
67441685 TATGTATTGT
*
67441695 AATGATTGATGATAGATTATG
1 AATGATTAATGATAG-TTATG
*
67441716 AATGTTTAATGATAGTTAT
1 AATGATTAATGATAGTTAT
67441735 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (20 bp):
AATGATTAATGATAGTTATG
Found at i:67447138 original size:24 final size:24
Alignment explanation
Indices: 67447092--67447144 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
67447082 AGGGAATTAG
**
67447092 TATTTATTAGCATAGCATATTTGA
1 TATTTATTAGCATAAAATATTTGA
* *
67447116 TATTTATTAGCATAAAATCTTTGT
1 TATTTATTAGCATAAAATATTTGA
67447140 TATTT
1 TATTT
67447145 CTTTCCATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (24 bp):
TATTTATTAGCATAAAATATTTGA
Found at i:67451267 original size:36 final size:36
Alignment explanation
Indices: 67451220--67451292 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
67451210 CATGCACTTG
* *
67451220 CCAAGTTTGGCGAATCCCCTAAGATTGATGAACTCA
1 CCAAGTCTGGCGAATCCCCTAAGATTGACGAACTCA
* *
67451256 CCAAGTCTGGCGAATCCCCTAAGCTTGGCGAACTCA
1 CCAAGTCTGGCGAATCCCCTAAGATTGACGAACTCA
67451292 C
1 C
67451293 GATAAGTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (36 bp):
CCAAGTCTGGCGAATCCCCTAAGATTGACGAACTCA
Found at i:67451286 original size:18 final size:17
Alignment explanation
Indices: 67451226--67451287 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
67451216 CTTGCCAAGT
67451226 TTGGCGAATCCCCTAAG
1 TTGGCGAATCCCCTAAG
** *
67451243 ATTGATGAACTCACC-AAG
1 -TTGGCGAA-TCCCCTAAG
67451261 TCTGGCGAATCCCCTAAG
1 T-TGGCGAATCCCCTAAG
67451279 CTTGGCGAA
1 -TTGGCGAA
67451288 CTCACGATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
17 5 0.15
18 24 0.71
19 5 0.15
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (17 bp):
TTGGCGAATCCCCTAAG
Found at i:67451477 original size:24 final size:24
Alignment explanation
Indices: 67451431--67451483 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
67451421 AGAGAATTAG
**
67451431 TATTTACTAGCATAGTATATTTGA
1 TATTTACTAGCATAAAATATTTGA
* * *
67451455 TATTTATTAGCATAAAATCTTTGT
1 TATTTACTAGCATAAAATATTTGA
67451479 TATTT
1 TATTT
67451484 CTTTTTTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (24 bp):
TATTTACTAGCATAAAATATTTGA
Found at i:67451927 original size:268 final size:268
Alignment explanation
Indices: 67451450--67451991 Score: 913
Period size: 268 Copynumber: 2.0 Consensus size: 268
67451440 GCATAGTATA
* * *
67451450 TTTGATATTTATTAGCATAAAATCTTTGTTATTTCTTTTTTTATTTAAGAGTTTTTTGTGTTACA
1 TTTGATATTTATTAACATAAAACCTTTGTTATTTCTTTTTGTATTTAAGAGTTTTTTGTGTTACA
* * *
67451515 AATACCTCTCTTCTTTCTTTGTTCATTAGGTGTGTGAAAAATATATAATATAAAAAGTTTAATAG
66 AATACCTCTCTTCTTTCTTTGTTCATTAGGTATGTGAAAAATATATAATATAAAAAGTTTAACAA
* * **
67451580 ATAGTTTTGTTGCTAAATTTTTATTTTTTCTATGCAATTCTTCCTTTCTTGGTATAAAAAATCCA
131 ATAGTTTTGTTGCTAAATTTTTATTTCTTCTATGCAATTCTTCCTTTCTTAGTATAAAAAATAAA
* * * *
67451645 ACAATTTTTTATTGGATATGCAATGCAGGATAGAGCAAGACAAGTTTCAATTCATAAAAAGAGGG
196 ACAATTTTTTATTGGATATCCAATGCAAGATAGAACAAGACAAGTTTCAATTCATAAAAAAAGGG
67451710 ACAAATGG
261 ACAAATGG
*
67451718 TTTGATATTTATTAACATAAAACCTTTGTTATTTCTTTTTGTATTTAGGAGTTTTTTGTGTTACA
1 TTTGATATTTATTAACATAAAACCTTTGTTATTTCTTTTTGTATTTAAGAGTTTTTTGTGTTACA
*
67451783 AATACCTCTCTTCTTTCTTTGTTCATTAGGTATGTGAAAAATATATAATATAAAAAGTTTAGCAA
66 AATACCTCTCTTCTTTCTTTGTTCATTAGGTATGTGAAAAATATATAATATAAAAAGTTTAACAA
*
67451848 ATAGTTTTGTTGCTAAATTTTTATTTCTTCTCTGCAATTCTTCCTTTCTTAGTATAAAAAATAAA
131 ATAGTTTTGTTGCTAAATTTTTATTTCTTCTATGCAATTCTTCCTTTCTTAGTATAAAAAATAAA
*
67451913 ACAATTTTTTATTGGATATCCAGTGCAAGATAGAACAAGACAAGTTTCAATTCATAAAAAAAGGG
196 ACAATTTTTTATTGGATATCCAATGCAAGATAGAACAAGACAAGTTTCAATTCATAAAAAAAGGG
*
67451978 ACAAATGT
261 ACAAATGG
67451986 TTTGAT
1 TTTGAT
67451992 TTGTTAATTA
Statistics
Matches: 255, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
268 255 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (268 bp):
TTTGATATTTATTAACATAAAACCTTTGTTATTTCTTTTTGTATTTAAGAGTTTTTTGTGTTACA
AATACCTCTCTTCTTTCTTTGTTCATTAGGTATGTGAAAAATATATAATATAAAAAGTTTAACAA
ATAGTTTTGTTGCTAAATTTTTATTTCTTCTATGCAATTCTTCCTTTCTTAGTATAAAAAATAAA
ACAATTTTTTATTGGATATCCAATGCAAGATAGAACAAGACAAGTTTCAATTCATAAAAAAAGGG
ACAAATGG
Found at i:67454469 original size:92 final size:92
Alignment explanation
Indices: 67454312--67454495 Score: 350
Period size: 92 Copynumber: 2.0 Consensus size: 92
67454302 TAGGCTTGTA
*
67454312 TCTCATCCCTCAATTTCCAAATTTTCAACGTAGCTATGTTAATTATCCATACCACATAGATAAAC
1 TCTCATCCCTCAATTTCCAAATTTTCAACGTAGCAATGTTAATTATCCATACCACATAGATAAAC
67454377 TTTATATTTATTTGTGTCTTGAAAATG
66 TTTATATTTATTTGTGTCTTGAAAATG
*
67454404 TCTCATCCCTCAATTTCCAAATTTTCAACGTAGCAATGTTAATTATCCATACCACATGGATAAAC
1 TCTCATCCCTCAATTTCCAAATTTTCAACGTAGCAATGTTAATTATCCATACCACATAGATAAAC
67454469 TTTATATTTATTTGTGTCTTGAAAATG
66 TTTATATTTATTTGTGTCTTGAAAATG
67454496 CTATCAAGGA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.40
Consensus pattern (92 bp):
TCTCATCCCTCAATTTCCAAATTTTCAACGTAGCAATGTTAATTATCCATACCACATAGATAAAC
TTTATATTTATTTGTGTCTTGAAAATG
Found at i:67462077 original size:20 final size:21
Alignment explanation
Indices: 67462052--67462095 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
67462042 TTTTAAAAAT
67462052 ATTTATAACATTA-AAATT-TA
1 ATTTATAAC-TTACAAATTGTA
67462072 ATTTATAACTTACAAATTGTA
1 ATTTATAACTTACAAATTGTA
67462093 ATT
1 ATT
67462096 ATCATATTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 14 0.64
21 5 0.23
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTTATAACTTACAAATTGTA
Found at i:67465528 original size:5 final size:5
Alignment explanation
Indices: 67465512--67465564 Score: 70
Period size: 5 Copynumber: 10.0 Consensus size: 5
67465502 TAGGAAGATA
*
67465512 TTATT TTGTT TTATT TTATTAT TTATT ATTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTA-T-T TTATT -TTATT TTATT TTATT TTATT
67465560 TTATT
1 TTATT
67465565 AATTTAGGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
5 32 0.74
6 7 0.16
7 4 0.09
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:67465565 original size:23 final size:23
Alignment explanation
Indices: 67465512--67465554 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
67465502 TAGGAAGATA
*
67465512 TTATT-TTGTTTTATTTTATTAT
1 TTATTATTATTTTATTTTATTAT
67465534 TTATTATTATTTTATTTTATT
1 TTATTATTATTTTATTTTATT
67465555 TTATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (23 bp):
TTATTATTATTTTATTTTATTAT
Found at i:67465570 original size:18 final size:17
Alignment explanation
Indices: 67465510--67465570 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 17
67465500 AATAGGAAGA
*
67465510 TATTATTTTGTTTTATTT
1 TATTA-TTTATTTTATTT
67465528 TATTATTTATTATTATTT
1 TATTATTTATT-TTATTT
67465546 TA-T-TTTATTTTATTT
1 TATTATTTATTTTATTT
67465561 TATTAATTTA
1 TATT-ATTTA
67465571 GGTTAAGCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
15 8 0.21
16 7 0.18
17 6 0.16
18 17 0.45
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (17 bp):
TATTATTTATTTTATTT
Found at i:67465570 original size:23 final size:23
Alignment explanation
Indices: 67465521--67465570 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
67465511 ATTATTTTGT
*
67465521 TTTATTTTATTATTTATTATTAT
1 TTTATTTTATTATTTATTATTAA
*
67465544 TTTATTTTATT-TTATTTTATTAA
1 TTTATTTTATTATT-TATTATTAA
67465567 TTTA
1 TTTA
67465571 GGTTAAGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTATTTTATTATTTATTATTAA
Found at i:67472095 original size:15 final size:15
Alignment explanation
Indices: 67472072--67472101 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
67472062 AGGCAACCCA
*
67472072 ATTTTATTTTTATTT
1 ATTTAATTTTTATTT
67472087 ATTTAATTTTTATTT
1 ATTTAATTTTTATTT
67472102 TAAGTAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
ATTTAATTTTTATTT
Found at i:67472597 original size:9 final size:9
Alignment explanation
Indices: 67472585--67472617 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
67472575 TTTCCCAATT
67472585 TCTTCTCCA
1 TCTTCTCCA
67472594 TCTTCTCCA
1 TCTTCTCCA
*
67472603 TCTTCTCAA
1 TCTTCTCCA
67472612 TCTTCT
1 TCTTCT
67472618 TCAAAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.39, G:0.00, T:0.48
Consensus pattern (9 bp):
TCTTCTCCA
Done.