Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 36 of 425
Found at i:9314348 original size:105 final size:104
Alignment explanation
Indices: 9314158--9314348 Score: 240
Period size: 105 Copynumber: 1.8 Consensus size: 104
9314148 TGTGCTCCTA
* * * *
9314158 TATAATACCATAGCTAGACTATGGCATCGGTGTGATGAGATATGTGCTTCTATATAAGACTATAG
1 TATAAGACCATAGCTAGACTATGGCATCAGTGAGATGAGATATGTGCTTCTATATAAGACCATAG
*
9314223 CTAGACTATGGCATCGGTGTGTTGAGATATGTGCTTTTG
66 CTAGACTATGGCATCAGTGTGTTGAGATATGTGCTTTTG
* * * ** * *
9314262 TATAAGACCATAGTTGGGCTATGGCATCAGTGAGATTTGATTATGTGCTTCTGTGTAAGACCATA
1 TATAAGACCATAGCTAGACTATGGCATCAGTGAGATGAGA-TATGTGCTTCTATATAAGACCATA
*
9314327 TCTAGGA-TATGGCATCAGTGTG
65 GCTA-GACTATGGCATCAGTGTG
9314349 ATTTGTGATC
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
104 32 0.44
105 38 0.53
106 2 0.03
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (104 bp):
TATAAGACCATAGCTAGACTATGGCATCAGTGAGATGAGATATGTGCTTCTATATAAGACCATAG
CTAGACTATGGCATCAGTGTGTTGAGATATGTGCTTTTG
Found at i:9314384 original size:46 final size:48
Alignment explanation
Indices: 9314264--9314394 Score: 115
Period size: 46 Copynumber: 2.7 Consensus size: 48
9314254 TGCTTTTGTA
* * * *
9314264 TAAGACCATAGTTGGGCTATGGCATCAGTGAGATTTGATTATGTGCTTCTGTG
1 TAAGACCATTGCTGGGCTATGGCATCAGT--G---TGATTATGTGCATCCGTG
* *
9314317 TAAGACCATAT-CTAGGATATGGCATCAGTGTGATT-TGTG-ATCCGTG
1 TAAGACCAT-TGCTGGGCTATGGCATCAGTGTGATTATGTGCATCCGTG
* *
9314363 TAAGACCATTGCTGGGCTATGGCTTCGGTGTG
1 TAAGACCATTGCTGGGCTATGGCATCAGTGTG
9314395 TGACATGTGA
Statistics
Matches: 66, Mismatches: 10, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
45 1 0.02
46 31 0.47
47 4 0.06
48 5 0.08
51 1 0.02
53 24 0.36
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (48 bp):
TAAGACCATTGCTGGGCTATGGCATCAGTGTGATTATGTGCATCCGTG
Found at i:9316146 original size:26 final size:26
Alignment explanation
Indices: 9316117--9316223 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
9316107 TGGTACAAAT
9316117 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * * *
9316143 TGATAATAGATTTGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
9316168 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9316194 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9316220 TGAT
1 TGAT
9316224 GGGCATTTCA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
25 21 0.30
26 50 0.70
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9316172 original size:51 final size:52
Alignment explanation
Indices: 9316117--9316223 Score: 173
Period size: 51 Copynumber: 2.1 Consensus size: 52
9316107 TGGTACAAAT
9316117 TGATAATGGGTTAGGTAAATGTTCCATGATAATAGATTT-GGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAAT-GATTTAGGTAAATATTCCA
* *
9316168 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGATTTAGGTAAATATTCCA
9316220 TGAT
1 TGAT
9316224 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
50 4 0.08
51 42 0.81
52 6 0.12
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGATTTAGGTAAATATTCCA
Found at i:9319573 original size:40 final size:40
Alignment explanation
Indices: 9319528--9319694 Score: 264
Period size: 40 Copynumber: 4.2 Consensus size: 40
9319518 TTCGAATGAT
9319528 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
9319568 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
9319608 ATCCGGGTTAATTCCCGAAGGCAATTGTGCAAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
9319648 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTATA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTA-A
9319689 A-CCGGG
1 ATCCGGG
9319695 CTATGTCCCA
Statistics
Matches: 117, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 115 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:9319732 original size:80 final size:80
Alignment explanation
Indices: 9319559--9319747 Score: 197
Period size: 80 Copynumber: 2.4 Consensus size: 80
9319549 CATTTGTGCG
* * * * *
9319559 AGTTACTAAATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAATTCCC
1 AGTTACCAAATCCGGGTTAAATCCCGAAGGCATTTGCGCGAATTACTAAATCCGGGCTAATTCCC
* * * *
9319624 GAAGGCAATTGTGCA
66 AAAGACAATCGAGCA
*
9319639 AGTTACCAAATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTATAA-CCGGGCT-ATGTC
1 AGTTACCAAATCCGGGTTAAATCCCGAAGGCATTTGCGCGAATTACTA-AATCCGGGCTAAT-TC
*
9319702 CCAAAGACAATCGAGCG
64 CCAAAGACAATCGAGCA
* * *
9319719 AG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 AGTTA-CCAAATCCGGGTTAAATCCCGAAGG
9319748 TACGTGATTC
Statistics
Matches: 92, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
79 18 0.20
80 72 0.78
81 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (80 bp):
AGTTACCAAATCCGGGTTAAATCCCGAAGGCATTTGCGCGAATTACTAAATCCGGGCTAATTCCC
AAAGACAATCGAGCA
Found at i:9319741 original size:120 final size:119
Alignment explanation
Indices: 9319528--9319747 Score: 277
Period size: 120 Copynumber: 1.8 Consensus size: 119
9319518 TTCGAATGAT
* * * * * * *
9319528 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAATTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTAAATCCGGGCTAATTCCCAAAGACAAT
* *
9319593 TGTGCGAGTTACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCAAGTTACCAA
66 CGAGCGAGTTACTAAATCCGGGTTAATT-CCGAAGGCAATTGTGCAAGTTACCAA
9319648 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTATAA-CCGGGCT-ATGTCCCAAAGACA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTA-AATCCGGGCTAAT-TCCCAAAGACA
*
9319711 ATCGAGCGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
64 ATCGAGCGAGTTA-CTAAATCCGGGTT-AATTCCGAAGG
9319748 TACGTGATTC
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
119 15 0.17
120 69 0.80
121 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.26
Consensus pattern (119 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTAAATCCGGGCTAATTCCCAAAGACAAT
CGAGCGAGTTACTAAATCCGGGTTAATTCCGAAGGCAATTGTGCAAGTTACCAA
Found at i:9326497 original size:26 final size:26
Alignment explanation
Indices: 9326458--9326565 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
9326448 ATGGTACAAT
9326458 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9326484 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9326510 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9326536 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9326562 TGAT
1 TGAT
9326566 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9329409 original size:17 final size:16
Alignment explanation
Indices: 9329371--9329409 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
9329361 TCTTCACTAC
*
9329371 TTTCTTTCCCTTTTCT
1 TTTCTTTCCCTTTTAT
*
9329387 TCTCTTTCACCTTTTAT
1 TTTCTTTC-CCTTTTAT
9329404 TTTCTT
1 TTTCTT
9329410 GCTTCCAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTCTTTCCCTTTTAT
Found at i:9330325 original size:32 final size:32
Alignment explanation
Indices: 9330284--9330353 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
9330274 ACTATTTATC
*
9330284 TTAATTTATCATTATTAGTGCATCACATTTCT
1 TTAATTTATCATTATTAGTACATCACATTTCT
9330316 TTAATTTATCATTATTAGTACATCACATTTCT
1 TTAATTTATCATTATTAGTACATCACATTTCT
9330348 TTAATT
1 TTAATT
9330354 ACAATCAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.30, C:0.14, G:0.04, T:0.51
Consensus pattern (32 bp):
TTAATTTATCATTATTAGTACATCACATTTCT
Found at i:9334797 original size:25 final size:25
Alignment explanation
Indices: 9334769--9334818 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
9334759 TCTTACACTT
9334769 ACAATCATTCTTTTCCCTTTCTAAA
1 ACAATCATTCTTTTCCCTTTCTAAA
9334794 ACAATCATTCTTTTCCCTTTCTAAA
1 ACAATCATTCTTTTCCCTTTCTAAA
9334819 CAAGTTATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (25 bp):
ACAATCATTCTTTTCCCTTTCTAAA
Found at i:9337129 original size:43 final size:43
Alignment explanation
Indices: 9337077--9337269 Score: 244
Period size: 43 Copynumber: 4.5 Consensus size: 43
9337067 TTTATTTTAA
* * *
9337077 AAAC-CCGCTAAAGGTCATGGCCTTTAGTGGCGCTTTTCCTAC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCAC
**
9337119 AAACGCCGCTAAAGGTCATGGTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCAC
* * ** *
9337162 AAACGCCGCTAAAGGTCACGACCTATAGCGGCATTTTTCCCCC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
9337205 AAACGCCGCTAAAAAGTCGTGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCT-AAAGGTCATGACCTTTAGCGGCGCTTTTCCCAC
*
9337249 AAACGCCACTAAAGGTCATGA
1 AAACGCCGCTAAAGGTCATGA
9337270 AATTTTAAAA
Statistics
Matches: 128, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
42 4 0.03
43 90 0.70
44 34 0.27
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:9337200 original size:86 final size:87
Alignment explanation
Indices: 9337077--9337266 Score: 240
Period size: 87 Copynumber: 2.2 Consensus size: 87
9337067 TTTATTTTAA
* * * * * * * *
9337077 AAAC-CCGCTAAAGGTCATGGCCTTTAGTGGCGCTTTTCCTACAAACGCCGCT-AAAGGTCATGG
1 AAACGCCGCTAAAGGTCACGACCTATAGCGGCACTTTTCCCACAAACGCCGCTAAAAAGTCATGA
*
9337140 TCTTTAGCGGCGCTTTTCCCAC
66 CCTTTAGCGGCGCTTTTCCCAC
* * *
9337162 AAACGCCGCTAAAGGTCACGACCTATAGCGGCATTTTTCCCCCAAACGCCGCTAAAAAGTCGTGA
1 AAACGCCGCTAAAGGTCACGACCTATAGCGGCACTTTTCCCACAAACGCCGCTAAAAAGTCATGA
*
9337227 CCTTTAGCGGCGCTTTTTCCAC
66 CCTTTAGCGGCGCTTTTCCCAC
*
9337249 AAACGCCACTAAAGGTCA
1 AAACGCCGCTAAAGGTCA
9337267 TGAAATTTTA
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
85 4 0.04
86 40 0.45
87 45 0.51
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.24
Consensus pattern (87 bp):
AAACGCCGCTAAAGGTCACGACCTATAGCGGCACTTTTCCCACAAACGCCGCTAAAAAGTCATGA
CCTTTAGCGGCGCTTTTCCCAC
Found at i:9337975 original size:23 final size:23
Alignment explanation
Indices: 9337948--9338275 Score: 260
Period size: 23 Copynumber: 14.3 Consensus size: 23
9337938 TTCCAGCAAC
*
9337948 TAAACACTTCAATTTGCAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * **
9337971 AAAACA-TCTCAATTTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
*
9337994 TAAACACTTCAATTTGCAGTACA-T
1 TAAACACTTCAATTTACAG--CATT
* * *
9338018 AAAACACTTCATTTTACAACATT
1 TAAACACTTCAATTTACAGCATT
*
9338041 TAAGCACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
*
9338064 TAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
9338088 T-AACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
*
9338110 TATACAAC-TCAA-TTACAGCGA-T
1 TAAAC-ACTTCAATTTACAGC-ATT
* * **
9338132 AAAACA-TCTCAATTTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
* * *
9338155 TAAACACTTCAATTTGCAGTAGT
1 TAAACACTTCAATTTACAGCATT
* * *
9338178 TAAACACTTCAATTTGCAGTACT
1 TAAACACTTCAATTTACAGCATT
* *
9338201 TAAACACTTTAATTTACAACATT
1 TAAACACTTCAATTTACAGCATT
*
9338224 TAAACACTTTAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
*
9338247 TAAACACTTCAATTTGCAGCATT
1 TAAACACTTCAATTTACAGCATT
9338270 TAAACA
1 TAAACA
9338276 ATAGCAGCCA
Statistics
Matches: 248, Mismatches: 40, Indels: 34
0.77 0.12 0.11
Matches are distributed among these distances:
21 1 0.00
22 22 0.09
23 202 0.81
24 21 0.08
25 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.32
Consensus pattern (23 bp):
TAAACACTTCAATTTACAGCATT
Found at i:9341265 original size:15 final size:15
Alignment explanation
Indices: 9341183--9341265 Score: 102
Period size: 14 Copynumber: 5.7 Consensus size: 15
9341173 ATATTAAATA
9341183 TTAAA-TTTTAAGTTT
1 TTAAATTTTTAA-TTT
*
9341198 TTTAATTTTTAATTT
1 TTAAATTTTTAATTT
*
9341213 TT-AATTTTTTATTT
1 TTAAATTTTTAATTT
9341227 TTAAA-TTTTAATTT
1 TTAAATTTTTAATTT
9341241 TTAAATTTTTAAATTT
1 TTAAATTTTT-AATTT
9341257 TT-AATTTTT
1 TTAAATTTTT
9341266 GAGTTTATTT
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
14 26 0.43
15 22 0.36
16 13 0.21
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (15 bp):
TTAAATTTTTAATTT
Found at i:9341282 original size:7 final size:7
Alignment explanation
Indices: 9341196--9341265 Score: 104
Period size: 7 Copynumber: 9.7 Consensus size: 7
9341186 AATTTTAAGT
9341196 TTTTTAA
1 TTTTTAA
9341203 TTTTTAA
1 TTTTTAA
9341210 TTTTTAA
1 TTTTTAA
*
9341217 TTTTTTA
1 TTTTTAA
9341224 TTTTTAA
1 TTTTTAA
*
9341231 ATTTTAA
1 TTTTTAA
9341238 TTTTTAAA
1 TTTTT-AA
9341246 TTTTTAAA
1 TTTTT-AA
9341254 TTTTTAA
1 TTTTTAA
9341261 TTTTT
1 TTTTT
9341266 GAGTTTATTT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
7 43 0.74
8 15 0.26
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:9342360 original size:41 final size:41
Alignment explanation
Indices: 9342151--9342359 Score: 321
Period size: 41 Copynumber: 5.1 Consensus size: 41
9342141 GTTATATGAC
* * * *
9342151 TTTTAGCGGCGTTTTACTAAAAGCGCCGCTAATGCACTGGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGGT
*
9342192 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGGT
9342233 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGGT
* *
9342274 TTTTAGCGGCGTTTTAACAAAAAACGCTGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTT-ACCAAAAACGCCGCTATTGCTCTGGT
*
9342315 TTTTAGCAGCGTTTTACCAAAAACGCCGCTATTGCTCTGTGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTG-GT
9342357 TTT
1 TTT
9342360 ACAATTTTTG
Statistics
Matches: 156, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
40 21 0.13
41 109 0.70
42 26 0.17
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGGT
Found at i:9344429 original size:22 final size:22
Alignment explanation
Indices: 9344401--9344444 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
9344391 TAGAGACTCA
9344401 AAACATATTTTAACTTTTAAAT
1 AAACATATTTTAACTTTTAAAT
9344423 AAACATATTTTAACTTTTAAAT
1 AAACATATTTTAACTTTTAAAT
9344445 TTTTACTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (22 bp):
AAACATATTTTAACTTTTAAAT
Found at i:9344779 original size:12 final size:12
Alignment explanation
Indices: 9344759--9344788 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9344749 ATTTTAGAGT
9344759 TAAAAAAAAAAC
1 TAAAAAAAAAAC
*
9344771 TAAATAAAAAAC
1 TAAAAAAAAAAC
9344783 TAAAAA
1 TAAAAA
9344789 GAAATTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (12 bp):
TAAAAAAAAAAC
Found at i:9348393 original size:36 final size:35
Alignment explanation
Indices: 9348349--9348437 Score: 108
Period size: 36 Copynumber: 2.5 Consensus size: 35
9348339 CTAGACCTAA
* *
9348349 AACC-CTAAACCTTAAACTTTAGACAATAGATTTT
1 AACCTCTAAACCTTAAACCTTAGACAATAGACTTT
* *
9348383 GAACCTCTAAACCCTAAACCTTAGACCATAGACTTT
1 -AACCTCTAAACCTTAAACCTTAGACAATAGACTTT
* *
9348419 AAACTTTAAACCTTAAACC
1 AACCTCTAAACCTTAAACC
9348438 CGAATCCTAG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
35 20 0.43
36 26 0.57
ACGTcount: A:0.40, C:0.26, G:0.06, T:0.28
Consensus pattern (35 bp):
AACCTCTAAACCTTAAACCTTAGACAATAGACTTT
Found at i:9348431 original size:43 final size:42
Alignment explanation
Indices: 9348343--9348438 Score: 102
Period size: 43 Copynumber: 2.3 Consensus size: 42
9348333 TGGGTCCTAG
* ** * * *
9348343 ACCTAAAACCCTAAACCTTAAACTTTAGACAATAGATTTTGA
1 ACCTTAAACCCTAAACCTTAAACCATAGACAATAAACTTTAA
* **
9348385 ACCTCTAAACCCTAAACCTTAGACCATAGACTTTAAACTTTAA
1 ACCT-TAAACCCTAAACCTTAAACCATAGACAATAAACTTTAA
9348428 ACCTTAAACCC
1 ACCTTAAACCC
9348439 GAATCCTAGA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 11 0.25
43 33 0.75
ACGTcount: A:0.41, C:0.27, G:0.05, T:0.27
Consensus pattern (42 bp):
ACCTTAAACCCTAAACCTTAAACCATAGACAATAAACTTTAA
Found at i:9348653 original size:23 final size:21
Alignment explanation
Indices: 9348615--9348665 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
9348605 ATGTGTCAAT
*
9348615 TACATAAAAAAAAATACTGAAA
1 TACATAAAAAAAAATA-AGAAA
**
9348637 TGACATAAAAATTAATAAGAAA
1 T-ACATAAAAAAAAATAAGAAA
9348659 TACATAA
1 TACATAA
9348666 TGATATAGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 6 0.24
22 6 0.24
23 13 0.52
ACGTcount: A:0.65, C:0.08, G:0.06, T:0.22
Consensus pattern (21 bp):
TACATAAAAAAAAATAAGAAA
Found at i:9354288 original size:18 final size:18
Alignment explanation
Indices: 9354265--9354301 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
9354255 CCTCTCTCTC
9354265 TCTCTCTCTCCCCCTTTT
1 TCTCTCTCTCCCCCTTTT
*
9354283 TCTCTCTCTCTCCCTTTT
1 TCTCTCTCTCCCCCTTTT
9354301 T
1 T
9354302 TAAGTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTCTCTCTCCCCCTTTT
Found at i:9360000 original size:24 final size:24
Alignment explanation
Indices: 9359973--9360155 Score: 285
Period size: 24 Copynumber: 7.6 Consensus size: 24
9359963 CTTATTATGT
* * *
9359973 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
9359997 TCGCACACGTAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
9360021 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
9360045 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
9360069 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
9360093 TCACACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
9360117 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
9360141 TCGCACACATAGTGC
1 TCGCACACATAGTGC
9360156 ATTTGAGATA
Statistics
Matches: 148, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 148 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:9367716 original size:24 final size:24
Alignment explanation
Indices: 9367689--9367894 Score: 324
Period size: 24 Copynumber: 8.6 Consensus size: 24
9367679 CTTATTATGT
* * *
9367689 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
9367713 TCGCACACGTAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
9367737 TCGCACACTTAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
9367761 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
9367785 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
9367809 TCGCACACATAGTGCCATAGT-AA
1 TCGCACACATAGTGCCATAGTAAA
*
9367832 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
9367856 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
9367880 TCGCACACATAGTGC
1 TCGCACACATAGTGC
9367895 ATTTGAGATA
Statistics
Matches: 173, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
23 23 0.13
24 150 0.87
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:9367864 original size:71 final size:72
Alignment explanation
Indices: 9367689--9367894 Score: 333
Period size: 71 Copynumber: 2.9 Consensus size: 72
9367679 CTTATTATGT
* * ** * * *
9367689 TCGCACACATAGAGCTATAGCAAATCGCACACGTAGTGCTATAGTAAATCGCACACTTAGTGCCA
1 TCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCA
9367754 TAGTAAA
66 TAGTAAA
*
9367761 TCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCA
1 TCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCA
9367826 TAGT-AA
66 TAGTAAA
9367832 TCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
1 TCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
9367895 ATTTGAGATA
Statistics
Matches: 125, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
71 64 0.51
72 61 0.49
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.21
Consensus pattern (72 bp):
TCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCA
TAGTAAA
Found at i:9371811 original size:24 final size:24
Alignment explanation
Indices: 9371784--9371964 Score: 285
Period size: 24 Copynumber: 7.6 Consensus size: 24
9371774 CTTATTATGT
* * *
9371784 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
9371808 TCGCACACGTAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
9371832 TCGCACACATAGTGCCATAGT-AA
1 TCGCACACATAGTGCCATAGTAAA
*
9371855 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
9371879 TCGCACACATAGTGCCATAGT-AA
1 TCGCACACATAGTGCCATAGTAAA
*
9371902 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
9371926 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
9371950 TCGCACACATAGTGC
1 TCGCACACATAGTGC
9371965 ATTTGAGATA
Statistics
Matches: 149, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
23 46 0.31
24 103 0.69
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:9371875 original size:47 final size:47
Alignment explanation
Indices: 9371784--9371964 Score: 290
Period size: 47 Copynumber: 3.8 Consensus size: 47
9371774 CTTATTATGT
* * * * * *
9371784 TCGCACACATAGAGCTATAGCAAATCGCACACGTAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAG-TAATCGCACACATAGTGCCATAGTGAA
9371832 TCGCACACATAGTGCCATAGTAATCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAATCGCACACATAGTGCCATAGTGAA
9371879 TCGCACACATAGTGCCATAGTAATCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAATCGCACACATAGTGCCATAGTGAA
9371926 TCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
1 TCGCACACATAGTGCCATAGT-AATCGCACACATAGTGC
9371965 ATTTGAGATA
Statistics
Matches: 126, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
47 91 0.72
48 35 0.28
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (47 bp):
TCGCACACATAGTGCCATAGTAATCGCACACATAGTGCCATAGTGAA
Found at i:9371881 original size:71 final size:71
Alignment explanation
Indices: 9371784--9371964 Score: 292
Period size: 71 Copynumber: 2.5 Consensus size: 71
9371774 CTTATTATGT
* * * * *
9371784 TCGCACACATAGAGCTATAGCAAATCGCACACGTAGTGCTATAGTAAATCGCACACATAGTGCCA
1 TCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGT-AATCGCACACATAGTGCCA
9371849 TAGT-AA
65 TAGTGAA
*
9371855 TCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAATCGCACACATAGTGCCAT
1 TCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAATCGCACACATAGTGCCAT
9371920 AGTGAA
66 AGTGAA
9371926 TCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
1 TCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
9371965 ATTTGAGATA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
70 23 0.23
71 79 0.77
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (71 bp):
TCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAATCGCACACATAGTGCCAT
AGTGAA
Found at i:9379528 original size:24 final size:24
Alignment explanation
Indices: 9379501--9379707 Score: 333
Period size: 24 Copynumber: 8.6 Consensus size: 24
9379491 CTTATTATGT
* * *
9379501 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
9379525 TCGCACACGTAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
9379549 TCGCACACTTAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
9379573 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
9379597 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
9379621 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
9379645 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
9379669 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
9379693 TCGCACACATAGTGC
1 TCGCACACATAGTGC
9379708 ATTTGAGATA
Statistics
Matches: 173, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 173 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:9382891 original size:16 final size:18
Alignment explanation
Indices: 9382872--9382909 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
9382862 TTCTATATGA
9382872 ATTTTACT-TT-TATTTT
1 ATTTTACTATTGTATTTT
9382888 ATTTTACTATTGTATTTT
1 ATTTTACTATTGTATTTT
9382906 ATTT
1 ATTT
9382910 AAATAAGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (18 bp):
ATTTTACTATTGTATTTT
Found at i:9389505 original size:9 final size:9
Alignment explanation
Indices: 9389493--9389522 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
9389483 TTATTCCATA
9389493 ATATAATTT
1 ATATAATTT
9389502 ATATAATTT
1 ATATAATTT
9389511 ATATAATTT
1 ATATAATTT
9389520 ATA
1 ATA
9389523 ACTTGATAAA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
ATATAATTT
Found at i:9389711 original size:19 final size:19
Alignment explanation
Indices: 9389687--9389726 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
9389677 ATTTCTTAAT
*
9389687 TTAATAACAATAATAATAA
1 TTAATAACAACAATAATAA
*
9389706 TTAATAATAACAATAATAA
1 TTAATAACAACAATAATAA
9389725 TT
1 TT
9389727 TATATATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
TTAATAACAACAATAATAA
Found at i:9395679 original size:20 final size:20
Alignment explanation
Indices: 9395641--9395688 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
9395631 TAAATTCTAA
* **
9395641 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
9395661 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
9395681 AAA-ATAAA
1 AAAGATAAA
9395689 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:9395713 original size:27 final size:26
Alignment explanation
Indices: 9395683--9395745 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
9395673 AGATAATTAA
9395683 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
9395710 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
9395737 AATATAAAT
1 AATA-AAAT
9395746 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:9395732 original size:15 final size:15
Alignment explanation
Indices: 9395712--9395741 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9395702 ATAATCCTAA
*
9395712 TAATTATCTTAATAT
1 TAATTATCCTAATAT
9395727 TAATTATCCTAATAT
1 TAATTATCCTAATAT
9395742 AAATAAAATG
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:9396909 original size:43 final size:43
Alignment explanation
Indices: 9396807--9396901 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
9396797 TTAAAAAAAT
* * ***
9396807 GCCGCTAAAGACCATGGCTTTTAGCGGCGCTTTTTTTACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
9396850 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
9396893 GCCGCTAAA
1 GCCGCTAAA
9396902 AATCATGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:9396964 original size:22 final size:23
Alignment explanation
Indices: 9396936--9396978 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
9396926 TTTATTTTAA
*
9396936 TTAAATAATAT-TTATTTTTATG
1 TTAAATAATATATTATGTTTATG
*
9396958 TTAAATATTATATTATGTTTA
1 TTAAATAATATATTATGTTTA
9396979 ATTTTTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
TTAAATAATATATTATGTTTATG
Found at i:9400211 original size:10 final size:10
Alignment explanation
Indices: 9400196--9400228 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
9400186 TTAATTTAAA
9400196 TTTTTTATAT
1 TTTTTTATAT
*
9400206 TTTTTTCTAT
1 TTTTTTATAT
9400216 TTTTTTAT-T
1 TTTTTTATAT
9400225 TTTT
1 TTTT
9400229 CTTTCAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 5 0.24
10 16 0.76
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTATAT
Found at i:9400324 original size:7 final size:7
Alignment explanation
Indices: 9400312--9400346 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
9400302 ATATGGACTA
9400312 AAATATT
1 AAATATT
9400319 AAATATT
1 AAATATT
9400326 AAATATT
1 AAATATT
9400333 AAATATT
1 AAATATT
9400340 AAATATT
1 AAATATT
9400347 TAAGTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATATT
Found at i:9400363 original size:6 final size:6
Alignment explanation
Indices: 9400352--9400394 Score: 59
Period size: 6 Copynumber: 6.7 Consensus size: 6
9400342 ATATTTAAGT
9400352 TTTTTA TTTTTA TTTTTTA TTTTTA TTTTTAAA TTTTTA TTTT
1 TTTTTA TTTTTA -TTTTTA TTTTTA TTTTT--A TTTTTA TTTT
9400395 AAATTTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 22 0.65
7 6 0.18
8 6 0.18
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:9400374 original size:19 final size:20
Alignment explanation
Indices: 9400352--9400409 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
9400342 ATATTTAAGT
*
9400352 TTTTTATTTTT-ATTTTTTA
1 TTTTTATTTTTAAATTTTTA
9400371 TTTTTATTTTTAAATTTTTA
1 TTTTTATTTTTAAATTTTTA
* *
9400391 TTTTAAATTTTAAATTTTT
1 TTTTTATTTTTAAATTTTT
9400410 TTGAAGATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
19 11 0.31
20 24 0.69
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTATTTTTAAATTTTTA
Found at i:9400375 original size:14 final size:13
Alignment explanation
Indices: 9400351--9400394 Score: 70
Period size: 13 Copynumber: 3.3 Consensus size: 13
9400341 AATATTTAAG
9400351 TTTTTTATTTTTA
1 TTTTTTATTTTTA
9400364 TTTTTTATTTTTA
1 TTTTTTATTTTTA
*
9400377 TTTTTAAATTTTTA
1 TTTTT-TATTTTTA
9400391 TTTT
1 TTTT
9400395 AAATTTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
13 18 0.62
14 11 0.38
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:9400395 original size:13 final size:13
Alignment explanation
Indices: 9400357--9400401 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
9400347 TAAGTTTTTT
**
9400357 ATTTTTATTTTTT
1 ATTTTTATTTTAA
9400370 ATTTTTATTTTTAA
1 ATTTTTA-TTTTAA
9400384 ATTTTTATTTTAA
1 ATTTTTATTTTAA
9400397 ATTTT
1 ATTTT
9400402 AAATTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 18 0.62
14 11 0.38
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTTTATTTTAA
Found at i:9400400 original size:7 final size:7
Alignment explanation
Indices: 9400312--9400408 Score: 54
Period size: 7 Copynumber: 14.0 Consensus size: 7
9400302 ATATGGACTA
*
9400312 AAATATT
1 AAATTTT
*
9400319 AAATATT
1 AAATTTT
*
9400326 AAATATT
1 AAATTTT
*
9400333 AAATATT
1 AAATTTT
9400340 AAATATTT
1 AAAT-TTT
*
9400348 AAGTTTT
1 AAATTTT
**
9400355 TTATTTT
1 AAATTTT
*
9400362 -TATTTT
1 AAATTTT
**
9400368 TTATTTT
1 AAATTTT
* *
9400375 TATTTTT
1 AAATTTT
9400382 AAATTTT
1 AAATTTT
*
9400389 -TATTTT
1 AAATTTT
9400395 AAATTTT
1 AAATTTT
9400402 AAATTTT
1 AAATTTT
9400409 TTTGAAGATT
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
6 11 0.14
7 60 0.79
8 5 0.07
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (7 bp):
AAATTTT
Found at i:9400421 original size:20 final size:19
Alignment explanation
Indices: 9400376--9400430 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 19
9400366 TTTTATTTTT
*
9400376 ATTTTTAAATTTTTATTTTAA
1 ATTTTTAAA-TTTT-TTTGAA
9400397 A-TTTTAAATTTTTTTGAA
1 ATTTTTAAATTTTTTTGAA
9400415 GATTTTTATAATTTTT
1 -ATTTTTA-AATTTTT
9400431 AAATTAACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.17
19 5 0.17
20 12 0.40
21 8 0.27
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (19 bp):
ATTTTTAAATTTTTTTGAA
Found at i:9400905 original size:24 final size:24
Alignment explanation
Indices: 9400877--9400925 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
9400867 CCAAAATAAC
9400877 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
9400901 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
9400925 A
1 A
9400926 TAAATATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:9400928 original size:11 final size:12
Alignment explanation
Indices: 9400884--9400929 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
9400874 AACAATTAAT
9400884 TTTTATATAAAC
1 TTTTATATAAAC
* * *
9400896 TTTTAAATTAAT
1 TTTTATATAAAC
9400908 TTTTATATAAAC
1 TTTTATATAAAC
9400920 TTTTA-ATAAA
1 TTTTATATAAA
9400930 TATATGAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
11 5 0.18
12 23 0.82
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTATATAAAC
Found at i:9401662 original size:12 final size:12
Alignment explanation
Indices: 9401647--9401672 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9401637 GTTTTTTGAT
9401647 AAAACGCCGCTA
1 AAAACGCCGCTA
9401659 AAAACGCCGCTA
1 AAAACGCCGCTA
9401671 AA
1 AA
9401673 GCCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:9406364 original size:13 final size:13
Alignment explanation
Indices: 9406346--9406370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9406336 TATTACTTAA
9406346 AATAAAAAATATG
1 AATAAAAAATATG
9406359 AATAAAAAATAT
1 AATAAAAAATAT
9406371 TTCTTTATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
AATAAAAAATATG
Found at i:9407194 original size:18 final size:16
Alignment explanation
Indices: 9407161--9407196 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
9407151 ATGTACTACT
9407161 ATTATATATAATTATA
1 ATTATATATAATTATA
9407177 ATTATATTATAGATTATA
1 ATTATA-TATA-ATTATA
9407195 AT
1 AT
9407197 AAAAAGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 4 0.22
18 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
ATTATATATAATTATA
Found at i:9407435 original size:19 final size:20
Alignment explanation
Indices: 9407411--9407459 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
9407401 TACTACTATT
9407411 TTATATAATAAT-TATTATA
1 TTATATAATAATATATTATA
*
9407430 TTATAT-ATTATATATTATA
1 TTATATAATAATATATTATA
9407449 -TATTATAATAA
1 TTA-TATAATAA
9407460 AAGATATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 6 0.24
19 16 0.64
20 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATATAATAATATATTATA
Found at i:9407438 original size:7 final size:7
Alignment explanation
Indices: 9407407--9407455 Score: 64
Period size: 7 Copynumber: 7.0 Consensus size: 7
9407397 AAGGTACTAC
*
9407407 TATTTTA
1 TATTATA
*
9407414 TATAATA
1 TATTATA
9407421 -ATTATTA
1 TATTA-TA
9407428 TATTATA
1 TATTATA
9407435 TATTATA
1 TATTATA
9407442 TATTATA
1 TATTATA
9407449 TATTATA
1 TATTATA
9407456 ATAAAAGATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
6 3 0.08
7 30 0.81
8 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TATTATA
Found at i:9410207 original size:41 final size:43
Alignment explanation
Indices: 9410160--9410244 Score: 113
Period size: 41 Copynumber: 2.0 Consensus size: 43
9410150 AGGGTAAATC
* * *
9410160 CAACAACTCAAGTTTATCTTCT-C-CTTTTTAAATT-TATTTTT
1 CAACAACCCAAGATTATCTACTCCTCTTTTTAAATTCT-TTTTT
9410201 CAACAACCCAAGATTATCTACTCCTCTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTATCTACTCCTCTTTTTAAATTCTTTTTT
9410244 C
1 C
9410245 TAGGATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 19 0.50
42 1 0.03
43 17 0.45
44 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.02, T:0.47
Consensus pattern (43 bp):
CAACAACCCAAGATTATCTACTCCTCTTTTTAAATTCTTTTTT
Found at i:9415226 original size:90 final size:87
Alignment explanation
Indices: 9415024--9415344 Score: 331
Period size: 90 Copynumber: 3.6 Consensus size: 87
9415014 TCAAAATAAT
* * * * *
9415024 TGTATTATTTCTTTAGAATGTTTGTATTTTTTTATATCTGTAAATTTAATGTAGTTGT-TTAGGA
1 TGTATTAATT-TTTAGAATGTTTGTATTTTTTTGTATCTGTAAATTTAATTTAGTCGTATTA-TA
* *
9415088 TTTAAAGTTTCATTTTTATATTTTCG
64 TTT--AGTTTGAATTTTATATTTTCG
9415114 TGTATTAATTTCTTAGAATGTTTGTATTTTTTTGTATCTGTAAATTTAATTTAGTCCGTATTATA
1 TGTATTAATTT-TTAGAATGTTTGTATTTTTTTGTATCTGTAAATTTAATTTAGT-CGTATTATA
* * *
9415179 TGTAGTTTGAATTTAAAATTTTCG
64 TTTAGTTTGAATTTTATATTTTCG
** * * * ** * *
9415203 TGTATTAATTTTTCCCATCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTGCGTATTAT
1 TGTATTAATTTTT-AGA-ATGTTTGTATTTTTTTGTATCTGTAAATTTAATTTAGT-CGTATTAT
* *
9415268 -TTTTGTTTGAATTTTATATTTTTG
63 ATTTAGTTTGAATTTTATATTTTCG
* *
9415292 TGTATTAATATTGTAGAATGTTTGTATTTTATTGTATCTGTAAATTTAATTTA
1 TGTATTAAT-TTTTAGAATGTTTGTATTTTTTTGTATCTGTAAATTTAATTTA
9415345 TTGTGTACTT
Statistics
Matches: 190, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
88 31 0.16
89 59 0.31
90 92 0.48
91 5 0.03
92 3 0.02
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.56
Consensus pattern (87 bp):
TGTATTAATTTTTAGAATGTTTGTATTTTTTTGTATCTGTAAATTTAATTTAGTCGTATTATATT
TAGTTTGAATTTTATATTTTCG
Found at i:9415289 original size:89 final size:89
Alignment explanation
Indices: 9415101--9415344 Score: 260
Period size: 89 Copynumber: 2.7 Consensus size: 89
9415091 AAAGTTTCAT
* * * *
9415101 TTTTATATTTTCGTGTATTAATTTCTTAGAATGTTTGTATTTTTTTGTATCTGTAAATTTAATTT
1 TTTTATATTTTCGTGTATTAATTTCTTACAATGTTTGTAGTTTGTTGGATCTGTAAATTTAATTT
9415166 AGTCCGTATTATATGTAGTTTGAA
66 AGTCCGTATTATATGTAGTTTGAA
* * * * * * *
9415190 TTTAAAATTTTCGTGTATTAATTT-TTCCCATCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAAT
1 TTTTATATTTTCGTGTATTAATTTCTT-ACA-ATGTTTGTAGTTTGTTGGATCTGTAAATTTAAT
* * *
9415254 TTAGTGCGTATTAT-TTTTGTTTGAA
64 TTAGTCCGTATTATATGTAGTTTGAA
* * * * * *
9415279 TTTTATATTTTTGTGTATTAATATT-GTAGAATGTTTGTATTTTATTGTATCTGTAAATTTAATT
1 TTTTATATTTTCGTGTATTAAT-TTCTTACAATGTTTGTAGTTTGTTGGATCTGTAAATTTAATT
9415343 TA
65 TA
9415345 TTGTGTACTT
Statistics
Matches: 125, Mismatches: 27, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
88 31 0.25
89 52 0.42
90 42 0.34
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (89 bp):
TTTTATATTTTCGTGTATTAATTTCTTACAATGTTTGTAGTTTGTTGGATCTGTAAATTTAATTT
AGTCCGTATTATATGTAGTTTGAA
Found at i:9417724 original size:64 final size:71
Alignment explanation
Indices: 9417613--9417764 Score: 183
Period size: 67 Copynumber: 2.2 Consensus size: 71
9417603 CATCATGTGT
* * * *
9417613 ACAAGAGAGCTACGAGACATTATGATGTAGCTAAGTCGCATGGGTGA-TAC-TATG-TGTACACC
1 ACAAGAGAGCTACGAGACATTATGATGTAGCTAAGTCGCATGCGTGATTACAGATGAAGGACACC
9417675 ATGTAG
66 ATGTAG
* * * *
9417681 ACAAGAGAGCTACG-G-GA-TAT-ATGTAGCTAGGTCGCATGCGTGATTCCAGATGAAGGACAGC
1 ACAAGAGAGCTACGAGACATTATGATGTAGCTAAGTCGCATGCGTGATTACAGATGAAGGACACC
9417742 ATGTAG
66 ATGTAG
9417748 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
9417765 AAAACTGGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
64 21 0.30
65 5 0.07
66 4 0.06
67 26 0.37
68 15 0.21
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (71 bp):
ACAAGAGAGCTACGAGACATTATGATGTAGCTAAGTCGCATGCGTGATTACAGATGAAGGACACC
ATGTAG
Found at i:9418745 original size:27 final size:27
Alignment explanation
Indices: 9418703--9418835 Score: 191
Period size: 27 Copynumber: 5.0 Consensus size: 27
9418693 GTCACAAGAT
9418703 ACAGATAT-TGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
9418729 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* *
9418756 TCAGATA-ATCGTGGCATAGCCACCAGA
1 ACAGATATAT-GTGGCAGAGCCACCAGA
9418783 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* *
9418810 TCAGATA-ATTGTGGCATAGCCACCAG
1 ACAGATATA-TGTGGCAGAGCCACCAG
9418836 GACGCTTCCT
Statistics
Matches: 97, Mismatches: 6, Indels: 7
0.88 0.05 0.06
Matches are distributed among these distances:
26 11 0.11
27 84 0.87
28 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (27 bp):
ACAGATATATGTGGCAGAGCCACCAGA
Found at i:9418779 original size:54 final size:54
Alignment explanation
Indices: 9418699--9418835 Score: 240
Period size: 54 Copynumber: 2.5 Consensus size: 54
9418689 CGAAGTCACA
*
9418699 AGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACC
1 AGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACC
*
9418753 AGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACC
1 AGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACC
9418807 AGATCAGATAATTGTGGCATAGCCACCAG
1 AGATCAGATAATTGTGGCATAGCCACCAG
9418836 GACGCTTCCT
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
53 5 0.06
54 74 0.94
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (54 bp):
AGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACC
Found at i:9418977 original size:26 final size:27
Alignment explanation
Indices: 9418941--9419003 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 27
9418931 AAAGTAACCC
**
9418941 TAGGGGTATAATGGTAATTTT-GTACA
1 TAGGGGTATAACAGTAATTTTCGTACA
9418967 TAGGGGTATAACAGTAATTTTCCGTACA
1 TAGGGGTATAACAGTAATTTT-CGTACA
9418995 TAGGGGTAT
1 TAGGGGTAT
9419004 TCAAGTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 19 0.58
28 14 0.42
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (27 bp):
TAGGGGTATAACAGTAATTTTCGTACA
Found at i:9420426 original size:26 final size:26
Alignment explanation
Indices: 9420396--9420503 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
9420386 TGAAATTCCC
9420396 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9420422 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
9420448 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
9420474 ATCATGGAACATTTACCTAACCCGTT
1 ATCATGGAACATTTACCTAACCCATT
9420500 ATCA
1 ATCA
9420504 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:9426801 original size:27 final size:27
Alignment explanation
Indices: 9426759--9426890 Score: 180
Period size: 27 Copynumber: 4.9 Consensus size: 27
9426749 GTCACAAGAT
*
9426759 ACAGATAT-TGTGGCAGAACCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
9426785 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* *
9426812 TCAGATA-ATTGTGGCATAGCCACCAGA
1 ACAGATATA-TGTGGCAGAGCCACCAGA
9426839 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* *
9426866 TCAGATA-ATTGTGGCATAGCCACCA
1 ACAGATATA-TGTGGCAGAGCCACCA
9426891 AGACGCTTCC
Statistics
Matches: 95, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
26 10 0.11
27 84 0.88
28 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
ACAGATATATGTGGCAGAGCCACCAGA
Found at i:9426835 original size:54 final size:54
Alignment explanation
Indices: 9426755--9426890 Score: 238
Period size: 54 Copynumber: 2.5 Consensus size: 54
9426745 CGAAGTCACA
* *
9426755 AGATACAGAT-ATTGTGGCAGAACCACCAGAACAGATATATGTGGCAGAGCCACC
1 AGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACC
9426809 AGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACC
1 AGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACC
9426863 AGATCAGATAATTGTGGCATAGCCACCA
1 AGATCAGATAATTGTGGCATAGCCACCA
9426891 AGACGCTTCC
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
53 5 0.06
54 74 0.94
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
AGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACC
Found at i:9427059 original size:28 final size:26
Alignment explanation
Indices: 9426997--9427059 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
9426987 AAAGTAACCC
** *
9426997 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTGCACA
*
9427023 TAGGGGTATAACAGTAATTTTCCGTACA
1 TAGGGGTATAACAGTAATTTT--GCACA
9427051 TAGGGGTAT
1 TAGGGGTAT
9427060 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 19 0.61
28 12 0.39
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTGCACA
Found at i:9428483 original size:26 final size:26
Alignment explanation
Indices: 9428453--9428560 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
9428443 TGAAATTCCC
9428453 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9428479 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * * *
9428505 ATCATGAAACATGTACCTGACTCATT
1 ATCATGGAACATTTACCTAACCCATT
9428531 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9428557 ATCA
1 ATCA
9428561 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:9432207 original size:22 final size:22
Alignment explanation
Indices: 9432176--9432256 Score: 72
Period size: 22 Copynumber: 3.5 Consensus size: 22
9432166 TCTCATTTCA
9432176 TTTAAATTATCTTTCTTCCTAT
1 TTTAAATTATCTTTCTTCCTAT
* * * *
9432198 TTTAATTTATTTTTTTTTCTCATTT
1 TTTAAATTA-TCTTTCTTC-C-TAT
9432223 CATTTAAATTATCTTTCTTCCTAT
1 --TTTAAATTATCTTTCTTCCTAT
*
9432247 TTTAATTTAT
1 TTTAAATTAT
9432257 TTTTTTCTCA
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
22 17 0.38
23 7 0.16
24 3 0.07
25 3 0.07
26 7 0.16
27 8 0.18
ACGTcount: A:0.22, C:0.14, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTAAATTATCTTTCTTCCTAT
Found at i:9432210 original size:49 final size:49
Alignment explanation
Indices: 9432156--9432483 Score: 336
Period size: 47 Copynumber: 6.6 Consensus size: 49
9432146 CTATCCTTTC
*
9432156 AATTTTCTTTTCTCATTTCATTTAAATTATCTTTCTTCCTATTTTAATTT
1 AATTTT-TTTTCTCATTTCATTTAAATTATCTTTCTTCCTATTTAAATTT
* *
9432206 ATTTTTTTTTCTCATTTCATTTAAATTATCTTTCTTCCTATTTTAATTT
1 AATTTTTTTTCTCATTTCATTTAAATTATCTTTCTTCCTATTTAAATTT
*
9432255 -A-TTTTTTTCTCATTTCATTTAAATTAT-TTTTTTCC-ATTTAAATTT
1 AATTTTTTTTCTCATTTCATTTAAATTATCTTTCTTCCTATTTAAATTT
*
9432300 AATTTTTTTTCTCATTTCATTTAAATTATCTTTCTTCCCATTTAAATTT
1 AATTTTTTTTCTCATTTCATTTAAATTATCTTTCTTCCTATTTAAATTT
* *
9432349 AA--TTTTTT-TCATTTTATTTAAATTATCTTTTTTTCCATTTCGATTTAAATATTT
1 AATTTTTTTTCTCATTTCATTTAAATTATC-TTTCTTCC---T--ATTT-AA-ATTT
**
9432403 CAATTTAAATTT-T--TTCTCATTTCATTTAAATTATCTTTCTTTCC-ATTTAAATTT
1 -AATTT-TTTTTCTCATT-TCA--T---TTAAATTATCTTTC-TTCCTATTTAAATTT
9432457 AATTTTTTTTCTCATTTCATTTAAATT
1 AATTTTTTTTCTCATTTCATTTAAATT
9432484 TTTTTTTCTC
Statistics
Matches: 238, Mismatches: 14, Indels: 53
0.78 0.05 0.17
Matches are distributed among these distances:
45 9 0.04
46 26 0.11
47 65 0.27
48 7 0.03
49 62 0.26
50 5 0.02
52 8 0.03
53 8 0.03
54 11 0.05
55 6 0.03
56 6 0.03
57 3 0.01
58 4 0.02
59 1 0.00
61 3 0.01
62 14 0.06
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.62
Consensus pattern (49 bp):
AATTTTTTTTCTCATTTCATTTAAATTATCTTTCTTCCTATTTAAATTT
Found at i:9432307 original size:20 final size:19
Alignment explanation
Indices: 9432270--9432307 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
9432260 TTTCTCATTT
*
9432270 CATTTAAATTATTTTTTTC
1 CATTTAAATTAATTTTTTC
9432289 CATTTAAATTTAATTTTTT
1 CATTTAAA-TTAATTTTTT
9432308 TTCTCATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (19 bp):
CATTTAAATTAATTTTTTC
Found at i:9432431 original size:108 final size:109
Alignment explanation
Indices: 9432290--9432490 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 109
9432280 ATTTTTTTCC
*
9432290 ATTTAAATTTAATTTTTTTTCTCATTTCATTTAAATTATCTTTCTTCCCATTTAAATTTAA-TTT
1 ATTTAAATTTAATATTTTTTCTCATTTCATTTAAATTATCTTTCTTCCCATTTAAATTTAATTTT
*
9432354 TTT-TCATTTTATTTAAATTATCTTTTTTTCCATTTCGATTTAAAT
66 TTTCTCATTTCATTTAAATT-T-TTTTTTTCCATTTCGATTTAAAT
* *
9432399 ATTTCAATTTAA-ATTTTTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTAATTTT
1 ATTTAAATTTAATATTTTTTCTCATTTCATTTAAATTATCTTTCTTCCCATTTAAATTTAA-TTT
9432463 TTTTCTCATTTCATTTAAATTTTTTTTT
65 TTTTCTCATTTCATTTAAATTTTTTTTT
9432491 CTCTTTTCAT
Statistics
Matches: 85, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
108 46 0.54
109 17 0.20
110 7 0.08
111 15 0.18
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.62
Consensus pattern (109 bp):
ATTTAAATTTAATATTTTTTCTCATTTCATTTAAATTATCTTTCTTCCCATTTAAATTTAATTTT
TTTCTCATTTCATTTAAATTTTTTTTTTCCATTTCGATTTAAAT
Found at i:9432457 original size:62 final size:63
Alignment explanation
Indices: 9432339--9432560 Score: 184
Period size: 73 Copynumber: 3.4 Consensus size: 63
9432329 CTTTCTTCCC
* * * **
9432339 ATTTAAATTT-AATTTTTT-TCATTTTATTTAAATTATCTTTTTTTCCATTTCGATTTAA-AT
1 ATTTCAATTTAAATTTTTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTAATAT
*
9432399 ATTTCAATTTAAATTTTTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTAATTTTT
1 ATTTCAATTTAAATTTTTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTAA--TAT
* * * *
9432464 TTTCTCATTTCATTTAAATTTTTTTTTCTCTTTTCATTTAAAGTATCTTTCTTTACATTTAAATT
1 ATT-TCA----ATTTAAA---TTTTTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTAAATT
*
9432529 TACT-T
58 TAATAT
*
9432534 -TTTCTACATATAAATTTTTCTCTCATT
1 ATTTC-A-ATTTAAATTTTT-TCTCATT
9432561 GTAATTTATT
Statistics
Matches: 134, Mismatches: 13, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
60 9 0.07
61 8 0.06
62 36 0.27
63 5 0.04
64 6 0.04
65 3 0.02
66 10 0.07
68 2 0.01
69 3 0.02
70 8 0.06
71 1 0.01
73 43 0.32
ACGTcount: A:0.26, C:0.13, G:0.01, T:0.60
Consensus pattern (63 bp):
ATTTCAATTTAAATTTTTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTAATAT
Found at i:9432534 original size:21 final size:22
Alignment explanation
Indices: 9432405--9432550 Score: 72
Period size: 21 Copynumber: 6.5 Consensus size: 22
9432395 AAATATTTCA
9432405 ATTTAAATTT-T-TTCTCATTT-C
1 ATTTAAATTTATCTT-TC-TTTAC
*
9432426 ATTTAAA-TTATCTTTCTTTCC
1 ATTTAAATTTATCTTTCTTTAC
* *
9432447 ATTTAAATTTAATTTTTTTTCTCATTTC
1 ATTTAAATTT-A---TCTTTCT--TTAC
* * *
9432475 ATTTAAATTTTTTTTTCTCTTTTC
1 ATTTAAA-TTTATCTT-TCTTTAC
*
9432499 ATTTAAA-GTATCTTTCTTTAC
1 ATTTAAATTTATCTTTCTTTAC
9432520 ATTTAAATTTA-CTTT-TTCTAC
1 ATTTAAATTTATCTTTCTT-TAC
*
9432541 ATATAAATTT
1 ATTTAAATTT
9432551 TTCTCTCATT
Statistics
Matches: 102, Mismatches: 9, Indels: 28
0.73 0.06 0.20
Matches are distributed among these distances:
20 7 0.07
21 47 0.46
22 10 0.10
23 1 0.01
24 11 0.11
25 4 0.04
26 9 0.09
28 10 0.10
29 3 0.03
ACGTcount: A:0.26, C:0.13, G:0.01, T:0.60
Consensus pattern (22 bp):
ATTTAAATTTATCTTTCTTTAC
Found at i:9434052 original size:12 final size:12
Alignment explanation
Indices: 9434035--9434069 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
9434025 CCGGCCCGCC
9434035 TATATTAATTTT
1 TATATTAATTTT
*
9434047 TATATTATTTTT
1 TATATTAATTTT
9434059 TATA-TAATTTT
1 TATATTAATTTT
9434070 AAAATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:9434330 original size:11 final size:11
Alignment explanation
Indices: 9434314--9434341 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
9434304 ATGTAATAGT
9434314 AAAATAGGGAG
1 AAAATAGGGAG
9434325 AAAATAGGGAG
1 AAAATAGGGAG
9434336 AAAATA
1 AAAATA
9434342 ATATTTTAAA
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:0.61, C:0.00, G:0.29, T:0.11
Consensus pattern (11 bp):
AAAATAGGGAG
Found at i:9434366 original size:26 final size:27
Alignment explanation
Indices: 9434337--9434390 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
9434327 AATAGGGAGA
9434337 AAATAATATTTT-AAAAAAATTCATTT
1 AAATAATATTTTAAAAAAAATTCATTT
9434363 AAATAATATTTTAAAAAAAATTCATTT
1 AAATAATATTTTAAAAAAAATTCATTT
9434390 A
1 A
9434391 GTGAATTCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (27 bp):
AAATAATATTTTAAAAAAAATTCATTT
Found at i:9434810 original size:8 final size:8
Alignment explanation
Indices: 9434797--9434840 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
9434787 ACTTAAGTGT
9434797 ATAATATA
1 ATAATATA
9434805 ATAATATA
1 ATAATATA
*
9434813 TTAATATA
1 ATAATATA
*
9434821 ATAATTTA
1 ATAATATA
9434829 ATAATATA
1 ATAATATA
9434837 ATAA
1 ATAA
9434841 AACATAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATAATATA
Found at i:9439843 original size:46 final size:46
Alignment explanation
Indices: 9439793--9439962 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
9439783 TTGAGCATCC
* *
9439793 GAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATACCT
* * * * *
9439839 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATA--C-CT
* * *
9439885 CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGCCT
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATACCT
*
9439932 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
9439963 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 8 0.08
45 2 0.02
46 55 0.54
47 27 0.27
48 3 0.03
50 6 0.06
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATACCT
Found at i:9439951 original size:93 final size:93
Alignment explanation
Indices: 9439787--9439957 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
9439777 GGATGGTTGA
*
9439787 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATATCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATACCTGAACTCGTTGAGT
9439852 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * * *
9439880 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGCCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATACCTGAACTCGTTGAGT
9439945 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
9439958 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATACCTGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:9440224 original size:19 final size:20
Alignment explanation
Indices: 9440187--9440224 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
9440177 ATAAGGTGGT
9440187 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
9440207 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
9440225 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:9442981 original size:12 final size:11
Alignment explanation
Indices: 9442963--9443011 Score: 70
Period size: 9 Copynumber: 4.8 Consensus size: 11
9442953 TTATCACTTA
9442963 AAATTTTATAT
1 AAATTTTATAT
9442974 AAATTTT-TA-
1 AAATTTTATAT
9442983 AAATTTTATAT
1 AAATTTTATAT
9442994 AAATTTT-TA-
1 AAATTTTATAT
9443003 AAATTTTAT
1 AAATTTTAT
9443012 GTGATGATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 14 0.40
10 7 0.20
11 14 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
AAATTTTATAT
Found at i:9442985 original size:20 final size:20
Alignment explanation
Indices: 9442960--9443011 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
9442950 ACGTTATCAC
9442960 TTAAAATTTTATATAAATTT
1 TTAAAATTTTATATAAATTT
9442980 TTAAAATTTTATATAAATTT
1 TTAAAATTTTATATAAATTT
9443000 TTAAAATTTTAT
1 TTAAAATTTTAT
9443012 GTGATGATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTAAAATTTTATATAAATTT
Found at i:9447199 original size:24 final size:24
Alignment explanation
Indices: 9447172--9447235 Score: 119
Period size: 24 Copynumber: 2.7 Consensus size: 24
9447162 CGAAAGAGAG
9447172 TCCCGTTATTAGCTCTCATGAGCT
1 TCCCGTTATTAGCTCTCATGAGCT
9447196 TCCCGTTATTAGCTCTCATGAGCT
1 TCCCGTTATTAGCTCTCATGAGCT
*
9447220 TCCCGTTAATAGCTCT
1 TCCCGTTATTAGCTCT
9447236 TCGGAACATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.17, C:0.30, G:0.16, T:0.38
Consensus pattern (24 bp):
TCCCGTTATTAGCTCTCATGAGCT
Found at i:9447427 original size:24 final size:24
Alignment explanation
Indices: 9447373--9447429 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
9447363 TGACTCTCCA
* *
9447373 GAGCTTCCCGATATTGGCTCGCTT
1 GAGCTTCCCAATATTGGCTCGCAT
* *
9447397 GAACTTCCCAATTATT-GCTCGGAT
1 GAGCTTCCCAA-TATTGGCTCGCAT
9447421 GAGCTTCCC
1 GAGCTTCCC
9447430 GTTACATGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.18, C:0.30, G:0.21, T:0.32
Consensus pattern (24 bp):
GAGCTTCCCAATATTGGCTCGCAT
Found at i:9449501 original size:13 final size:12
Alignment explanation
Indices: 9449483--9449529 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
9449473 AATAGGAAGA
9449483 TATTATTTTGTTT
1 TATTATTTT-TTT
9449496 TATTATTTATTTT
1 TATTATTT-TTTT
*
9449509 TATTTATTTTTAT
1 TA-TTATTTTTTT
9449522 T-TTATTTT
1 TATTATTTT
9449530 ATTAACTTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
11 7 0.23
13 17 0.55
14 7 0.23
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (12 bp):
TATTATTTTTTT
Found at i:9449511 original size:10 final size:10
Alignment explanation
Indices: 9449498--9449529 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
9449488 TTTTGTTTTA
9449498 TTATTTATTT
1 TTATTTATTT
9449508 TTATTTATTT
1 TTATTTATTT
9449518 TTATTTTATTT
1 TTA-TTTATTT
9449529 T
1 T
9449530 ATTAACTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.62
11 8 0.38
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTATTTATTT
Found at i:9457459 original size:41 final size:41
Alignment explanation
Indices: 9457393--9457487 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
9457383 AAATGGGTCT
* *
9457393 ACTCACACAAGCTGACGGTCAGAATGTAGCTATACGATGCC
1 ACTCACACAAGCTGACAGTCAGAATGTAGCTACACGATGCC
* * * *
9457434 GCTCACACAAGTTGACAGTCGGAATGTAGCTACATGATGCC
1 ACTCACACAAGCTGACAGTCAGAATGTAGCTACACGATGCC
*
9457475 ACTTACACAAGCT
1 ACTCACACAAGCT
9457488 AACTAGTATC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (41 bp):
ACTCACACAAGCTGACAGTCAGAATGTAGCTACACGATGCC
Found at i:9458421 original size:39 final size:39
Alignment explanation
Indices: 9458377--9458458 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
9458367 GTTGTATACC
9458377 ATGTTCATAAAAGATGTATTGTTAATATATATACTAACG
1 ATGTTCATAAAAGATGTATTGTTAATATATATACTAACG
*
9458416 ATGTTCATAAACGATGTATTGTTAATATATATACTAACG
1 ATGTTCATAAAAGATGTATTGTTAATATATATACTAACG
9458455 ATGT
1 ATGT
9458459 GAATTGTGGC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (39 bp):
ATGTTCATAAAAGATGTATTGTTAATATATATACTAACG
Found at i:9461957 original size:18 final size:19
Alignment explanation
Indices: 9461934--9461976 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
9461924 ATATTTATTT
*
9461934 ATATATTATAAAT-TTTAA
1 ATATATTATAAATAATTAA
*
9461952 ATATATTTTAAATAATTAA
1 ATATATTATAAATAATTAA
9461971 ATATAT
1 ATATAT
9461977 ATTAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATATTATAAATAATTAA
Found at i:9461972 original size:19 final size:18
Alignment explanation
Indices: 9461934--9461983 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
9461924 ATATTTATTT
* *
9461934 ATATATTATAAATTTTAA
1 ATATATTTTAAATATTAA
9461952 ATATATTTTAAATAATTAA
1 ATATATTTTAAAT-ATTAA
*
9461971 ATATATATTAAAT
1 ATATATTTTAAAT
9461984 TAAGTATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATATATTTTAAATATTAA
Found at i:9465812 original size:45 final size:45
Alignment explanation
Indices: 9465748--9465838 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
9465738 ATTCAAATAT
* * *
9465748 TCATTTTATGACTAAGCTAATAATTAGGTTAACGAGAAGATTTGA
1 TCATTTTATGACTAAGCTAATAATTAGATTAACAAAAAGATTTGA
* *
9465793 TCATTTTATGACTAGGCTAATAATTAGATTATCAAAAAGATTTGA
1 TCATTTTATGACTAAGCTAATAATTAGATTAACAAAAAGATTTGA
9465838 T
1 T
9465839 TGATATGATA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.37
Consensus pattern (45 bp):
TCATTTTATGACTAAGCTAATAATTAGATTAACAAAAAGATTTGA
Found at i:9465949 original size:2 final size:2
Alignment explanation
Indices: 9465938--9465967 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9465928 GATGCCAATT
9465938 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9465968 TCAGGATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9471258 original size:67 final size:68
Alignment explanation
Indices: 9471132--9471261 Score: 183
Period size: 68 Copynumber: 1.9 Consensus size: 68
9471122 TAAAGTATTA
* * * *
9471132 AAAATTAATATTTTCAATAATTTAATTTTTTTAATGTGTTTAATAATTTACAATAAAAATTACAA
1 AAAATTAATATGTGCAATAATTTAATTTTTTAAATGTGTTTAATAATTCACAATAAAAATTACAA
9471197 TTG
66 TTG
* *
9471200 AAAATTAATATGTGCAATAGTTTAATTTTTTAACATG-G-TTAATAATTCGCAATAAAAATTAC
1 AAAATTAATATGTGCAATAATTTAATTTTTTAA-ATGTGTTTAATAATTCACAATAAAAATTAC
9471262 TAGATAGATA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
67 22 0.40
68 30 0.55
69 3 0.05
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (68 bp):
AAAATTAATATGTGCAATAATTTAATTTTTTAAATGTGTTTAATAATTCACAATAAAAATTACAA
TTG
Found at i:9476813 original size:8 final size:8
Alignment explanation
Indices: 9476791--9476830 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
9476781 TGATGCGCTT
9476791 TATAAATA
1 TATAAATA
9476799 TCA-AAATA
1 T-ATAAATA
*
9476807 TGTAAATA
1 TATAAATA
9476815 TATAAATA
1 TATAAATA
9476823 TATAAATA
1 TATAAATA
9476831 AGGTACTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 27 0.96
9 1 0.04
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (8 bp):
TATAAATA
Found at i:9478961 original size:44 final size:44
Alignment explanation
Indices: 9478910--9478994 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
9478900 ATGTTAGAAT
*
9478910 TTTTCAAAATTGTAAAAAATAATAAAAATTTTTAAAAACTAAAA
1 TTTTCAAAATTGTAAAAAATAATAAAAAATTTTAAAAACTAAAA
9478954 TTTTCAAAATTGTAAAAAATAATAAAAAATTTTAAAAACTA
1 TTTTCAAAATTGTAAAAAATAATAAAAAATTTTAAAAACTA
9478995 CAAAAAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (44 bp):
TTTTCAAAATTGTAAAAAATAATAAAAAATTTTAAAAACTAAAA
Found at i:9479042 original size:9 final size:9
Alignment explanation
Indices: 9478999--9479078 Score: 54
Period size: 9 Copynumber: 8.6 Consensus size: 9
9478989 AAACTACAAA
9478999 AAAAATTAT
1 AAAAATTAT
9479008 AAAAATTATT
1 AAAAATTA-T
* *
9479018 AGAAATTGT
1 AAAAATTAT
*
9479027 AAAAAATTGT
1 -AAAAATTAT
*
9479037 AAAAATCAT
1 AAAAATTAT
9479046 AAAAA-TATT
1 AAAAATTA-T
* *
9479055 AGAAATCAT
1 AAAAATTAT
*
9479064 AAAAAATTGT
1 -AAAAATTAT
9479074 AAAAA
1 AAAAA
9479079 AATTATTTAA
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
8 1 0.02
9 32 0.58
10 22 0.40
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:9479049 original size:18 final size:19
Alignment explanation
Indices: 9479026--9479078 Score: 74
Period size: 18 Copynumber: 2.8 Consensus size: 19
9479016 TTAGAAATTG
9479026 TAAAAAATTGTAAAAATCA
1 TAAAAAATTGTAAAAATCA
*
9479045 T-AAAAATAT-TAGAAATCA
1 TAAAAAAT-TGTAAAAATCA
9479063 TAAAAAATTGTAAAAA
1 TAAAAAATTGTAAAAA
9479079 AATTATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (19 bp):
TAAAAAATTGTAAAAATCA
Found at i:9479067 original size:37 final size:38
Alignment explanation
Indices: 9478999--9479078 Score: 126
Period size: 37 Copynumber: 2.1 Consensus size: 38
9478989 AAACTACAAA
* **
9478999 AAAAATTATAAAAATTATTAGAAATTGTAAAAAATTGT
1 AAAAATCATAAAAATTATTAGAAATCATAAAAAATTGT
9479037 AAAAATCATAAAAA-TATTAGAAATCATAAAAAATTGT
1 AAAAATCATAAAAATTATTAGAAATCATAAAAAATTGT
9479074 AAAAA
1 AAAAA
9479079 AATTATTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 26 0.67
38 13 0.33
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (38 bp):
AAAAATCATAAAAATTATTAGAAATCATAAAAAATTGT
Found at i:9481848 original size:58 final size:58
Alignment explanation
Indices: 9481744--9481860 Score: 162
Period size: 58 Copynumber: 2.0 Consensus size: 58
9481734 AAACTTCCTA
* * * *
9481744 ACATATTTATTTTTAGAATTTTTAGAAGATTTATTATACAACGGAAATAACACAAAAC
1 ACATATTTATTTTTAGAATTTTTAGAAGACTAATTAAACAACGGAAAGAACACAAAAC
* * * *
9481802 ACATTTTTATTTTTAGAATTTTTGGAGGACTAATTAAACAAGGGAAAGAACACAAAAC
1 ACATATTTATTTTTAGAATTTTTAGAAGACTAATTAAACAACGGAAAGAACACAAAAC
9481860 A
1 A
9481861 TATAAAATTG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.33
Consensus pattern (58 bp):
ACATATTTATTTTTAGAATTTTTAGAAGACTAATTAAACAACGGAAAGAACACAAAAC
Found at i:9492989 original size:131 final size:131
Alignment explanation
Indices: 9492761--9493006 Score: 286
Period size: 131 Copynumber: 1.9 Consensus size: 131
9492751 TGATATTTAG
* *
9492761 CAATTCGCGGAATCGTGCCCTAACGCGTTGGGTTGTAATTTCTCGTTGCTCAAAATAATCAAATA
1 CAATTCGCGGAATCATGCCCTAACGCGTTGGGTTGTAATTTCTCGTTGCTCAAAACAATCAAATA
*
9492826 TCCCTTCGAAATTTCACTCAGGTCTTCTAAAAATCCTCT-AAAACGAAGGCAATACTCGGTGTTT
66 TCCCTTAGAAATTTCACTCAGGTCTTCTAAAAA-CCTCTCAAAACGAAGGCAATACTCGGTGTTT
9492890 GA
130 GA
* * * *
9492892 CAATTCG-GGAATCATGCCCTATCGTGTTGGGTTGTGATTTCTCGTTTG-TCCAAAACAATCGAA
1 CAATTCGCGGAATCATGCCCTAACGCGTTGGGTTGTAATTTCTCG-TTGCT-CAAAACAATCAAA
* ** * * * *
9492955 TATTCCTTTAG-GCTTTCACTCATGT-TTATCAAAAACCTTTCAAAGCGAAGGC
64 TA-TCCCTTAGAAATTTCACTCAGGTCTTCT-AAAAACCTCTCAAAACGAAGGC
9493007 GATGTTCGTT
Statistics
Matches: 96, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
130 41 0.43
131 49 0.51
132 6 0.06
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (131 bp):
CAATTCGCGGAATCATGCCCTAACGCGTTGGGTTGTAATTTCTCGTTGCTCAAAACAATCAAATA
TCCCTTAGAAATTTCACTCAGGTCTTCTAAAAACCTCTCAAAACGAAGGCAATACTCGGTGTTTG
A
Found at i:9493896 original size:3 final size:3
Alignment explanation
Indices: 9493888--9493959 Score: 108
Period size: 3 Copynumber: 24.0 Consensus size: 3
9493878 GATAGAACAG
*
9493888 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
9493936 TAA TAG TAA TAG TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
9493960 CAAAACAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9495194 original size:40 final size:40
Alignment explanation
Indices: 9495100--9495284 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 40
9495090 TATTCGAATG
* *
9495100 ATATCTGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
9495141 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* *
9495181 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
*
9495221 ATATCCGGGCTAAG-TCTCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAGTGACT
* *
9495261 ATATCTGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
9495285 CTTGTGCAAG
Statistics
Matches: 122, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 90 0.74
41 29 0.24
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:9495271 original size:80 final size:81
Alignment explanation
Indices: 9495100--9495284 Score: 250
Period size: 80 Copynumber: 2.3 Consensus size: 81
9495090 TATTCGAATG
* * *
9495100 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
*
9495165 ATTCGTGCGAGTTGCT
66 ATTCATGCGAGTTGCT
* * *
9495181 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCTCGAAGG
1 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATC-CGAAGG
* *
9495244 CATTTATGCTAG-TGACT
65 CATTCATGCGAGTTG-CT
9495261 ATATCTGGGCTAAGACCCGAAGGC
1 ATATCTGGGCTAAGACCCGAAGGC
9495285 CTTGTGCAAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
79 4 0.04
80 57 0.62
81 31 0.34
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCT
Found at i:9502338 original size:40 final size:40
Alignment explanation
Indices: 9502244--9502428 Score: 255
Period size: 40 Copynumber: 4.6 Consensus size: 40
9502234 TATTCGAATG
* *
9502244 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * *
9502285 ATAACCGGACTAAGACCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
*
9502325 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
9502365 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
9502405 ATATCCGAGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
9502429 CTTGTGCAAG
Statistics
Matches: 126, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 95 0.75
41 30 0.24
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:9511243 original size:223 final size:223
Alignment explanation
Indices: 9510855--9511300 Score: 777
Period size: 223 Copynumber: 2.0 Consensus size: 223
9510845 ACATAAAGAA
* * * *
9510855 ACCCAAAGAACTTCTAAGGAAATTGAATGGAGATCTTTAGGCTTGAAGTAGATCTTGTTTCCGAG
1 ACCCAAAGAACTTCTAAGGAAATTGAATAGAGATCTTCAGGCTTGAAGTAGATCCTGCTTCCGAG
* *
9510920 CTAATTCCGTTGGTTGTCTTCGAGTATTCTCTGCCTTCTACTCTCCGTCCCCCATTTGATCCTCT
66 CTAATTCCGTTGGCTGTCTTCAAGTATTCTCTGCCTTCTACTCTCCGTCCCCCATTTGATCCTCT
9510985 TCTCCTTTGTTTAAGCAGACTTTGGAATGCCCAAAATATTAAAAAATTAGCCTTTT-CTGAGTAG
131 TCTCCTTTGTTTAAGCAGACTTTGGAATGCCCAAAATATTAAAAAATTAGCCTTTTCCT-AGTAG
*
9511049 AATTAAAATAGGTTCTGACAGGGACACGG
195 AATTAAAATAGGTTCCGACAGGGACACGG
9511078 ACCCAAAGAACTTCTAAGGAAATTGAATAGAGATCTTCAGGCTTGAAGTAGATCCTGCTTCCGAG
1 ACCCAAAGAACTTCTAAGGAAATTGAATAGAGATCTTCAGGCTTGAAGTAGATCCTGCTTCCGAG
*
9511143 CTGATTCCGTTGGCTGTCTTCAAGTATTCTCTGCCTTCTACTCTCCGTCCCCCATTTGATCCTCT
66 CTAATTCCGTTGGCTGTCTTCAAGTATTCTCTGCCTTCTACTCTCCGTCCCCCATTTGATCCTCT
* *
9511208 TCTCCTTTGTTTAAGTAGACTTTGGAATGCCCAAAATATTCAAAAATTAGCCTTTTCCTAGTAGA
131 TCTCCTTTGTTTAAGCAGACTTTGGAATGCCCAAAATATTAAAAAATTAGCCTTTTCCTAGTAGA
*
9511273 ATTAAAATAGGTTCCGACTGGGACACGG
196 ATTAAAATAGGTTCCGACAGGGACACGG
9511301 CAGTGTGACA
Statistics
Matches: 211, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
223 209 0.99
224 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (223 bp):
ACCCAAAGAACTTCTAAGGAAATTGAATAGAGATCTTCAGGCTTGAAGTAGATCCTGCTTCCGAG
CTAATTCCGTTGGCTGTCTTCAAGTATTCTCTGCCTTCTACTCTCCGTCCCCCATTTGATCCTCT
TCTCCTTTGTTTAAGCAGACTTTGGAATGCCCAAAATATTAAAAAATTAGCCTTTTCCTAGTAGA
ATTAAAATAGGTTCCGACAGGGACACGG
Found at i:9511793 original size:105 final size:105
Alignment explanation
Indices: 9511671--9512033 Score: 390
Period size: 105 Copynumber: 3.5 Consensus size: 105
9511661 TAACGAACTA
* * *
9511671 TTTAGGAGTTGCAATCTTAAATTAACTAACTCAAATAAATTTAGGTTGCGATCTTAAATCAACTA
1 TTTAGAAGTTGCAATCTTAAATTAACTAACTCAAAGAAACTTAGGTTGCGATCTTAAATCAACTA
** * * *
9511736 ACCTTTGTAATATCAACTGTGAACGTAGGTTAACGAGTTG
66 ACCTTTGTAATATCAGTTGTGAACGTAGGTCAACAAGCTG
*
9511776 TTTCA-AAGTTGCAATCTTAAA-TATGCTAACTCAAAGAAACTTAGGTTGCGATCTTAAATCAAC
1 TTT-AGAAGTTGCAATCTTAAATTA-ACTAACTCAAAGAAACTTAGGTTGCGATCTTAAATCAAC
* **
9511839 TAACCTTTGTAATATTAGTTGTGAACGTAGGTCAGTAAGCTG
64 TAACCTTTGTAATATCAGTTGTGAACGTAGGTCAACAAGCTG
** * * * *
9511881 TTTAGAAGTTGTGATAC-TAAATTTACTAACTCAAAGAAACTTAGGTTGCAATCTAAAATCAGCT
1 TTTAGAAGTTGCAAT-CTTAAATTAACTAACTCAAAGAAACTTAGGTTGCGATCTTAAATCAACT
* * * * * *
9511945 AACCTTTATAATAGCAGTTGTGAACGTGGGTCATCGAGCTA
65 AACCTTTGTAATATCAGTTGTGAACGTAGGTCAACAAGCTG
* * * ** ** *
9511986 TTTAGGATTTGCGATCTTAAATTTGCTAACTTGAAGAAACTTTGGTTG
1 TTTAGAAGTTGCAATCTTAAATTAACTAACTCAAAGAAACTTAGGTTG
9512034 TCCATATTTG
Statistics
Matches: 218, Mismatches: 34, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
104 4 0.02
105 211 0.97
106 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (105 bp):
TTTAGAAGTTGCAATCTTAAATTAACTAACTCAAAGAAACTTAGGTTGCGATCTTAAATCAACTA
ACCTTTGTAATATCAGTTGTGAACGTAGGTCAACAAGCTG
Found at i:9513635 original size:196 final size:196
Alignment explanation
Indices: 9513301--9513694 Score: 700
Period size: 196 Copynumber: 2.0 Consensus size: 196
9513291 TCGATACCAA
*
9513301 ATGTAAAAATACCGTTACTTGTGTTCAAAAATAGTAAAAATTAATTTTTAAAAGATGCACTTATG
1 ATGTAAAAATACCGTTACTTGTGTTCAAAAATAGTAAAAACTAATTTTTAAAAGATGCACTTATG
9513366 CTCAAAACTTGCCTAAACTCAAATAACATACCTAAACATGAAAAAAGGCATGCAAATCATCATTT
66 CTCAAAACTTGCCTAAACTCAAATAACATACCTAAACATGAAAAAAGGCATGCAAATCATCATTT
*
9513431 AAATATCTTATCCATGTACAGCTCTAT-TCAGTACATCAAAATATAAGCCAAATATATATCCTTA
131 AAATATCTTATCCATGTACAACTCTATGT-AGTACATCAAAATATAAGCCAAATATATATCCTTA
9513495 AG
195 AG
* * *
9513497 ATGTAAAAATATCGTTACTTGTGTTCAAAAATGGTAAAAACTAATTTTTAAAAGATGCATTTATG
1 ATGTAAAAATACCGTTACTTGTGTTCAAAAATAGTAAAAACTAATTTTTAAAAGATGCACTTATG
*
9513562 CTTAAAACTTGCCTAAACTCAAATAACATACCTAAACATGAAAAAAGGCATGCAAATCATCATTT
66 CTCAAAACTTGCCTAAACTCAAATAACATACCTAAACATGAAAAAAGGCATGCAAATCATCATTT
* *
9513627 ATATATCTTATCCATGTACAACTCTATGTAGTACATCAAAATCTAAGCCAAATATATATCCTTAA
131 AAATATCTTATCCATGTACAACTCTATGTAGTACATCAAAATATAAGCCAAATATATATCCTTAA
9513692 G
196 G
9513693 AT
1 AT
9513695 CAACAAACCT
Statistics
Matches: 189, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
196 188 0.99
197 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (196 bp):
ATGTAAAAATACCGTTACTTGTGTTCAAAAATAGTAAAAACTAATTTTTAAAAGATGCACTTATG
CTCAAAACTTGCCTAAACTCAAATAACATACCTAAACATGAAAAAAGGCATGCAAATCATCATTT
AAATATCTTATCCATGTACAACTCTATGTAGTACATCAAAATATAAGCCAAATATATATCCTTAA
G
Found at i:9514031 original size:2 final size:2
Alignment explanation
Indices: 9514024--9514052 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9514014 TGAGCATTAC
9514024 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9514053 AATAACATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9521490 original size:13 final size:13
Alignment explanation
Indices: 9521472--9521584 Score: 106
Period size: 13 Copynumber: 9.6 Consensus size: 13
9521462 AAATATCTTT
9521472 ACTCCACTAAACC
1 ACTCCACTAAACC
9521485 ACT-C-C--AACC
1 ACTCCACTAAACC
9521494 ACTCCACTAAACC
1 ACTCCACTAAACC
* *
9521507 ACTACACTGAACC
1 ACTCCACTAAACC
*
9521520 ACTTCACTAAACC
1 ACTCCACTAAACC
9521533 AC-CC-C--AACC
1 ACTCCACTAAACC
*
9521542 ACCCCACTAAACC
1 ACTCCACTAAACC
9521555 ACTCCACTAAACC
1 ACTCCACTAAACC
9521568 A--CC-CT-AACC
1 ACTCCACTAAACC
9521577 ACTCCACT
1 ACTCCACT
9521585 TGCCTACAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 23
0.74 0.05 0.21
Matches are distributed among these distances:
9 18 0.22
10 5 0.06
11 8 0.10
12 4 0.05
13 48 0.58
ACGTcount: A:0.36, C:0.49, G:0.01, T:0.14
Consensus pattern (13 bp):
ACTCCACTAAACC
Found at i:9521497 original size:22 final size:22
Alignment explanation
Indices: 9521472--9521560 Score: 115
Period size: 22 Copynumber: 3.9 Consensus size: 22
9521462 AAATATCTTT
9521472 ACTCCACTAAACCACTCCAACC
1 ACTCCACTAAACCACTCCAACC
9521494 ACTCCACTAAACCACTACACTGAACC
1 ACTCCACTAAACCACT-C-C--AACC
* *
9521520 ACTTCACTAAACCACCCCAACC
1 ACTCCACTAAACCACTCCAACC
*
9521542 ACCCCACTAAACCACTCCA
1 ACTCCACTAAACCACTCCA
9521561 CTAAACCACC
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
22 36 0.62
23 1 0.02
24 2 0.03
25 1 0.02
26 18 0.31
ACGTcount: A:0.37, C:0.48, G:0.01, T:0.13
Consensus pattern (22 bp):
ACTCCACTAAACCACTCCAACC
Found at i:9521541 original size:48 final size:48
Alignment explanation
Indices: 9521476--9521569 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
9521466 ATCTTTACTC
* * *
9521476 CACTAAACCACTCCAACCACTCCACTAAACCACTACACTGAACCACTT
1 CACTAAACCACCCCAACCACCCCACTAAACCACTACACTAAACCACTT
*
9521524 CACTAAACCACCCCAACCACCCCACTAAACCACTCCACTAAACCAC
1 CACTAAACCACCCCAACCACCCCACTAAACCACTACACTAAACCAC
9521570 CCTAACCACT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.38, C:0.48, G:0.01, T:0.13
Consensus pattern (48 bp):
CACTAAACCACCCCAACCACCCCACTAAACCACTACACTAAACCACTT
Found at i:9521542 original size:35 final size:35
Alignment explanation
Indices: 9521472--9521584 Score: 120
Period size: 35 Copynumber: 3.2 Consensus size: 35
9521462 AAATATCTTT
* ** **
9521472 ACTCCACTAAACCACTCCAACCACTCCA-CTAAACC
1 ACTCCACTAAACCACTCC-ACTAAACCACCCCAACC
* * *
9521507 ACTACACTGAACCACTTCACTAAACCACCCCAACC
1 ACTCCACTAAACCACTCCACTAAACCACCCCAACC
* *
9521542 ACCCCACTAAACCACTCCACTAAACCACCCTAACC
1 ACTCCACTAAACCACTCCACTAAACCACCCCAACC
9521577 ACTCCACT
1 ACTCCACT
9521585 TGCCTACAAA
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
34 6 0.10
35 57 0.90
ACGTcount: A:0.36, C:0.49, G:0.01, T:0.14
Consensus pattern (35 bp):
ACTCCACTAAACCACTCCACTAAACCACCCCAACC
Found at i:9521987 original size:19 final size:18
Alignment explanation
Indices: 9521950--9521991 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
9521940 AGGGAGAGTG
*
9521950 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
9521968 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
9521987 TTATT
1 TTATT
9521992 ACTAATACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:9522312 original size:17 final size:19
Alignment explanation
Indices: 9522292--9522331 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9522282 TGTTCGACTC
*
9522292 ATTTATC-TTAC-CTTCAT
1 ATTTATCGTTACTATTCAT
9522309 ATTTATCGTTACTATTCAT
1 ATTTATCGTTACTATTCAT
9522328 ATTT
1 ATTT
9522332 GTGTTTATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 4 0.20
19 9 0.45
ACGTcount: A:0.25, C:0.17, G:0.03, T:0.55
Consensus pattern (19 bp):
ATTTATCGTTACTATTCAT
Found at i:9528118 original size:3 final size:3
Alignment explanation
Indices: 9528110--9528148 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
9528100 TGTTGGTAGA
9528110 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9528149 GCTCACTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9532439 original size:105 final size:101
Alignment explanation
Indices: 9532260--9532488 Score: 295
Period size: 105 Copynumber: 2.2 Consensus size: 101
9532250 AATTGACGGA
* *
9532260 TAAGACCATGGTTGGACCATGGCAAAGTGTTAAATGTAAGACCATAGCTGGGCTATGGCATTTCA
1 TAAGACCATGGTTGGACCATGGCAAAGTGTTAAATGTAAGACCATAACTGGGCTATGGCATCTCA
9532325 GTGAAAAGACCATAACT-AGGTTATGGCACATTGT-ACG
66 GTGAAAAGACCATAACTGA-GTTAT-G-ACATTGTAACG
* *
9532362 TAAGACCATGGTTGGACCATGGCAGTATA-TGTATAAGTGTAAGACCATAATTGGGCTATGGCAT
1 TAAGACCATGGTTGGACCATGGCA--A-AGTGT-TAAATGTAAGACCATAACTGGGCTATGGCAT
* *
9532426 C-CTGATGATAAGACCATAACTGAGTTATGACATTGTGAACG
62 CTCAG-TGAAAAGACCATAACTGAGTTATGACATTGT-AACG
9532467 TAAGACCATGGTTGGACCATGG
1 TAAGACCATGGTTGGACCATGG
9532489 TTGGACCATG
Statistics
Matches: 113, Mismatches: 6, Indels: 13
0.86 0.05 0.10
Matches are distributed among these distances:
102 24 0.21
103 7 0.06
104 7 0.06
105 74 0.65
106 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAAAGTGTTAAATGTAAGACCATAACTGGGCTATGGCATCTCA
GTGAAAAGACCATAACTGAGTTATGACATTGTAACG
Found at i:9532486 original size:11 final size:11
Alignment explanation
Indices: 9532470--9532499 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
9532460 GTGAACGTAA
9532470 GACCATGGTTG
1 GACCATGGTTG
9532481 GACCATGGTTG
1 GACCATGGTTG
9532492 GACCATGG
1 GACCATGG
9532500 CAGTATATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.37, T:0.23
Consensus pattern (11 bp):
GACCATGGTTG
Found at i:9534498 original size:36 final size:37
Alignment explanation
Indices: 9534415--9534503 Score: 96
Period size: 36 Copynumber: 2.5 Consensus size: 37
9534405 TCACATTCTT
*
9534415 AATATTTTAAGAATAAATATATAAATTATAAATTATA
1 AATATTTTAATAATAAATATATAAATTATAAATTATA
* * *
9534452 AATA-TCTAATAATAAATGTTTTATAA-TATAAA-TA-A
1 AATATTTTAATAATAAAT-ATATA-AATTATAAATTATA
9534487 AATATTTTAATAATAAA
1 AATATTTTAATAATAAA
9534504 AACATGAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
35 5 0.11
36 24 0.55
37 13 0.30
38 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.40
Consensus pattern (37 bp):
AATATTTTAATAATAAATATATAAATTATAAATTATA
Found at i:9534773 original size:16 final size:15
Alignment explanation
Indices: 9534733--9534781 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
9534723 AAATGGTAAT
* *
9534733 TTTTTAATTTAAATA
1 TTTTAAATTTAAAAA
9534748 TTTTATAATTTATAAAA
1 TTTTA-AATTTA-AAAA
*
9534765 TTTTAAATTAAAAAA
1 TTTTAAATTTAAAAA
9534780 TT
1 TT
9534782 ATATTTTGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 10 0.34
16 11 0.38
17 8 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTAAATTTAAAAA
Found at i:9552833 original size:2 final size:2
Alignment explanation
Indices: 9552826--9552855 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9552816 ATCAAATTGA
9552826 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9552856 TGCTGCCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9553930 original size:9 final size:9
Alignment explanation
Indices: 9553916--9553948 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
9553906 TATATTCAAA
9553916 TATATTTTT
1 TATATTTTT
9553925 TATATTTTT
1 TATATTTTT
9553934 TATATTTTT
1 TATATTTTT
*
9553943 CATATT
1 TATATT
9553949 CATTTACGAT
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:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (9 bp):
TATATTTTT
Found at i:9562542 original size:7 final size:7
Alignment explanation
Indices: 9562530--9562555 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9562520 CAAGCGGGTG
9562530 GAAGCCT
1 GAAGCCT
9562537 GAAGCCT
1 GAAGCCT
9562544 GAAGCCT
1 GAAGCCT
9562551 GAAGC
1 GAAGC
9562556 AGGGAGAGTA
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:0.31, C:0.27, G:0.31, T:0.12
Consensus pattern (7 bp):
GAAGCCT
Done.