Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 202 of 279
Found at i:66072943 original size:88 final size:85
Alignment explanation
Indices: 66072828--66073147 Score: 410
Period size: 88 Copynumber: 3.7 Consensus size: 85
66072818 GCAAATCAGT
66072828 GGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCCG
1 GGCGTTTTTT-AAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCCG
*
66072893 TTAAAGTTCTTGGTCTATAGC
65 CTAAAGTTCTTGGTCTATAGC
* *
66072914 GGCGTTTTTTTACAAAAGCGGCCGCTAAAAGTACAGGTCTATAGCGGTGTTTTTTTTTACAAAAG
1 GGCG-TTTTTTA-AAAAGC-GCCGCTAAAAGTACAGGTCTATAGCGGCG---TTTTTTATAAAAG
* * * *
66072979 TGCCACTAAAGTAC-AGGTCTATAGC
60 CGCCGCTAAAGTTCTTGGTCTATAGC
*
66073004 GGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTCTATAAAAGCGCCG
1 GGCGTTTTTTA-AAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCCG
*
66073069 CTAAAGTTCTTGGTCTATAAC
65 CTAAAGTTCTTGGTCTATAGC
* * * * * *
66073090 GGCGTTTTTATAAAAAACGCCGCTAAAGGTCCTGGTCTTTAGCGGCG-CTTTTATAAAA
1 GGCGTTTTT-TAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAA
66073148 AACGCCGCGA
Statistics
Matches: 203, Mismatches: 23, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
85 31 0.15
86 53 0.26
87 14 0.07
88 56 0.28
89 13 0.06
90 14 0.07
91 22 0.11
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (85 bp):
GGCGTTTTTTAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCCGC
TAAAGTTCTTGGTCTATAGC
Found at i:66076237 original size:108 final size:108
Alignment explanation
Indices: 66076100--66076312 Score: 399
Period size: 108 Copynumber: 2.0 Consensus size: 108
66076090 TGTAATAAAC
* *
66076100 TAAGAATATTATATTCAGACATTCTGTCTATATTGCATTCATAAATTGTATTAGCATTGTATTTA
1 TAAGAATATTATATTCAGACATTCCGTCTATATTACATTCATAAATTGTATTAGCATTGTATTTA
*
66076165 TTCTGGAAAATGGGTTTTTTTTCTATATTAAGATCAGGTGCAG
66 TTCTGGAAAATGGGTTTTTCTTCTATATTAAGATCAGGTGCAG
66076208 TAAGAATATTATATTCAGACATTCCGTCTATATTACATTCATAAATTGTATTAGCATTGTATTTA
1 TAAGAATATTATATTCAGACATTCCGTCTATATTACATTCATAAATTGTATTAGCATTGTATTTA
66076273 TTCTGGAAAATGGGTTTTTCTTCTATATTAAGATCAGGTG
66 TTCTGGAAAATGGGTTTTTCTTCTATATTAAGATCAGGTG
66076313 TAGTGATTTT
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 102 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (108 bp):
TAAGAATATTATATTCAGACATTCCGTCTATATTACATTCATAAATTGTATTAGCATTGTATTTA
TTCTGGAAAATGGGTTTTTCTTCTATATTAAGATCAGGTGCAG
Found at i:66078787 original size:20 final size:20
Alignment explanation
Indices: 66078762--66078802 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
66078752 ATCCCTTACA
66078762 TCATTACATAATTAAAACTT
1 TCATTACATAATTAAAACTT
*
66078782 TCATTACATAATTGAAACTT
1 TCATTACATAATTAAAACTT
66078802 T
1 T
66078803 TCAGAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (20 bp):
TCATTACATAATTAAAACTT
Found at i:66078872 original size:23 final size:23
Alignment explanation
Indices: 66078844--66078934 Score: 64
Period size: 23 Copynumber: 4.0 Consensus size: 23
66078834 CAAACTACAG
66078844 AAAATATTCACTGTTCATGCCAA
1 AAAATATTCACTGTTCATGCCAA
* * * * *
66078867 AAAATATTTATTGTTAATGTCAG
1 AAAATATTCACTGTTCATGCCAA
* *
66078890 AGAATCTT-ACTGCTTC-TGCC-A
1 AAAATATTCACTG-TTCATGCCAA
*
66078911 AAGAT-TTCTACTGTTCATGCCAA
1 AAAATATTC-ACTGTTCATGCCAA
66078934 A
1 A
66078935 GAGAATAAAA
Statistics
Matches: 50, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
20 2 0.04
21 6 0.12
22 14 0.28
23 28 0.56
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (23 bp):
AAAATATTCACTGTTCATGCCAA
Found at i:66079353 original size:25 final size:24
Alignment explanation
Indices: 66079325--66079374 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
66079315 AAATCAATGC
66079325 TCTTCTGTAAAATCCAAATCTCAAT
1 TCTTCTGTAAAATCCAAAT-TCAAT
* *
66079350 TCTTCTTTAAAATCTAAATTCAAT
1 TCTTCTGTAAAATCCAAATTCAAT
66079374 T
1 T
66079375 ATTATCTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.42
Consensus pattern (24 bp):
TCTTCTGTAAAATCCAAATTCAAT
Found at i:66081767 original size:14 final size:14
Alignment explanation
Indices: 66081748--66081779 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
66081738 ATTTACAGTG
66081748 CTAACAGTCACATA
1 CTAACAGTCACATA
66081762 CTAACAGTCACATA
1 CTAACAGTCACATA
66081776 CTAA
1 CTAA
66081780 TGATGTATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.06, T:0.22
Consensus pattern (14 bp):
CTAACAGTCACATA
Found at i:66083722 original size:14 final size:13
Alignment explanation
Indices: 66083660--66083738 Score: 63
Period size: 14 Copynumber: 5.6 Consensus size: 13
66083650 TCGCTATTAT
66083660 TTTTATGTT-TCTA
1 TTTTAT-TTATCTA
*
66083673 TTTATATTTAT-TT
1 TTT-TATTTATCTA
66083686 TTTTATTCTAATACTA
1 TTTTATT-T-AT-CTA
66083702 TTATTATTTATCTAA
1 TT-TTATTTATCT-A
66083717 TTTTATTTATCTA
1 TTTTATTTATCTA
66083730 TTTATATTT
1 TTT-TATTT
66083739 CTATTTATTA
Statistics
Matches: 55, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
12 4 0.07
13 14 0.25
14 23 0.42
15 5 0.09
16 4 0.07
17 5 0.09
ACGTcount: A:0.25, C:0.06, G:0.01, T:0.67
Consensus pattern (13 bp):
TTTTATTTATCTA
Found at i:66085140 original size:26 final size:26
Alignment explanation
Indices: 66085111--66085218 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
66085101 TGGTACAAAT
66085111 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
66085137 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
66085163 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
66085189 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
66085215 TGAT
1 TGAT
66085219 GGACATTTCA
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:66090886 original size:11 final size:10
Alignment explanation
Indices: 66090857--66090897 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
66090847 AAAACCTAAC
66090857 TTTGTAAAAA
1 TTTGTAAAAA
66090867 TTCT-TAAAAA
1 TT-TGTAAAAA
66090877 TTTGTGAAAAA
1 TTTGT-AAAAA
66090888 -TTGTAAAAA
1 TTTGTAAAAA
66090897 T
1 T
66090898 ATATATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
9 6 0.22
10 15 0.56
11 6 0.22
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (10 bp):
TTTGTAAAAA
Found at i:66090894 original size:20 final size:20
Alignment explanation
Indices: 66090857--66090897 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
66090847 AAAACCTAAC
*
66090857 TTTGTAAAAATTCTTAAAAA
1 TTTGTAAAAATTCGTAAAAA
66090877 TTTGTGAAAAATT-GTAAAAA
1 TTTGT-AAAAATTCGTAAAAA
66090897 T
1 T
66090898 ATATATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (20 bp):
TTTGTAAAAATTCGTAAAAA
Found at i:66091146 original size:20 final size:20
Alignment explanation
Indices: 66091111--66091149 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
66091101 TTCTTATAGA
**
66091111 ATATTGTTATTTAGAGAGAG
1 ATATTGTTATCGAGAGAGAG
66091131 ATATTGTTATCGAGAGAGA
1 ATATTGTTATCGAGAGAGA
66091150 TGTTTTGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.36
Consensus pattern (20 bp):
ATATTGTTATCGAGAGAGAG
Found at i:66091625 original size:23 final size:21
Alignment explanation
Indices: 66091566--66091628 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 21
66091556 AATTTTTTAA
66091566 ATTTTTTAAATAGTTA-TTATG
1 ATTTTTTAAATA-TTATTTATG
66091587 A-TTTTT-AATAATTATTTATG
1 ATTTTTTAAAT-ATTATTTATG
66091607 ATTTTTTAACATATCTATTTAT
1 ATTTTTTAA-ATAT-TATTTAT
66091629 ATAACAACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
19 6 0.17
20 12 0.33
21 6 0.17
22 3 0.08
23 9 0.25
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (21 bp):
ATTTTTTAAATATTATTTATG
Found at i:66092114 original size:29 final size:29
Alignment explanation
Indices: 66092055--66092116 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
66092045 TTTTATTTTT
*
66092055 CCCCAAAACTTTTACTTCCTCCCACTTCC
1 CCCCAAAACTTTTACTTCCTCCCACTCCC
66092084 CCCCAAAACTTTTA-TTCCCCTCCCA-TCCC
1 CCCCAAAACTTTTACTT--CCTCCCACTCCC
66092113 CCCC
1 CCCC
66092117 TTCTACCCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 2 0.07
29 21 0.70
30 7 0.23
ACGTcount: A:0.19, C:0.53, G:0.00, T:0.27
Consensus pattern (29 bp):
CCCCAAAACTTTTACTTCCTCCCACTCCC
Found at i:66092453 original size:35 final size:35
Alignment explanation
Indices: 66092411--66092482 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
66092401 GAATTATTGA
* *
66092411 TGATGTCATAAAGTATTCGTGTTAAAATTTTAAGT
1 TGATGTCATAAAATATTCGTGCTAAAATTTTAAGT
* *
66092446 TGATGTCATAAAATATTCGTGCTAAGATTTTATGT
1 TGATGTCATAAAATATTCGTGCTAAAATTTTAAGT
66092481 TG
1 TG
66092483 GTATCAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (35 bp):
TGATGTCATAAAATATTCGTGCTAAAATTTTAAGT
Found at i:66095066 original size:16 final size:16
Alignment explanation
Indices: 66095045--66095080 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
66095035 AATCCCTAAC
* *
66095045 AATCTTCAAGTCCCTA
1 AATCTTCAAATACCTA
66095061 AATCTTCAAATACCTA
1 AATCTTCAAATACCTA
66095077 AATC
1 AATC
66095081 GATAGCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.03, T:0.31
Consensus pattern (16 bp):
AATCTTCAAATACCTA
Found at i:66095164 original size:32 final size:32
Alignment explanation
Indices: 66095102--66095175 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
66095092 GAAATCTTTT
* *
66095102 TGAAATCCCTAAAATTTTTACGAATCAAATCA
1 TGAAATCCCTAAAACTATTACGAATCAAATCA
* * *
66095134 TTAAATCCCTAAAACTATTAGGAA-CGAAATCG
1 TGAAATCCCTAAAACTATTACGAATC-AAATCA
66095166 TGAAATCCCT
1 TGAAATCCCT
66095176 TAGAACCAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 1 0.03
32 34 0.97
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.28
Consensus pattern (32 bp):
TGAAATCCCTAAAACTATTACGAATCAAATCA
Found at i:66096347 original size:43 final size:43
Alignment explanation
Indices: 66096299--66096458 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
66096289 GCAAAATTTT
* * *
66096299 GCGGCGCTTTTTTCACAAACGCCGCTAAAGACCATGACCTTTA
1 GCGGCACTTTTCTCACAAACGCCGCTAAAGACCATAACCTTTA
* * * *
66096342 GCGGCGCTTCTCCCGCAAACGCCGCTAAAGACCATAACCTTTA
1 GCGGCACTTTTCTCACAAACGCCGCTAAAGACCATAACCTTTA
* * * * * *
66096385 GCGACACTTTTTTTTACAAACGCCACTACAGAACA-AACCTTTA
1 GCGGCAC-TTTTCTCACAAACGCCGCTAAAGACCATAACCTTTA
** *
66096428 ATGGCACTTTTCTCACAAATGCCGCTAAAGA
1 GCGGCACTTTTCTCACAAACGCCGCTAAAGA
66096459 ATGTAACCTT
Statistics
Matches: 93, Mismatches: 23, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
42 19 0.20
43 55 0.59
44 19 0.20
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (43 bp):
GCGGCACTTTTCTCACAAACGCCGCTAAAGACCATAACCTTTA
Found at i:66097116 original size:24 final size:24
Alignment explanation
Indices: 66097088--66097134 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
66097078 CTTCAACACC
66097088 TGCCTCTTCCTATGTTTCCCTTAT
1 TGCCTCTTCCTATGTTTCCCTTAT
*
66097112 TGCCTCTTCCTATGTTTCTCTTA
1 TGCCTCTTCCTATGTTTCCCTTA
66097135 CTAAGTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.09, C:0.32, G:0.09, T:0.51
Consensus pattern (24 bp):
TGCCTCTTCCTATGTTTCCCTTAT
Found at i:66100240 original size:17 final size:18
Alignment explanation
Indices: 66100207--66100240 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66100197 TATCTCTTAA
66100207 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
66100225 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
66100241 AAAACAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:66101428 original size:41 final size:41
Alignment explanation
Indices: 66101383--66101490 Score: 198
Period size: 41 Copynumber: 2.6 Consensus size: 41
66101373 TTATTTTTTT
* *
66101383 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCAATA
66101424 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCAATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCAATA
66101465 GCGGCGTTTTTCCAAAAGCGCCGCTA
1 GCGGCGTTTTTCCAAAAGCGCCGCTA
66101491 TTGTTCAGTT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (41 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCAATA
Found at i:66101521 original size:41 final size:40
Alignment explanation
Indices: 66101463--66101544 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 40
66101453 CCTCGACCAA
** * * *
66101463 TAGCGGCGTTTTTCCAAAAGCGCCGCTATTGTTCAGTTTT
1 TAGCGGCGTTTGACCAAAAACACCGCTATTGCTCAGTTTT
66101503 TAGCGGCGTTTGGACCAAAAACACCGCTATTGCTCAGTTTT
1 TAGCGGCGTTT-GACCAAAAACACCGCTATTGCTCAGTTTT
66101544 T
1 T
66101545 TGTGGAGTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 11 0.31
41 25 0.69
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (40 bp):
TAGCGGCGTTTGACCAAAAACACCGCTATTGCTCAGTTTT
Found at i:66105946 original size:79 final size:82
Alignment explanation
Indices: 66105835--66106019 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
66105825 GCTACTCGTT
* *
66105835 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
66105898 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
66105915 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
66105978 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
66105995 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
66106020 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:66106019 original size:40 final size:40
Alignment explanation
Indices: 66105816--66106019 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
66105806 CGGAATTTAA
** *
66105816 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
66105856 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
66105896 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
66105935 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
66105975 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
66106015 CCGGA
1 CCGGA
66106020 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:66122983 original size:294 final size:294
Alignment explanation
Indices: 66122525--66123110 Score: 1048
Period size: 294 Copynumber: 2.0 Consensus size: 294
66122515 ATCCATGTCC
66122525 AATTTTTATCCATAAACCTAGAAATTGGTCAAATTGCTATTTAAGACCTCATAATTAATATTTCA
1 AATTTTTATCCATAAACCTAGAAATTGGTCAAATTGCTATTTAAGACCTCATAATTAATATTTCA
*
66122590 AAGCAATTTCATACTAGAAACTTCAAGAATGCAAGTTTTGTAACTTATTCAATTTAGTCCCTAAC
66 AAGCAATTTCATACTAGAAACTTCAAGAATGAAAGTTTTGTAACTTATTCAATTTAGTCCCTAAC
* *
66122655 TTCAAATTAAGCACTTTATGCATCAAATTTCTTCACGAAATTTTCACACAATCATGTAATCATAT
131 TTCAAATTAAGCACTTTATGCATAAAATTTCTTCACGAAATTTTCACACAATCATGCAATCATAT
*
66122720 CATAGACCTCAAAATAATCATAAAATAATTATTTCTATCTC-GAATTTGTGGTCCCAAAACCACT
196 CATAGACCTCAAAATAATCACAAAATAATTATTTCTATCTCAG-ATTTGTGGTCCCAAAACCACT
66122784 ATTCCGATTAGGCCCTAATTCGGGATATCACATGG
260 ATTCCGATTAGGCCCTAATTCGGGATATCACATGG
* * *
66122819 AATTTTTGTCCATAAACTTAGAAATTGGTCAAATTGCTATTTAAGACCTCCTAATTAATATTTCA
1 AATTTTTATCCATAAACCTAGAAATTGGTCAAATTGCTATTTAAGACCTCATAATTAATATTTCA
* *
66122884 AAGCAATTTCATACTATAAACTTCTAGAATGAAAGTTTTGTAACTTATTCAATTTAGTCCCTAAC
66 AAGCAATTTCATACTAGAAACTTCAAGAATGAAAGTTTTGTAACTTATTCAATTTAGTCCCTAAC
66122949 TTCAAATTAAGCACTTTATGCATAAAATTTCTTCACGAAATTTTCACACAATCATGCAATCATAT
131 TTCAAATTAAGCACTTTATGCATAAAATTTCTTCACGAAATTTTCACACAATCATGCAATCATAT
* *
66123014 CATAGACCTCAAAATAATCACAAAATAATTATTTCTATCTCAGATTTGTGGTCCCGAAACCACTG
196 CATAGACCTCAAAATAATCACAAAATAATTATTTCTATCTCAGATTTGTGGTCCCAAAACCACTA
*
66123079 TTCTGATTAGGCCCTAATTCGGGATATCACAT
261 TTCCGATTAGGCCCTAATTCGGGATATCACAT
66123111 CTACATTCTT
Statistics
Matches: 279, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
294 278 1.00
295 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (294 bp):
AATTTTTATCCATAAACCTAGAAATTGGTCAAATTGCTATTTAAGACCTCATAATTAATATTTCA
AAGCAATTTCATACTAGAAACTTCAAGAATGAAAGTTTTGTAACTTATTCAATTTAGTCCCTAAC
TTCAAATTAAGCACTTTATGCATAAAATTTCTTCACGAAATTTTCACACAATCATGCAATCATAT
CATAGACCTCAAAATAATCACAAAATAATTATTTCTATCTCAGATTTGTGGTCCCAAAACCACTA
TTCCGATTAGGCCCTAATTCGGGATATCACATGG
Found at i:66123397 original size:51 final size:51
Alignment explanation
Indices: 66123337--66123489 Score: 252
Period size: 51 Copynumber: 3.0 Consensus size: 51
66123327 CTACGTGTAG
* * *
66123337 CAGCAACATTATCTAGTCCATCTGATGTTGCAAAGTCACCAGCATATTCAT
1 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
* *
66123388 CAGCAACATTATCCACTCTATCTGATGTTGCAAAATCACCAACATATTCAT
1 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
*
66123439 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACTAGCATATTCAT
1 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
66123490 TACCAGCAAC
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 94 1.00
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.29
Consensus pattern (51 bp):
CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
Found at i:66123710 original size:33 final size:33
Alignment explanation
Indices: 66123598--66123736 Score: 79
Period size: 33 Copynumber: 4.2 Consensus size: 33
66123588 GTAGCAGACA
* * * *
66123598 CACCCTCCCCATCAGCTTGTACCTCTCCTA-CAT
1 CACCCTCCCCATCAGATTCTACCCCT-TTATCAT
** * * * *
66123631 CACCCTCCTTACCAGATTCTA-CCTTTTCTAGAT
1 CACCCTCCCCATCAGATTCTACCCCTTTAT-CAT
* **
66123664 CACCTTCATCATCAGATTCTACCCCTTTATCAT
1 CACCCTCCCCATCAGATTCTACCCCTTTATCAT
* *
66123697 CACCCTCCCCATCA-ACTTCCACCCCTTCAAT-AT
1 CACCCTCCCCATCAGA-TTCTACCCCTT-TATCAT
66123730 CACCCTC
1 CACCCTC
66123737 TCCAGTAGTC
Statistics
Matches: 79, Mismatches: 22, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
31 1 0.01
32 3 0.04
33 67 0.85
34 8 0.10
ACGTcount: A:0.22, C:0.45, G:0.04, T:0.30
Consensus pattern (33 bp):
CACCCTCCCCATCAGATTCTACCCCTTTATCAT
Found at i:66124747 original size:18 final size:16
Alignment explanation
Indices: 66124704--66124739 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
66124694 GAATGCTATC
* *
66124704 GATTTAGGTATTTGAA
1 GATTTAGGGACTTGAA
66124720 GATTTAGGGACTTGAA
1 GATTTAGGGACTTGAA
66124736 GATT
1 GATT
66124740 GTTAGGGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.28, T:0.39
Consensus pattern (16 bp):
GATTTAGGGACTTGAA
Found at i:66126276 original size:30 final size:31
Alignment explanation
Indices: 66126221--66126279 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
66126211 CACCCTTAAA
* * *
66126221 ATATTTGCACTATTAGTCCTTCAAATTTTTC
1 ATATTTACACTATTAGCCCCTCAAATTTTTC
66126252 ATATTTACACT-TTAGCCCCTCAAATTTT
1 ATATTTACACTATTAGCCCCTCAAATTTT
66126280 AAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.27, C:0.22, G:0.05, T:0.46
Consensus pattern (31 bp):
ATATTTACACTATTAGCCCCTCAAATTTTTC
Found at i:66126287 original size:30 final size:31
Alignment explanation
Indices: 66126220--66126289 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
66126210 CCACCCTTAA
* * *
66126220 AATATTTGCACTATTAGTCCTTCAAATTTTT
1 AATATTTACACTATTAGCCCCTCAAATTTTT
*
66126251 CATATTTACACT-TTAGCCCCTCAAA-TTTT
1 AATATTTACACTATTAGCCCCTCAAATTTTT
66126280 AAGTATTTAC
1 AA-TATTTAC
66126290 TCTTGTGCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 5 0.15
30 18 0.55
31 10 0.30
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.44
Consensus pattern (31 bp):
AATATTTACACTATTAGCCCCTCAAATTTTT
Found at i:66126745 original size:30 final size:30
Alignment explanation
Indices: 66126705--66126762 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
66126695 ACCTCTTTAC
*
66126705 TTTTCCCCAAAATTTTTACTC-CCTCCCCA
1 TTTTCCCCAAAACTTTTACTCTCCTCCCCA
*
66126734 TTTTCCCCCAAAACTTTTATTCTCCTCCC
1 TTTT-CCCCAAAACTTTTACTCTCCTCCC
66126763 ATCCCACCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.16
30 15 0.60
31 6 0.24
ACGTcount: A:0.19, C:0.41, G:0.00, T:0.40
Consensus pattern (30 bp):
TTTTCCCCAAAACTTTTACTCTCCTCCCCA
Found at i:66128466 original size:27 final size:28
Alignment explanation
Indices: 66128416--66128472 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
66128406 TTTAAGGTGG
66128416 AAGTAAAAATTTTTGGGGTAAAAATATA
1 AAGTAAAAATTTTTGGGGTAAAAATATA
66128444 AAGTAAAAATTTTTGGGGT-AAAATATA
1 AAGTAAAAATTTTTGGGGTAAAAATATA
66128471 AA
1 AA
66128473 ATATTATAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 10 0.34
28 19 0.66
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.32
Consensus pattern (28 bp):
AAGTAAAAATTTTTGGGGTAAAAATATA
Found at i:66133200 original size:22 final size:22
Alignment explanation
Indices: 66133166--66133214 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
66133156 ATATCCAAAT
66133166 AATAATAACAAAAT-AGTAGCAA
1 AATAATAACAAAATGA-TAGCAA
*
66133188 CATAAT-ACTAAAATGATAGCAA
1 AATAATAAC-AAAATGATAGCAA
66133210 AATAA
1 AATAA
66133215 GGAGAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 2 0.09
22 20 0.87
23 1 0.04
ACGTcount: A:0.61, C:0.10, G:0.08, T:0.20
Consensus pattern (22 bp):
AATAATAACAAAATGATAGCAA
Found at i:66136506 original size:15 final size:14
Alignment explanation
Indices: 66136476--66136516 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
66136466 AATAACTCAA
66136476 AATAATA-ATAAA-
1 AATAATATATAAAT
66136488 AATAATATATGAAAT
1 AATAATATAT-AAAT
66136503 AATAATATATAAAT
1 AATAATATATAAAT
66136517 GAAATTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 7 0.27
13 2 0.08
14 7 0.27
15 10 0.38
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (14 bp):
AATAATATATAAAT
Found at i:66136520 original size:19 final size:18
Alignment explanation
Indices: 66136482--66136521 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
66136472 TCAAAATAAT
*
66136482 AATAAAAATAATATATGA
1 AATAAAAATAATAAATGA
*
66136500 AATAATAATATATAAATGA
1 AATAAAAATA-ATAAATGA
66136519 AAT
1 AAT
66136522 TTCAAAATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
AATAAAAATAATAAATGA
Found at i:66136747 original size:16 final size:16
Alignment explanation
Indices: 66136699--66136750 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
66136689 CCTTAGAAGA
*
66136699 AATATATATACACAA-
1 AATATATATACATAAT
*
66136714 AATA-ATATAAAATCAAT
1 AATATATAT-ACAT-AAT
66136731 AATATATATACATAAT
1 AATATATATACATAAT
66136747 AATA
1 AATA
66136751 AAAAATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
14 4 0.13
15 6 0.20
16 9 0.30
17 7 0.23
18 4 0.13
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (16 bp):
AATATATATACATAAT
Found at i:66136757 original size:23 final size:20
Alignment explanation
Indices: 66136720--66136771 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
66136710 ACAAAATAAT
* *
66136720 ATAAAATCAATAATATATATAC
1 ATAAAAT-AA-AAAATATTTAC
66136742 ATAATAATAAAAAATATTTAC
1 ATAA-AATAAAAAATATTTAC
66136763 ATAAAATAA
1 ATAAAATAA
66136772 TAGGAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 5 0.19
21 13 0.48
22 6 0.22
23 3 0.11
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAAAATAAAAAATATTTAC
Found at i:66144861 original size:21 final size:20
Alignment explanation
Indices: 66144831--66144870 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
66144821 AATCCTGAAC
*
66144831 CTAAAACCTAGAACCTTAAAT
1 CTAAAACCTA-AACCCTAAAT
*
66144852 CTAAACCCTAAACCCTAAA
1 CTAAAACCTAAACCCTAAA
66144871 CTCGAACACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.47, C:0.30, G:0.03, T:0.20
Consensus pattern (20 bp):
CTAAAACCTAAACCCTAAAT
Found at i:66151357 original size:22 final size:22
Alignment explanation
Indices: 66151329--66151373 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
66151319 TGATTTTAGT
66151329 AGAAATTGATTTTTAAGACCTA
1 AGAAATTGATTTTTAAGACCTA
66151351 AGAAATTGATTTTTAAGACCTA
1 AGAAATTGATTTTTAAGACCTA
66151373 A
1 A
66151374 TTATGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (22 bp):
AGAAATTGATTTTTAAGACCTA
Found at i:66154006 original size:35 final size:35
Alignment explanation
Indices: 66153857--66154153 Score: 129
Period size: 33 Copynumber: 8.8 Consensus size: 35
66153847 TCTCATCATC
* *
66153857 ATGCCATA-ACCAGCTATGGTCTTACATGTATACA
1 ATGCCATAGTCCAACTATGGTCTTACATGTATACA
* * * * * *
66153891 CTGTCATGGTCCAACCATGGTCTTAC--GTCTATA
1 ATGCCATAGTCCAACTATGGTCTTACATGTATACA
* * ** * *
66153924 GTGCCATAATCCAGTTATGGTC-T-CAT-CATCAGA
1 ATGCCATAGTCCAACTATGGTCTTACATGTAT-ACA
*
66153957 ATGCCATAGCCCAACTATGGTCTTACATGTATACA
1 ATGCCATAGTCCAACTATGGTCTTACATGTATACA
* * * * *
66153992 TTGCCATGGTCCAACCATGGTCTTAC--GTCTATA
1 ATGCCATAGTCCAACTATGGTCTTACATGTATACA
* ** ** * *
66154025 GTGCCATAACCCAGTTATGGTC-TA-AT-CATCAAA
1 ATGCCATAGTCCAACTATGGTCTTACATGTAT-ACA
* * * *
66154058 ATGTCATAGCCCAACTATGGTC-T-CAT-CATCAGA
1 ATGCCATAGTCCAACTATGGTCTTACATGTAT-ACA
* *
66154091 ATGTCATAG-CGTAACTATGGTCTTACATGTATACA
1 ATGCCATAGTC-CAACTATGGTCTTACATGTATACA
* * *
66154126 CTGCCATGGTCCAACCATGGTCTTACAT
1 ATGCCATAGTCCAACTATGGTCTTACAT
66154154 CTAAATAGTT
Statistics
Matches: 192, Mismatches: 55, Indels: 31
0.69 0.20 0.11
Matches are distributed among these distances:
31 1 0.01
32 6 0.03
33 106 0.55
34 7 0.04
35 67 0.35
36 5 0.03
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (35 bp):
ATGCCATAGTCCAACTATGGTCTTACATGTATACA
Found at i:66154011 original size:101 final size:101
Alignment explanation
Indices: 66153769--66154080 Score: 407
Period size: 101 Copynumber: 3.1 Consensus size: 101
66153759 TGTCATAGTT
* * ** ** * * * *
66153769 CAACTATGGTCTTACATG--TGCATTGCCATGGCCCTGCCATATTCTTCCGTTTATAGCGTCATA
1 CAACTATGGTCTTACATGTATACATTGCCATGGTCCAACCATGGTCTTACGTCTATAGTGCCATA
** *
66153832 ACCCAGTTATGGTCTTC-TCATCATCATGCCATA-AC
66 ACCCAGTTATGGTC-TCATCATCAAAATGCCATAGCC
* * *
66153867 CAGCTATGGTCTTACATGTATACACTGTCATGGTCCAACCATGGTCTTACGTCTATAGTGCCATA
1 CAACTATGGTCTTACATGTATACATTGCCATGGTCCAACCATGGTCTTACGTCTATAGTGCCATA
* *
66153932 ATCCAGTTATGGTCTCATCATCAGAATGCCATAGCC
66 ACCCAGTTATGGTCTCATCATCAAAATGCCATAGCC
66153968 CAACTATGGTCTTACATGTATACATTGCCATGGTCCAACCATGGTCTTACGTCTATAGTGCCATA
1 CAACTATGGTCTTACATGTATACATTGCCATGGTCCAACCATGGTCTTACGTCTATAGTGCCATA
* *
66154033 ACCCAGTTATGGTCTAATCATCAAAATGTCATAGCC
66 ACCCAGTTATGGTCTCATCATCAAAATGCCATAGCC
66154069 CAACTATGGTCT
1 CAACTATGGTCT
66154081 CATCATCAGA
Statistics
Matches: 186, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
98 17 0.09
99 2 0.01
100 60 0.32
101 107 0.58
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (101 bp):
CAACTATGGTCTTACATGTATACATTGCCATGGTCCAACCATGGTCTTACGTCTATAGTGCCATA
ACCCAGTTATGGTCTCATCATCAAAATGCCATAGCC
Found at i:66154131 original size:101 final size:100
Alignment explanation
Indices: 66153828--66154132 Score: 296
Period size: 101 Copynumber: 3.0 Consensus size: 100
66153818 TTTATAGCGT
** ** * * * *
66153828 CATAACCCAGTTATGGTCTTCTCATCATCATGCCATA-ACCAGCTATGGTCTTACATGTATACAC
1 CATAACCCAGTTATGGTCTAATCATCAAAATGCCATAGCCCAACTATGGTCTTACATGCATACAA
* * * *
66153892 TGTCATGGTCCAACCATGGTCTTACGTCTATAGTGC
66 TGCCATGGT-CAACCATGGTCTTACGTATACACTGC
* * * * *
66153928 CATAATCCAGTTATGGTCTCATCATCAGAATGCCATAGCCCAACTATGGTCTTACATGTATACAT
1 CATAACCCAGTTATGGTCTAATCATCAAAATGCCATAGCCCAACTATGGTCTTACATGCATACAA
* * *
66153993 TGCCATGGTCCAACCATGGTCTTACGTCTATAGTGC
66 TGCCATGGT-CAACCATGGTCTTACGTATACACTGC
* *
66154029 CATAACCCAGTTATGGTCTAATCATCAAAATGTCATAGCCCAACTATGGTC-T-CAT-CATCAGA
1 CATAACCCAGTTATGGTCTAATCATCAAAATGCCATAGCCCAACTATGGTCTTACATGCAT-ACA
* *
66154091 ATGTCATAGCGT-AACTATGGTCTTACATGTATACACTGC
65 ATGCCAT-G-GTCAACCATGGTCTTAC--GTATACACTGC
66154130 CAT
1 CAT
66154133 GGTCCAACCA
Statistics
Matches: 178, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
98 2 0.01
99 23 0.13
100 34 0.19
101 119 0.67
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (100 bp):
CATAACCCAGTTATGGTCTAATCATCAAAATGCCATAGCCCAACTATGGTCTTACATGCATACAA
TGCCATGGTCAACCATGGTCTTACGTATACACTGC
Found at i:66154431 original size:6 final size:6
Alignment explanation
Indices: 66154420--66154447 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
66154410 TCAATTCATT
66154420 ATTTTC ATTTTC ATTTTC ATTTTC ATTT
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTT
66154448 ACACAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.68
Consensus pattern (6 bp):
ATTTTC
Found at i:66158913 original size:27 final size:27
Alignment explanation
Indices: 66158883--66158940 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
66158873 GTTTGAAAGT
66158883 CTAACTAAATTTACAAGTCGTTTTATA
1 CTAACTAAATTTACAAGTCGTTTTATA
66158910 CTAACTAAATTTACAAGTCGTTTTATA
1 CTAACTAAATTTACAAGTCGTTTTATA
66158937 CTAA
1 CTAA
66158941 AAATAAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.40
Consensus pattern (27 bp):
CTAACTAAATTTACAAGTCGTTTTATA
Found at i:66159963 original size:27 final size:27
Alignment explanation
Indices: 66159931--66159992 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
66159921 AGTCCCAGCT
* **
66159931 GACTACCTTGTGCTTAGTGTCTTGGTG
1 GACTACCTCGTGCTTAGTGTCTCAGTG
*
66159958 GACTACCTCGTGTTTAGTGTCTCAGTG
1 GACTACCTCGTGCTTAGTGTCTCAGTG
66159985 GACTACCT
1 GACTACCT
66159993 ATGATGTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.37
Consensus pattern (27 bp):
GACTACCTCGTGCTTAGTGTCTCAGTG
Found at i:66160189 original size:45 final size:45
Alignment explanation
Indices: 66160122--66160258 Score: 163
Period size: 45 Copynumber: 3.1 Consensus size: 45
66160112 TATAGCGTAC
* *
66160122 TTTTAT-ATGAT-ATCATAGCATCTTTTAGCTATGGTCTTATTCAT
1 TTTTATCATGATGA-CATAACATCTTTCAGCTATGGTCTTATTCAT
* *
66160166 TTTTATCATGATGACATAACATCTTTCAACTATGGTCTT-TCTCAC
1 TTTTATCATGATGACATAACATCTTTCAGCTATGGTCTTAT-TCAT
* * * *
66160211 TTTTATCATGATGCCATAACATATTTCAGTTATGGTCTTACTCAT
1 TTTTATCATGATGACATAACATCTTTCAGCTATGGTCTTATTCAT
66160256 TTT
1 TTT
66160259 CGGTTTATAG
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
44 7 0.09
45 71 0.90
46 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.47
Consensus pattern (45 bp):
TTTTATCATGATGACATAACATCTTTCAGCTATGGTCTTATTCAT
Found at i:66163377 original size:14 final size:14
Alignment explanation
Indices: 66163360--66163394 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
66163350 TAAAGTCGAC
66163360 ACTTCCAGGGAACG
1 ACTTCCAGGGAACG
*
66163374 ACTTCCAGGGACCG
1 ACTTCCAGGGAACG
66163388 ACTTCCA
1 ACTTCCA
66163395 ATTTTGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (14 bp):
ACTTCCAGGGAACG
Found at i:66175683 original size:35 final size:35
Alignment explanation
Indices: 66175644--66175715 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 35
66175634 GTTTTTAAGG
* *
66175644 TTAGGGTTTTGCCAAAATAAGTTAAGGTTTAGTGT
1 TTAGGGTTTTGCCAAAACAAGTTAAGGTTTAGAGT
* ** *
66175679 TTAGGTTTTTGTTAAAACAAGTTAGGGTTTAGAGT
1 TTAGGGTTTTGCCAAAACAAGTTAAGGTTTAGAGT
66175714 TT
1 TT
66175716 TAGTAGATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.28, C:0.04, G:0.25, T:0.43
Consensus pattern (35 bp):
TTAGGGTTTTGCCAAAACAAGTTAAGGTTTAGAGT
Found at i:66175806 original size:34 final size:35
Alignment explanation
Indices: 66175732--66175815 Score: 93
Period size: 34 Copynumber: 2.4 Consensus size: 35
66175722 ATTTTAAAAA
**
66175732 TAAATTAGGTTTTAGTGTTAGTTTATAAAAATTATT
1 TAAATTAGGTTTTAGTGTTA-TTTATAAAAATTAAG
66175768 TAAATTAGGTTTTA-TGGTT-TTTA-AACAAATTAAG
1 TAAATTAGGTTTTAGT-GTTATTTATAA-AAATTAAG
66175802 TAAATTAGAGTTTT
1 TAAATTAG-GTTTT
66175816 GAGAGTTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
33 2 0.05
34 18 0.42
35 6 0.14
36 17 0.40
ACGTcount: A:0.37, C:0.01, G:0.14, T:0.48
Consensus pattern (35 bp):
TAAATTAGGTTTTAGTGTTATTTATAAAAATTAAG
Found at i:66175957 original size:85 final size:83
Alignment explanation
Indices: 66175843--66175997 Score: 249
Period size: 85 Copynumber: 1.8 Consensus size: 83
66175833 TAGGGCTTAA
66175843 GGTTTATGGTTTTAAATAAATTAAATAAATTAGGGTT-TAGGGTTTAAAAATAAATTAAAATAGG
1 GGTTTATGGTTTTAAATAAATTAAATAAATTAGGGTTCTAGGGTTT-AAAATAAATTAAAATAGG
66175907 GCTTTAATTAAATTGATTGG
65 G-TTTAATTAAATTGATTGG
* * *
66175927 GGTTTATGGTTTTTAAATAAATTAAGTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAATTAGG
1 GGTTTATGG-TTTTAAATAAATTAAATAAATTAGGGTTCTAGGGTTTAAAATAAATTAAAATAGG
66175992 GTTTAA
65 GTTTAA
66175998 GGTTTAAGAT
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
84 14 0.21
85 44 0.67
86 8 0.12
ACGTcount: A:0.39, C:0.01, G:0.19, T:0.41
Consensus pattern (83 bp):
GGTTTATGGTTTTAAATAAATTAAATAAATTAGGGTTCTAGGGTTTAAAATAAATTAAAATAGGG
TTTAATTAAATTGATTGG
Found at i:66175964 original size:34 final size:31
Alignment explanation
Indices: 66175926--66176037 Score: 97
Period size: 35 Copynumber: 3.4 Consensus size: 31
66175916 AAATTGATTG
66175926 GGGTTTATGGTTTTTAAATAAATTAAGTAAATTA
1 GGGTTTA-GG-TTTTAAATAAATTAA-TAAATTA
66175960 GGGTTCTAGGGTTTTAAATAAA-T--TAAATTA
1 GGGTT-TA-GGTTTTAAATAAATTAATAAATTA
66175990 GGGTTTAAGG-TTTAAGATTAAATTTAATTAAATTA
1 GGGTTT-AGGTTTTAA-A-TAAA-TTAA-TAAATTA
*
66176025 GGGTTTAGTTTTT
1 GGGTTTAGGTTTT
66176038 TTTTCAATGA
Statistics
Matches: 66, Mismatches: 2, Indels: 19
0.76 0.02 0.22
Matches are distributed among these distances:
28 5 0.08
29 4 0.06
30 17 0.26
32 1 0.02
33 1 0.02
34 18 0.27
35 20 0.30
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.45
Consensus pattern (31 bp):
GGGTTTAGGTTTTAAATAAATTAATAAATTA
Found at i:66176012 original size:30 final size:30
Alignment explanation
Indices: 66175944--66176019 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
66175934 GGTTTTTAAA
* * *
66175944 TAAATTAAGTAAATTAGGGTTCTAGGGTTT
1 TAAATAAATTAAATTAGGGTTCTAAGGTTT
66175974 TAAATAAATTAAATTAGGGTT-TAAGG-TT
1 TAAATAAATTAAATTAGGGTTCTAAGGTTT
*
66176002 TAAGATTAAATTTAATTA
1 TAA-A-TAAATTAAATTA
66176020 AATTAGGGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 5 0.12
29 5 0.12
30 30 0.75
ACGTcount: A:0.41, C:0.01, G:0.17, T:0.41
Consensus pattern (30 bp):
TAAATAAATTAAATTAGGGTTCTAAGGTTT
Found at i:66176506 original size:127 final size:126
Alignment explanation
Indices: 66176088--66176592 Score: 617
Period size: 126 Copynumber: 4.0 Consensus size: 126
66176078 GTATTTTTAC
* * * *
66176088 CCTGAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAATGTTTC-AGACAGGA
1 CCTGAAAAAATAA-ATTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAG-CAGGA
* * * * *
66176152 TGCACTGTCAGCAAAAATACAAAAAAAAAGCTCCCACGTGAACGCTC-TTTTCTATAATAGTT
64 TGCACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT
* * *
66176214 CCTGAAAAAATAATTTTGAGAAGATGTTTCCGAACAAATAGTGTCAAAAACGCTTCAAGCAAGAT
1 CCTGAAAAAATAA-ATTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
* * * * * *
66176279 GTATTGTTAGAAAAATTAC-GAAAAAAAGCTACCACGTGGACGCTCTTTTTCTAAAGTAGTT
65 GCACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT
* * * *
66176340 CGTGAAAAAATAAATTTGAGAAGAAGTTTCTGAATAAATAGTGTCAAAAAAGCTTCAAGCAGGAT
1 CCTGAAAAAATAAA-TTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
* * *
66176405 GCACTGTTAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACACT-TTTTTCTACAGTATTT
65 GCACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT
* * **
66176466 CTTGAAAAAAATGAAATTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACTCTTCAAATAGGA
1 CCTG-AAAAAAT-AAATTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGA
* * * *
66176531 TGCAATGTCAGCAAAATTTCTG-AAAAAAGCT-CCACGTGGACGCTCTATTTCTACAGTAGTT
64 TGCACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT
66176592 C
1 C
66176593 ATAATTGGCC
Statistics
Matches: 329, Mismatches: 43, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
125 35 0.11
126 198 0.60
127 93 0.28
128 3 0.01
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (126 bp):
CCTGAAAAAATAAATTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATG
CACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT
Found at i:66176568 original size:252 final size:252
Alignment explanation
Indices: 66176090--66176592 Score: 681
Period size: 252 Copynumber: 2.0 Consensus size: 252
66176080 ATTTTTACCC
* * * *
66176090 TGAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAATGTTTCAGACAGGATGC
1 TGAAAAAATAAATTTGAGAAGAAGTTTCTAAACAAATAGTGTCAAAAAAGCTTCAGACAGGATGC
* *
66176155 ACTGTCAGCAAAAATACAAAAAAAAAGCTCCCACGTGAACGCTCTTTTCTATAATAGTTCCTGAA
66 ACTGTCAGCAAAAATACAAAAAAAAAGCTCCCACGTGAACACTCTTTTCTACAATAGTTCCTGAA
* * * *
66176220 AAAATAATTTTGAGAAGATGTTTCCGAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGTATTG
131 AAAATAATATTGAGAAGATGTTTCCGAACAAATAGTGTCAAAAACGCTTCAAACAAGATGCAATG
* *
66176285 TTAGAAAAATTACGAAAAAAAGCTACCACGTGGACGCTCTTTTTCTAAAGTAGTTCG
196 TCAGAAAAATTACGAAAAAAAGCTACCACGTGGACGCTCTATTTCTAAAGTAGTTCG
* *
66176342 TGAAAAAATAAATTTGAGAAGAAGTTTCTGAATAAATAGTGTCAAAAAAGCTTCA-AGCAGGATG
1 TGAAAAAATAAATTTGAGAAGAAGTTTCTAAACAAATAGTGTCAAAAAAGCTTCAGA-CAGGATG
* * * * * * * *
66176406 CACTGTTAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACACTTTTTTCTACAGTATTTCTTGA
65 CACTGTCAGCAAAAATACAAAAAAAAAGCTCCCACGTGAACACTCTTTTCTACAATAGTTCCTG-
* * * *
66176471 AAAAAATGAA-ATTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACTCTTCAAATAGGATGCA
129 AAAAAAT-AATATTGAGAAGATGTTTCCGAACAAATAGTGTCAAAAACGCTTCAAACAAGATGCA
* * *
66176535 ATGTCAGCAAAATTTCTG-AAAAAAGCT-CCACGTGGACGCTCTATTTCTACAGTAGTTC
193 ATGTCAGAAAAATTAC-GAAAAAAAGCTACCACGTGGACGCTCTATTTCTAAAGTAGTTC
66176593 ATAATTGGCC
Statistics
Matches: 218, Mismatches: 29, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
251 1 0.00
252 139 0.64
253 75 0.34
254 3 0.01
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (252 bp):
TGAAAAAATAAATTTGAGAAGAAGTTTCTAAACAAATAGTGTCAAAAAAGCTTCAGACAGGATGC
ACTGTCAGCAAAAATACAAAAAAAAAGCTCCCACGTGAACACTCTTTTCTACAATAGTTCCTGAA
AAAATAATATTGAGAAGATGTTTCCGAACAAATAGTGTCAAAAACGCTTCAAACAAGATGCAATG
TCAGAAAAATTACGAAAAAAAGCTACCACGTGGACGCTCTATTTCTAAAGTAGTTCG
Found at i:66180361 original size:42 final size:42
Alignment explanation
Indices: 66180312--66180458 Score: 179
Period size: 42 Copynumber: 3.3 Consensus size: 42
66180302 CATAGTTCAA
66180312 CTATGGTCTTACACATCTTCACATAAT-GATGTCATAGCCCAG
1 CTATGGTCTTACACATCTTCACAT-ATCGATGTCATAGCCCAG
* * *
66180354 TTATGGTCTTACACATATTCATATATCGATGTCATAGCCCAG
1 CTATGGTCTTACACATCTTCACATATCGATGTCATAGCCCAG
*
66180396 CTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAG
1 CTATGGTCTTACAC---AT--C-T-TCACATATCGATGTCATAGCCCAG
66180445 CTATGGTCTTACAC
1 CTATGGTCTTACAC
66180459 GAATCACATA
Statistics
Matches: 90, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
41 2 0.02
42 49 0.54
45 2 0.02
48 1 0.01
49 36 0.40
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (42 bp):
CTATGGTCTTACACATCTTCACATATCGATGTCATAGCCCAG
Found at i:66180439 original size:49 final size:48
Alignment explanation
Indices: 66180365--66180501 Score: 188
Period size: 49 Copynumber: 2.9 Consensus size: 48
66180355 TATGGTCTTA
* *
66180365 CACATATTCATATATCGATGTCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
66180415 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * * *
66180463 CACATATCTCA-CT-GATGCCATATCCCAGATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTA
66180502 TACAGTAGCA
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 24 0.30
47 1 0.01
48 13 0.16
49 37 0.46
50 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:66180533 original size:47 final size:46
Alignment explanation
Indices: 66180380--66180547 Score: 174
Period size: 47 Copynumber: 3.6 Consensus size: 46
66180370 ATTCATATAT
* * * * *
66180380 CGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATAT
1 CGATGCCATATCCCAGATATGGTCTTACACG-AAGCACATATCAC--AC
* * * *
66180429 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTACACGAAGCACATATCACAC
* * * *
66180475 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTACAC-GAAGCACATATCACAC
*
66180522 CGATGCTATATCCCAGATATGGTCTT
1 CGATGCCATATCCCAGATATGGTCTT
66180548 GTACGGAAAT
Statistics
Matches: 105, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.26
47 36 0.34
48 12 0.11
49 30 0.29
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTACACGAAGCACATATCACAC
Found at i:66180627 original size:31 final size:31
Alignment explanation
Indices: 66180570--66180688 Score: 168
Period size: 31 Copynumber: 3.8 Consensus size: 31
66180560 CTTGTTACTT
* *
66180570 GTAGCCGAAGCTACCACTATTTCACTGATCAA
1 GTAGCCGGAGCTACCACT-TTTCACTGATCAG
*
66180602 GTAGCCGGTA-CTACCACTTTTCACTGACCAG
1 GTAGCCGG-AGCTACCACTTTTCACTGATCAG
66180633 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
**
66180664 GTAGCCAAAGCTACCACTTTTCACT
1 GTAGCCGGAGCTACCACTTTTCACT
66180689 TGTCATTTGT
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
30 1 0.01
31 62 0.78
32 15 0.19
33 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:66180771 original size:50 final size:51
Alignment explanation
Indices: 66180664--66180792 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
66180654 CACTGATCAG
* * *
66180664 GTAGCCAAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
66180715 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
66180765 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
66180793 TGCCATCAAC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:66183423 original size:18 final size:18
Alignment explanation
Indices: 66183397--66183439 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
66183387 GACTGAGAAA
* *
66183397 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
66183415 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
66183433 AGGATAC
1 AGGATAC
66183440 GCACCTGGCA
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:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:66185021 original size:28 final size:27
Alignment explanation
Indices: 66184990--66185076 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 27
66184980 ATTACATAAA
66184990 TAAAAAATATTAAATAATATTCAAATT
1 TAAAAAATATTAAATAATATTCAAATT
* * * * *
66185017 TTAAAATTAATTAAA-ATTACAT-AAATG
1 TAAAAAAT-ATTAAATAATA-TTCAAATT
*
66185044 AAAAAAATATTAAATAATATTCCAAATT
1 TAAAAAATATTAAATAATATT-CAAATT
66185072 TAAAA
1 TAAAA
66185077 TAAATCGTTA
Statistics
Matches: 43, Mismatches: 12, Indels: 9
0.67 0.19 0.14
Matches are distributed among these distances:
26 7 0.16
27 21 0.49
28 15 0.35
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34
Consensus pattern (27 bp):
TAAAAAATATTAAATAATATTCAAATT
Found at i:66185048 original size:52 final size:53
Alignment explanation
Indices: 66184968--66185077 Score: 188
Period size: 54 Copynumber: 2.1 Consensus size: 53
66184958 TATAAAATAC
66184968 AAATTAATTAAAATTACATAAAT-AAAAAATATTAAATAATATT-CAAATTTTA
1 AAATTAATTAAAATTACATAAATAAAAAAATATTAAATAATATTCCAAA-TTTA
66185020 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCCAAATTTA
1 AAATTAATTAAAATTACATAAAT-AAAAAAATATTAAATAATATTCCAAATTTA
66185074 AAAT
1 AAAT
66185078 AAATCGTTAC
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
52 23 0.42
54 28 0.51
55 4 0.07
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.35
Consensus pattern (53 bp):
AAATTAATTAAAATTACATAAATAAAAAAATATTAAATAATATTCCAAATTTA
Found at i:66188119 original size:19 final size:19
Alignment explanation
Indices: 66188084--66188128 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
66188074 GTTGGTGGCC
66188084 TTTAATTT-TATAAATTTTG
1 TTTAATTTATATAAA-TTTG
*
66188103 TTTAATTTATAT-TATTTG
1 TTTAATTTATATAAATTTG
66188121 TTT-ATTTA
1 TTTAATTTA
66188129 AAATAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.21
18 7 0.29
19 9 0.38
20 3 0.12
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTAATTTATATAAATTTG
Found at i:66194683 original size:5 final size:5
Alignment explanation
Indices: 66194673--66194704 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
66194663 CAATTTGTAA
66194673 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
66194705 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:66194698 original size:9 final size:9
Alignment explanation
Indices: 66194674--66194704 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
66194664 AATTTGTAAA
66194674 AAATAAAAT
1 AAATAAAAT
66194683 AAAATAAAAT
1 -AAATAAAAT
66194693 AAATAAAAT
1 AAATAAAAT
66194702 AAA
1 AAA
66194705 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:66196739 original size:24 final size:24
Alignment explanation
Indices: 66196684--66196740 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
66196674 TGTGGATAAC
*
66196684 AATATTAGA-ATAAATATTAGATT
1 AATATTAAATATAAATATTAGATT
* * *
66196707 AACACTAAATATAAATGTTAGATT
1 AATATTAAATATAAATATTAGATT
66196731 AATATTAAAT
1 AATATTAAAT
66196741 TAATAAGATA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.37
Consensus pattern (24 bp):
AATATTAAATATAAATATTAGATT
Found at i:66198509 original size:3 final size:3
Alignment explanation
Indices: 66198501--66198533 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
66198491 TTTAACTCTG
*
66198501 TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
66198534 CTCTTCCATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:66199693 original size:54 final size:54
Alignment explanation
Indices: 66199627--66199735 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 54
66199617 ATTATTGATT
* *
66199627 CAATAAATTTTTTAATTGAATCAACCCATTCATAACAATTAATTTAGTACTCAA
1 CAATAAAATTTTTAATTGAATCAACCCATTCATAACAATTAATTTAATACTCAA
*
66199681 CAATAAAATTTTTAATTGAATCAACCCATTCATACCAATTAATTTAATACTCAA
1 CAATAAAATTTTTAATTGAATCAACCCATTCATAACAATTAATTTAATACTCAA
66199735 C
1 C
66199736 GTATTCTTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.43, C:0.18, G:0.03, T:0.36
Consensus pattern (54 bp):
CAATAAAATTTTTAATTGAATCAACCCATTCATAACAATTAATTTAATACTCAA
Found at i:66214248 original size:30 final size:30
Alignment explanation
Indices: 66214213--66214272 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
66214203 TAGGTAAGTT
66214213 AAAATATTTCCTTGGTATTGAAGTGGCACA
1 AAAATATTTCCTTGGTATTGAAGTGGCACA
66214243 AAAATATTTCCTTGGTATTGAAGTGGCACA
1 AAAATATTTCCTTGGTATTGAAGTGGCACA
66214273 CTCTCGGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (30 bp):
AAAATATTTCCTTGGTATTGAAGTGGCACA
Found at i:66228231 original size:18 final size:18
Alignment explanation
Indices: 66228208--66228242 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
66228198 GGGCTAGCTG
66228208 GACCTAGTTCCAACAATA
1 GACCTAGTTCCAACAATA
66228226 GACCTAGTTCCAACAAT
1 GACCTAGTTCCAACAAT
66228243 CTCAAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.23
Consensus pattern (18 bp):
GACCTAGTTCCAACAATA
Found at i:66231701 original size:21 final size:21
Alignment explanation
Indices: 66231675--66231716 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
66231665 ATCTCTGTCC
66231675 CATGACCAGATTGGAATAGGG
1 CATGACCAGATTGGAATAGGG
66231696 CATGACCAGATTGGAATAGGG
1 CATGACCAGATTGGAATAGGG
66231717 GAAGACTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.19
Consensus pattern (21 bp):
CATGACCAGATTGGAATAGGG
Found at i:66240988 original size:91 final size:91
Alignment explanation
Indices: 66240827--66241019 Score: 219
Period size: 91 Copynumber: 2.1 Consensus size: 91
66240817 AAAAGGGTTA
* * ** *
66240827 TGTAACATTTGGTACATGTACTTTTATAAAATATTTAATGTGATATATGTACTTTGAAAACGTTA
1 TGTATCATTTGGTACATGTACTTTTAAAAAATATCAAATGTGATATATATACTTTGAAAACGTTA
* *
66240892 AATGTGGTACATGAACTATGAATTTG
66 AATGTGATACATGAACTATCAATTTG
* * * * *
66240918 TTTATTATTTGGTACTTGTACTTTTAAAAAATCTCAAATGT-AGTATTTATACTTT-AAAACTGT
1 TGTATCATTTGGTACATGTACTTTTAAAAAATATCAAATGTGA-TATATATACTTTGAAAAC-GT
* * *
66240981 TCAATGTGATACCTGAATTATCAATTTG
64 TAAATGTGATACATGAACTATCAATTTG
66241009 TGTATCATTTG
1 TGTATCATTTG
66241020 ATACCTATAC
Statistics
Matches: 83, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
90 6 0.07
91 77 0.93
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (91 bp):
TGTATCATTTGGTACATGTACTTTTAAAAAATATCAAATGTGATATATATACTTTGAAAACGTTA
AATGTGATACATGAACTATCAATTTG
Found at i:66242608 original size:13 final size:13
Alignment explanation
Indices: 66242590--66242614 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66242580 GGTGCAGACT
66242590 TCACACGGCCATA
1 TCACACGGCCATA
66242603 TCACACGGCCAT
1 TCACACGGCCAT
66242615 GTTGGAGCCT
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:0.28, C:0.40, G:0.16, T:0.16
Consensus pattern (13 bp):
TCACACGGCCATA
Found at i:66248419 original size:13 final size:13
Alignment explanation
Indices: 66248390--66248443 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
66248380 ATAACCAAAC
*
66248390 TTTTTAAAAGT-AA
1 TTTTTAAAA-TCAT
66248403 TTTTTAAAATCAT
1 TTTTTAAAATCAT
*
66248416 TTTTCTAAAA-CAC
1 TTTT-TAAAATCAT
66248429 TTTTTAAAATCAT
1 TTTTTAAAATCAT
66248442 TT
1 TT
66248444 CTCAAAAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
12 6 0.17
13 24 0.69
14 5 0.14
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (13 bp):
TTTTTAAAATCAT
Found at i:66248432 original size:26 final size:26
Alignment explanation
Indices: 66248403--66248452 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
66248393 TTAAAAGTAA
* *
66248403 TTTTTAAAATCATTTTTCTAAAACAC
1 TTTTTAAAATCATTTCTCAAAAACAC
66248429 TTTTTAAAATCATTTCTCAAAAAC
1 TTTTTAAAATCATTTCTCAAAAAC
66248453 TTGCTAAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (26 bp):
TTTTTAAAATCATTTCTCAAAAACAC
Found at i:66248460 original size:24 final size:26
Alignment explanation
Indices: 66248407--66248460 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
66248397 AAGTAATTTT
* **
66248407 TAAAATCATTTTTCTAAAACACTTTT
1 TAAAATCATTTCTCTAAAACACTTGC
66248433 TAAAATCATTTCTC-AAAA-ACTTGC
1 TAAAATCATTTCTCTAAAACACTTGC
66248457 TAAA
1 TAAA
66248461 GTAGCCCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.32
25 4 0.16
26 13 0.52
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.39
Consensus pattern (26 bp):
TAAAATCATTTCTCTAAAACACTTGC
Found at i:66249274 original size:24 final size:24
Alignment explanation
Indices: 66249247--66249292 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
66249237 AATTTTTAAT
*
66249247 TTAA-AATTTAACAAGTAATTTATA
1 TTAATAATTTAAAAAGT-ATTTATA
*
66249271 TTAATTATTTAAAAAGTATTTA
1 TTAATAATTTAAAAAGTATTTA
66249293 ACTTTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (24 bp):
TTAATAATTTAAAAAGTATTTATA
Found at i:66255025 original size:10 final size:11
Alignment explanation
Indices: 66254998--66255030 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
66254988 ACCTTTTGGT
*
66254998 TAAAATAAATA
1 TAAAATATATA
66255009 TAAAATATATA
1 TAAAATATATA
66255020 -AAAATATATA
1 TAAAATATATA
66255030 T
1 T
66255031 TGCTAATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAAATATATA
Found at i:66255508 original size:20 final size:20
Alignment explanation
Indices: 66255485--66255523 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
66255475 ATTATCAAAA
66255485 ATATAAAATTATGAAAATTG
1 ATATAAAATTATGAAAATTG
*
66255505 ATATAAACTTATGAAAATT
1 ATATAAAATTATGAAAATT
66255524 ATAAACAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (20 bp):
ATATAAAATTATGAAAATTG
Found at i:66255542 original size:9 final size:8
Alignment explanation
Indices: 66255472--66255528 Score: 51
Period size: 9 Copynumber: 6.4 Consensus size: 8
66255462 AATCAGGAAA
66255472 AAAATTAT
1 AAAATTAT
*
66255480 CAAAAATAT
1 -AAAATTAT
66255489 AAAATTAT
1 AAAATTAT
66255497 GAAAATTGAT
1 -AAAATT-AT
66255507 ATAAACTTAT
1 A-AAA-TTAT
66255517 GAAAATTAT
1 -AAAATTAT
66255526 AAA
1 AAA
66255529 CAAAATTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
8 10 0.24
9 18 0.44
10 10 0.24
11 3 0.07
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.32
Consensus pattern (8 bp):
AAAATTAT
Found at i:66267692 original size:27 final size:27
Alignment explanation
Indices: 66267659--66267716 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
66267649 AAATTTTAAG
66267659 TTTAATTCTTGATGTATTTGCTAAGTT
1 TTTAATTCTTGATGTATTTGCTAAGTT
66267686 TTTAATTCTTGATGTATTTGCTAAGTT
1 TTTAATTCTTGATGTATTTGCTAAGTT
66267713 TTTA
1 TTTA
66267717 TAAGCTTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.22, C:0.07, G:0.14, T:0.57
Consensus pattern (27 bp):
TTTAATTCTTGATGTATTTGCTAAGTT
Found at i:66268488 original size:6 final size:6
Alignment explanation
Indices: 66268457--66268482 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
66268447 AGTATTAATT
66268457 AAGAAA AAGAAA AAGAAA AAGAAA AA
1 AAGAAA AAGAAA AAGAAA AAGAAA AA
66268483 ACAAAACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:66269640 original size:40 final size:40
Alignment explanation
Indices: 66268965--66269646 Score: 909
Period size: 40 Copynumber: 17.1 Consensus size: 40
66268955 CATGTTTTGA
* *
66268965 TTGGATCAGCTCTTATGAGCTTCTGTTTAGCGTGTTTCAG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* * * *
66269005 TTAGATCAACTCTTATGAGCTTTTGTTTGGTGTGTTT-GAG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCG-G
* *
66269045 TTGGATAAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCAG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* *
66269085 TTGGATTAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCAG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* *
66269125 TTGGATTAGCTCTTATGAGCTTCTGTTTGGCATGTTTCGG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* * *
66269165 TTGGATCAGCTCTTATGAGCTTCTGTTTGGTGTGCTTCGA
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* *
66269205 TTGGATCAACTCTTATGAGCTTCTATTTGGCGTGTTTCGG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* * *
66269245 TTGGCTCAGCTCTTATGAGCCTCTGTTTGGTGTGTTTCGG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* * * * *
66269285 TTGGATAAACTCTTATGAGCCTCTGTTTGGCATGTTTCGA
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
*
66269325 TTGGATCAGCTCTTATGAGCCTCTGTTTGGCGTGTTTCGG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
*
66269365 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCAG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* * * *
66269405 TTGGATCAGATTTTATGAGCTTCTGTTTGGTGTGTTTCGA
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* * *
66269445 TTGGATCAACTCTTATGATCTTCTGTTTGGCGTGCTTCGG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* * * *
66269485 TTGGATAAACTCTTATGAGCTTCTGTTTGACGTGTTTCTG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* * **
66269525 TTGGATCAACTCTTATGAGCCTCTGTTTGGCGTGTTTCTA
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* *
66269565 TTGGATCAGCTCTTATGAGCTTTTGTTTAGCGTGTTTCGG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
* * * *
66269605 TTGGATTAGCTCTTATGAGCTTCTATCTGGTGTG-TTCGG
1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
66269644 TTG
1 TTG
66269647 ATCTGACGAT
Statistics
Matches: 565, Mismatches: 75, Indels: 5
0.88 0.12 0.01
Matches are distributed among these distances:
39 8 0.01
40 557 0.99
ACGTcount: A:0.14, C:0.16, G:0.26, T:0.44
Consensus pattern (40 bp):
TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG
Found at i:66269973 original size:20 final size:20
Alignment explanation
Indices: 66269927--66269976 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
66269917 TACTATGCAA
*
66269927 ATGAAAAGATATAATTTCTT
1 ATGAAATGATATAATTTCTT
*
66269947 ATGAAATGATGTAATTTCTT
1 ATGAAATGATATAATTTCTT
66269967 ATGAAATGAT
1 ATGAAATGAT
66269977 TTATCATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.04, G:0.14, T:0.40
Consensus pattern (20 bp):
ATGAAATGATATAATTTCTT
Found at i:66272602 original size:21 final size:20
Alignment explanation
Indices: 66272544--66272607 Score: 74
Period size: 21 Copynumber: 3.1 Consensus size: 20
66272534 CCTGATCAAT
66272544 ATACGACACATAAGTGCCTG
1 ATACGACACATAAGTGCCTG
* * * *
66272564 AAATGACACACGAGGTGCCTG
1 ATACGACACA-TAAGTGCCTG
66272585 ATACGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTG
66272606 AT
1 AT
66272608 TGGCAAAGCC
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
20 8 0.24
21 26 0.76
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (20 bp):
ATACGACACATAAGTGCCTG
Found at i:66273789 original size:21 final size:20
Alignment explanation
Indices: 66273765--66273803 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
66273755 TCAAATTTCC
66273765 CTTTTCTTCATTCCGTTCTTT
1 CTTTTCTTCATTCC-TTCTTT
* *
66273786 CTTTTTTTCCTTCCTTCT
1 CTTTTCTTCATTCCTTCT
66273804 CTATTTCGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.03, C:0.31, G:0.03, T:0.64
Consensus pattern (20 bp):
CTTTTCTTCATTCCTTCTTT
Found at i:66273847 original size:14 final size:15
Alignment explanation
Indices: 66273830--66273862 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
66273820 ATTCTGTTTC
66273830 TTTCCTTTCCTTT-T
1 TTTCCTTTCCTTTAT
*
66273844 TTTCCTTTCTTTTAT
1 TTTCCTTTCCTTTAT
66273859 TTTC
1 TTTC
66273863 ATTAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTCCTTTCCTTTAT
Found at i:66274031 original size:31 final size:32
Alignment explanation
Indices: 66273975--66274037 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
66273965 TACATTTGTC
*
66273975 ATAATTTAATTTATTTGTTACATAAAAATCTT
1 ATAATATAATTTATTTGTTACATAAAAATCTT
*
66274007 ATAATATAA-TTATTTGATTA-ATAAATATCTT
1 ATAATATAATTTATTTG-TTACATAAAAATCTT
66274038 TTACTTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (32 bp):
ATAATATAATTTATTTGTTACATAAAAATCTT
Found at i:66274047 original size:18 final size:19
Alignment explanation
Indices: 66274024--66274059 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
66274014 AATTATTTGA
66274024 TTAATAAATATCT-TTTAC
1 TTAATAAATATCTATTTAC
*
66274042 TTAATAATTATCTATTTA
1 TTAATAAATATCTATTTA
66274060 ATAACTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAATAAATATCTATTTAC
Found at i:66276621 original size:2 final size:2
Alignment explanation
Indices: 66276614--66276646 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
66276604 CATGGGACCT
*
66276614 TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
66276647 TTAGATTGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:66285000 original size:21 final size:21
Alignment explanation
Indices: 66284975--66285017 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
66284965 AAGAATGATT
66284975 TTTAACTCTTTTCTTAA-TTAA
1 TTTAA-TCTTTTCTTAACTTAA
* *
66284996 TTTAATGTTTTGTTAACTTAA
1 TTTAATCTTTTCTTAACTTAA
66285017 T
1 T
66285018 CAAAAACTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (21 bp):
TTTAATCTTTTCTTAACTTAA
Found at i:66289159 original size:22 final size:24
Alignment explanation
Indices: 66289134--66289186 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
66289124 TACCAACATC
*
66289134 AATAATCGAAAA-AA-ATGAAATA
1 AATAATAGAAAACAATATGAAATA
* *
66289156 AATAATATAAAACAATTTGAAATA
1 AATAATAGAAAACAATATGAAATA
66289180 AATAATA
1 AATAATA
66289187 AGATAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 10 0.38
23 2 0.08
24 14 0.54
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.25
Consensus pattern (24 bp):
AATAATAGAAAACAATATGAAATA
Found at i:66289181 original size:24 final size:23
Alignment explanation
Indices: 66289151--66289277 Score: 87
Period size: 24 Copynumber: 5.1 Consensus size: 23
66289141 GAAAAAAATG
66289151 AAATAAATAATATAAAACAATTT
1 AAATAAATAATATAAAACAATTT
* *
66289174 GAAATAAATAATA-AGATA-ATTTT
1 -AAATAAATAATATA-AAACAATTT
*
66289197 AAATAAATAATATATATCAAAAAGGGTTT
1 AAATAAATAATATA-A--AACAA---TTT
* *
66289226 AAATAGATACTATAAAAAGCAATTT
1 AAATAAATAATAT-AAAA-CAATTT
*
66289251 AAAGTAAATAATATAAAATAATTT
1 AAA-TAAATAATATAAAACAATTT
66289275 AAA
1 AAA
66289278 ATCATTAATA
Statistics
Matches: 81, Mismatches: 11, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
22 12 0.15
23 7 0.09
24 22 0.27
25 11 0.14
26 9 0.11
27 2 0.02
28 2 0.02
29 15 0.19
30 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (23 bp):
AAATAAATAATATAAAACAATTT
Found at i:66289187 original size:22 final size:22
Alignment explanation
Indices: 66289149--66289208 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
66289139 TCGAAAAAAA
66289149 TGAAATAAATAATATAAAACAATT
1 TGAAATAAAT-A-ATAAAACAATT
* *
66289173 TGAAATAAATAATAAGATAATT
1 TGAAATAAATAATAAAACAATT
*
66289195 TTAAATAAATAATA
1 TGAAATAAATAATA
66289209 TATATCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 22 0.67
23 1 0.03
24 10 0.30
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (22 bp):
TGAAATAAATAATAAAACAATT
Found at i:66289398 original size:29 final size:28
Alignment explanation
Indices: 66289365--66289419 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
66289355 ATATAAAAAG
* *
66289365 TTTAAAATAAATAATATGTGAAAAATAAA
1 TTTAAAATAAAGAATATAT-AAAAATAAA
*
66289394 TTTAAAATAGAGAATATATAAAAATA
1 TTTAAAATAAAGAATATATAAAAATA
66289420 TATATATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (28 bp):
TTTAAAATAAAGAATATATAAAAATAAA
Found at i:66289599 original size:21 final size:18
Alignment explanation
Indices: 66289568--66289606 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 18
66289558 TAAAATAGAT
66289568 AATATATAAAATAGTTTAA
1 AATATATAAAATA-TTTAA
66289587 AATATATGAAAAATATTTAA
1 AATATAT--AAAATATTTAA
66289607 TAAATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
AATATATAAAATATTTAA
Found at i:66296030 original size:3 final size:3
Alignment explanation
Indices: 66296022--66296062 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
66296012 TACTAAACAT
*
66296022 TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
66296063 TTCAGTTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:66297518 original size:24 final size:24
Alignment explanation
Indices: 66297491--66297542 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
66297481 TTAGTAAGTC
*
66297491 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
66297515 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
66297539 AAAT
1 AAAT
66297543 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:66307779 original size:977 final size:978
Alignment explanation
Indices: 66305885--66307840 Score: 3815
Period size: 977 Copynumber: 2.0 Consensus size: 978
66305875 GGTGCATCAT
66305885 GGGAGGAAACAATAAAATAAAGAGCATGGGCAATAAAATATTAGTGTTAGTAGGATGAGAAACAA
1 GGGAGGAAACAATAAAATAAAGAGCATGGGCAATAAAATATTAGTGTTAGTAGGATGAGAAACAA
66305950 AAAAAAAAAAAAGGATATGTGTGATTGTCCCCCCCTTGCCGTGAGTTGAAGGAAAGAAAAACAAA
66 AAAAAAAAAAAAGGATATGTGTGATTGTCCCCCCCTTGCCGTGAGTTGAAGGAAAGAAAAACAAA
66306015 AAAAAAAGTGTTCATCCTTTGGTTCATCCTTGGCCGAAAATTTTAAGGAGGAAGGAAGAAGAAAG
131 AAAAAAAGTGTTCATCCTTTGGTTCATCCTTGGCCGAAAATTTTAAGGAGGAAGGAAGAAGAAAG
66306080 ATTGAAGAGGTTCGGCCATGCATGTAACTAGGCTAAGGTATGTTTGATGATGTTCCATGAGATGC
196 ATTGAAGAGGTTCGGCCATGCATGTAACTAGGCTAAGGTATGTTTGATGATGTTCCATGAGATGC
66306145 ATGCATGTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTCTAAATCTTGCTATGTGATGG
261 ATGCATGTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTCTAAATCTTGCTATGTGATGG
*
66306210 AAATGACACTCGGCCATGGATGCATCATTCTTGCTTGGTGTTGATGTTGTGTTGGTGAGATATCA
326 AAATGACACTCGGCCATGGATGCATCATTCTTGCTTGGTGTTGATGTTGTGTTGGTAAGATATCA
**
66306275 AGTTATTTTTGTGACCAAGTTGAGATTTGAATTTTTGGAATGAGTAAGGTTTTCGGTTATGTTGT
391 AGTTATTTTTGTGACCAAGAAGAGATTTGAATTTTTGGAATGAGTAAGGTTTTCGGTTATGTTGT
66306340 TTTGTATGAGTAATGGATTGTTGAGTTCATGCTATTATGAATAAAATTGATTAAGAGAGGCTTGA
456 TTTGTATGAGTAATGGATTGTTGAGTTCATGCTATTATGAATAAAATTGATTAAGAGAGGCTTGA
66306405 GATAATTAAATATGCATGTTGGTGGTAAGATGAGCATTCGGTTTTTATCATGGAAGCATAGGAAG
521 GATAATTAAATATGCATGTTGGTGGTAAGATGAGCATTCGGTTTTTATCATGGAAGCATAGGAAG
66306470 CTTGTTAAAGTTGAATTTTAGAAAAGTTAAATGTGTGTGTGCTTGTGCTAGTGCCGAATGTGCCT
586 CTTGTTAAAGTTGAATTTTAGAAAAGTTAAATGTGTGTGTGCTTGTGCTAGTGCCGAATGTGCCT
66306535 AGGGTGATTTAGCATTGAGTTTGGTGTTATATGAATTGAGTTTTATGGTTTTGGATTTTTAAGTG
651 AGGGTGATTTAGCATTGAGTTTGGTGTTATATGAATTGAGTTTTATGGTTTTGGATTTTTAAGTG
*
66306600 TTGTTAAATACTTTGAATAATATATATATGTGGCTTTGAAATGTGAAACTCGGCCAAGTGGTTAT
716 TTGTTAAATACTTTGAATAATATATATAAGTGGCTTTGAAATGTGAAACTCGGCCAAGTGGTTAT
*
66306665 AAGCATGATTTTAGAGATTCAATGATATTCAGCTGATTGGAATAATTCATGGCACCCCAAGCAAA
781 AAGCATGATTTTAGAGATTCAATGATATTCAGCCGATTGGAATAATTCATGGCACCCCAAGCAAA
66306730 TTAGTTTTAGATGTTAATAAATATTGAAATTATTTAAAAGCATATTACCGAATGTGATTTTAGTC
846 TTAGTTTTAGATGTTAATAAATATTGAAATTATTTAAAAGCATATTACCGAATGTGATTTTAGTC
66306795 AATGATTCGGTTATGAGTGCTGATTTGTTTTATAATTAGCCGAATGTGTATATGTATACTATGAG
911 AATGATTCGGTTATGAGTGCTGATTTGTTTTATAATTAGCCGAATGTGTATATGTATACTATGAG
66306860 GTG
976 GTG
66306863 GGGAGGAAACAATAAAATAAAGAGCATGGGCAATAAAATATTAGTGTTAGTAGGATGAGAAACAA
1 GGGAGGAAACAATAAAATAAAGAGCATGGGCAATAAAATATTAGTGTTAGTAGGATGAGAAACAA
* *
66306928 AACAAAAAAAAAGGATATGTGTGATTGTCCCCCTCTTGCCGTGAGTTGAAGGAAAGAAAAAC-AA
66 AAAAAAAAAAAAGGATATGTGTGATTGTCCCCCCCTTGCCGTGAGTTGAAGGAAAGAAAAACAAA
66306992 AAAAAAAGTGTTCATCCTTTGGTTCATCCTTGGCCGAAAATTTTAAGGAGGAAGGAAGAAGAAAG
131 AAAAAAAGTGTTCATCCTTTGGTTCATCCTTGGCCGAAAATTTTAAGGAGGAAGGAAGAAGAAAG
66307057 ATTGAAGAGGTTCGGCCATGCATGTAACTAGGCTAAGGTATGTTTGATGATGTTCCATGAGATGC
196 ATTGAAGAGGTTCGGCCATGCATGTAACTAGGCTAAGGTATGTTTGATGATGTTCCATGAGATGC
66307122 ATGCATGTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTCTAAATCTTGCTATGTGATGG
261 ATGCATGTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTCTAAATCTTGCTATGTGATGG
66307187 AAATGACACTCGGCCATGGATGCATCATTCTTGCTTGGTGTTGATGTTGTGTTGGTAAGATATCA
326 AAATGACACTCGGCCATGGATGCATCATTCTTGCTTGGTGTTGATGTTGTGTTGGTAAGATATCA
66307252 AGTTATTTTTGTGACCAAGAAGAGATTTGAATTTTTGGAATGAGTAAGGTTTTCGGTTATGTTGT
391 AGTTATTTTTGTGACCAAGAAGAGATTTGAATTTTTGGAATGAGTAAGGTTTTCGGTTATGTTGT
66307317 TTTGTATGAGTAATGGATTGTTGAGTTCATGCTATTATGAATAAAATTGATTAAGAGAGGCTTGA
456 TTTGTATGAGTAATGGATTGTTGAGTTCATGCTATTATGAATAAAATTGATTAAGAGAGGCTTGA
66307382 GATAATTAAATATGCATGTTGGTGGTAAGATGAGCATTCGGTTTTTATCATGGAAGCATAGGAAG
521 GATAATTAAATATGCATGTTGGTGGTAAGATGAGCATTCGGTTTTTATCATGGAAGCATAGGAAG
66307447 CTTGTTAAAGTTGAATTTTAGAAAAGTTAAATGTGTGTGTGCTTGTGCTAGTGCCGAATGTGCCT
586 CTTGTTAAAGTTGAATTTTAGAAAAGTTAAATGTGTGTGTGCTTGTGCTAGTGCCGAATGTGCCT
66307512 AGGGTGATTTAGCATTGAGTTTGGTGTTATATGAATTGAGTTTTATGGTTTTGGATTTTTAAGTG
651 AGGGTGATTTAGCATTGAGTTTGGTGTTATATGAATTGAGTTTTATGGTTTTGGATTTTTAAGTG
*
66307577 TTGTTAAATACTTTGAATAATATATATAAGTGGCTTTGATATGTGAAACTCGGCCAAGTGGTTAT
716 TTGTTAAATACTTTGAATAATATATATAAGTGGCTTTGAAATGTGAAACTCGGCCAAGTGGTTAT
* *
66307642 AAGCATGATTTTAGAGATTCAATGATATTCGGCCGATTTGAATAATTCATGGCACCCCAAGCAAA
781 AAGCATGATTTTAGAGATTCAATGATATTCAGCCGATTGGAATAATTCATGGCACCCCAAGCAAA
66307707 TTAGTTTTAGATGTTAATAAATATTGAAATTATTTAAAAGCATATTACCGAATGTGATTTTAGTC
846 TTAGTTTTAGATGTTAATAAATATTGAAATTATTTAAAAGCATATTACCGAATGTGATTTTAGTC
66307772 AATGATTCGGTTATGAGTGCTGATTTGTTTTATAATTAGCCGAATGTGTATATGTATACTATGAG
911 AATGATTCGGTTATGAGTGCTGATTTGTTTTATAATTAGCCGAATGTGTATATGTATACTATGAG
66307837 GTG
976 GTG
66307840 G
1 G
66307841 TTTAGCTTAA
Statistics
Matches: 968, Mismatches: 10, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
977 843 0.87
978 125 0.13
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (978 bp):
GGGAGGAAACAATAAAATAAAGAGCATGGGCAATAAAATATTAGTGTTAGTAGGATGAGAAACAA
AAAAAAAAAAAAGGATATGTGTGATTGTCCCCCCCTTGCCGTGAGTTGAAGGAAAGAAAAACAAA
AAAAAAAGTGTTCATCCTTTGGTTCATCCTTGGCCGAAAATTTTAAGGAGGAAGGAAGAAGAAAG
ATTGAAGAGGTTCGGCCATGCATGTAACTAGGCTAAGGTATGTTTGATGATGTTCCATGAGATGC
ATGCATGTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTCTAAATCTTGCTATGTGATGG
AAATGACACTCGGCCATGGATGCATCATTCTTGCTTGGTGTTGATGTTGTGTTGGTAAGATATCA
AGTTATTTTTGTGACCAAGAAGAGATTTGAATTTTTGGAATGAGTAAGGTTTTCGGTTATGTTGT
TTTGTATGAGTAATGGATTGTTGAGTTCATGCTATTATGAATAAAATTGATTAAGAGAGGCTTGA
GATAATTAAATATGCATGTTGGTGGTAAGATGAGCATTCGGTTTTTATCATGGAAGCATAGGAAG
CTTGTTAAAGTTGAATTTTAGAAAAGTTAAATGTGTGTGTGCTTGTGCTAGTGCCGAATGTGCCT
AGGGTGATTTAGCATTGAGTTTGGTGTTATATGAATTGAGTTTTATGGTTTTGGATTTTTAAGTG
TTGTTAAATACTTTGAATAATATATATAAGTGGCTTTGAAATGTGAAACTCGGCCAAGTGGTTAT
AAGCATGATTTTAGAGATTCAATGATATTCAGCCGATTGGAATAATTCATGGCACCCCAAGCAAA
TTAGTTTTAGATGTTAATAAATATTGAAATTATTTAAAAGCATATTACCGAATGTGATTTTAGTC
AATGATTCGGTTATGAGTGCTGATTTGTTTTATAATTAGCCGAATGTGTATATGTATACTATGAG
GTG
Found at i:66311754 original size:16 final size:16
Alignment explanation
Indices: 66311720--66311765 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
66311710 AATATTATTT
66311720 ATTAAGTTAA-TTT-TA
1 ATTAA-TTAATTTTCTA
66311735 ATTAATTAATTTTCTA
1 ATTAATTAATTTTCTA
*
66311751 ATTAAATAATTTTCT
1 ATTAATTAATTTTCT
66311766 TAACCCAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 4 0.14
15 8 0.29
16 16 0.57
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54
Consensus pattern (16 bp):
ATTAATTAATTTTCTA
Found at i:66312718 original size:20 final size:20
Alignment explanation
Indices: 66312626--66312720 Score: 93
Period size: 20 Copynumber: 4.7 Consensus size: 20
66312616 ACGACTGTTG
* *
66312626 TGTTGAGCCATAAG-AACCTA
1 TGTTGAGCCAT-AGTAGCTTA
** *
66312646 TGTTGAGTTATAGTAGCTCTTG
1 TGTTGAGCCATAGTAG--CTTA
**
66312668 TGTTGAGCCGCAGTAGCTTA
1 TGTTGAGCCATAGTAGCTTA
66312688 TGTTGAGCCATAGTAGCTTA
1 TGTTGAGCCATAGTAGCTTA
66312708 TGTTGAGCCATAG
1 TGTTGAGCCATAG
66312721 CCTGAATATG
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
19 2 0.03
20 44 0.73
22 14 0.23
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (20 bp):
TGTTGAGCCATAGTAGCTTA
Found at i:66318542 original size:38 final size:38
Alignment explanation
Indices: 66318500--66318576 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
66318490 GAATCTTGAA
*
66318500 TGTTGTTTTGCTAATACTACCCATTATTGCTACTAATT
1 TGTTGTTTTGCTAATACTACCCATTATTGCTACCAATT
66318538 TGTTGTTTTGCTAATACTACCCATTATTGCTACCAATT
1 TGTTGTTTTGCTAATACTACCCATTATTGCTACCAATT
66318576 T
1 T
66318577 CTTGCTTTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.47
Consensus pattern (38 bp):
TGTTGTTTTGCTAATACTACCCATTATTGCTACCAATT
Found at i:66319532 original size:72 final size:72
Alignment explanation
Indices: 66319386--66319642 Score: 284
Period size: 72 Copynumber: 3.6 Consensus size: 72
66319376 ATCCAAGCCC
* * * * * *
66319386 AAACTTTTCAACCAAGTGAGGACCTCTCTTATAGACATAGCCTCTACCAACCGTGGTTCCATTAA
1 AAACCTTTCAGCCAGGTGAGGGCCTCTCTTATAGACATAGCATCTGCCAACCGTGGTTCCATTAA
*
66319451 TGGGAAG
66 TGGGGAG
* * * * * * *
66319458 AAACCTTTTAGCTAGGTGCGGGCCTCTCTAATAGACATAGCTTCTGCCAGCCGTGGTTCCGTTAA
1 AAACCTTTCAGCCAGGTGAGGGCCTCTCTTATAGACATAGCATCTGCCAACCGTGGTTCCATTAA
*
66319523 CGGGGAG
66 TGGGGAG
* * * **
66319530 AAACCTTTCATCCAGGTGAGGGCCTAT-TTGATAGACATAGCCATC-GCAAATTGTGGTTCCATT
1 AAACCTTTCAGCCAGGTGAGGGCCTCTCTT-ATAGACATAG-CATCTGCCAACCGTGGTTCCATT
*
66319593 AATGAGGAG
64 AATGGGGAG
*
66319602 AAACCTTTCAGCCAAGTGAGGGCCTCTCTTATAGACATAGC
1 AAACCTTTCAGCCAGGTGAGGGCCTCTCTTATAGACATAGC
66319643 CACCACCGAT
Statistics
Matches: 151, Mismatches: 31, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
71 2 0.01
72 144 0.95
73 5 0.03
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (72 bp):
AAACCTTTCAGCCAGGTGAGGGCCTCTCTTATAGACATAGCATCTGCCAACCGTGGTTCCATTAA
TGGGGAG
Found at i:66319665 original size:72 final size:72
Alignment explanation
Indices: 66319386--66319677 Score: 264
Period size: 72 Copynumber: 4.1 Consensus size: 72
66319376 ATCCAAGCCC
* * * * *
66319386 AAACTTTTCAACCAAGTGAGGACCTCTCTTATAGACATAGCCTCTACCAACCGTGGTTCCATTAA
1 AAACCTTTCAGCCAAGTGAGGGCCTCTCTTATAGACATAGCCACCACCAACCGTGGTTCCATTAA
*
66319451 TG-GGAAG
66 CGAGG-AG
* * * * * ** ** * *
66319458 AAACCTTTTAGCTAGGTGCGGGCCTCTCTAATAGACATAGCTTCTGCCAGCCGTGGTTCCGTTAA
1 AAACCTTTCAGCCAAGTGAGGGCCTCTCTTATAGACATAGCCACCACCAACCGTGGTTCCATTAA
*
66319523 CGGGGAG
66 CGAGGAG
* * * * * * **
66319530 AAACCTTTCATCCAGGTGAGGGCCTAT-TTGATAGACATAGCCATCGCAAATTGTGGTTCCATTA
1 AAACCTTTCAGCCAAGTGAGGGCCTCTCTT-ATAGACATAGCCACCACCAACCGTGGTTCCATTA
*
66319594 ATGAGGAG
65 ACGAGGAG
* * * *
66319602 AAACCTTTCAGCCAAGTGAGGGCCTCTCTTATAGACATAGCCACCACCGATCGTGATTTCATTAA
1 AAACCTTTCAGCCAAGTGAGGGCCTCTCTTATAGACATAGCCACCACCAACCGTGGTTCCATTAA
*
66319667 CGAGGAT
66 CGAGGAG
66319674 AAAC
1 AAAC
66319678 AATGTGTGAA
Statistics
Matches: 175, Mismatches: 42, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
71 1 0.01
72 170 0.97
73 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (72 bp):
AAACCTTTCAGCCAAGTGAGGGCCTCTCTTATAGACATAGCCACCACCAACCGTGGTTCCATTAA
CGAGGAG
Found at i:66320223 original size:16 final size:16
Alignment explanation
Indices: 66320174--66320224 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
66320164 TTTAATTTTG
66320174 TAGATAATAGAGTAAATT
1 TAGATAATA-A-TAAATT
* *
66320192 TAAGAAAATTATAAATT
1 T-AGATAATAATAAATT
66320209 TAGATAATAATAAATT
1 TAGATAATAATAAATT
66320225 AAACCCTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 13 0.46
17 7 0.25
18 2 0.07
19 6 0.21
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (16 bp):
TAGATAATAATAAATT
Found at i:66322699 original size:2 final size:2
Alignment explanation
Indices: 66322692--66322716 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
66322682 AGATGGTTGA
66322692 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 A
66322717 ATTTGTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:66326312 original size:21 final size:21
Alignment explanation
Indices: 66326286--66326330 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
66326276 TTTTCTCTTA
66326286 GGGTAGCTTCTT-AGTGAGTTG
1 GGGTAGCTTCTTGA-TGAGTTG
66326307 GGGTAGCTTCTTGATGAGTTG
1 GGGTAGCTTCTTGATGAGTTG
66326328 GGG
1 GGG
66326331 CAACCACTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.13, C:0.09, G:0.42, T:0.36
Consensus pattern (21 bp):
GGGTAGCTTCTTGATGAGTTG
Found at i:66331730 original size:44 final size:44
Alignment explanation
Indices: 66331667--66331750 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
66331657 TAATAAGCAA
* **
66331667 ACACTTTAAAACAAACAAATCTATTTCTGTCATGCACATGTCAT
1 ACACTTTAAAACAAACAAATCCATTTCTACCATGCACATGTCAT
* *
66331711 ACACTTTAATACAATCAAATCCATTTCTACCATGCACATG
1 ACACTTTAAAACAAACAAATCCATTTCTACCATGCACATG
66331751 GCAAACAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (44 bp):
ACACTTTAAAACAAACAAATCCATTTCTACCATGCACATGTCAT
Found at i:66332099 original size:199 final size:199
Alignment explanation
Indices: 66331752--66332130 Score: 485
Period size: 199 Copynumber: 1.9 Consensus size: 199
66331742 ATGCACATGG
* * *
66331752 CAAACAATAATCATATTTGAATTAGCATTTAAAAAATATGTTTCACAACTAGGAACTGATTTGTC
1 CAAACAATAATCATATTTGAATCAACATTTAAAAAATATGTTTCACAACTAGGAACTGATTTATC
* ** * *
66331817 ATATTTAAATCCAAATAAGCTTAATATTGTTGGTCATACAAATAGGAACTGATTTATCTCTTTCC
66 ATATTTAAATCCAAAGAAGCTTAATATTAATAGTCATAAAAATAGGAACTGATTTATCTCTTTCC
* * *
66331882 TAAAGATATCTATATGCACATGGCAAACAATATCTTTATAAA-AATCCAAATCTATCATACACTT
131 TAAAGATATATATATGCACATAGCAAACAATAACTTTA-AAAGAATCCAAATCTATCATACACTT
66331946 TGATA
195 TGATA
* * * * *
66331951 CAAATAATAATCATATTTGAATCAACATTTAAAAAATGT-TCTTGACAATTAGGAACTTATTTAT
1 CAAACAATAATCATATTTGAATCAACATTTAAAAAATATGT-TTCACAACTAGGAACTGATTTAT
* * * * * *
66332015 CATATTTGAA-CTTAAAGAAGCTTGATATTAATAGTCATAAAAATATGAATTGATTTGTCTCTTT
65 CATATTTAAATC-CAAAGAAGCTTAATATTAATAGTCATAAAAATAGGAACTGATTTATCTCTTT
* * *
66332079 CTTAAAGCTATATGTATGCACATAGCAAACAATAACTTTAAAAGAATCCAAA
129 CCTAAAGATATATATATGCACATAGCAAACAATAACTTTAAAAGAATCCAAA
66332131 CCCGCCATAC
Statistics
Matches: 152, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
198 5 0.03
199 147 0.97
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (199 bp):
CAAACAATAATCATATTTGAATCAACATTTAAAAAATATGTTTCACAACTAGGAACTGATTTATC
ATATTTAAATCCAAAGAAGCTTAATATTAATAGTCATAAAAATAGGAACTGATTTATCTCTTTCC
TAAAGATATATATATGCACATAGCAAACAATAACTTTAAAAGAATCCAAATCTATCATACACTTT
GATA
Found at i:66332158 original size:34 final size:35
Alignment explanation
Indices: 66332119--66332184 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
66332109 AATAACTTTA
*
66332119 AAAG-AATCCAAACCCGCCATACACTTTAATAACC
1 AAAGAAATCAAAACCCGCCATACACTTTAATAACC
*
66332153 AAAGAAATCAAAATCCGCCATACACTTTAATA
1 AAAGAAATCAAAACCCGCCATACACTTTAATA
66332185 CAAATAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 4 0.14
35 25 0.86
ACGTcount: A:0.47, C:0.27, G:0.06, T:0.20
Consensus pattern (35 bp):
AAAGAAATCAAAACCCGCCATACACTTTAATAACC
Found at i:66332299 original size:26 final size:25
Alignment explanation
Indices: 66332250--66332298 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
66332240 AAAGAAATCC
66332250 AAAAAACCCTAAACTCAAATCCCCA
1 AAAAAACCCTAAACTCAAATCCCCA
66332275 AAAAAACCCTAAACTCAAATCCCC
1 AAAAAACCCTAAACTCAAATCCCC
66332299 CTAAGTCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.51, C:0.37, G:0.00, T:0.12
Consensus pattern (25 bp):
AAAAAACCCTAAACTCAAATCCCCA
Found at i:66332572 original size:30 final size:30
Alignment explanation
Indices: 66332536--66332624 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 30
66332526 CCCTAAAATA
*
66332536 TTAATCCTAATCAATTTTCTTTTCTTCTCC
1 TTAATCCCAATCAATTTTCTTTTCTTCTCC
** *
66332566 TTAATCCCAATTGATCCTTTCTTTT-TTTTCC
1 TTAATCCCAATCAAT--TTTCTTTTCTTCTCC
*
66332597 TTAATCCCAATCCATCTTTTCTTTTCTT
1 TTAATCCCAAT-CA-ATTTTCTTTTCTT
66332625 TTCCCTAAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
30 12 0.26
31 24 0.51
32 10 0.21
33 1 0.02
ACGTcount: A:0.18, C:0.27, G:0.01, T:0.54
Consensus pattern (30 bp):
TTAATCCCAATCAATTTTCTTTTCTTCTCC
Found at i:66332601 original size:31 final size:32
Alignment explanation
Indices: 66332551--66332628 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 32
66332541 CCTAATCAAT
* **
66332551 TTTCTTTTCTTCTCCTTAATCCCAATTGATCC
1 TTTCTTTTCTTTTCCTTAATCCCAATCCATCC
*
66332583 TTTCTTTT-TTTTCCTTAATCCCAATCCATCT
1 TTTCTTTTCTTTTCCTTAATCCCAATCCATCC
66332614 TTTCTTTTCTTTTCC
1 TTTCTTTTCTTTTCC
66332629 CTAAACTTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 27 0.66
32 14 0.34
ACGTcount: A:0.13, C:0.29, G:0.01, T:0.56
Consensus pattern (32 bp):
TTTCTTTTCTTTTCCTTAATCCCAATCCATCC
Found at i:66333232 original size:27 final size:27
Alignment explanation
Indices: 66333202--66333257 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
66333192 CTATGCTTGA
*
66333202 ATTATTTATTCACATCAAAATTTATAT
1 ATTATTTATTCACAACAAAATTTATAT
66333229 ATTATTTATTCACAACAAAATTTATAT
1 ATTATTTATTCACAACAAAATTTATAT
66333256 AT
1 AT
66333258 AGCCAAGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (27 bp):
ATTATTTATTCACAACAAAATTTATAT
Found at i:66338575 original size:12 final size:12
Alignment explanation
Indices: 66338558--66338590 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
66338548 AAATTCACCC
66338558 ATATTAATTTTT
1 ATATTAATTTTT
66338570 ATATT-ATTTTT
1 ATATTAATTTTT
66338581 ATA-TAATTTT
1 ATATTAATTTT
66338591 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:66338814 original size:22 final size:22
Alignment explanation
Indices: 66338766--66338814 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
66338756 ATATCCAAAT
*
66338766 AATAACAACAAAATAGTAGTAA
1 AATAACAACAAAATAGTAGCAA
* * *
66338788 CATAATAATAAAATAGTAGCAA
1 AATAACAACAAAATAGTAGCAA
66338810 AATAA
1 AATAA
66338815 GGAGAAAACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.63, C:0.08, G:0.08, T:0.20
Consensus pattern (22 bp):
AATAACAACAAAATAGTAGCAA
Found at i:66339142 original size:31 final size:33
Alignment explanation
Indices: 66339107--66339167 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 33
66339097 TTCTAAAAAA
66339107 TTCAAACAAAT-TATAA-A-TATACATAAATATT
1 TTCAAA-AAATATATAATACTATACATAAATATT
*
66339138 TTCAAAAAATATATAATACTATATATAAAT
1 TTCAAAAAATATATAATACTATACATAAAT
66339168 TACATCGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 11 0.42
32 1 0.04
33 10 0.38
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (33 bp):
TTCAAAAAATATATAATACTATACATAAATATT
Found at i:66341875 original size:25 final size:25
Alignment explanation
Indices: 66341828--66341875 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
66341818 TACACTAATC
* * *
66341828 AGAGTTTAAGTGGAAAACTAAAAAT
1 AGAGTTTAACTAGAAAACAAAAAAT
*
66341853 AGAGTTTAACTAGAAAAGAAAAA
1 AGAGTTTAACTAGAAAACAAAAA
66341876 GCTGAAAGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.56, C:0.04, G:0.19, T:0.21
Consensus pattern (25 bp):
AGAGTTTAACTAGAAAACAAAAAAT
Found at i:66343649 original size:21 final size:21
Alignment explanation
Indices: 66343625--66343693 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 21
66343615 TGCTAGTACA
66343625 GTGTGGATAAATCACTCATTG
1 GTGTGGATAAATCACTCATTG
* **
66343646 GTGTAGATAAAAGTTGCT-AGTATG
1 GTGTGGAT-AAA-TCACTCA-T-TG
*
66343670 GTGTGGATAAACCACTCATTG
1 GTGTGGATAAATCACTCATTG
66343691 GTG
1 GTG
66343694 CAGATAAAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
21 12 0.33
22 7 0.19
23 8 0.22
24 9 0.25
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.32
Consensus pattern (21 bp):
GTGTGGATAAATCACTCATTG
Found at i:66343678 original size:45 final size:45
Alignment explanation
Indices: 66343614--66343777 Score: 195
Period size: 45 Copynumber: 3.6 Consensus size: 45
66343604 TGCAGACAAA
** *
66343614 TTGCTAGTACAGTGTGGATAAATCACTCATTGGTGTAGATAAAAG
1 TTGCTAGTATGGTGTGGATAAACCACTCATTGGTGTAGATAAAAG
*
66343659 TTGCTAGTATGGTGTGGATAAACCACTCATTGGTGCAGATAAAAG
1 TTGCTAGTATGGTGTGGATAAACCACTCATTGGTGTAGATAAAAG
* * * * * **
66343704 TTGTTAATATGGTATGGATAAACTACTTATCAGTGTAGATAAAAG
1 TTGCTAGTATGGTGTGGATAAACCACTCATTGGTGTAGATAAAAG
* *
66343749 ATGCT-GATATGATGTGGATAAACCACTCA
1 TTGCTAG-TATGGTGTGGATAAACCACTCA
66343778 ACAGTGCAAA
Statistics
Matches: 99, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
45 99 1.00
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (45 bp):
TTGCTAGTATGGTGTGGATAAACCACTCATTGGTGTAGATAAAAG
Found at i:66343893 original size:34 final size:34
Alignment explanation
Indices: 66343842--66343986 Score: 145
Period size: 34 Copynumber: 4.3 Consensus size: 34
66343832 AATGGAAAAT
* *
66343842 GTCATGCTTATAGCAGATCAATATGATAGCAATA
1 GTCATGCTTATAACAGATCAATATAATAGCAATA
* * * *
66343876 TTCATGCTTACAACAGATCAATACAGTAGCAATA
1 GTCATGCTTATAACAGATCAATATAATAGCAATA
* * *
66343910 GGCATGCTTATAACATATCAATATAATAACAATA
1 GTCATGCTTATAACAGATCAATATAATAGCAATA
*
66343944 GACATGCTTATAACA-A--AATAGTACAGTAGCAA-A
1 GTCATGCTTATAACAGATCAATA-TA-A-TAGCAATA
66343977 GTCATGCTTA
1 GTCATGCTTA
66343987 ACATGTATTC
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
31 4 0.04
32 2 0.02
33 12 0.13
34 74 0.80
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (34 bp):
GTCATGCTTATAACAGATCAATATAATAGCAATA
Done.