Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 13 of 313
Found at i:4078429 original size:42 final size:42
Alignment explanation
Indices: 4078275--4078435 Score: 189
Period size: 42 Copynumber: 3.8 Consensus size: 42
4078265 AGCTCATAAA
* * * *
4078275 AGCTGAACAAAAACTCATAAGAGTTGAACAGAAGCTCGTAAG
1 AGCTAAACAAAAACTCATAAGAGTTAAACAAAAGCTTGTAAG
*
4078317 AGCTAAACAAAAACTCATAAGAGTTGAACAAAAGCTTGTAAG
1 AGCTAAACAAAAACTCATAAGAGTTAAACAAAAGCTTGTAAG
* ** *
4078359 AGCTAAACAAAAGCTTGTAAGAGCTAAACAAAAGCTTGTAAG
1 AGCTAAACAAAAACTCATAAGAGTTAAACAAAAGCTTGTAAG
* * *
4078401 AGCTGAACAAAAGCTCGA-AAGTGTTAAACAGAAAG
1 AGCTAAACAAAAACTC-ATAAGAGTTAAACA-AAAG
4078436 TAAAACACGA
Statistics
Matches: 104, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
42 100 0.96
43 4 0.04
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (42 bp):
AGCTAAACAAAAACTCATAAGAGTTAAACAAAAGCTTGTAAG
Found at i:4078429 original size:63 final size:63
Alignment explanation
Indices: 4078267--4078435 Score: 196
Period size: 63 Copynumber: 2.7 Consensus size: 63
4078257 TGAACAGAAG
* * * *
4078267 CTCATAAAAGCTGAACAAAAACTC-ATAAGAGTTGAACAGAAGCTCGTAAGAGCTAAACAAAAA
1 CTCATAAGAGCTGAACAAAAGCTCGA-AAGAGTTAAACAAAAGCTCGTAAGAGCTAAACAAAAA
* * * * * *
4078330 CTCATAAGAGTTGAACAAAAGCTTGTAAGAGCTAAACAAAAGCTTGTAAGAGCTAAACAAAAG
1 CTCATAAGAGCTGAACAAAAGCTCGAAAGAGTTAAACAAAAGCTCGTAAGAGCTAAACAAAAA
** *
4078393 CTTGTAAGAGCTGAACAAAAGCTCGAAAGTGTTAAACAGAAAG
1 CTCATAAGAGCTGAACAAAAGCTCGAAAGAGTTAAACA-AAAG
4078436 TAAAACACGA
Statistics
Matches: 87, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
63 83 0.95
64 4 0.05
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (63 bp):
CTCATAAGAGCTGAACAAAAGCTCGAAAGAGTTAAACAAAAGCTCGTAAGAGCTAAACAAAAA
Found at i:4078430 original size:21 final size:21
Alignment explanation
Indices: 4078259--4078435 Score: 165
Period size: 21 Copynumber: 8.4 Consensus size: 21
4078249 TCGAAACCTG
* * * *
4078259 AACAGAAGCTCATAAAAGCTG
1 AACAAAAGCTCGTAAGAGCTA
* * * *
4078280 AACAAAAACTCATAAGAGTTG
1 AACAAAAGCTCGTAAGAGCTA
*
4078301 AACAGAAGCTCGTAAGAGCTA
1 AACAAAAGCTCGTAAGAGCTA
* * * *
4078322 AACAAAAACTCATAAGAGTTG
1 AACAAAAGCTCGTAAGAGCTA
*
4078343 AACAAAAGCTTGTAAGAGCTA
1 AACAAAAGCTCGTAAGAGCTA
*
4078364 AACAAAAGCTTGTAAGAGCTA
1 AACAAAAGCTCGTAAGAGCTA
* *
4078385 AACAAAAGCTTGTAAGAGCTG
1 AACAAAAGCTCGTAAGAGCTA
* * *
4078406 AACAAAAGCTCGAAAGTGTTA
1 AACAAAAGCTCGTAAGAGCTA
4078427 AACAGAAAG
1 AACA-AAAG
4078436 TAAAACACGA
Statistics
Matches: 130, Mismatches: 25, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
21 126 0.97
22 4 0.03
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.17
Consensus pattern (21 bp):
AACAAAAGCTCGTAAGAGCTA
Found at i:4079950 original size:6 final size:6
Alignment explanation
Indices: 4079939--4079970 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
4079929 GTTTTAATGT
4079939 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TT
4079971 TTTGAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.47, T:0.38
Consensus pattern (6 bp):
TTAGGG
Found at i:4080030 original size:28 final size:28
Alignment explanation
Indices: 4079957--4080032 Score: 109
Period size: 28 Copynumber: 2.7 Consensus size: 28
4079947 AGGGTTAGGG
4079957 TTAGGG-TTAGGGTTTTTGAAAAAATAAA
1 TTAGGGTTTAGGGTTTTT-AAAAAATAAA
* *
4079985 TTAGGGTTTATGGTTTTTAAAAATTAAA
1 TTAGGGTTTAGGGTTTTTAAAAAATAAA
*
4080013 TTTGGGTTTAGGGTTTTTAA
1 TTAGGGTTTAGGGTTTTTAA
4080033 TAGGTAAGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 33 0.77
29 10 0.23
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.45
Consensus pattern (28 bp):
TTAGGGTTTAGGGTTTTTAAAAAATAAA
Found at i:4080328 original size:126 final size:126
Alignment explanation
Indices: 4080098--4080527 Score: 596
Period size: 126 Copynumber: 3.4 Consensus size: 126
4080088 TTTTTGTATA
* * * * *
4080098 GTCAACAAAAGTACTG-AAAAAGCTCTCAACTAGACACTCTTTTTGTACATTAGTTTCTTAAAAA
1 GTCAACAAAAGTACTGAAAAAAGCTCCCAGCTAGACACTCTTTTTGTACAGTAGTTTATGAAAAA
* * *
4080162 GTAATTTTGAGAAGATAGTTCTAAAAAAATAGGTTGAAAAACATTTCAAGTAGGATGCACT
66 ATAATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACATTTCAAGTAGGATGCACT
* * * * **
4080223 GTCAACAAAAGTACTGAAAAAAGCTTCTAGCTGGACACTCTTTTTGTATAGTAAATTATGAAAAA
1 GTCAACAAAAGTACTGAAAAAAGCTCCCAGCTAGACACTCTTTTTGTACAGTAGTTTATGAAAAA
* * * *
4080288 ATAATTTTGAGAAGATGGTTCTGAAAAAGTAGG-TCAAAAA-ATGCTTCAAGTAAGATACACT
66 ATAATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACAT--TTCAAGTAGGATGCACT
* * * * *
4080349 GTCAGCAAAAGTATTGAAAAAAGCTCCCAGCTGGACACTCTTTTTGAACAGTAGTTTTTGAAAAA
1 GTCAACAAAAGTACTGAAAAAAGCTCCCAGCTAGACACTCTTTTTGTACAGTAGTTTATGAAAAA
4080414 ATAATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACATTTCAAGTAGGATGCACT
66 ATAATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACATTTCAAGTAGGATGCACT
* *
4080475 ATCAGCAAAAGTACTGAAAAAAGCTCCCAGCTAGACACTCTTTTTGTACAGTA
1 GTCAACAAAAGTACTGAAAAAAGCTCCCAGCTAGACACTCTTTTTGTACAGTA
4080528 CATTCTGCTT
Statistics
Matches: 265, Mismatches: 35, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
124 2 0.01
125 22 0.08
126 233 0.88
127 6 0.02
128 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (126 bp):
GTCAACAAAAGTACTGAAAAAAGCTCCCAGCTAGACACTCTTTTTGTACAGTAGTTTATGAAAAA
ATAATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACATTTCAAGTAGGATGCACT
Found at i:4080624 original size:25 final size:25
Alignment explanation
Indices: 4080595--4080667 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
4080585 TTACATCAAG
4080595 AGAAATTGAAGAAGTTTAGAAGGAT
1 AGAAATTGAAGAAGTTTAGAAGGAT
* * * *
4080620 AGAAATTAAAGAAGTTCAAAAGAAT
1 AGAAATTGAAGAAGTTTAGAAGGAT
*
4080645 AAAAATTGAAGAA-TTTGAGAAGG
1 AGAAATTGAAGAAGTTT-AGAAGG
4080668 TATAAGTTGA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 2 0.05
25 36 0.95
ACGTcount: A:0.53, C:0.01, G:0.23, T:0.22
Consensus pattern (25 bp):
AGAAATTGAAGAAGTTTAGAAGGAT
Found at i:4083764 original size:60 final size:59
Alignment explanation
Indices: 4083698--4083825 Score: 161
Period size: 60 Copynumber: 2.2 Consensus size: 59
4083688 TGTATTACCT
* *
4083698 TATTCAAAAGAACTTCTATTTTATTAAAT-ATGACAAAATATACAAATAATTTATACAAA-A
1 TATTCAAAACAACTTCTATTTTATTAAATGAT-AC--AATATAAAAATAATTTATACAAATA
* * *
4083758 TATTCAAAACAACTTTTGTTTTATTAAATGATACAATATAAAAATAATTTGTACAAATA
1 TATTCAAAACAACTTCTATTTTATTAAATGATACAATATAAAAATAATTTATACAAATA
*
4083817 TATTAAAAA
1 TATTCAAAA
4083826 AATAAATGCA
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
58 21 0.35
59 9 0.15
60 28 0.47
61 2 0.03
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.37
Consensus pattern (59 bp):
TATTCAAAACAACTTCTATTTTATTAAATGATACAATATAAAAATAATTTATACAAATA
Found at i:4087395 original size:21 final size:20
Alignment explanation
Indices: 4087362--4087403 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
4087352 GATTCAAAAT
4087362 AACTCTAAAGGTGCAATGTC
1 AACTCTAAAGGTGCAATGTC
*
4087382 AACTCCTAGAGGTGCAATGTC
1 AACT-CTAAAGGTGCAATGTC
4087403 A
1 A
4087404 TCTGAATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (20 bp):
AACTCTAAAGGTGCAATGTC
Found at i:4094196 original size:32 final size:32
Alignment explanation
Indices: 4094155--4094217 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
4094145 TCAAAACCTT
*
4094155 TCATCGTAACATTATCATATTTGGCCATAACG
1 TCATCGTAACATTATCATATTCGGCCATAACG
*
4094187 TCATTGTAACATTATCATATTCGGCCATAAC
1 TCATCGTAACATTATCATATTCGGCCATAAC
4094218 ATCTGGGCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (32 bp):
TCATCGTAACATTATCATATTCGGCCATAACG
Found at i:4094476 original size:33 final size:33
Alignment explanation
Indices: 4094436--4094503 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
4094426 GGTTTATGTT
*
4094436 TTTTCAATTTGTACAAGCTCGAGGGAGTTTTTG
1 TTTTCAATTTGTACAAACTCGAGGGAGTTTTTG
*
4094469 TTTTCAATTTGTACAAACTTGAGGGAGTTTTTG
1 TTTTCAATTTGTACAAACTCGAGGGAGTTTTTG
4094502 TT
1 TT
4094504 CCCTATGGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.46
Consensus pattern (33 bp):
TTTTCAATTTGTACAAACTCGAGGGAGTTTTTG
Found at i:4096511 original size:41 final size:41
Alignment explanation
Indices: 4096370--4096731 Score: 455
Period size: 41 Copynumber: 8.9 Consensus size: 41
4096360 TATAAAACAT
* * **
4096370 AGAGCAATAGTGGCGTTTTTGGTAAAACATCGCTAAAAA-C
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
* *
4096410 AGAGCAATAGCGACGTTTTTGGTAAAACGCCGCTAAAAA-C
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
*
4096450 AGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
* * *
4096491 AGAGCAATAGAGGTGCTTTTGGTAAAATGCCGCTAAAAAACC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCT-AAAAACC
*
4096533 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAGAAACC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
* * *
4096574 AGAGCATTAGCAGCGCTTTTGGTAAAA---CGCTAGAAACC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
* * * * *
4096612 GGTGTATTAGCGGCGCTTTTGGTAAAACGCCGTTAAAAACC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
*
4096653 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
* * * * *
4096694 GGAGTATTAGCGGCACTTTTGATAAAACGCCGCTAAAA
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
4096732 GTCATATAAC
Statistics
Matches: 288, Mismatches: 29, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
38 34 0.12
40 74 0.26
41 142 0.49
42 38 0.13
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (41 bp):
AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
Found at i:4096675 original size:120 final size:119
Alignment explanation
Indices: 4096370--4096723 Score: 422
Period size: 120 Copynumber: 2.9 Consensus size: 119
4096360 TATAAAACAT
* * ** * * *
4096370 AGAGCAATAGTGGCGTTTTTGGTAAAACATCGCTAAAAA-CAGAGCAATAGCGACGTTTTTGGTA
1 AGAGCAATAGAGGCGCTTTTGGTAAAACGCCGTTAAAAACCAGAGCAATAGCGGCGCTTTTGGTA
* * *
4096434 AAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACC
66 AAACGCCGCTAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAA---CGCTAAAAACC
* * *
4096491 AGAGCAATAGAGGTGCTTTTGGTAAAATGCCGCTAAAAAACCAGAGCAATAGCGGCGCTTTTGGT
1 AGAGCAATAGAGGCGCTTTTGGTAAAACGCCG-TTAAAAACCAGAGCAATAGCGGCGCTTTTGGT
* *
4096556 AAAACGCCGCTAGAAACCAGAGCATTAGCAGCGCTTTTGGTAAAACGCTAGAAACC
65 AAAACGCCGCTA-AAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCTAAAAACC
* * * * * *
4096612 GGTGTATTAGCGGCGCTTTTGGTAAAACGCCGTTAAAAACCAGAGCATTAGCGGCGCTTTTGGTA
1 AGAGCAATAGAGGCGCTTTTGGTAAAACGCCGTTAAAAACCAGAGCAATAGCGGCGCTTTTGGTA
* * * *
4096677 AAACGCCGCTAAAAACCGGAGTATTAGCGGCACTTTTGATAAAACGC
66 AAACGCCGCT-AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGC
4096724 CGCTAAAAGT
Statistics
Matches: 200, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
120 71 0.35
121 62 0.31
122 5 0.03
123 34 0.17
124 28 0.14
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.22
Consensus pattern (119 bp):
AGAGCAATAGAGGCGCTTTTGGTAAAACGCCGTTAAAAACCAGAGCAATAGCGGCGCTTTTGGTA
AAACGCCGCTAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCTAAAAACC
Found at i:4096820 original size:23 final size:22
Alignment explanation
Indices: 4096773--4096820 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
4096763 AAAAAATCAT
* *
4096773 AAACACTAATCTATAATCCTTA
1 AAACACTAAACTATAAACCTTA
*
4096795 AAACACTAAACTCCTAAACCTTA
1 AAACACTAAACT-ATAAACCTTA
4096818 AAA
1 AAA
4096821 AATCTTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (22 bp):
AAACACTAAACTATAAACCTTA
Found at i:4097165 original size:14 final size:14
Alignment explanation
Indices: 4097143--4097190 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
4097133 TTAATTATCA
*
4097143 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
4097157 TTATGGTTTAAGCT
1 TTATGGTTTAAGGT
*
4097171 ATATGGGTTTAAGGT
1 TTAT-GGTTTAAGGT
4097186 TTATG
1 TTATG
4097191 AGTTAACTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:4097190 original size:15 final size:15
Alignment explanation
Indices: 4097148--4097190 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
4097138 TATCATTATA
4097148 GTTTAAGGTTTAT-G
1 GTTTAAGGTTTATGG
* *
4097162 GTTTAAGCTATATGG
1 GTTTAAGGTTTATGG
4097177 GTTTAAGGTTTATG
1 GTTTAAGGTTTATG
4097191 AGTTAACTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (15 bp):
GTTTAAGGTTTATGG
Found at i:4097248 original size:21 final size:20
Alignment explanation
Indices: 4097224--4097273 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
4097214 TTTAAGGGTT
*
4097224 GGGGTTTAAGGTTAGGTGTTA
1 GGGGTTTAAGGTTAGG-GTGA
4097245 GGGG-TTAAGGGTTAAGGGTGA
1 GGGGTTTAA-GGTT-AGGGTGA
4097266 GGGGTTTA
1 GGGGTTTA
4097274 TGGGTTAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.16
21 15 0.60
22 6 0.24
ACGTcount: A:0.20, C:0.00, G:0.48, T:0.32
Consensus pattern (20 bp):
GGGGTTTAAGGTTAGGGTGA
Found at i:4097308 original size:14 final size:14
Alignment explanation
Indices: 4097278--4097330 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
4097268 GGTTTATGGG
*
4097278 TTAGGATTT-ATGTT
1 TTAGGGTTTAATG-T
4097292 TTAGGGTTTAATGT
1 TTAGGGTTTAATGT
* *
4097306 TTAGGGATTAAGAGT
1 TTAGGGTTTAA-TGT
4097321 TTAGGGTTTA
1 TTAGGGTTTA
4097331 GATTAGTTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 19 0.58
15 14 0.42
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (14 bp):
TTAGGGTTTAATGT
Found at i:4097498 original size:22 final size:22
Alignment explanation
Indices: 4097473--4097515 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4097463 GAGTTATTAT
4097473 TTTAAGGTTTATGGA-TTATGGG
1 TTTAAGGTTTAT-GATTTATGGG
*
4097495 TTTAGGGTTTATGATTTATGG
1 TTTAAGGTTTATGATTTATGG
4097516 TTATGTAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (22 bp):
TTTAAGGTTTATGATTTATGGG
Found at i:4097913 original size:15 final size:14
Alignment explanation
Indices: 4097893--4097949 Score: 78
Period size: 15 Copynumber: 3.8 Consensus size: 14
4097883 AATTCTTCAA
4097893 AAAAATTGAAAAATT
1 AAAAATT-AAAAATT
4097908 AAAAATTAAAAATT
1 AAAAATTAAAAATT
4097922 AAAAACTTAAAAATTT
1 AAAAA-TTAAAAA-TT
4097938 AAAAACTTAAAA
1 AAAAA-TTAAAA
4097950 TTTTAATATT
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
14 12 0.30
15 14 0.35
16 14 0.35
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (14 bp):
AAAAATTAAAAATT
Found at i:4097918 original size:6 final size:7
Alignment explanation
Indices: 4097893--4097949 Score: 78
Period size: 8 Copynumber: 7.6 Consensus size: 7
4097883 AATTCTTCAA
4097893 AAAAATT
1 AAAAATT
4097900 GAAAAATT
1 -AAAAATT
4097908 AAAAATT
1 AAAAATT
4097915 AAAAATT
1 AAAAATT
4097922 AAAAACTT
1 AAAAA-TT
4097930 AAAAATTT
1 AAAAA-TT
4097938 AAAAACTT
1 AAAAA-TT
4097946 AAAA
1 AAAA
4097950 TTTTAATATT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
7 19 0.41
8 27 0.59
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:4098023 original size:23 final size:24
Alignment explanation
Indices: 4097983--4098028 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
4097973 CATATTTCAG
* *
4097983 TTAAAAAAATCAATATT-CAAAAT
1 TTAAAAAAATAAAAATTCCAAAAT
4098006 TTAAAAAAATAAAAATTCCAAAA
1 TTAAAAAAATAAAAATTCCAAAA
4098029 AATAATAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (24 bp):
TTAAAAAAATAAAAATTCCAAAAT
Found at i:4100649 original size:17 final size:17
Alignment explanation
Indices: 4100627--4100663 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
4100617 CTTGATCCTC
4100627 TGTTAAATGTAATTAAA
1 TGTTAAATGTAATTAAA
4100644 TGTTAAATGTAATTAAA
1 TGTTAAATGTAATTAAA
4100661 TGT
1 TGT
4100664 AATTAATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (17 bp):
TGTTAAATGTAATTAAA
Found at i:4100678 original size:10 final size:10
Alignment explanation
Indices: 4100629--4100675 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
4100619 TGATCCTCTG
4100629 TTAAATGTAA
1 TTAAATGTAA
4100639 TTAAATG---
1 TTAAATGTAA
4100646 TTAAATGTAA
1 TTAAATGTAA
4100656 TTAAATGTAA
1 TTAAATGTAA
4100666 TTAATATGTA
1 TTAA-ATGTA
4100676 TTACAATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
7 7 0.21
10 21 0.64
11 5 0.15
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.43
Consensus pattern (10 bp):
TTAAATGTAA
Found at i:4100685 original size:16 final size:15
Alignment explanation
Indices: 4100664--4100693 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4100654 AATTAAATGT
4100664 AATTAATATGTATTAC
1 AATTAATATG-ATTAC
4100680 AATTAATATGATTA
1 AATTAATATGATTA
4100694 ACTTAATCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (15 bp):
AATTAATATGATTAC
Found at i:4100686 original size:20 final size:20
Alignment explanation
Indices: 4100629--4100675 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 20
4100619 TGATCCTCTG
4100629 TTAAATGTAATTAAATG---
1 TTAAATGTAATTAAATGTAA
4100646 TTAAATGTAATTAAATGTAA
1 TTAAATGTAATTAAATGTAA
4100666 TTAATATGTA
1 TTAA-ATGTA
4100676 TTACAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 17 0.65
20 4 0.15
21 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.43
Consensus pattern (20 bp):
TTAAATGTAATTAAATGTAA
Found at i:4103439 original size:43 final size:43
Alignment explanation
Indices: 4103365--4103463 Score: 155
Period size: 43 Copynumber: 2.3 Consensus size: 43
4103355 AATTTTTATG
4103365 ACCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGA
1 ACCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCT-A
* * *
4103409 A-CTTTAGCGGCGTTTGTGGGATAAGTGCCGCTAAAGGTCCTA
1 ACCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTA
4103451 ACCTTTAGCGGCG
1 ACCTTTAGCGGCG
4103464 CATCTATAGA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
42 2 0.04
43 48 0.94
44 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.25
Consensus pattern (43 bp):
ACCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTA
Found at i:4105488 original size:2 final size:2
Alignment explanation
Indices: 4105481--4105508 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4105471 TAATAAACAA
4105481 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
4105509 GCTACACCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4113741 original size:15 final size:14
Alignment explanation
Indices: 4113717--4113747 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
4113707 ATTTAGTTAA
4113717 TACCTTAATCGAAT
1 TACCTTAATCGAAT
4113731 TACCATTAATCGAAT
1 TACC-TTAATCGAAT
4113746 TA
1 TA
4113748 ACTGAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.35
Consensus pattern (14 bp):
TACCTTAATCGAAT
Found at i:4115742 original size:12 final size:12
Alignment explanation
Indices: 4115725--4115751 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4115715 TTGTAAAAAT
4115725 AATATTAGATTA
1 AATATTAGATTA
4115737 AATATTAGATTA
1 AATATTAGATTA
4115749 AAT
1 AAT
4115752 TTAATACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (12 bp):
AATATTAGATTA
Found at i:4115895 original size:37 final size:37
Alignment explanation
Indices: 4115833--4115903 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
4115823 GATAATCACT
*
4115833 TTAATATTAAATTAATAAAATACTATTAAGATAAGTC
1 TTAATATTAAATTAATAAAATACTATTAAAATAAGTC
*
4115870 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAA
4115904 TACTATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 6 0.20
37 22 0.73
38 2 0.07
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (37 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAAGTC
Found at i:4122072 original size:30 final size:30
Alignment explanation
Indices: 4122037--4122094 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4122027 AACAGGGGAC
* *
4122037 ACACGCCCATGTGGCTAGGCCGTGTGTCAG
1 ACACGCCCATATGGCCAGGCCGTGTGTCAG
*
4122067 ACACGCCCGTATGGCCAGGCCGTGTGTC
1 ACACGCCCATATGGCCAGGCCGTGTGTC
4122095 TCACACAGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.16, C:0.33, G:0.33, T:0.19
Consensus pattern (30 bp):
ACACGCCCATATGGCCAGGCCGTGTGTCAG
Found at i:4125200 original size:20 final size:18
Alignment explanation
Indices: 4125150--4125201 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
4125140 CTTGTGGATA
4125150 AATATTAAATTAA-ACTT
1 AATATTAAATTAATACTT
4125167 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-AC-TT
4125187 AATATTAAATTAATA
1 AATATTAAATTAATA
4125202 AAATACTACT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 4 0.13
20 14 0.47
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (18 bp):
AATATTAAATTAATACTT
Found at i:4136472 original size:27 final size:27
Alignment explanation
Indices: 4136442--4136619 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
4136432 ATATTGAGTC
* * * *
4136442 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
4136469 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4136496 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
4136524 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
4136551 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
4136578 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4136605 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
4136620 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:4136581 original size:82 final size:81
Alignment explanation
Indices: 4136463--4136618 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
4136453 TGCTATATAA
* *
4136463 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
4136528 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
4136545 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
4136609 CACTTAGTGC
65 CACTTAGTGC
4136619 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:4144660 original size:27 final size:27
Alignment explanation
Indices: 4144630--4144807 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
4144620 ATATTGAGTC
* * * *
4144630 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
4144657 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4144684 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
4144712 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
4144739 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
4144766 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4144793 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
4144808 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:4144769 original size:82 final size:81
Alignment explanation
Indices: 4144651--4144806 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
4144641 TGCTATATAA
* *
4144651 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
4144716 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
4144733 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
4144797 CACTTAGTGC
65 CACTTAGTGC
4144807 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:4151770 original size:45 final size:45
Alignment explanation
Indices: 4151712--4151843 Score: 194
Period size: 45 Copynumber: 2.9 Consensus size: 45
4151702 AATCAAATAC
* * * *
4151712 GATGCCGATGTCCCAGATATGGTCTTACACGTAACCACATATATT
1 GATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATATT
*
4151757 GATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATTTATT
1 GATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATATT
*
4151802 GATGCCAACGTCCCAGACGTGGTCTTACACG-AGAACACATAT
1 GATGCCAACGTCCCAGACATGGTCTTACACGTA-AACACATAT
4151844 TAGATCCTAT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
44 1 0.01
45 78 0.99
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (45 bp):
GATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATATT
Found at i:4161330 original size:148 final size:148
Alignment explanation
Indices: 4161069--4161363 Score: 527
Period size: 148 Copynumber: 2.0 Consensus size: 148
4161059 GTACTGAGCT
* * *
4161069 GATTTCTTCTATAGTTGAAAAACATGGCTGGAAAATATTTTTCCTTCATCCCGGCGATGTTCTCA
1 GATTTCTTCTATAGTTGAAAAACATGACTGGAAAATATTTTGCCTTCATCCCGGCAATGTTCTCA
*
4161134 CAAAGGTTGTAATGGAATTTTATGCCCACTTAACCTCTCCAGATGATGTACTCCATCAACGCACA
66 CAAAGGTTGTAAAGGAATTTTATGCCCACTTAACCTCTCCAGATGATGTACTCCATCAACGCACA
4161199 GTATGGTTTACCTGAGGC
131 GTATGGTTTACCTGAGGC
*
4161217 GATTTCTTCTATAGTTGAAAAACATGACTGGCAAATATTTTGCCTTCATCCCGGCAATGTTCTCA
1 GATTTCTTCTATAGTTGAAAAACATGACTGGAAAATATTTTGCCTTCATCCCGGCAATGTTCTCA
*
4161282 CAAAGGTTGTAAAGGAATTTTATGCCCACTTAACCTTTCCAGATGATGTACTCCATCAACGCACA
66 CAAAGGTTGTAAAGGAATTTTATGCCCACTTAACCTCTCCAGATGATGTACTCCATCAACGCACA
*
4161347 GTATGGTTTACTTGAGG
131 GTATGGTTTACCTGAGG
4161364 TCTAGATGAA
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
148 140 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (148 bp):
GATTTCTTCTATAGTTGAAAAACATGACTGGAAAATATTTTGCCTTCATCCCGGCAATGTTCTCA
CAAAGGTTGTAAAGGAATTTTATGCCCACTTAACCTCTCCAGATGATGTACTCCATCAACGCACA
GTATGGTTTACCTGAGGC
Found at i:4162675 original size:18 final size:18
Alignment explanation
Indices: 4162652--4162687 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4162642 TTGGGGGTGT
4162652 GTTGTACTTATTGTATGC
1 GTTGTACTTATTGTATGC
4162670 GTTGTACTTATTGTATGC
1 GTTGTACTTATTGTATGC
4162688 ATTAGATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.22, T:0.50
Consensus pattern (18 bp):
GTTGTACTTATTGTATGC
Found at i:4166426 original size:12 final size:12
Alignment explanation
Indices: 4166409--4166433 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4166399 TTTTAATAAT
4166409 ATTTAATATTAA
1 ATTTAATATTAA
4166421 ATTTAATATTAA
1 ATTTAATATTAA
4166433 A
1 A
4166434 GTGATTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:4169067 original size:17 final size:19
Alignment explanation
Indices: 4169040--4169074 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4169030 TTCTCCTCCT
4169040 CTAAGGGGAAAC-AGAAAG
1 CTAAGGGGAAACAAGAAAG
4169058 CTAA-GGGAAACAAGAAA
1 CTAAGGGGAAACAAGAAA
4169075 CTGACTAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.54, C:0.11, G:0.29, T:0.06
Consensus pattern (19 bp):
CTAAGGGGAAACAAGAAAG
Found at i:4170501 original size:20 final size:21
Alignment explanation
Indices: 4170464--4170503 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
4170454 AAGGGCTATT
4170464 TTGTAAAGTTTGTAAAATAAG
1 TTGTAAAGTTTGTAAAATAAG
*
4170485 TTGTAAA-TTTGTGAAATAA
1 TTGTAAAGTTTGTAAAATAA
4170504 TTAAAATTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.40
Consensus pattern (21 bp):
TTGTAAAGTTTGTAAAATAAG
Found at i:4171376 original size:99 final size:97
Alignment explanation
Indices: 4171259--4171437 Score: 241
Period size: 97 Copynumber: 1.8 Consensus size: 97
4171249 GTTGTGTGTC
*
4171259 AGTGTAAGACCTATCTGGGACACGGCATTGACACCGATAGATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACCTATCTGGGACACGGCATCGACACCGAT-G-TGAGAGCCAGTGTAAGACCATGTC
*
4171324 TGGGACATGGTATCGGCCTCGAGATATGAAAGTT
64 TGGGACATGGCATCGGCCTCGAGATATGAAAGTT
* * * *** **
4171358 AGTGTAAGATCTGTCTGGGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACCTATCTGGGACACGGCATCGACACCGATGTGAGAGCCAGTGTAAGACCATGTCTG
*
4171423 GGACTTGGCATCGGC
66 GGACATGGCATCGGC
4171438 ATCGTATCCC
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
97 37 0.54
98 1 0.01
99 31 0.45
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (97 bp):
AGTGTAAGACCTATCTGGGACACGGCATCGACACCGATGTGAGAGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGGCCTCGAGATATGAAAGTT
Found at i:4171432 original size:48 final size:49
Alignment explanation
Indices: 4171167--4171435 Score: 182
Period size: 48 Copynumber: 5.6 Consensus size: 49
4171157 TATGTGTGCT
*
4171167 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATAT-ACAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGAGATATGA-AAGCC
* * * * *** *
4171215 AGTGTAAGA-CATGCCTGGGACATGGCGTCAACT--TG-T-TGTGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATATGAAAGCC
* * * * * * *
4171259 AGTGTAAGACC-TATCTGGGACACGGCATTGACACCGATAGATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TCGAGATATGAAAGCC
* * **
4171308 AGTGTAAGACCATGTCTGGGACATGGTATCGGCCTCGAGATATGAAAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGAGATATGAAAGCC
* ** * **
4171358 AGTGTAAGATC-TGTCTGGGACATGGCATCGACT-TTGATGTGCTAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATATGAAAGCC
*
4171405 AGTGTAAGACCATGTCTGGGACTTGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
4171436 GCATCGTATC
Statistics
Matches: 165, Mismatches: 45, Indels: 22
0.71 0.19 0.09
Matches are distributed among these distances:
44 27 0.16
45 2 0.01
46 1 0.01
47 17 0.10
48 45 0.27
49 37 0.22
50 34 0.21
51 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATATGAAAGCC
Found at i:4172858 original size:39 final size:39
Alignment explanation
Indices: 4172803--4172891 Score: 160
Period size: 39 Copynumber: 2.3 Consensus size: 39
4172793 GTTTAATGTT
*
4172803 TATGACGTGATTATGTTTGTTTGCCATTCTTGGTTGGTAA
1 TATGACATG-TTATGTTTGTTTGCCATTCTTGGTTGGTAA
4172843 TATGACATGTTATGTTTGTTTGCCATTCTTGGTTGGTAA
1 TATGACATGTTATGTTTGTTTGCCATTCTTGGTTGGTAA
4172882 TATGACATGT
1 TATGACATGT
4172892 GTGTTGGATG
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 40 0.83
40 8 0.17
ACGTcount: A:0.19, C:0.10, G:0.24, T:0.47
Consensus pattern (39 bp):
TATGACATGTTATGTTTGTTTGCCATTCTTGGTTGGTAA
Found at i:4174593 original size:56 final size:50
Alignment explanation
Indices: 4174479--4174599 Score: 149
Period size: 51 Copynumber: 2.4 Consensus size: 50
4174469 AGGATTAGAA
4174479 TTAATCATATTAATATTAAATTAATAAAATATTATCAAGATAAAAAATAAAT
1 TTAAT-AT-TTAATATTAAATTAATAAAATATTATCAAGATAAAAAATAAAT
* * * *
4174531 TAAATATTTAATATTAATATTAATAAAATATTATCTAA-ATAAATATTTAAT
1 TTAATATTTAATATTAA-ATTAATAAAATATTATC-AAGATAAAAAATAAAT
4174582 TT-A-ATTTAATATTAAATT
1 TTAATATTTAATATTAAATT
4174600 TGTTAAAGTA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
48 3 0.05
49 12 0.19
50 11 0.18
51 30 0.48
52 6 0.10
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (50 bp):
TTAATATTTAATATTAAATTAATAAAATATTATCAAGATAAAAAATAAAT
Found at i:4208125 original size:20 final size:21
Alignment explanation
Indices: 4208100--4208139 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
4208090 TGTAACTTAG
4208100 AAAATTTATTTATGT-TTCGA
1 AAAATTTATTTATGTGTTCGA
*
4208120 AAAATTTTTTTATGTGTTCG
1 AAAATTTATTTATGTGTTCG
4208140 GTTTGGTCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (21 bp):
AAAATTTATTTATGTGTTCGA
Found at i:4208898 original size:17 final size:17
Alignment explanation
Indices: 4208878--4208912 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4208868 CAAATGAAGC
4208878 CTCACTAACACCTCTAT
1 CTCACTAACACCTCTAT
4208895 CTCACTAACACCTCTAT
1 CTCACTAACACCTCTAT
4208912 C
1 C
4208913 AAGGCCACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.43, G:0.00, T:0.29
Consensus pattern (17 bp):
CTCACTAACACCTCTAT
Found at i:4209542 original size:10 final size:11
Alignment explanation
Indices: 4209522--4209554 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
4209512 AATATTTTGT
4209522 TTTTCTTTTTTC
1 TTTT-TTTTTTC
4209534 TTTTTTTTTTC
1 TTTTTTTTTTC
4209545 TTTTTTTTTT
1 TTTTTTTTTT
4209555 TGAGGGGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:4209542 original size:18 final size:17
Alignment explanation
Indices: 4209516--4209555 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
4209506 GTACGTAATA
*
4209516 TTTTGTTTTTCTTTTTT
1 TTTTTTTTTTCTTTTTT
4209533 CTTTTTTTTTTCTTTTTT
1 -TTTTTTTTTTCTTTTTT
4209551 TTTTT
1 TTTTT
4209556 GAGGGGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (17 bp):
TTTTTTTTTTCTTTTTT
Found at i:4210376 original size:17 final size:18
Alignment explanation
Indices: 4210343--4210376 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4210333 ATTGTAATCA
*
4210343 AAAATAAAAATTTCCCAC
1 AAAATAAAAATTACCCAC
4210361 AAAATAAAAA-TACCCA
1 AAAATAAAAATTACCCA
4210377 TTACCTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.62, C:0.21, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAATAAAAATTACCCAC
Found at i:4211678 original size:15 final size:15
Alignment explanation
Indices: 4211658--4211687 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4211648 ATTGAATTAA
4211658 TTTTATTTTTAAAAT
1 TTTTATTTTTAAAAT
4211673 TTTTATTTTTAAAAT
1 TTTTATTTTTAAAAT
4211688 AAATAATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTATTTTTAAAAT
Found at i:4212845 original size:23 final size:21
Alignment explanation
Indices: 4212815--4212863 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
4212805 ATTTATTACA
*
4212815 GTTTTTAAATTAAGGTTTTAGT
1 GTTTTT-AATTAAGGGTTTAGT
*
4212837 GTTTATTAATTAGGGGTTTAGT
1 GTTT-TTAATTAAGGGTTTAGT
4212859 GTTTT
1 GTTTT
4212864 AGGGTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 21 0.88
23 2 0.08
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.55
Consensus pattern (21 bp):
GTTTTTAATTAAGGGTTTAGT
Found at i:4212857 original size:8 final size:8
Alignment explanation
Indices: 4212846--4212903 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
4212836 TGTTTATTAA
*
4212846 TTAGGGGT
1 TTAGGGTT
*
4212854 TTAGTGTT
1 TTAGGGTT
4212862 TTAGGGTT
1 TTAGGGTT
4212870 TTA---TT
1 TTAGGGTT
*
4212875 ATTAGGCTT
1 -TTAGGGTT
4212884 TTAGGGTTT
1 TTAGGG-TT
4212893 TTAGGGTT
1 TTAGGGTT
4212901 TTA
1 TTA
4212904 AAGTTAGGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 2 0.05
6 3 0.07
8 26 0.63
9 10 0.24
ACGTcount: A:0.16, C:0.02, G:0.29, T:0.53
Consensus pattern (8 bp):
TTAGGGTT
Found at i:4212887 original size:30 final size:31
Alignment explanation
Indices: 4212828--4212924 Score: 96
Period size: 30 Copynumber: 3.2 Consensus size: 31
4212818 TTTAAATTAA
* *
4212828 GGTTTTAGTG-TTTATTAATTAGGGGTTTAG
1 GGTTTTAGGGTTTTATTAATTAGGCGTTTAG
* *
4212858 TGTTTTAGGGTTTTATT-ATTAGGCTTTTAG
1 GGTTTTAGGGTTTTATTAATTAGGCGTTTAG
*
4212888 GGTTTTTAGGGTTTTA--AAGTTAGG-GTTTAT
1 GG-TTTTAGGGTTTTATTAA-TTAGGCGTTTAG
4212918 GGTTTTA
1 GGTTTTA
4212925 ATTGATTAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
29 5 0.09
30 27 0.48
31 24 0.43
ACGTcount: A:0.19, C:0.01, G:0.28, T:0.53
Consensus pattern (31 bp):
GGTTTTAGGGTTTTATTAATTAGGCGTTTAG
Found at i:4216551 original size:7 final size:7
Alignment explanation
Indices: 4216541--4216569 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
4216531 CAAAATTAAA
4216541 AATGTCC
1 AATGTCC
4216548 AATGTCC
1 AATGTCC
4216555 AATGTCC
1 AATGTCC
4216562 AA-GTCC
1 AATGTCC
4216568 AA
1 AA
4216570 CCAAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (7 bp):
AATGTCC
Found at i:4219611 original size:15 final size:15
Alignment explanation
Indices: 4219591--4219620 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4219581 TTATGCATGC
*
4219591 AAAATATAAAAGACA
1 AAAATACAAAAGACA
4219606 AAAATACAAAAGACA
1 AAAATACAAAAGACA
4219621 TAATAGTTAA
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:0.73, C:0.10, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAATACAAAAGACA
Found at i:4226677 original size:14 final size:17
Alignment explanation
Indices: 4226645--4226682 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
4226635 GATTATAAAG
4226645 TATATTATTAAATTAAT
1 TATATTATTAAATTAAT
4226662 TATATTA-TAAA-T-AT
1 TATATTATTAAATTAAT
4226676 TATATTA
1 TATATTA
4226683 AGAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 4 0.19
17 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAATTAAT
Found at i:4229795 original size:12 final size:12
Alignment explanation
Indices: 4229780--4229806 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4229770 TAAAAATATT
4229780 AATAAAAAATAG
1 AATAAAAAATAG
4229792 AATAAAAAATAG
1 AATAAAAAATAG
4229804 AAT
1 AAT
4229807 TTGAATAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (12 bp):
AATAAAAAATAG
Found at i:4230152 original size:29 final size:27
Alignment explanation
Indices: 4230103--4230161 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
4230093 TTTCCACCAT
* *
4230103 TTTTTAAAAAATTGACCTATTTCCTTAA
1 TTTTTAAAAAAATGACCTA-TTCCATAA
* *
4230131 TTTTTAAAAAAATGGCTTTATTCCATAA
1 TTTTTAAAAAAATGAC-CTATTCCATAA
4230159 TTT
1 TTT
4230162 ATCCCATGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 24 0.92
29 2 0.08
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.47
Consensus pattern (27 bp):
TTTTTAAAAAAATGACCTATTCCATAA
Found at i:4249294 original size:18 final size:18
Alignment explanation
Indices: 4249258--4249294 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4249248 TTGGTTTTCG
* *
4249258 AATTCGAATAACTCTAAT
1 AATTCGAATAAATCAAAT
4249276 AATTCGAATAAATCAAAT
1 AATTCGAATAAATCAAAT
4249294 A
1 A
4249295 CCAAATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (18 bp):
AATTCGAATAAATCAAAT
Found at i:4249413 original size:31 final size:31
Alignment explanation
Indices: 4249347--4249413 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
4249337 CTCTTTACTT
****
4249347 CCCCCAAAACTTTTACTCCCTCCCACTTTTT
1 CCCCCAAAACTTTTACTCCCTCCCACTCCCA
4249378 CCCCCAAAACTTTTACTCCCCTCCCA-TCCCA
1 CCCCCAAAACTTTTACT-CCCTCCCACTCCCA
4249409 CCCCC
1 CCCCC
4249414 TTCTACCCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 23 0.74
32 8 0.26
ACGTcount: A:0.19, C:0.54, G:0.00, T:0.27
Consensus pattern (31 bp):
CCCCCAAAACTTTTACTCCCTCCCACTCCCA
Found at i:4252602 original size:50 final size:50
Alignment explanation
Indices: 4252548--4252885 Score: 249
Period size: 50 Copynumber: 6.7 Consensus size: 50
4252538 ACCGAAGCTC
* * *
4252548 TCTGGTACGCATAGTAGCCTGCACTTAGTACCACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * ** * *
4252598 TCTGGTACACGTAGTAGCCTACA-TTAGTACTACGCACGTGATTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * * ** *
4252647 TTTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAA
* * * * * * *
4252699 -CGGGTACGCATAGTAGTCTGCACTTAGTACTACACACATG-G-CTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACT--ACACATGCGACCTATCAA
* **
4252748 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACATGATCGAAGT-T-AA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACT--ACACATG--CGACCTATCAA
* ** *
4252800 T-GGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
*
4252849 TCTAGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
4252886 CGTGACTCAC
Statistics
Matches: 221, Mismatches: 54, Indels: 26
0.73 0.18 0.09
Matches are distributed among these distances:
47 4 0.02
48 1 0.00
49 50 0.23
50 104 0.47
51 50 0.23
52 4 0.02
53 7 0.03
54 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
Found at i:4252730 original size:51 final size:51
Alignment explanation
Indices: 4252658--4252835 Score: 207
Period size: 51 Copynumber: 3.5 Consensus size: 51
4252648 TTGATACACG
* *
4252658 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTAACGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTTAACGGGTACGCA
* * * ** * * * * *
4252709 TAGTAGTCTGCACTTAGTACTACACACATG-GCTTAA-CCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACATGATC-GAAGTTAACGGGTACGCA
* *
4252759 TAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTTAATGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTTAACGGGTACGCA
4252810 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
4252836 TGCGACCTAT
Statistics
Matches: 100, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
50 39 0.39
51 61 0.61
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTTAACGGGTACGCA
Found at i:4252754 original size:101 final size:101
Alignment explanation
Indices: 4252609--4252890 Score: 383
Period size: 101 Copynumber: 2.8 Consensus size: 101
4252599 CTGGTACACG
* * * ** * *
4252609 TAGTAGCCTACA-TTAGTACTACGCACGTGATTTAACCATTTGATACACGTAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACACATGGCTTAACCATCTGATACACGTAGTAGCCTGCACTT
4252673 AGTACTACACACGTGATCGAAGTTAACGGGTACGCA
66 AGTACTACACACGTGATCGAAGTTAACGGGTACGCA
*
4252709 TAGTAGTCTGCACTTAGTACTACACACATGGCTTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACATGGCTTAACCATCTGATACACGTAGTAGCCTGCACTT
* * *
4252774 AGTACTACACACATGATCGAAGTTAATGGGTATGCA
66 AGTACTACACACGTGATCGAAGTTAACGGGTACGCA
* * *
4252810 TAGTAGCCTGCACTTAGTACT--ACACATGCGACCTATCAATCT-AGTACACGTAGTAGCCTGCA
1 TAGTAGCCTGCACTTAGTACTACACACATG-G-CTTAACCATCTGA-TACACGTAGTAGCCTGCA
4252872 CTTAGTACTACACACGTGA
63 CTTAGTACTACACACGTGA
4252891 CTCACAATGG
Statistics
Matches: 162, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
99 7 0.04
100 12 0.07
101 143 0.88
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACATGGCTTAACCATCTGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAGTTAACGGGTACGCA
Found at i:4255462 original size:42 final size:42
Alignment explanation
Indices: 4255415--4255500 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
4255405 ATACTCAATA
4255415 TATACCCATCAATCAGTCAGTTCACACAATTAGGGTCCTAAG
1 TATACCCATCAATCAGTCAGTTCACACAATTAGGGTCCTAAG
4255457 TATACCCATCAATCAGTCAGTTCACACAATTAGGGTCCTAAG
1 TATACCCATCAATCAGTCAGTTCACACAATTAGGGTCCTAAG
4255499 TA
1 TA
4255501 ATGCTTACTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.27
Consensus pattern (42 bp):
TATACCCATCAATCAGTCAGTTCACACAATTAGGGTCCTAAG
Found at i:4271818 original size:27 final size:27
Alignment explanation
Indices: 4271788--4271965 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
4271778 ATATCGAGTC
* * * *
4271788 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
4271815 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4271842 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
4271870 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
4271897 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
4271924 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4271951 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
4271966 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:4271927 original size:82 final size:81
Alignment explanation
Indices: 4271809--4271964 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
4271799 TGCTATATAA
*
4271809 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
4271874 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
4271891 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
4271955 CACTTAGTGC
65 CACTTAGTGC
4271965 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:4272813 original size:20 final size:21
Alignment explanation
Indices: 4272775--4272814 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
4272765 AAATTTTATC
*
4272775 TTATAATCATTTTTGTAAAAT
1 TTATAATCATTTTTCTAAAAT
*
4272796 TTATAATGA-TTTTCTAAAA
1 TTATAATCATTTTTCTAAAA
4272815 ACAGAACAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (21 bp):
TTATAATCATTTTTCTAAAAT
Found at i:4276282 original size:38 final size:38
Alignment explanation
Indices: 4276191--4276343 Score: 198
Period size: 38 Copynumber: 4.0 Consensus size: 38
4276181 GAATCCAGTC
* * *
4276191 ACCAGCACAAAGCCTGCGGGACTTTAAGCTCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATATT
* *
4276231 ACTAGCACTAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
* *
4276269 ACCAGTACGAAGCCTGTGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
* * *
4276307 ACCAGCACGGAGCCTACGGGACTTAACCCGGATATAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAT
4276344 ATCGAGTGCT
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 76 0.76
39 5 0.05
40 19 0.19
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
Found at i:4285584 original size:49 final size:48
Alignment explanation
Indices: 4285526--4285748 Score: 215
Period size: 49 Copynumber: 4.7 Consensus size: 48
4285516 ATACGTCAAG
* *
4285526 GCCGATGCCATGTCCCAGACAAGTCTTACACTAGCTCTCACTTATCTGT
1 GCCGATGCCATGTCCTAGACAGGTCTTACACTAGCTCTCAC-TATCTGT
** * * ** * **
4285575 GTTGATGCCATGTCCTAAACAGGTCTTACACTA--ACAAAC-CTC-AA
1 GCCGATGCCATGTCCTAGACAGGTCTTACACTAGCTCTCACTATCTGT
*
4285619 GCCGATGCCATGTCCTAGACAGGTCTTACACTAGCT-TGCA-TATCTTGAG
1 GCCGATGCCATGTCCTAGACAGGTCTTACACTAGCTCT-CACTATC-TG-T
*
4285668 GCCGATGCCATGTCCTAGACAGGTCTTACACTGGCTCTCACTTATCTGT
1 GCCGATGCCATGTCCTAGACAGGTCTTACACTAGCTCTCAC-TATCTGT
* * *
4285717 GTCGATGTCATGTCCTAGACAGGTTTTACACT
1 GCCGATGCCATGTCCTAGACAGGTCTTACACT
4285749 GACACACACA
Statistics
Matches: 139, Mismatches: 25, Indels: 20
0.76 0.14 0.11
Matches are distributed among these distances:
44 30 0.22
45 2 0.01
46 3 0.02
47 3 0.02
49 94 0.68
50 3 0.02
51 4 0.03
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCTAGACAGGTCTTACACTAGCTCTCACTATCTGT
Found at i:4285633 original size:93 final size:94
Alignment explanation
Indices: 4285521--4285699 Score: 249
Period size: 93 Copynumber: 1.9 Consensus size: 94
4285511 CTTACATACG
* **
4285521 TCAAGGCCGATGCCATGTCCCAGACAAGTCTTACACTAGCTCT-CACTTATC-TG-TGTTGATGC
1 TCAAGGCCGATGCCATGTCCCAGACAAGTCTTACACTAGCT-TGCA--TATCTTGAGGCCGATGC
4285583 CATGTCCTAAACAGGTCTTACACTAACAAACC
63 CATGTCCTAAACAGGTCTTACACTAACAAACC
* *
4285615 TCAA-GCCGATGCCATGTCCTAGACAGGTCTTACACTAGCTTGCATATCTTGAGGCCGATGCCAT
1 TCAAGGCCGATGCCATGTCCCAGACAAGTCTTACACTAGCTTGCATATCTTGAGGCCGATGCCAT
*
4285679 GTCCTAGACAGGTCTTACACT
66 GTCCTAAACAGGTCTTACACT
4285700 GGCTCTCACT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
91 4 0.05
92 3 0.04
93 65 0.86
94 4 0.05
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (94 bp):
TCAAGGCCGATGCCATGTCCCAGACAAGTCTTACACTAGCTTGCATATCTTGAGGCCGATGCCAT
GTCCTAAACAGGTCTTACACTAACAAACC
Found at i:4292605 original size:54 final size:54
Alignment explanation
Indices: 4292515--4292622 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
4292505 AAAAAGGAAA
* * * * *
4292515 AGGAAGGAATGGATGCACGCTAGTCAAACTTTGAAGAAACACCAGATTTGTCTT
1 AGGAAGGAACGGAAGCACGCTAGTCAAACTTCGAAGAAACACCAAATTTATCTT
*
4292569 AGGAAGGAACGGAAGCACGCTAGTCAGACTTCGAAGAAACACCAAATTTATCTT
1 AGGAAGGAACGGAAGCACGCTAGTCAAACTTCGAAGAAACACCAAATTTATCTT
4292623 CTAACTCTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (54 bp):
AGGAAGGAACGGAAGCACGCTAGTCAAACTTCGAAGAAACACCAAATTTATCTT
Found at i:4307155 original size:40 final size:40
Alignment explanation
Indices: 4307050--4307266 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
4307040 CGGATGATAA
* *
4307050 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
4307090 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
4307129 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
4307169 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
4307209 CCGAGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
4307249 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
4307267 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 50 0.31
40 110 0.69
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:4314737 original size:12 final size:12
Alignment explanation
Indices: 4314720--4314748 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
4314710 TTATAATTTA
4314720 TTCTTAACAACT
1 TTCTTAACAACT
4314732 TTCTTAACAACT
1 TTCTTAACAACT
4314744 TTCTT
1 TTCTT
4314749 CATCTTCTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (12 bp):
TTCTTAACAACT
Found at i:4318533 original size:43 final size:43
Alignment explanation
Indices: 4318469--4318554 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
4318459 TCTTGCCTCA
*
4318469 ATGCTTGAATGTATAGTGATTTGTATAACCATCATAGATCACG
1 ATGCTTGAATGTATAGCGATTTGTATAACCATCATAGATCACG
4318512 ATGCTTGAATGTATAGCGATTTGTATAACCATCATAGATCACG
1 ATGCTTGAATGTATAGCGATTTGTATAACCATCATAGATCACG
4318555 CGCTTATCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (43 bp):
ATGCTTGAATGTATAGCGATTTGTATAACCATCATAGATCACG
Found at i:4329335 original size:194 final size:194
Alignment explanation
Indices: 4329006--4329388 Score: 757
Period size: 194 Copynumber: 2.0 Consensus size: 194
4328996 GCCACGAGCA
*
4329006 AGCTAGATAAGTCAGAACGAGACTCGTACGAAATAGGATAGGAGGAAACCTCACAATCAAGTTTT
1 AGCTAGATAAGTCAGAACGAGACTCGTACGAAATAGGATAGGAGGAAACCTCACAACCAAGTTTT
4329071 CAATAATCAAATTCTGTAACCTTTTACAATAAACAAAATAAACTATTTATAGGCTCTCTAATGCC
66 CAATAATCAAATTCTGTAACCTTTTACAATAAACAAAATAAACTATTTATAGGCTCTCTAATGCC
4329136 TATTAAAATTCAGCTACTAATGTGTTCACACAACAATTAAAAATGTTCACACTTCAAGCTAGCG
131 TATTAAAATTCAGCTACTAATGTGTTCACACAACAATTAAAAATGTTCACACTTCAAGCTAGCG
4329200 AGCTAGATAAGTCAGAACGAGACTCGTACGAAATAGGATAGGAGGAAACCTCACAACCAAGTTTT
1 AGCTAGATAAGTCAGAACGAGACTCGTACGAAATAGGATAGGAGGAAACCTCACAACCAAGTTTT
4329265 CAATAATCAAATTCTGTAACCTTTTACAATAAACAAAATAAACTATTTATAGGCTCTCTAATGCC
66 CAATAATCAAATTCTGTAACCTTTTACAATAAACAAAATAAACTATTTATAGGCTCTCTAATGCC
4329330 TATTAAAATTCAGCTACTAATGTGTTCACACAACAATTAAAAATGTTCACACTTCAAGC
131 TATTAAAATTCAGCTACTAATGTGTTCACACAACAATTAAAAATGTTCACACTTCAAGC
4329389 ATTAAATCTC
Statistics
Matches: 188, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
194 188 1.00
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.27
Consensus pattern (194 bp):
AGCTAGATAAGTCAGAACGAGACTCGTACGAAATAGGATAGGAGGAAACCTCACAACCAAGTTTT
CAATAATCAAATTCTGTAACCTTTTACAATAAACAAAATAAACTATTTATAGGCTCTCTAATGCC
TATTAAAATTCAGCTACTAATGTGTTCACACAACAATTAAAAATGTTCACACTTCAAGCTAGCG
Found at i:4332156 original size:21 final size:21
Alignment explanation
Indices: 4332127--4332182 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
4332117 CAAGCTCTCT
*
4332127 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
4332148 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
4332169 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
4332183 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:4332175 original size:14 final size:14
Alignment explanation
Indices: 4332126--4332182 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
4332116 TCAAGCTCTC
4332126 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
4332139 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
4332153 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
4332167 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
4332181 TT
1 TT
4332183 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:4332210 original size:18 final size:18
Alignment explanation
Indices: 4332189--4332247 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
4332179 TTTTCTCTCA
4332189 CTTTTTCGATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
4332207 CTTTTGCAATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
4332225 CTTCTTCGTTTTCTTTTT
1 CTTTTTCGATTTCTTTTT
*
4332243 GTTTT
1 CTTTT
4332248 CTTTCAATTT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.05, C:0.17, G:0.07, T:0.71
Consensus pattern (18 bp):
CTTTTTCGATTTCTTTTT
Found at i:4332264 original size:6 final size:6
Alignment explanation
Indices: 4332144--4332251 Score: 65
Period size: 6 Copynumber: 17.7 Consensus size: 6
4332134 TCTTTTTTCG
* * * **
4332144 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** * *
4332195 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTCTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
4332243 -GTTTT CTTT
1 CTTTTT CTTT
4332252 CAATTTCTTT
Statistics
Matches: 72, Mismatches: 27, Indels: 6
0.69 0.26 0.06
Matches are distributed among these distances:
5 4 0.06
6 56 0.78
7 9 0.12
8 3 0.04
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.70
Consensus pattern (6 bp):
CTTTTT
Found at i:4334820 original size:20 final size:20
Alignment explanation
Indices: 4334797--4334843 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
4334787 GGGTTAAGAT
*
4334797 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
4334817 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
4334837 TGAGCTG
1 TGAGCTG
4334844 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:4336058 original size:66 final size:66
Alignment explanation
Indices: 4335952--4336082 Score: 253
Period size: 66 Copynumber: 2.0 Consensus size: 66
4335942 TGGAAAAGGA
4335952 AAGTTACCATGGAAATTTGATTCAATTCCAAAAACATAGGTTAGCCTTACCTTCTCGAAATGAAA
1 AAGTTACCATGGAAATTTGATTCAATTCCAAAAACATAGGTTAGCCTTACCTTCTCGAAATGAAA
4336017 C
66 C
*
4336018 AAGTTACCATGGAAATTTGATTCAATTCCAAAAACATAGGTTGGCCTTACCTTCTCGAAATGAAA
1 AAGTTACCATGGAAATTTGATTCAATTCCAAAAACATAGGTTAGCCTTACCTTCTCGAAATGAAA
4336083 TGAAAATTTC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (66 bp):
AAGTTACCATGGAAATTTGATTCAATTCCAAAAACATAGGTTAGCCTTACCTTCTCGAAATGAAA
C
Found at i:4337177 original size:30 final size:31
Alignment explanation
Indices: 4337106--4337188 Score: 100
Period size: 30 Copynumber: 2.7 Consensus size: 31
4337096 CTTTTGTTTC
*
4337106 AATTTCTTTTTCG-TCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCGTTC-TCTTTTTCAATCTCA
4337137 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTCGTTCTCTTTTTCAATCTCA
* * *
4337166 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTCGTTCTCTTTTT
4337189 TCTTTTCAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
29 5 0.11
30 33 0.72
31 8 0.17
ACGTcount: A:0.12, C:0.22, G:0.02, T:0.64
Consensus pattern (31 bp):
AATTTCTTTTTCGTTCTCTTTTTCAATCTCA
Found at i:4337188 original size:18 final size:18
Alignment explanation
Indices: 4337139--4337194 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
4337129 CACTCTCAAA
* *
4337139 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
4337156 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
4337174 TTTCATTTTCTTTTTTCTT
1 TTTCATTTTC-ATTTTCTT
4337193 TT
1 TT
4337195 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 17 0.57
19 9 0.30
ACGTcount: A:0.07, C:0.20, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:4337195 original size:12 final size:12
Alignment explanation
Indices: 4337164--4337188 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4337154 TTTTTCAATC
4337164 TCATTTTCTTTT
1 TCATTTTCTTTT
4337176 TCATTTTCTTTT
1 TCATTTTCTTTT
4337188 T
1 T
4337189 TCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:4337206 original size:12 final size:12
Alignment explanation
Indices: 4337191--4337221 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
4337181 TTCTTTTTTC
4337191 TTTTCAAAGGCT
1 TTTTCAAAGGCT
4337203 TTTTCAAAGGCT
1 TTTTCAAAGGCT
4337215 TTTTCAA
1 TTTTCAA
4337222 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:4337279 original size:5 final size:5
Alignment explanation
Indices: 4337269--4337325 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
4337259 CTCTTGCCTC
*
4337269 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
4337316 TCTTT TCTTT
1 TCTTT TCTTT
4337326 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:4337309 original size:15 final size:14
Alignment explanation
Indices: 4337269--4337325 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
4337259 CTCTTGCCTC
*
4337269 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
4337284 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
4337299 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
4337316 TCTTTTCTTT
1 TCTTTTCTTT
4337326 ATTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:4337335 original size:21 final size:20
Alignment explanation
Indices: 4337267--4337336 Score: 54
Period size: 20 Copynumber: 3.4 Consensus size: 20
4337257 GCCTCTTGCC
*
4337267 TCTCTTTTCTTTTTATTTCGTTT
1 TCTCTTTTC-TTTT-TTT-ATTT
**
4337290 TCT-TTTTCTTCTTTTGCTTT
1 TCTCTTTTCTT-TTTTTATTT
4337310 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
4337330 TCTCTTT
1 TCTCTTT
4337337 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 9 0.23
22 7 0.18
23 3 0.08
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:4343072 original size:35 final size:35
Alignment explanation
Indices: 4343021--4343090 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
4343011 GTCTTTTGAA
4343021 GGACCTGAGTGCGTTAAAGAGGTAGTGCCAGCAGG
1 GGACCTGAGTGCGTTAAAGAGGTAGTGCCAGCAGG
*
4343056 GGACCTGAGTGTGTTAAAGAGGTAGTGCCAGCAGG
1 GGACCTGAGTGCGTTAAAGAGGTAGTGCCAGCAGG
4343091 AATTTATGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.16, G:0.40, T:0.19
Consensus pattern (35 bp):
GGACCTGAGTGCGTTAAAGAGGTAGTGCCAGCAGG
Found at i:4347008 original size:21 final size:21
Alignment explanation
Indices: 4346984--4347024 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4346974 GTCAATAGTC
*
4346984 GAGAGCTAACCTCATCTCTAT
1 GAGAGCTAACCTCATATCTAT
*
4347005 GAGATCTAACCTCATATCTA
1 GAGAGCTAACCTCATATCTA
4347025 ATTCTTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (21 bp):
GAGAGCTAACCTCATATCTAT
Found at i:4348893 original size:33 final size:34
Alignment explanation
Indices: 4348856--4348920 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
4348846 TTTTTGTACA
*
4348856 TAATTAAATAATTTTATTTTGAATTTT-TTTAGT
1 TAATTAAATAATTTTATTTTAAATTTTATTTAGT
* *
4348889 TAATTAAGTATTTTTATTTTAAATTTTATTTA
1 TAATTAAATAATTTTATTTTAAATTTTATTTA
4348921 TTTATCTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 24 0.86
34 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.62
Consensus pattern (34 bp):
TAATTAAATAATTTTATTTTAAATTTTATTTAGT
Found at i:4350030 original size:17 final size:16
Alignment explanation
Indices: 4349999--4350029 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4349989 AAAATACTTT
4349999 ATTTAAAATTCTTTTA
1 ATTTAAAATTCTTTTA
*
4350015 ATTTTAAATTCTTTT
1 ATTTAAAATTCTTTT
4350030 TTTCATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTAAAATTCTTTTA
Found at i:4352182 original size:12 final size:12
Alignment explanation
Indices: 4352163--4352193 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4352153 GTAGGTTTCC
4352163 AAAAATGAAAAT
1 AAAAATGAAAAT
*
4352175 AGAAATGAAAAT
1 AAAAATGAAAAT
4352187 AAAAATG
1 AAAAATG
4352194 GGAACTTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (12 bp):
AAAAATGAAAAT
Found at i:4354393 original size:14 final size:14
Alignment explanation
Indices: 4354374--4354440 Score: 98
Period size: 14 Copynumber: 4.7 Consensus size: 14
4354364 CCAGAAAAGT
4354374 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
4354388 AAATCATTTTTCAAG
1 AAATCA-TTTTCCAG
*
4354403 AAATTATTTTCCAG
1 AAATCATTTTCCAG
4354417 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
4354431 AAAACATTTT
1 AAATCATTTT
4354441 ACCTGCAAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 35 0.74
15 12 0.26
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:4355073 original size:14 final size:14
Alignment explanation
Indices: 4355054--4355120 Score: 98
Period size: 14 Copynumber: 4.7 Consensus size: 14
4355044 CCAGAAAAGT
4355054 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
4355068 AAATCATTTTTCAAG
1 AAATCA-TTTTCCAG
*
4355083 AAATTATTTTCCAG
1 AAATCATTTTCCAG
4355097 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
4355111 AAAACATTTT
1 AAATCATTTT
4355121 ACCTGCAAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 35 0.74
15 12 0.26
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:4355553 original size:680 final size:680
Alignment explanation
Indices: 4354253--4355613 Score: 2722
Period size: 680 Copynumber: 2.0 Consensus size: 680
4354243 AATAAGGAAA
4354253 AGATAATAAATTCTTAAATATATAAATTTTTATTAAAACAGCTTTTCAGGAAAATATTTTCAGGA
1 AGATAATAAATTCTTAAATATATAAATTTTTATTAAAACAGCTTTTCAGGAAAATATTTTCAGGA
4354318 AATCTACCAAACAACAGAAAATATTTTACACAAATTCATCTAAACACCAGAAAAGTAAATCATTT
66 AATCTACCAAACAACAGAAAATATTTTACACAAATTCATCTAAACACCAGAAAAGTAAATCATTT
4354383 TCCAGAAATCATTTTTCAAGAAATTATTTTCCAGAAATCATTTTCCAGAAAACATTTTACCTGCA
131 TCCAGAAATCATTTTTCAAGAAATTATTTTCCAGAAATCATTTTCCAGAAAACATTTTACCTGCA
4354448 AACAAACGGAGCCTAAATGTTCACATGTTTGGAGGAGGTCAATGACAGATAAAATCCATTTGCTT
196 AACAAACGGAGCCTAAATGTTCACATGTTTGGAGGAGGTCAATGACAGATAAAATCCATTTGCTT
4354513 TTTAGTTATCTTGATTAGATGCCCTTTTCATATTCTAAAATTGTATTCCTTGAGCCTTTAGCATC
261 TTTAGTTATCTTGATTAGATGCCCTTTTCATATTCTAAAATTGTATTCCTTGAGCCTTTAGCATC
4354578 TGGATAAATTTCGGCACCCAATACTCATGACAAATAATTTTTAGCTAAGATATCAAGAATCACAA
326 TGGATAAATTTCGGCACCCAATACTCATGACAAATAATTTTTAGCTAAGATATCAAGAATCACAA
4354643 ATAAGGTTTTGGCAAGATTCAACCTAATATACAACAGCAATATTTAGAATATGAAACATTACATA
391 ATAAGGTTTTGGCAAGATTCAACCTAATATACAACAGCAATATTTAGAATATGAAACATTACATA
4354708 GTTAATAAAATTTCAATAAATAAAACTTAATTACTAAAATGTATAAAAGTTAGCACTAAAAATAT
456 GTTAATAAAATTTCAATAAATAAAACTTAATTACTAAAATGTATAAAAGTTAGCACTAAAAATAT
4354773 TCAAGAGCTTATAAAAGGTTCAGGATTATCGAAATGACCATTCGAAAAATAAATAAAAAAATAAT
521 TCAAGAGCTTATAAAAGGTTCAGGATTATCGAAATGACCATTCGAAAAATAAATAAAAAAATAAT
4354838 GATGAATAACTACAAGAGGTATTATGTACAAATATTAAAAATGTAGACTTCATACCAACATGTGT
586 GATGAATAACTACAAGAGGTATTATGTACAAATATTAAAAATGTAGACTTCATACCAACATGTGT
4354903 AGATTACTATTTTAATTTCATCTAATACAT
651 AGATTACTATTTTAATTTCATCTAATACAT
4354933 AGATAATAAATTCTTAAATATATAAATTTTTATTAAAACAGCTTTTCAGGAAAATATTTTCAGGA
1 AGATAATAAATTCTTAAATATATAAATTTTTATTAAAACAGCTTTTCAGGAAAATATTTTCAGGA
4354998 AATCTACCAAACAACAGAAAATATTTTACACAAATTCATCTAAACACCAGAAAAGTAAATCATTT
66 AATCTACCAAACAACAGAAAATATTTTACACAAATTCATCTAAACACCAGAAAAGTAAATCATTT
4355063 TCCAGAAATCATTTTTCAAGAAATTATTTTCCAGAAATCATTTTCCAGAAAACATTTTACCTGCA
131 TCCAGAAATCATTTTTCAAGAAATTATTTTCCAGAAATCATTTTCCAGAAAACATTTTACCTGCA
4355128 AACAAACGGAGCCTAAATGTTCACATGTTTGGAGGAGGTCAATGACAGATAAAATCCATTTGCTT
196 AACAAACGGAGCCTAAATGTTCACATGTTTGGAGGAGGTCAATGACAGATAAAATCCATTTGCTT
4355193 TTTAGTTATCTTGATTAGATGCCCTTTTCATATTCTAAAATTGTATTCCTTGAGCCTTTAGCATC
261 TTTAGTTATCTTGATTAGATGCCCTTTTCATATTCTAAAATTGTATTCCTTGAGCCTTTAGCATC
4355258 TGGATAAATTTCGGCACCCAATACTCATGACAAATAATTTTTAGCTAAGATATCAAGAATCACAA
326 TGGATAAATTTCGGCACCCAATACTCATGACAAATAATTTTTAGCTAAGATATCAAGAATCACAA
4355323 ATAAGGTTTTGGCAAGATTCAACCTAATATACAACAGCAATATTTAGAATATGAAACATTACATA
391 ATAAGGTTTTGGCAAGATTCAACCTAATATACAACAGCAATATTTAGAATATGAAACATTACATA
4355388 GTTAATAAAATTTCAATAAATAAAACTTAATTACTAAAATGTATAAAAGTTAGCACTAAAAATAT
456 GTTAATAAAATTTCAATAAATAAAACTTAATTACTAAAATGTATAAAAGTTAGCACTAAAAATAT
4355453 TCAAGAGCTTATAAAAGGTTCAGGATTATCGAAATGACCATTCGAAAAATAAATAAAAAAATAAT
521 TCAAGAGCTTATAAAAGGTTCAGGATTATCGAAATGACCATTCGAAAAATAAATAAAAAAATAAT
4355518 GATGAATAACTACAAGAGGTATTATGTACAAATATTAAAAATGTAGACTTCATACCAACATGTGT
586 GATGAATAACTACAAGAGGTATTATGTACAAATATTAAAAATGTAGACTTCATACCAACATGTGT
4355583 AGATTACTATTTTAATTTCATCTAATACAT
651 AGATTACTATTTTAATTTCATCTAATACAT
4355613 A
1 A
4355614 AATGTAAAAT
Statistics
Matches: 681, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
680 681 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (680 bp):
AGATAATAAATTCTTAAATATATAAATTTTTATTAAAACAGCTTTTCAGGAAAATATTTTCAGGA
AATCTACCAAACAACAGAAAATATTTTACACAAATTCATCTAAACACCAGAAAAGTAAATCATTT
TCCAGAAATCATTTTTCAAGAAATTATTTTCCAGAAATCATTTTCCAGAAAACATTTTACCTGCA
AACAAACGGAGCCTAAATGTTCACATGTTTGGAGGAGGTCAATGACAGATAAAATCCATTTGCTT
TTTAGTTATCTTGATTAGATGCCCTTTTCATATTCTAAAATTGTATTCCTTGAGCCTTTAGCATC
TGGATAAATTTCGGCACCCAATACTCATGACAAATAATTTTTAGCTAAGATATCAAGAATCACAA
ATAAGGTTTTGGCAAGATTCAACCTAATATACAACAGCAATATTTAGAATATGAAACATTACATA
GTTAATAAAATTTCAATAAATAAAACTTAATTACTAAAATGTATAAAAGTTAGCACTAAAAATAT
TCAAGAGCTTATAAAAGGTTCAGGATTATCGAAATGACCATTCGAAAAATAAATAAAAAAATAAT
GATGAATAACTACAAGAGGTATTATGTACAAATATTAAAAATGTAGACTTCATACCAACATGTGT
AGATTACTATTTTAATTTCATCTAATACAT
Found at i:4356105 original size:11 final size:10
Alignment explanation
Indices: 4356070--4356097 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
4356060 TTTAATTAAC
4356070 ATAAAATTAT
1 ATAAAATTAT
4356080 ATAAAATTAT
1 ATAAAATTAT
4356090 ATAAAATT
1 ATAAAATT
4356098 TCTATAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
ATAAAATTAT
Found at i:4377483 original size:27 final size:26
Alignment explanation
Indices: 4377433--4377527 Score: 91
Period size: 28 Copynumber: 3.5 Consensus size: 26
4377423 GTAGTTTTGG
**
4377433 GGATTTCTTGATGCTTTTCTTATTTTT
1 GGATTTCTTGAAACTTTTC-TATTTTT
4377460 GGATTTCTTGAAACATTTTCTATTTTAT
1 GGATTTCTTGAAAC-TTTTCTATTTT-T
**
4377488 GTTTTTCTTGAAACTTTTTCTATTATTT
1 GGATTTCTTGAAAC-TTTTCTATT-TTT
* *
4377516 GGGTATCTTGAA
1 GGATTTCTTGAA
4377528 GTTTTATCAA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
27 18 0.32
28 37 0.65
29 2 0.04
ACGTcount: A:0.19, C:0.11, G:0.14, T:0.57
Consensus pattern (26 bp):
GGATTTCTTGAAACTTTTCTATTTTT
Found at i:4378324 original size:69 final size:68
Alignment explanation
Indices: 4378214--4378346 Score: 167
Period size: 69 Copynumber: 1.9 Consensus size: 68
4378204 TTCAGCTCTC
* * * * **
4378214 TTTGTTTTTTATACAACTACCATGTTGATTGTAAGTCTCATATCTATGGAGCTTTGGCTCTCTTC
1 TTTGTTTTTGATACAAATACCATGTTGATTATAAGTATCATATCTATGGAGCTTTACCTCTCTTC
4378279 GTG
66 GTG
* ** *
4378282 TTTGTTTTTAGATGCAAATACCATGTTGATTATGTGTATCATATTTATGGAGCTTTACCTCTCTT
1 TTTGTTTTT-GATACAAATACCATGTTGATTATAAGTATCATATCTATGGAGCTTTACCTCTCTT
4378347 TCAAGTTGTT
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
68 9 0.17
69 45 0.83
ACGTcount: A:0.21, C:0.16, G:0.17, T:0.47
Consensus pattern (68 bp):
TTTGTTTTTGATACAAATACCATGTTGATTATAAGTATCATATCTATGGAGCTTTACCTCTCTTC
GTG
Found at i:4383589 original size:18 final size:19
Alignment explanation
Indices: 4383568--4383604 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
4383558 TTTTTATTAA
*
4383568 TTTATATATTTT-AAATTT
1 TTTATAAATTTTGAAATTT
4383586 TTTATAAATTTTGAAATTT
1 TTTATAAATTTTGAAATTT
4383605 ATATCTACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTATAAATTTTGAAATTT
Found at i:4389919 original size:11 final size:11
Alignment explanation
Indices: 4389905--4389980 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
4389895 GATAATAATT
4389905 TTAATATTAAA
1 TTAATATTAAA
4389916 TTAATA--AAA
1 TTAATATTAAA
*
4389925 -TACTATTAAGA
1 TTAATATTAA-A
*
4389936 TCAATATTAAA
1 TTAATATTAAA
4389947 TTAA-ATTTAATA
1 TTAATA-TTAA-A
4389959 TTAATCTATTAAA
1 TTAA--TATTAAA
*
4389972 ATAATATTA
1 TTAATATTA
4389981 TTTTTGAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 3 0.06
11 20 0.39
12 12 0.24
13 4 0.08
14 4 0.08
15 1 0.02
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:4389920 original size:20 final size:18
Alignment explanation
Indices: 4389873--4389977 Score: 58
Period size: 20 Copynumber: 5.7 Consensus size: 18
4389863 TAAGATAAAA
4389873 ATTAAATTAA-AATTAAT
1 ATTAAATTAATAATTAAT
*
4389890 GTTAAGA-TAATAATTTTAAT
1 ATTAA-ATTAATAA--TTAAT
* *
4389910 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-AATTAAT
*
4389929 ATTAAGATCAAT-ATTAA-
1 ATTAA-ATTAATAATTAAT
4389946 ATTAAATTTAAT-ATTAATCT
1 ATTAAA-TTAATAATTAA--T
*
4389966 ATTAAAATAATA
1 ATTAAATTAATA
4389978 TTATTTTTGA
Statistics
Matches: 67, Mismatches: 9, Indels: 21
0.69 0.09 0.22
Matches are distributed among these distances:
16 1 0.01
17 21 0.31
18 6 0.09
19 13 0.19
20 24 0.36
21 2 0.03
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (18 bp):
ATTAAATTAATAATTAAT
Found at i:4397064 original size:38 final size:38
Alignment explanation
Indices: 4397009--4397083 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
4396999 TTGACATGAT
*
4397009 AGATCCTGGTTTGTTAAGTTGTATTTTATATTTATTTC
1 AGATCCTGGTTTATTAAGTTGTATTTTATATTTATTTC
4397047 AGATCCTGGTTTATTAAGTTGTATTTTATATTTATTT
1 AGATCCTGGTTTATTAAGTTGTATTTTATATTTATTT
4397084 TATAAATCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.23, C:0.07, G:0.15, T:0.56
Consensus pattern (38 bp):
AGATCCTGGTTTATTAAGTTGTATTTTATATTTATTTC
Found at i:4398622 original size:31 final size:32
Alignment explanation
Indices: 4398550--4398623 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 32
4398540 TATTTTAAAG
* *
4398550 TTTTCGTTTAAATCGCTGAACTATTCAAAATT
1 TTTTCATTTAAATCACTGAACTATTCAAAATT
* * *
4398582 TTTT-ATTTAAGTCACTGGACTATT-AAATTT
1 TTTTCATTTAAATCACTGAACTATTCAAAATT
*
4398612 TTTTCTTTTAAA
1 TTTTCATTTAAA
4398624 AAAAGTTTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
30 9 0.26
31 21 0.62
32 4 0.12
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (32 bp):
TTTTCATTTAAATCACTGAACTATTCAAAATT
Found at i:4398949 original size:30 final size:32
Alignment explanation
Indices: 4398910--4398968 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
4398900 TTAATAACTT
4398910 AAATAAAAAATTTA-AAATAATTCAATGACCA
1 AAATAAAAAATTTACAAATAATTCAATGACCA
* *
4398941 AAAT-AAAAATTTACGAATAATTTAATGA
1 AAATAAAAAATTTACAAATAATTCAATGA
4398969 TTAACGGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (32 bp):
AAATAAAAAATTTACAAATAATTCAATGACCA
Found at i:4401254 original size:33 final size:33
Alignment explanation
Indices: 4401214--4401282 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
4401204 TCAATTTACC
* *
4401214 CTTTTATATATGCTATTAACAGTTTTAATTAAT
1 CTTTTATATATGCTATTAAAAATTTTAATTAAT
4401247 CTTTTATATATGCTATTAAAAATTTTAATTAAT
1 CTTTTATATATGCTATTAAAAATTTTAATTAAT
4401280 CTT
1 CTT
4401283 AATATGATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.52
Consensus pattern (33 bp):
CTTTTATATATGCTATTAAAAATTTTAATTAAT
Found at i:4404571 original size:25 final size:24
Alignment explanation
Indices: 4404542--4404608 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
4404532 ATGTTTTCTA
*
4404542 ATTTTAAAAATAAAAA-ATGAAACCT
1 ATTTTAAAAATAAAAATAT-AAA-AT
**
4404567 ATTTTTTAAATAAAAATATAAAAT
1 ATTTTAAAAATAAAAATATAAAAT
*
4404591 ATTTTCAAAAATCAAAAT
1 ATTTT-AAAAATAAAAAT
4404609 TTATATCAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 6 0.18
25 26 0.76
26 2 0.06
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.34
Consensus pattern (24 bp):
ATTTTAAAAATAAAAATATAAAAT
Found at i:4413984 original size:13 final size:14
Alignment explanation
Indices: 4413966--4414003 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
4413956 ATGGGGGTAG
4413966 GATTCTGTATATTT
1 GATTCTGTATATTT
*
4413980 G-TTCTGTACATTT
1 GATTCTGTATATTT
4413993 GATTCTG-ATAT
1 GATTCTGTATAT
4414004 CTGTATCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.53
Consensus pattern (14 bp):
GATTCTGTATATTT
Found at i:4414371 original size:13 final size:13
Alignment explanation
Indices: 4414355--4414380 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4414345 ACTTCACGCA
4414355 AACAAATGGTTTT
1 AACAAATGGTTTT
4414368 AACAAATGGTTTT
1 AACAAATGGTTTT
4414381 TAGAAACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:4416929 original size:42 final size:41
Alignment explanation
Indices: 4416873--4417029 Score: 136
Period size: 42 Copynumber: 3.7 Consensus size: 41
4416863 TTACTAAGAC
* * *
4416873 TATGTTAAGACCATATCTGGGATATGACATCTATATGAGACTT
1 TATG-TAAAACCATATCTAGGATATGACATCGATATGAGA-TT
*
4416916 TATGTAAAACCATATCTAGGATATTACATCGATATGAGATT
1 TATGTAAAACCATATCTAGGATATGACATCGATATGAGATT
* * * * * *
4416957 TCGTGTAAGACCATAGCTAGGCTATTGGCATCGATACGAGATT
1 T-ATGTAAAACCATATCTAGGATA-TGACATCGATATGAGATT
* * *
4417000 ACATATATAACCATATCT-GAGATATGACAT
1 -TATGTAAAACCATATCTAG-GATATGACAT
4417030 TGGTACGGTA
Statistics
Matches: 91, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
41 3 0.03
42 55 0.60
43 33 0.36
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (41 bp):
TATGTAAAACCATATCTAGGATATGACATCGATATGAGATT
Found at i:4417013 original size:43 final size:41
Alignment explanation
Indices: 4416922--4417014 Score: 96
Period size: 43 Copynumber: 2.2 Consensus size: 41
4416912 ACTTTATGTA
* * * * *
4416922 AAACCATATCTAGGATATTACATCGATATGAGATTTCGTGT
1 AAACCATAGCTAGGATATTACATCGATACGAGATTACATAT
* *
4416963 AAGACCATAGCTAGGCTATTGGCATCGATACGAGATTACATAT
1 AA-ACCATAGCTAGGATATT-ACATCGATACGAGATTACATAT
4417006 ATAACCATA
1 A-AACCATA
4417015 TCTGAGATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
41 2 0.05
42 15 0.36
43 24 0.57
44 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (41 bp):
AAACCATAGCTAGGATATTACATCGATACGAGATTACATAT
Found at i:4417307 original size:40 final size:40
Alignment explanation
Indices: 4417252--4417355 Score: 129
Period size: 40 Copynumber: 2.5 Consensus size: 40
4417242 TTATGCTAAG
* *
4417252 CATTAGCGGCGCTTTTATAAAAATGCCACTATAGATCTAC-
1 CATTAACGGCGCTTTT-TAAAAATGCCACTATAGATCGACT
*
4417292 CATTAACGGCGCTTTTGTAAAAATGCCGCTATAGATCGACT
1 CATTAACGGCGCTTTT-TAAAAATGCCACTATAGATCGACT
* *
4417333 AATTAACGGTGCTTATTTAAAAA
1 CATTAACGGCGCTT-TTTAAAAA
4417356 CACCGTGAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
40 36 0.64
41 18 0.32
42 2 0.04
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (40 bp):
CATTAACGGCGCTTTTTAAAAATGCCACTATAGATCGACT
Found at i:4417736 original size:14 final size:14
Alignment explanation
Indices: 4417719--4417765 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
4417709 AAAGAGATAG
4417719 TATTGAATTTAAAA
1 TATTGAATTTAAAA
*
4417733 TATTGAA--T--AG
1 TATTGAATTTAAAA
4417743 TATTGAATTTAAAA
1 TATTGAATTTAAAA
4417757 TATTGAATT
1 TATTGAATT
4417766 AATTATGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
10 8 0.30
12 2 0.07
14 17 0.63
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (14 bp):
TATTGAATTTAAAA
Found at i:4417744 original size:24 final size:24
Alignment explanation
Indices: 4417715--4417764 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
4417705 TATTAAAGAG
4417715 ATAGTATTGAATTTAAAATATTGA
1 ATAGTATTGAATTTAAAATATTGA
4417739 ATAGTATTGAATTTAAAATATTGA
1 ATAGTATTGAATTTAAAATATTGA
4417763 AT
1 AT
4417765 TAATTATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (24 bp):
ATAGTATTGAATTTAAAATATTGA
Found at i:4417796 original size:14 final size:14
Alignment explanation
Indices: 4417774--4417818 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
4417764 TTAATTATGA
4417774 TTATAGTTTAGGAT
1 TTATAGTTTAGGAT
*
4417788 TTATGGTTTAGGAT
1 TTATAGTTTAGGAT
* *
4417802 ATATAGTTTAGGGT
1 TTATAGTTTAGGAT
4417816 TTA
1 TTA
4417819 AGGGTTAAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (14 bp):
TTATAGTTTAGGAT
Found at i:4417876 original size:14 final size:14
Alignment explanation
Indices: 4417852--4418011 Score: 74
Period size: 14 Copynumber: 11.2 Consensus size: 14
4417842 GGTTTATGAA
*
4417852 TTATGGGTTTAGGGA
1 TTAT-GGTTTAGGGT
*
4417867 TTATGGTTTATGGT
1 TTATGGTTTAGGGT
* *
4417881 TTAATAG-TTAGAGT
1 TT-ATGGTTTAGGGT
* *
4417895 TTAAGGTTTAGGGG
1 TTATGGTTTAGGGT
*
4417909 TTATGGGTTAAGGG-
1 TTAT-GGTTTAGGGT
* *
4417923 TTAAGGGTTAGAGGT
1 TTATGGTTTAG-GGT
*
4417938 TTATGGTTTAGAGT
1 TTATGGTTTAGGGT
* * * *
4417952 CTAAGGGTTAGGGG
1 TTATGGTTTAGGGT
* *
4417966 TTAGGGGTTAAGGG-
1 TTA-TGGTTTAGGGT
*
4417980 TTAAGGATTTAGGGT
1 TTATGG-TTTAGGGT
* *
4417995 TTAAGGTTTAGAGT
1 TTATGGTTTAGGGT
4418009 TTA
1 TTA
4418012 GTGTTTATGG
Statistics
Matches: 108, Mismatches: 29, Indels: 17
0.70 0.19 0.11
Matches are distributed among these distances:
13 9 0.08
14 62 0.57
15 37 0.34
ACGTcount: A:0.24, C:0.01, G:0.36, T:0.39
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:4417883 original size:21 final size:21
Alignment explanation
Indices: 4417852--4417948 Score: 56
Period size: 21 Copynumber: 4.5 Consensus size: 21
4417842 GGTTTATGAA
4417852 TTATGGGTTTAGGGATTATGGT
1 TTAT-GGTTTAGGGATTATGGT
**
4417874 TTATGGTTTA-ATAGTTA-GAGT
1 TTATGGTTTAGGGA-TTATG-GT
* *
4417895 TTAAGGTTTAGGGGTTATGGGT
1 TTATGGTTTAGGGATTAT-GGT
* * * *
4417917 TAAGGGTTAAGGG-TTAGAGGT
1 TTATGGTTTAGGGATTA-TGGT
4417938 TTATGGTTTAG
1 TTATGGTTTAG
4417949 AGTCTAAGGG
Statistics
Matches: 56, Mismatches: 13, Indels: 13
0.68 0.16 0.16
Matches are distributed among these distances:
20 2 0.04
21 37 0.66
22 16 0.29
23 1 0.02
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (21 bp):
TTATGGTTTAGGGATTATGGT
Done.