Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 197 of 210
Found at i:65471311 original size:446 final size:446
Alignment explanation
Indices: 65470478--65471369 Score: 1759
Period size: 446 Copynumber: 2.0 Consensus size: 446
65470468 TTGTGTATTG
65470478 ATGATGGTGATTAGACTTATGCCAAGCTTGAGATTATGATTGATGTTTATGCTTATATTTGGTAT
1 ATGATGGTGATTAGACTTATGCCAAGCTTGAGATTATGATTGATGTTTATGCTTATATTTGGTAT
65470543 TATACAAATGAAACGGGTAAGAAAAGGTAATGAAACGGTAAGTTCATTATTCAAATTGATATGTT
66 TATACAAATGAAACGGGTAAGAAAAGGTAATGAAACGGTAAGTTCATTATTCAAATTGATATGTT
65470608 GAAAAAGGGATTGATGAGTTGAATAGTGTATTTATATATATGAGAAATTACGTATGTTATGGATG
131 GAAAAAGGGATTGATGAGTTGAATAGTGTATTTATATATATGAGAAATTACGTATGTTATGGATG
65470673 AATTTACATATGAGGTGAATAAATATACTAACTAGTAAACTGATGTTGTTATTTAAGTTTATGCT
196 AATTTACATATGAGGTGAATAAATATACTAACTAGTAAACTGATGTTGTTATTTAAGTTTATGCT
65470738 TAGTAAATGAAATGAAAAGTAAGTAAAGGAAGTAATTCATAGTTTTATGAAAAAGTTAATGATGG
261 TAGTAAATGAAATGAAAAGTAAGTAAAGGAAGTAATTCATAGTTTTATGAAAAAGTTAATGATGG
65470803 TGTATAATGATTTATAAAATCCTATAATGTTAGGAATGATAAATATATATATATATATATATATA
326 TGTATAATGATTTATAAAATCCTATAATGTTAGGAATGATAAATATATATATATATATATATATA
*
65470868 TGATGTTG-ATAGATTTACTCATTTATGAGTTGATGGTTATGTAGTTGATAAATCTT
391 T-ATGATGTATAGATTTACTCATTTATGAGTTGATGGTTATGTAGTTGATAAATCTT
65470924 ATGATGGTGATTAGACTTATGCCAAGCTTGAGATTATGATTGATGTTTATGCTTATATTTGGTAT
1 ATGATGGTGATTAGACTTATGCCAAGCTTGAGATTATGATTGATGTTTATGCTTATATTTGGTAT
65470989 TATACAAATGAAACGGGTAAGAAAAGGTAATGAAACGGTAAGTTCATTATTCAAATTGATATGTT
66 TATACAAATGAAACGGGTAAGAAAAGGTAATGAAACGGTAAGTTCATTATTCAAATTGATATGTT
65471054 GAAAAAGGGATTGATGAGTTGAATAGTGTATTTATATATATGAGAAATTACGTATGTTATGGATG
131 GAAAAAGGGATTGATGAGTTGAATAGTGTATTTATATATATGAGAAATTACGTATGTTATGGATG
65471119 AATTTACATATGAGGTGAATAAATATACTAACTAGTAAACTGATGTTGTTATTTAAGTTTATGCT
196 AATTTACATATGAGGTGAATAAATATACTAACTAGTAAACTGATGTTGTTATTTAAGTTTATGCT
65471184 TAGTAAATGAAATGAAAAGTAAGTAAAGGAAGTAATTCATAGTTTTATGAAAAAGTTAATGATGG
261 TAGTAAATGAAATGAAAAGTAAGTAAAGGAAGTAATTCATAGTTTTATGAAAAAGTTAATGATGG
65471249 TGTATAATGATTTATAAAATCCTATAATGTTAGGAATGATAAATATATATATATATATATATATA
326 TGTATAATGATTTATAAAATCCTATAATGTTAGGAATGATAAATATATATATATATATATATATA
65471314 TATGATGTATAGATTTACTCATTTATGAGTTGATGGTTATGTAGTTGATAAATCTT
391 TATGATGTATAGATTTACTCATTTATGAGTTGATGGTTATGTAGTTGATAAATCTT
65471370 GAGGCATTGA
Statistics
Matches: 444, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
445 5 0.01
446 439 0.99
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (446 bp):
ATGATGGTGATTAGACTTATGCCAAGCTTGAGATTATGATTGATGTTTATGCTTATATTTGGTAT
TATACAAATGAAACGGGTAAGAAAAGGTAATGAAACGGTAAGTTCATTATTCAAATTGATATGTT
GAAAAAGGGATTGATGAGTTGAATAGTGTATTTATATATATGAGAAATTACGTATGTTATGGATG
AATTTACATATGAGGTGAATAAATATACTAACTAGTAAACTGATGTTGTTATTTAAGTTTATGCT
TAGTAAATGAAATGAAAAGTAAGTAAAGGAAGTAATTCATAGTTTTATGAAAAAGTTAATGATGG
TGTATAATGATTTATAAAATCCTATAATGTTAGGAATGATAAATATATATATATATATATATATA
TATGATGTATAGATTTACTCATTTATGAGTTGATGGTTATGTAGTTGATAAATCTT
Found at i:65479822 original size:41 final size:41
Alignment explanation
Indices: 65479777--65480312 Score: 1063
Period size: 41 Copynumber: 13.1 Consensus size: 41
65479767 CCGATATGTA
*
65479777 TCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
65479818 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
65479859 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
65479900 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
65479941 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
65479982 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
65480023 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
65480064 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
65480105 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
65480146 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
65480187 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
65480228 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
65480269 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
65480310 TCA
1 TCA
65480313 NNNNNNNNNN
Statistics
Matches: 494, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 494 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (41 bp):
TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATT
Found at i:65485611 original size:23 final size:24
Alignment explanation
Indices: 65485585--65485648 Score: 76
Period size: 23 Copynumber: 2.6 Consensus size: 24
65485575 AAATTTTATT
65485585 TTTAAATTTAAATAAAATAAT-AA
1 TTTAAATTTAAATAAAATAATAAA
**
65485608 TTTAAAAATAAATAAAATAATAAA
1 TTTAAATTTAAATAAAATAATAAA
*
65485632 ATTACATATTTAAATAA
1 TTTA-A-ATTTAAATAA
65485649 TACAATTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 19 0.58
24 5 0.15
25 1 0.03
26 8 0.24
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
TTTAAATTTAAATAAAATAATAAA
Found at i:65485622 original size:18 final size:17
Alignment explanation
Indices: 65485589--65485622 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
65485579 TTTATTTTTA
*
65485589 AATTTAAATAAAATAAT
1 AATTTAAAAAAAATAAT
65485606 AATTTAAAAATAAATAA
1 AATTTAAAAA-AAATAA
65485623 AATAATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AATTTAAAAAAAATAAT
Found at i:65485631 original size:12 final size:12
Alignment explanation
Indices: 65485593--65485631 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
65485583 TTTTTAAATT
65485593 TAAATAAAATAA
1 TAAATAAAATAA
* *
65485605 TAATTTAAA-AA
1 TAAATAAAATAA
65485616 TAAATAAAATAA
1 TAAATAAAATAA
65485628 TAAA
1 TAAA
65485632 ATTACATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TAAATAAAATAA
Found at i:65508163 original size:13 final size:13
Alignment explanation
Indices: 65508098--65508163 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
65508088 AGTTCTTCAT
65508098 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
65508111 TGTTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
65508124 TACTGTGGAAAAG
1 TGCTTTTGAAAAG
*
65508137 TACTTTT-AAGAAG
1 TGCTTTTGAA-AAG
65508150 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
65508163 T
1 T
65508164 TTGGTTTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
12 2 0.05
13 39 0.91
14 2 0.05
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:65509224 original size:21 final size:20
Alignment explanation
Indices: 65509184--65509226 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
65509174 TTTGAAAATC
*
65509184 AAAATAATAAAAATATATTA
1 AAAATAATAAAAATAAATTA
65509204 AAAATTAA-AAAAATTAAATTA
1 AAAA-TAATAAAAA-TAAATTA
65509225 AA
1 AA
65509227 CTTTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAATAATAAAAATAAATTA
Found at i:65510071 original size:101 final size:100
Alignment explanation
Indices: 65509950--65510150 Score: 393
Period size: 100 Copynumber: 2.0 Consensus size: 100
65509940 CAAAATGGCA
65509950 ACAAAACAGTGGCAAAACAACACCAAAATAGTGGAAATAATAGTAGGTTTTTTTTTTTTATTATT
1 ACAAAACAGTGGCAAAACAACACCAAAATAGTGGAAATAATAGTAGG-TTTTTTTTTTTATTATT
65510015 TGAGTTGGGCCGGGCAAAAAAAAGCTTACCTGATGC
65 TGAGTTGGGCCGGGCAAAAAAAAGCTTACCTGATGC
65510051 ACAAAACAGTGGCAAAACAACACCAAAATAGTGGAAATAATAGTAGGTTTTTTTTTTTATTATTT
1 ACAAAACAGTGGCAAAACAACACCAAAATAGTGGAAATAATAGTAGGTTTTTTTTTTTATTATTT
65510116 GAGTTGGGCCGGGCAAAAAAAAGCTTACCTGATGC
66 GAGTTGGGCCGGGCAAAAAAAAGCTTACCTGATGC
65510151 CCTTTCCCTT
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
100 53 0.53
101 47 0.47
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (100 bp):
ACAAAACAGTGGCAAAACAACACCAAAATAGTGGAAATAATAGTAGGTTTTTTTTTTTATTATTT
GAGTTGGGCCGGGCAAAAAAAAGCTTACCTGATGC
Found at i:65510500 original size:38 final size:37
Alignment explanation
Indices: 65510425--65510519 Score: 100
Period size: 37 Copynumber: 2.5 Consensus size: 37
65510415 AATTTTATTG
* * *
65510425 GGGTGAATTTTGGTTTTTGTTCCAACCCAGTGTCACT
1 GGGTTAATTATGGTTTTTGTTCCAACCCAGTGACACT
* ** *
65510462 GGGTTAATTGTGGTTTTTGTTTCTGACCCATTGACACT
1 GGGTTAATTATGGTTTTTG-TTCCAACCCAGTGACACT
*
65510500 GAGATTAATTATGGTTTTTG
1 G-GGTTAATTATGGTTTTTG
65510520 ATATTTGCCA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
37 17 0.35
38 15 0.31
39 16 0.33
ACGTcount: A:0.18, C:0.14, G:0.24, T:0.44
Consensus pattern (37 bp):
GGGTTAATTATGGTTTTTGTTCCAACCCAGTGACACT
Found at i:65510515 original size:39 final size:37
Alignment explanation
Indices: 65510430--65510519 Score: 99
Period size: 39 Copynumber: 2.4 Consensus size: 37
65510420 TATTGGGGTG
* * *
65510430 AATTTTGGTTTTTGTTCCAACCCAGTGTCACTGGGTT
1 AATTATGGTTTTTGTTCCAACCCAGTGACACTGGATT
* ** *
65510467 AATTGTGGTTTTTGTTTCTGACCCATTGACACTGAGATT
1 AATTATGGTTTTTG-TTCCAACCCAGTGACACTG-GATT
65510506 AATTATGGTTTTTG
1 AATTATGGTTTTTG
65510520 ATATTTGCCA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 13 0.30
38 15 0.34
39 16 0.36
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.46
Consensus pattern (37 bp):
AATTATGGTTTTTGTTCCAACCCAGTGACACTGGATT
Found at i:65511705 original size:10 final size:11
Alignment explanation
Indices: 65511689--65511738 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
65511679 TATATTTTCA
65511689 AAAAAATATAT
1 AAAAAATATAT
* *
65511700 -AAAAATTTCT
1 AAAAAATATAT
* *
65511710 AAAAAATTTCT
1 AAAAAATATAT
65511721 AAAAAATATAT
1 AAAAAATATAT
65511732 AAAAAAT
1 AAAAAAT
65511739 TTAAAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 8 0.24
11 26 0.76
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAAAATATAT
Found at i:65511714 original size:11 final size:11
Alignment explanation
Indices: 65511700--65511740 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
65511690 AAAAATATAT
65511700 AAAAATTTCTA
1 AAAAATTTCTA
65511711 AAAAATTTCTA
1 AAAAATTTCTA
* *
65511722 AAAAATATATA
1 AAAAATTTCTA
65511733 AAAAATTT
1 AAAAATTT
65511741 AAAATTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAAATTTCTA
Found at i:65511728 original size:32 final size:31
Alignment explanation
Indices: 65511684--65511744 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
65511674 AAATTTATAT
*
65511684 TTTCAAAAAAATATATAAAAATTTCTAAAAAA
1 TTTCAAAAAAATATATAAAAAATT-TAAAAAA
*
65511716 TTTCTAAAAAATATATAAAAAATTTAAAA
1 TTTCAAAAAAATATATAAAAAATTTAAAA
65511745 TTTTCTAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 5 0.19
32 22 0.81
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (31 bp):
TTTCAAAAAAATATATAAAAAATTTAAAAAA
Found at i:65511822 original size:3 final size:3
Alignment explanation
Indices: 65511814--65511842 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
65511804 ACTAAAGTAT
65511814 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
65511843 TTGCTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:65512764 original size:15 final size:17
Alignment explanation
Indices: 65512739--65512776 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
65512729 ATGTAATTTT
*
65512739 CTATTTGAACA-TACAA
1 CTATTTCAACATTACAA
65512755 -TATTTCAACATTACAA
1 CTATTTCAACATTACAA
65512771 CTATTT
1 CTATTT
65512777 TTAATCTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 9 0.47
16 5 0.26
17 5 0.26
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.39
Consensus pattern (17 bp):
CTATTTCAACATTACAA
Found at i:65513455 original size:1 final size:1
Alignment explanation
Indices: 65513449--65513506 Score: 89
Period size: 1 Copynumber: 58.0 Consensus size: 1
65513439 CCCAAGAACC
** *
65513449 AAAAAAAAAAAAAAAAAAAAAAAAACCAAAAACAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
65513507 CTATGAGTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.95, C:0.05, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:65513460 original size:34 final size:34
Alignment explanation
Indices: 65513440--65513506 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
65513430 AAGAAAAGGC
* *
65513440 CCAAGAACCAAAAAAAAAAAAAAAAAAAAAAAAA
1 CCAAAAACAAAAAAAAAAAAAAAAAAAAAAAAAA
65513474 CCAAAAACAAAAAAAAAAAAAAAAAAAAAAAAA
1 CCAAAAACAAAAAAAAAAAAAAAAAAAAAAAAA
65513507 CTATGAGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.88, C:0.10, G:0.01, T:0.00
Consensus pattern (34 bp):
CCAAAAACAAAAAAAAAAAAAAAAAAAAAAAAAA
Found at i:65513475 original size:27 final size:28
Alignment explanation
Indices: 65513445--65513501 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
65513435 AAGGCCCAAG
65513445 AACCAAAAA-AAAAAAAAAAAAAAAAAA
1 AACCAAAAACAAAAAAAAAAAAAAAAAA
65513472 AACCAAAAACAAAAAAAAAAAAAAAAAA
1 AACCAAAAACAAAAAAAAAAAAAAAAAA
65513500 AA
1 AA
65513502 AAAAACTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 9 0.31
28 20 0.69
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (28 bp):
AACCAAAAACAAAAAAAAAAAAAAAAAA
Found at i:65517439 original size:98 final size:98
Alignment explanation
Indices: 65517270--65517458 Score: 378
Period size: 98 Copynumber: 1.9 Consensus size: 98
65517260 AATTTTCTGA
65517270 ATGCGGATTGGGAAACTGCATTTACACTGTTTACAACTGCCCATATGATTTGCTGCTCTATCCTT
1 ATGCGGATTGGGAAACTGCATTTACACTGTTTACAACTGCCCATATGATTTGCTGCTCTATCCTT
65517335 TCTGGTGGAGCAGAAGGGGGGGGGGGGAACCCC
66 TCTGGTGGAGCAGAAGGGGGGGGGGGGAACCCC
65517368 ATGCGGATTGGGAAACTGCATTTACACTGTTTACAACTGCCCATATGATTTGCTGCTCTATCCTT
1 ATGCGGATTGGGAAACTGCATTTACACTGTTTACAACTGCCCATATGATTTGCTGCTCTATCCTT
65517433 TCTGGTGGAGCAGAAGGGGGGGGGGG
66 TCTGGTGGAGCAGAAGGGGGGGGGGG
65517459 AATCCCTGGT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (98 bp):
ATGCGGATTGGGAAACTGCATTTACACTGTTTACAACTGCCCATATGATTTGCTGCTCTATCCTT
TCTGGTGGAGCAGAAGGGGGGGGGGGGAACCCC
Found at i:65521246 original size:14 final size:14
Alignment explanation
Indices: 65521227--65521260 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
65521217 ATCATTTTGC
65521227 TATTATATTATTAT
1 TATTATATTATTAT
* *
65521241 TATTATATTGTTGT
1 TATTATATTATTAT
65521255 TATTAT
1 TATTAT
65521261 TTGAATATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
TATTATATTATTAT
Found at i:65525340 original size:26 final size:26
Alignment explanation
Indices: 65525303--65525376 Score: 130
Period size: 26 Copynumber: 2.8 Consensus size: 26
65525293 ATTTAACTGC
*
65525303 AACATAAGTATAAAGGTTACACCTTG
1 AACATAAGTATAAAGGTCACACCTTG
*
65525329 AACATAAATATAAAGGTCACACCTTG
1 AACATAAGTATAAAGGTCACACCTTG
65525355 AACATAAGTATAAAGGTCACAC
1 AACATAAGTATAAAGGTCACAC
65525377 ACAAGGTGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.23
Consensus pattern (26 bp):
AACATAAGTATAAAGGTCACACCTTG
Found at i:65536920 original size:21 final size:21
Alignment explanation
Indices: 65536873--65536920 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
65536863 AATTTTAAAA
* * **
65536873 TATTTTTAAAATACTTTTTTT
1 TATTTTAAAAATAATTTTTGG
65536894 TAATTTTAAAAATAATTTTTGG
1 T-ATTTTAAAAATAATTTTTGG
65536916 TATTT
1 TATTT
65536921 ATTAAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (21 bp):
TATTTTAAAAATAATTTTTGG
Found at i:65546849 original size:15 final size:15
Alignment explanation
Indices: 65546829--65546860 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
65546819 TCTTTTATTG
65546829 AATGGGGCAATTGTT
1 AATGGGGCAATTGTT
65546844 AATGGGGCAATTGTT
1 AATGGGGCAATTGTT
65546859 AA
1 AA
65546861 GGCATGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.31, T:0.31
Consensus pattern (15 bp):
AATGGGGCAATTGTT
Found at i:65554600 original size:22 final size:22
Alignment explanation
Indices: 65554572--65554623 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
65554562 GTTTTAAAAA
65554572 GAAGATGCATAGAATTGTAAGG
1 GAAGATGCATAGAATTGTAAGG
65554594 GAAGATGCATAGAATTGTAAGG
1 GAAGATGCATAGAATTGTAAGG
65554616 GAAGATGC
1 GAAGATGC
65554624 CAATAACATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.40, C:0.06, G:0.33, T:0.21
Consensus pattern (22 bp):
GAAGATGCATAGAATTGTAAGG
Found at i:65557117 original size:216 final size:216
Alignment explanation
Indices: 65556743--65557394 Score: 1205
Period size: 216 Copynumber: 3.0 Consensus size: 216
65556733 ACCAATAGAT
*
65556743 TAGAGACATCAGTTTAGGTTTCAAACATTTGATCTAAGCCATTTCATAAAATTATTTAAATTTAA
1 TAGAGACATCAGTTTAGGTTTCAGACATTTGATCTAAGCCATTTCATAAAATTATTTAAATTTAA
*
65556808 ATCTAATTAAGATTGGAAGGATAATAAAATGAATTATGCTCAACTTATACATCTATAACTAAATG
66 ATCTAATTTAGATTGGAAGGATAATAAAATGAATTATGCTCAACTTATACATCTATAACTAAATG
**
65556873 GCACAAAGTTAAAATATTAAGTCTTTTGGAAAACAGATGATAAATTAATTGTTTTATGACATGTT
131 GCACAAAGTTAAAATATTAAGTCTTTTGGAAAACAGATGATAAATTAATTGTTTTATGACATGGA
65556938 AAACAGATGACTCCTCTAAAC
196 AAACAGATGACTCCTCTAAAC
* * *
65556959 TAGAGACATTAGTTTTGGTTTCAGACATTTGATCTAAGCCGTTTCATAAAATTATTTAAATTTAA
1 TAGAGACATCAGTTTAGGTTTCAGACATTTGATCTAAGCCATTTCATAAAATTATTTAAATTTAA
65557024 ATCTAATTTAGATTGGAAGGATAATAAAATGAATTATGCTCAACTTATACATCTATAACTAAATG
66 ATCTAATTTAGATTGGAAGGATAATAAAATGAATTATGCTCAACTTATACATCTATAACTAAATG
65557089 GCACAAAGTTAAAATATTAAGTCTTTTGGAAAACAGATGATAAATTAATTGTTTTATGACATGGA
131 GCACAAAGTTAAAATATTAAGTCTTTTGGAAAACAGATGATAAATTAATTGTTTTATGACATGGA
65557154 AAACAGATGACTCCTCTAAAC
196 AAACAGATGACTCCTCTAAAC
*
65557175 TAGAGACATCAGTTTAGGTTTCAGACATTTGACCTAAGCCATTTCATAAAATTATTTAAATTTAA
1 TAGAGACATCAGTTTAGGTTTCAGACATTTGATCTAAGCCATTTCATAAAATTATTTAAATTTAA
*
65557240 ACCTAATTTAGATTGGAAGGATAATAAAATGAATTATGCTCAACTTATACATCTATAACTAAATG
66 ATCTAATTTAGATTGGAAGGATAATAAAATGAATTATGCTCAACTTATACATCTATAACTAAATG
* *
65557305 GCACAAAGTTAAAATATCAAGTCTTTTGGAGAACAGATGATAAATTAATTGTTTTATGACATGGA
131 GCACAAAGTTAAAATATTAAGTCTTTTGGAAAACAGATGATAAATTAATTGTTTTATGACATGGA
65557370 AAACAGATGACTCCTCTAAAC
196 AAACAGATGACTCCTCTAAAC
65557391 TAGA
1 TAGA
65557395 TCAGGTTCAA
Statistics
Matches: 422, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
216 422 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.34
Consensus pattern (216 bp):
TAGAGACATCAGTTTAGGTTTCAGACATTTGATCTAAGCCATTTCATAAAATTATTTAAATTTAA
ATCTAATTTAGATTGGAAGGATAATAAAATGAATTATGCTCAACTTATACATCTATAACTAAATG
GCACAAAGTTAAAATATTAAGTCTTTTGGAAAACAGATGATAAATTAATTGTTTTATGACATGGA
AAACAGATGACTCCTCTAAAC
Found at i:65559094 original size:206 final size:205
Alignment explanation
Indices: 65558736--65559145 Score: 613
Period size: 206 Copynumber: 2.0 Consensus size: 205
65558726 AAAGTGGGAG
* * *
65558736 CTTGAATTAACAATGTTTCATAAATCCAACAACCCTGACTACAAATCCACTCACAATGAAAGGAC
1 CTTGAATTAACAATGTTTCATAAATCCAACAACCCTGACTACAAACCCACCCACAATGAAAAGAC
* ** * *
65558801 ATCATAATCAAAGTAAGACCATAACATGTGAGTTTGTGAGCATCTTGATTACCAAGCAGCAATGA
66 ATCATAATCAAAGTAAAACCATAACATGCAAGTTTGTGAGAATCTTGATAACCAAGCAGCAATGA
* * * * *
65558866 AAAGTCATGTTCAGATAGAAGAGTAAAGGTTTGGAATGGTAACTAACTCTTACACCCAGACCTCG
131 AAAGTCAAGTTCAGATAGAAGAGTAAAGCTTTAGAATGGTAACCAACTCTGACACCCAGACCTCG
65558931 AACTAAGAAA
196 AACTAAGAAA
* *
65558941 CTTGAATTAACAATGTTTCATAAATCCAACTACCCTGACTACAAACCCACCCACAATGAAAAGAT
1 CTTGAATTAACAATGTTTCATAAATCCAACAACCCTGACTACAAACCCACCCACAATGAAAAGAC
* * *
65559006 ATCATAATCGAAGTAAAAATCATAACATGCAAGTTTGTGAGAATCTTGATAACCAAGCAGCTATG
66 ATCATAATCAAAGT-AAAACCATAACATGCAAGTTTGTGAGAATCTTGATAACCAAGCAGCAATG
* ** *
65559071 AAAAGTCAAGTTCAGATAGAAGAGTAATGCTTTAGAATGGTAACCAACTCTGACACCTGGGCCTC
130 AAAAGTCAAGTTCAGATAGAAGAGTAAAGCTTTAGAATGGTAACCAACTCTGACACCCAGACCTC
65559136 GAACTAAGAA
195 GAACTAAGAA
65559146 GAAACTTATT
Statistics
Matches: 182, Mismatches: 22, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
205 73 0.40
206 109 0.60
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (205 bp):
CTTGAATTAACAATGTTTCATAAATCCAACAACCCTGACTACAAACCCACCCACAATGAAAAGAC
ATCATAATCAAAGTAAAACCATAACATGCAAGTTTGTGAGAATCTTGATAACCAAGCAGCAATGA
AAAGTCAAGTTCAGATAGAAGAGTAAAGCTTTAGAATGGTAACCAACTCTGACACCCAGACCTCG
AACTAAGAAA
Found at i:65564596 original size:70 final size:71
Alignment explanation
Indices: 65564497--65564639 Score: 279
Period size: 70 Copynumber: 2.0 Consensus size: 71
65564487 TATTTTATAT
65564497 ATGAAAATATTCATACTGAGTTACAATAAATTATTTTTATATATTTATATTAAATATCATAATAT
1 ATGAAAATATTCATACTGAGTTACAATAAATTATTTTTATATATTTATATTAAATATCATAATAT
65564562 TAGCGA
66 TAGCGA
65564568 ATGAAAATATTC-TACTGAGTTACAATAAATTATTTTTATATATTTATATTAAATATCATAATAT
1 ATGAAAATATTCATACTGAGTTACAATAAATTATTTTTATATATTTATATTAAATATCATAATAT
65564632 TAGCGA
66 TAGCGA
65564638 AT
1 AT
65564640 TTGAACATCA
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 60 0.83
71 12 0.17
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (71 bp):
ATGAAAATATTCATACTGAGTTACAATAAATTATTTTTATATATTTATATTAAATATCATAATAT
TAGCGA
Found at i:65579991 original size:10 final size:10
Alignment explanation
Indices: 65579971--65580000 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
65579961 ATTAAGTTAA
65579971 TTAAGTTAAAC
1 TTAA-TTAAAC
65579982 TTAATTAAAC
1 TTAATTAAAC
65579992 TTAATTAAA
1 TTAATTAAA
65580001 TGTTAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (10 bp):
TTAATTAAAC
Found at i:65583275 original size:57 final size:59
Alignment explanation
Indices: 65583163--65583305 Score: 175
Period size: 57 Copynumber: 2.4 Consensus size: 59
65583153 AATTGACGGT
* *
65583163 AAAAAGGATCTATCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGATCC-AT-CTGATATAGCCCTCCCAAAGAATATGTG-G
65583226 AAAAAGATCTAGCCCGGACGGGTGAT-C-T-TGATATAGCCCTCCCAAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCAAAGAATATGTGG
* * *
65583282 AAAATGGATTTAGCCCAGACGGGT
1 AAAA-AGATCTAGCCCGGACGGGT
65583306 AATATGAATT
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
56 5 0.07
57 42 0.57
59 1 0.01
61 1 0.01
62 20 0.27
63 5 0.07
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (59 bp):
AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCAAAGAATATGTGG
Found at i:65584279 original size:2 final size:2
Alignment explanation
Indices: 65584272--65584296 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
65584262 AAATCTAAAA
65584272 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
65584297 ATATATATAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:65590686 original size:13 final size:13
Alignment explanation
Indices: 65590668--65590692 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65590658 ATTAAAAATA
65590668 TATTTTTATATTT
1 TATTTTTATATTT
65590681 TATTTTTATATT
1 TATTTTTATATT
65590693 AAGTCATATT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TATTTTTATATTT
Found at i:65592048 original size:17 final size:17
Alignment explanation
Indices: 65592028--65592075 Score: 96
Period size: 17 Copynumber: 2.8 Consensus size: 17
65592018 TTATAAGTAT
65592028 AATAAATTTCTTTATGA
1 AATAAATTTCTTTATGA
65592045 AATAAATTTCTTTATGA
1 AATAAATTTCTTTATGA
65592062 AATAAATTTCTTTA
1 AATAAATTTCTTTA
65592076 ATTGAATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (17 bp):
AATAAATTTCTTTATGA
Found at i:65596136 original size:39 final size:38
Alignment explanation
Indices: 65596063--65596138 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 38
65596053 AGGTTATATA
* * * *
65596063 TCATTTTTCTAATATTATATATTATGATTTTTATTAAT
1 TCATATTTCTAATATTATATATTAAGAATATTATTAAT
65596101 TCATATTT-TAATAATTATTATATTAAGAATATTATTAA
1 TCATATTTCTAAT-ATTA-TATATTAAGAATATTATTAA
65596139 ATTATACATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 4 0.12
38 11 0.34
39 17 0.53
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.55
Consensus pattern (38 bp):
TCATATTTCTAATATTATATATTAAGAATATTATTAAT
Found at i:65600259 original size:6 final size:6
Alignment explanation
Indices: 65600228--65600258 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
65600218 GCAGTCCACG
*
65600228 GAGGAA GAGGAA GAGGAA GAGGAA GGGGAA G
1 GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA G
65600259 GAGCCGACGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (6 bp):
GAGGAA
Found at i:65606974 original size:210 final size:211
Alignment explanation
Indices: 65606606--65607000 Score: 594
Period size: 210 Copynumber: 1.9 Consensus size: 211
65606596 TTCTAAGGTG
* * *
65606606 GAAAATAGCTTATTTATAGGCTAAATTCGTCGATCAAATAATACTAAAATAACCTACACTAATCA
1 GAAAAGAGCTTATTTATAGGCTAAATTCATAGATCAAATAATACTAAAATAACCTACACTAATCA
* * *
65606671 GAGTTTGATTAGGACAAATAATAAGAATTTGACTGGAAGAAGAAAATTAAGGAAATTGCATAACA
66 AAGTTTGATTAGGACAAATAATAAGAATTTGACTGGAAGAAGAAAATCAAGGAAATTACATAACA
* * * * * *
65606736 CATCACCTCGTCGGGATGTCAGCTATCGCGTCGTTGTGACAAAG-GTTTCTTCTTATTAGGATCC
131 CATCACATCATCAGGATGCCAGCTATCGCGTCATAGTGACAAAGTGTTTCTTCTTATTAGGATCC
65606800 AAGTGGTCGCATCTTC
196 AAGTGGTCGCATCTTC
* * * * * *
65606816 GAAAAGAGCTTATTTATATGCTAAATTTATAGGTCAAATAATATTAAAATAACCTATACTAATTA
1 GAAAAGAGCTTATTTATAGGCTAAATTCATAGATCAAATAATACTAAAATAACCTACACTAATCA
*
65606881 AAGTTTGATTGGGACAAATAATAAGAATTTGACTGGAAGAAGAAAATCAAGGAAATTACATAACA
66 AAGTTTGATTAGGACAAATAATAAGAATTTGACTGGAAGAAGAAAATCAAGGAAATTACATAACA
* *
65606946 CATCGCATCATCAGGATGCCAGCTATCGCGTCATAGTGACAAGGTGTTTCTTCTT
131 CATCACATCATCAGGATGCCAGCTATCGCGTCATAGTGACAAAGTGTTTCTTCTT
65607001 GTCAAGACGT
Statistics
Matches: 163, Mismatches: 21, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
210 153 0.94
211 10 0.06
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (211 bp):
GAAAAGAGCTTATTTATAGGCTAAATTCATAGATCAAATAATACTAAAATAACCTACACTAATCA
AAGTTTGATTAGGACAAATAATAAGAATTTGACTGGAAGAAGAAAATCAAGGAAATTACATAACA
CATCACATCATCAGGATGCCAGCTATCGCGTCATAGTGACAAAGTGTTTCTTCTTATTAGGATCC
AAGTGGTCGCATCTTC
Found at i:65609042 original size:51 final size:50
Alignment explanation
Indices: 65608951--65609091 Score: 124
Period size: 51 Copynumber: 2.8 Consensus size: 50
65608941 CTATATAAAT
* * * * *
65608951 GTTGTCAGGATGTGTAAATTTTATAGGT-TAAATTTATTAAACCAAGATCTA
1 GTTGACAGAATGTGTAAA-TTTA-AAGTCTAAATTTGTTAAACCAAGATCAA
* **
65609002 GTTGACAGAATGTGTAAATGTTAAAGTCTAAACTTGTTAAATTAAGATCAA
1 GTTGACAGAATGTGTAAAT-TTAAAGTCTAAATTTGTTAAACCAAGATCAA
* **
65609053 ATTGATTGAATGTGTAAACTTTAAGAG-CTAAATTTGTTA
1 GTTGACAGAATGTGTAAA-TTTAA-AGTCTAAATTTGTTA
65609092 TTATACTAAT
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
50 4 0.05
51 67 0.91
52 3 0.04
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (50 bp):
GTTGACAGAATGTGTAAATTTAAAGTCTAAATTTGTTAAACCAAGATCAA
Found at i:65613102 original size:13 final size:13
Alignment explanation
Indices: 65613084--65613157 Score: 76
Period size: 13 Copynumber: 5.5 Consensus size: 13
65613074 ACTCAAATTT
*
65613084 TCAAAAGTACTCC
1 TCAAAAGCACTCC
*
65613097 TCAAAAGCACTTC
1 TCAAAAGCACTCC
65613110 TCAAAAGCACTTTTCC
1 TCAAAAGCAC---TCC
*
65613126 TCAAAAGCACTTC
1 TCAAAAGCACTCC
* *
65613139 TCAAAAGTACTCT
1 TCAAAAGCACTCC
65613152 TCAAAA
1 TCAAAA
65613158 ACAATGAAGA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
13 39 0.76
16 12 0.24
ACGTcount: A:0.39, C:0.28, G:0.07, T:0.26
Consensus pattern (13 bp):
TCAAAAGCACTCC
Found at i:65613130 original size:16 final size:16
Alignment explanation
Indices: 65613094--65613137 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
65613084 TCAAAAGTAC
65613094 TCCTCAAAAGCAC--T
1 TCCTCAAAAGCACTTT
65613108 T-CTCAAAAGCACTTT
1 TCCTCAAAAGCACTTT
65613123 TCCTCAAAAGCACTT
1 TCCTCAAAAGCACTT
65613138 CTCAAAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 11 0.41
14 1 0.04
15 2 0.07
16 13 0.48
ACGTcount: A:0.34, C:0.32, G:0.07, T:0.27
Consensus pattern (16 bp):
TCCTCAAAAGCACTTT
Found at i:65619958 original size:30 final size:29
Alignment explanation
Indices: 65619922--65619983 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
65619912 AGTGAACTGA
*
65619922 GTTGCTCACACAAGTTGAAATTACATCAAG
1 GTTGCTCACACAAGCTGAAATTACATC-AG
* *
65619952 GTTGCTCATACAAGCTGAAATTATATCAG
1 GTTGCTCACACAAGCTGAAATTACATCAG
65619981 GTT
1 GTT
65619984 ACCCGTCCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 5 0.17
30 24 0.83
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (29 bp):
GTTGCTCACACAAGCTGAAATTACATCAG
Found at i:65624467 original size:29 final size:29
Alignment explanation
Indices: 65624398--65624475 Score: 93
Period size: 30 Copynumber: 2.7 Consensus size: 29
65624388 ATCTCGACAC
* * *
65624398 CCATATCTTTAAGTTTCCAATATTTGGTA
1 CCATATCTTTGACTTTCCAATATTTGATA
* * *
65624427 CTCATATATTTGACTTTCTATTATTTGATA
1 C-CATATCTTTGACTTTCCAATATTTGATA
65624457 CCATATCTTTGACTTTCCA
1 CCATATCTTTGACTTTCCA
65624476 TAAATATGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 17 0.43
30 23 0.57
ACGTcount: A:0.26, C:0.19, G:0.08, T:0.47
Consensus pattern (29 bp):
CCATATCTTTGACTTTCCAATATTTGATA
Found at i:65634575 original size:20 final size:20
Alignment explanation
Indices: 65634550--65634587 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
65634540 AAAAAATTAA
65634550 AAATCCAAAAATCCAAATTC
1 AAATCCAAAAATCCAAATTC
* *
65634570 AAATCCATAAATTCAAAT
1 AAATCCAAAAATCCAAAT
65634588 AATATACACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (20 bp):
AAATCCAAAAATCCAAATTC
Found at i:65638211 original size:5 final size:5
Alignment explanation
Indices: 65638203--65638227 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
65638193 AAATATACTC
65638203 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
65638228 CCCTATTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:65641983 original size:30 final size:30
Alignment explanation
Indices: 65641948--65642015 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
65641938 GAGAAGAATG
* *
65641948 AAAAATGACAGCTCCGTTAAGTTTGTAACA
1 AAAAATGACAACTCCGTTAAGTCTGTAACA
* *
65641978 AAAAATGACAACTCCGTTACGTCTGTGACA
1 AAAAATGACAACTCCGTTAAGTCTGTAACA
65642008 AAAAATGA
1 AAAAATGA
65642016 TTAGTGTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.24
Consensus pattern (30 bp):
AAAAATGACAACTCCGTTAAGTCTGTAACA
Found at i:65645356 original size:30 final size:31
Alignment explanation
Indices: 65645322--65645394 Score: 94
Period size: 30 Copynumber: 2.3 Consensus size: 31
65645312 CGGGAGGGCG
*
65645322 AACTGCAGGTATTGGAGCAATA-GGTGGCAC
1 AACTGCAGGTAGTGGAGCAATATGGTGGCAC
* *
65645352 AACTGCCGGTAGTGGAGCAATAGTTGGTGGTAC
1 AACTGCAGGTAGTGGAGCAATA--TGGTGGCAC
65645385 AACTGCAGGT
1 AACTGCAGGT
65645395 GGGACCGCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 20 0.56
33 16 0.44
ACGTcount: A:0.27, C:0.16, G:0.34, T:0.22
Consensus pattern (31 bp):
AACTGCAGGTAGTGGAGCAATATGGTGGCAC
Found at i:65649688 original size:29 final size:29
Alignment explanation
Indices: 65649648--65649747 Score: 123
Period size: 29 Copynumber: 3.4 Consensus size: 29
65649638 TTTTGGAGAA
* * *
65649648 TTTCAGGTTTTAGCTAAAGAGTTTTGTTC
1 TTTCAGGATTTAGCCAAAGAGCTTTGTTC
65649677 TTTCAGGATTTAGCCAAA-ATGCTTTGTTC
1 TTTCAGGATTTAGCCAAAGA-GCTTTGTTC
* *
65649706 TTTCGGGATTTAGCCAAAGTGCTTTGTTC
1 TTTCAGGATTTAGCCAAAGAGCTTTGTTC
65649735 TTTC-GAGATTTAG
1 TTTCAG-GATTTAG
65649748 GGTTGTTTGT
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
28 2 0.03
29 61 0.97
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.44
Consensus pattern (29 bp):
TTTCAGGATTTAGCCAAAGAGCTTTGTTC
Found at i:65653814 original size:17 final size:17
Alignment explanation
Indices: 65653792--65653825 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
65653782 TTAGAATTGG
*
65653792 ATTGAGAAATTTATTTA
1 ATTGAGAAATTGATTTA
65653809 ATTGAGAAATTGATTTA
1 ATTGAGAAATTGATTTA
65653826 TTTAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (17 bp):
ATTGAGAAATTGATTTA
Found at i:65656567 original size:21 final size:21
Alignment explanation
Indices: 65656541--65656583 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
65656531 AGAACACGCC
65656541 AACAGAAGCTCAAAAGAGCTG
1 AACAGAAGCTCAAAAGAGCTG
**
65656562 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCAAAAGAGCTG
65656583 A
1 A
65656584 TCCACCAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.19, G:0.26, T:0.12
Consensus pattern (21 bp):
AACAGAAGCTCAAAAGAGCTG
Found at i:65657282 original size:21 final size:21
Alignment explanation
Indices: 65657258--65657297 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
65657248 ACTTTTAAAT
65657258 ATCAACCAACATCTAAAATTA
1 ATCAACCAACATCTAAAATTA
***
65657279 ATCATTTAACATCTAAAAT
1 ATCAACCAACATCTAAAAT
65657298 CACAAGGTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (21 bp):
ATCAACCAACATCTAAAATTA
Found at i:65660197 original size:15 final size:15
Alignment explanation
Indices: 65660179--65660208 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65660169 TATATTTAAA
*
65660179 TTAAATATATAAAAT
1 TTAAATAGATAAAAT
65660194 TTAAATAGATAAAAT
1 TTAAATAGATAAAAT
65660209 CATAACAAGT
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:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (15 bp):
TTAAATAGATAAAAT
Found at i:65669409 original size:28 final size:28
Alignment explanation
Indices: 65669347--65669410 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
65669337 TTTTTTATAT
*
65669347 TTTGTTT-TTCTTTATTTACTTTTTCAG
1 TTTGTTTATCCTTTATTTACTTTTTCAG
* * *
65669374 TTTTTTTATCCTTTATTTGCTTTATTTA-
1 TTTGTTTATCCTTTATTTACTTT-TTCAG
65669402 TTTGTTTAT
1 TTTGTTTAT
65669411 TATTGGCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 6 0.20
28 21 0.70
29 3 0.10
ACGTcount: A:0.12, C:0.09, G:0.06, T:0.72
Consensus pattern (28 bp):
TTTGTTTATCCTTTATTTACTTTTTCAG
Found at i:65669474 original size:45 final size:51
Alignment explanation
Indices: 65669427--65669535 Score: 131
Period size: 46 Copynumber: 2.2 Consensus size: 51
65669417 CTTTATAATA
*
65669427 TTTTAAATATTTTAA-ATATTGTTT-T-TT-TAAAA-ATTT-AAATATATAT
1 TTTTAAATATTTAAACATATT-TTTATATTATAAAACATTTAAAATATATAT
*
65669473 TTTTAAAAATTTAAACATATTTTTAATATTATAAAACATTTAAAATATATTAT
1 TTTTAAATATTTAAACATATTTTT-ATATTATAAAACATTTAAAATATA-TAT
65669526 TTTTAAATAT
1 TTTTAAATAT
65669536 ATGACCTTTC
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
46 16 0.31
47 5 0.10
48 1 0.02
49 2 0.04
50 5 0.10
51 4 0.08
52 7 0.13
53 12 0.23
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (51 bp):
TTTTAAATATTTAAACATATTTTTATATTATAAAACATTTAAAATATATAT
Found at i:65669475 original size:23 final size:22
Alignment explanation
Indices: 65669427--65669496 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
65669417 CTTTATAATA
* *
65669427 TTTTAAATATTTTAAATATTGTTT
1 TTTTAAA-AATTTAAATA-TATTT
*
65669451 TTTTAAAAATTTAAATATATAT
1 TTTTAAAAATTTAAATATATTT
*
65669473 TTTTAAAAATTTAAACATATTT
1 TTTTAAAAATTTAAATATATTT
65669495 TT
1 TT
65669497 AATATTATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
22 25 0.61
23 9 0.22
24 7 0.17
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (22 bp):
TTTTAAAAATTTAAATATATTT
Found at i:65669617 original size:16 final size:16
Alignment explanation
Indices: 65669596--65669634 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
65669586 TAAAATTTTT
*
65669596 AATTATTATTTTTTAA
1 AATTATTATCTTTTAA
65669612 AATTATTATCTTTTAA
1 AATTATTATCTTTTAA
65669628 AATTATT
1 AATTATT
65669635 TTTAAAGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
AATTATTATCTTTTAA
Found at i:65670263 original size:23 final size:22
Alignment explanation
Indices: 65670196--65670263 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
65670186 TTAATGTATA
* * * *
65670196 TTTTAAAAATTTTAAAAATTAT
1 TTTTAAAGATATTCAAAATTTT
**
65670218 TTTTAAAGATATTCAAACGTTT
1 TTTTAAAGATATTCAAAATTTT
* *
65670240 TTTTAAACTATATTTAAAATTTT
1 TTTTAAA-GATATTCAAAATTTT
65670263 T
1 T
65670264 AAAAAATAGT
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
22 23 0.66
23 12 0.34
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.51
Consensus pattern (22 bp):
TTTTAAAGATATTCAAAATTTT
Found at i:65670311 original size:15 final size:15
Alignment explanation
Indices: 65670291--65670322 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
65670281 TTGGTGGATT
65670291 CATTTAGAATGACTC
1 CATTTAGAATGACTC
*
65670306 CATTTAGAATGGCTC
1 CATTTAGAATGACTC
65670321 CA
1 CA
65670323 CCACTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (15 bp):
CATTTAGAATGACTC
Found at i:65680877 original size:26 final size:27
Alignment explanation
Indices: 65680830--65680882 Score: 99
Period size: 26 Copynumber: 2.0 Consensus size: 27
65680820 AGTGCGTTTG
65680830 GTTCGCTGTATTGGATTAGAGGTGTAT
1 GTTCGCTGTATTGGATTAGAGGTGTAT
65680857 GTTCGCTGTA-TGGATTAGAGGTGTAT
1 GTTCGCTGTATTGGATTAGAGGTGTAT
65680883 TGGATTAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.19, C:0.08, G:0.34, T:0.40
Consensus pattern (27 bp):
GTTCGCTGTATTGGATTAGAGGTGTAT
Found at i:65680905 original size:33 final size:33
Alignment explanation
Indices: 65680868--65680930 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
65680858 TTCGCTGTAT
65680868 GGATTAGAGGTGTATTGGATTAGAGGTGTATTG
1 GGATTAGAGGTGTATTGGATTAGAGGTGTATTG
65680901 GGATTAGAGGTGTATTGGATTAGAGGTGTA
1 GGATTAGAGGTGTATTGGATTAGAGGTGTA
65680931 ATAGCTAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.00, G:0.40, T:0.35
Consensus pattern (33 bp):
GGATTAGAGGTGTATTGGATTAGAGGTGTATTG
Found at i:65680906 original size:17 final size:16
Alignment explanation
Indices: 65680836--65680930 Score: 121
Period size: 16 Copynumber: 6.2 Consensus size: 16
65680826 TTTGGTTCGC
65680836 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
65680852 TGTA-T-G-TT--CGC
1 TGTATTGGATTAGAGG
65680863 TGTA-TGGATTAGAGG
1 TGTATTGGATTAGAGG
65680878 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
65680894 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
65680911 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
65680927 TGTA
1 TGTA
65680931 ATAGCTAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
11 6 0.09
12 1 0.01
13 4 0.06
14 1 0.01
15 6 0.09
16 35 0.51
17 16 0.23
ACGTcount: A:0.23, C:0.02, G:0.37, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:65690791 original size:20 final size:20
Alignment explanation
Indices: 65690748--65690792 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
65690738 AAAAATGTTC
**
65690748 AAAATAATTTCCAAAATTTT
1 AAAATAATTTCCAAAATTCA
**
65690768 AAAATAATTTTTAAAATTCA
1 AAAATAATTTCCAAAATTCA
65690788 AAAAT
1 AAAAT
65690793 TTATATTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATAATTTCCAAAATTCA
Found at i:65692889 original size:19 final size:21
Alignment explanation
Indices: 65692852--65692891 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
65692842 GGAGAGTTTG
65692852 CTTTGCCTTCCTCTAGATTTC
1 CTTTGCCTTCCTCTAGATTTC
*
65692873 CTTTG-CTT-CTCTTGATTTC
1 CTTTGCCTTCCTCTAGATTTC
65692892 GTCAAATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 3 0.17
21 5 0.28
ACGTcount: A:0.07, C:0.30, G:0.10, T:0.53
Consensus pattern (21 bp):
CTTTGCCTTCCTCTAGATTTC
Found at i:65700086 original size:28 final size:28
Alignment explanation
Indices: 65700054--65700181 Score: 125
Period size: 28 Copynumber: 4.6 Consensus size: 28
65700044 TATTTGTAAA
* * * *
65700054 ATAGTCTTGATAGATTTTCACTTATAAG
1 ATAGTCCTGATAGACTTCCACATATAAG
*
65700082 ATAGTCCTGATGGACTTCCACATATAAG
1 ATAGTCCTGATAGACTTCCACATATAAG
** *
65700110 ATAGTCCTGACGGAC-TCCACATATAAA
1 ATAGTCCTGATAGACTTCCACATATAAG
* * *
65700137 ATAGTCTTGA-CGAACTTCCACATGTAAG
1 ATAGTCCTGATAG-ACTTCCACATATAAG
*
65700165 ATAGTCCTGACAGACTT
1 ATAGTCCTGATAGACTT
65700182 ATCAACTAAA
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 22 0.26
28 60 0.71
29 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (28 bp):
ATAGTCCTGATAGACTTCCACATATAAG
Found at i:65700140 original size:27 final size:28
Alignment explanation
Indices: 65700076--65700181 Score: 151
Period size: 28 Copynumber: 3.8 Consensus size: 28
65700066 GATTTTCACT
*
65700076 TATAAGATAGTCCTGATGGACTTCCACA
1 TATAAGATAGTCCTGACGGACTTCCACA
65700104 TATAAGATAGTCCTGACGGAC-TCCACA
1 TATAAGATAGTCCTGACGGACTTCCACA
* * *
65700131 TATAAAATAGTCTTGACGAACTTCCACA
1 TATAAGATAGTCCTGACGGACTTCCACA
* *
65700159 TGTAAGATAGTCCTGACAGACTT
1 TATAAGATAGTCCTGACGGACTT
65700182 ATCAACTAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 24 0.35
28 44 0.65
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (28 bp):
TATAAGATAGTCCTGACGGACTTCCACA
Found at i:65700142 original size:55 final size:55
Alignment explanation
Indices: 65700076--65700180 Score: 156
Period size: 55 Copynumber: 1.9 Consensus size: 55
65700066 GATTTTCACT
* * * *
65700076 TATAAGATAGTCCTGATGGACTTCCACATATAAGATAGTCCTGACGGACTCCACA
1 TATAAAATAGTCCTGACGAACTTCCACATATAAGATAGTCCTGACAGACTCCACA
* *
65700131 TATAAAATAGTCTTGACGAACTTCCACATGTAAGATAGTCCTGACAGACT
1 TATAAAATAGTCCTGACGAACTTCCACATATAAGATAGTCCTGACAGACT
65700181 TATCAACTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (55 bp):
TATAAAATAGTCCTGACGAACTTCCACATATAAGATAGTCCTGACAGACTCCACA
Found at i:65713224 original size:107 final size:106
Alignment explanation
Indices: 65712863--65713227 Score: 540
Period size: 102 Copynumber: 3.5 Consensus size: 106
65712853 AATTTGGGTG
* * *
65712863 TTGGTCTGTCAATGGCCGGCACCAGAATACGAAAAAAGCAAAAAAAAATATTGGGGTGGCCTGAC
1 TTGGTCTGTCAATGGCCGGCACCAGTATACGAAAAAAGTAAAAAAAAAT-TTTGGGTGGCCTGAC
* **
65712928 AATGGTCGGCACCCTTTTTCTACAATATTTTTTTTTTTTACTT
65 AATGGCCGGCACCCCCTTTCTACAAT-TTTTTTTTTTTTACTT
* * *
65712971 TTGGTGTGTCAATGGCCGGCACCAGTATAAGAAAAAAGTAAAAAAAAA--TTGGGTGGCCTGGCA
1 TTGGTCTGTCAATGGCCGGCACCAGTATACGAAAAAAGTAAAAAAAAATTTTGGGTGGCCTGACA
65713034 ATGGCCGGCACCCCCTTTCTACAA--TTTTTTTTTTTACTT
66 ATGGCCGGCACCCCCTTTCTACAATTTTTTTTTTTTTACTT
* *
65713073 TTGGTGTGTCAATGGCCGGCACCAGTATACGAAAAAAGTAAAAAAAAATTTTGGGTGGCCTGCCA
1 TTGGTCTGTCAATGGCCGGCACCAGTATACGAAAAAAGTAAAAAAAAATTTTGGGTGGCCTGACA
*
65713138 ATGGCCGGCACCCCCTTTGTACAATTTTTTTTTTTTTTACTT
66 ATGGCCGGCACCCCCTTTCTACAA-TTTTTTTTTTTTTACTT
* **
65713180 TTAGTCTGTCAATGGTTGGCACCAGTATACGAAAAAAGTAAAAAAAAA
1 TTGGTCTGTCAATGGCCGGCACCAGTATACGAAAAAAGTAAAAAAAAA
65713228 ATAATTGTAC
Statistics
Matches: 236, Mismatches: 16, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
102 62 0.26
104 37 0.16
105 34 0.14
107 59 0.25
108 44 0.19
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (106 bp):
TTGGTCTGTCAATGGCCGGCACCAGTATACGAAAAAAGTAAAAAAAAATTTTGGGTGGCCTGACA
ATGGCCGGCACCCCCTTTCTACAATTTTTTTTTTTTTACTT
Found at i:65713643 original size:110 final size:108
Alignment explanation
Indices: 65713251--65713572 Score: 391
Period size: 110 Copynumber: 2.9 Consensus size: 108
65713241 GGAAGTATAC
* * *
65713251 AAAAAAAAATTAATTGTACAAAGGGGATGCCGGCCATTGCCAGGCCA-CCC-AAATTTTTTTTTT
1 AAAAAAAAATTTATTATAGAAAGGGG-TGCCGGCCATTGCCAGGCCACCCCAAAATTTTTTTTTT
* *
65713314 TACTTTTTTCGTATAT-TGGTGCCGGGTTGTCGGTCATTGACACACCCAAAAGT
65 TACTTTTTTCGTAT-TCTGGTGCC--G--G-C---CATTGACACA-CTAAAAGA
* * * *
65713367 AAAAAAAAA-TTATTGTAGAAAAGGGGTGCCAGCCATTGCCAAGCCACCCCCAAATTTTTTTTTT
1 AAAAAAAAATTTATTATAG-AAAGGGGTGCCGGCCATTGCCAGGCCACCCCAAAATTTTTTTTTT
65713431 TACTTTTTTCGTATTCTGGTGCCGGCCATTGACACACTAAAAGTA
65 TACTTTTTTCGTATTCTGGTGCCGGCCATTGACACACTAAAAG-A
* *
65713476 AAAAAAAAATTTATTGTAGAAAGGGGGTGCCGGCCATTGCCAGGCCACCCAAAAATTTTTTTTTT
1 AAAAAAAAATTTATTATAGAAA-GGGGTGCCGGCCATTGCCAGGCCACCCCAAAATTTTTTTTTT
65713541 TACTTTTTTCGTATTCTGGTGCCGGCCATTGA
65 TACTTTTTTCGTATTCTGGTGCCGGCCATTGA
65713573 TAGACTAACA
Statistics
Matches: 189, Mismatches: 10, Indels: 20
0.86 0.05 0.09
Matches are distributed among these distances:
108 6 0.03
109 22 0.12
110 79 0.42
112 1 0.01
113 1 0.01
115 26 0.14
116 20 0.11
117 34 0.18
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (108 bp):
AAAAAAAAATTTATTATAGAAAGGGGTGCCGGCCATTGCCAGGCCACCCCAAAATTTTTTTTTTT
ACTTTTTTCGTATTCTGGTGCCGGCCATTGACACACTAAAAGA
Found at i:65721243 original size:25 final size:24
Alignment explanation
Indices: 65721214--65721268 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 24
65721204 ATTAAAACTT
65721214 TAATATCTATGAA-TATAATAAGAAA
1 TAATATCTAT-AATTATAATAA-AAA
65721239 TAATATCTATAATTATAATAAAAA
1 TAATATCTATAATTATAATAAAAA
65721263 TAATAT
1 TAATAT
65721269 TTTAAATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (24 bp):
TAATATCTATAATTATAATAAAAA
Found at i:65729922 original size:38 final size:38
Alignment explanation
Indices: 65729880--65729952 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
65729870 AATTATAATA
* *
65729880 TTAATTTTAGTTTTTTAGTTTTA-TATATATAAAAACTT
1 TTAATTTT-GATTTTAAGTTTTATTATATATAAAAACTT
*
65729918 TTAATTTTGATTTTAATTTTTATTATATATAAAAA
1 TTAATTTTGATTTTAAGTTTTATTATATATAAAAA
65729953 TACAAAAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 11 0.35
38 20 0.65
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (38 bp):
TTAATTTTGATTTTAAGTTTTATTATATATAAAAACTT
Found at i:65733449 original size:24 final size:24
Alignment explanation
Indices: 65733422--65733468 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
65733412 ATTGAAATGG
65733422 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
65733446 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
65733469 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:65733687 original size:40 final size:38
Alignment explanation
Indices: 65733627--65733761 Score: 116
Period size: 40 Copynumber: 3.5 Consensus size: 38
65733617 ATTCGAGTTT
* * *
65733627 ATGAGACATTGGGTGTCAATTTACTACTTCGGATTAATTCG
1 ATGAGGCACTGGGTGCCAA-TTA-TACTTCGGATTAA-TCG
* *
65733668 ATGAGGCACT-GGTGCCAATT-TACTTCGGTTTAACCG
1 ATGAGGCACTGGGTGCCAATTATACTTCGGATTAATCG
* * *
65733704 ATGAGACACTGGGTGTCAAATTATTACTTCGAATT-ATCTG
1 ATGAGGCACTGGGTG-CCAATTA-TACTTCGGATTAATC-G
65733744 AT-AGGCACTGGGTGCCAA
1 ATGAGGCACTGGGTGCCAA
65733762 ACTGGTGTGT
Statistics
Matches: 77, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
36 11 0.14
37 16 0.21
38 8 0.10
39 15 0.19
40 19 0.25
41 8 0.10
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (38 bp):
ATGAGGCACTGGGTGCCAATTATACTTCGGATTAATCG
Found at i:65737310 original size:40 final size:40
Alignment explanation
Indices: 65737266--65737485 Score: 320
Period size: 40 Copynumber: 5.5 Consensus size: 40
65737256 ATTGTTTGAT
*
65737266 TGCACATACGTGCCCCTGTTTGTACTTCAGTATCCCTGAA
1 TGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTGAA
65737306 TGCACATACGTGCCCCTGTTTGTACTTC-GATACCCC-GAA
1 TGCACATACGTGCCCCTGTTTGTACTTCAG-TACCCCTGAA
* * * *
65737345 TGCACATACATGCCCTTGTTTATACTTCGGTACCCCT-AA
1 TGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTGAA
*
65737384 TTGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTGAT
1 -TGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTGAA
* * *
65737425 TGCACACATGTGCCCCTGTTTGTACTTCAGTACCCCTGAG
1 TGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTGAA
65737465 TGCACATACGTGCCCCTGTTT
1 TGCACATACGTGCCCCTGTTT
65737486 ATTCTCTGGT
Statistics
Matches: 161, Mismatches: 14, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 37 0.23
40 123 0.76
41 1 0.01
ACGTcount: A:0.19, C:0.32, G:0.17, T:0.32
Consensus pattern (40 bp):
TGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTGAA
Found at i:65737397 original size:79 final size:79
Alignment explanation
Indices: 65737266--65737485 Score: 309
Period size: 79 Copynumber: 2.8 Consensus size: 79
65737256 ATTGTTTGAT
*
65737266 TGCACATACGTGCCCCTGTTTGTACTTCAGTATCCCTGAATGCACATACGTGCCCCTGTTTGTAC
1 TGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCT-AATGCACATACGTGCCCCTGTTTGTAC
65737331 TTC-GATACCCC-GAA
65 TTCAG-TACCCCTGAA
* * * *
65737345 TGCACATACATGCCCTTGTTTATACTTCGGTACCCCTAATTGCACATACGTGCCCCTGTTTGTAC
1 TGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTAA-TGCACATACGTGCCCCTGTTTGTAC
*
65737410 TTCAGTACCCCTGAT
65 TTCAGTACCCCTGAA
* * *
65737425 TGCACACATGTGCCCCTGTTTGTACTTCAGTACCCCTGAGTGCACATACGTGCCCCTGTTT
1 TGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCT-AATGCACATACGTGCCCCTGTTT
65737486 ATTCTCTGGT
Statistics
Matches: 124, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
78 2 0.02
79 66 0.53
80 55 0.44
81 1 0.01
ACGTcount: A:0.19, C:0.32, G:0.17, T:0.32
Consensus pattern (79 bp):
TGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTAATGCACATACGTGCCCCTGTTTGTACT
TCAGTACCCCTGAA
Found at i:65737420 original size:20 final size:20
Alignment explanation
Indices: 65737397--65737462 Score: 80
Period size: 20 Copynumber: 3.3 Consensus size: 20
65737387 CACATACGTG
65737397 CCCCTGTTTGTACTTCAGTA
1 CCCCTGTTTGTACTTCAGTA
* * * *
65737417 CCCCTGATTGCAC-ACATGTG
1 CCCCTGTTTGTACTTCA-GTA
65737437 CCCCTGTTTGTACTTCAGTA
1 CCCCTGTTTGTACTTCAGTA
65737457 CCCCTG
1 CCCCTG
65737463 AGTGCACATA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.06
20 32 0.89
21 2 0.06
ACGTcount: A:0.15, C:0.35, G:0.17, T:0.33
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCAGTA
Found at i:65740436 original size:44 final size:43
Alignment explanation
Indices: 65740295--65740453 Score: 139
Period size: 44 Copynumber: 3.7 Consensus size: 43
65740285 AGCTCGTATA
* **
65740295 ATGCCAACGTCCCAGACGTGGTCTT--ACATGTATTCAAATAACG
1 ATGCCAACGTCCCAGACATGGTCTTACACATAAATTC-AAT-ACG
* * * *
65740338 ATGCC-ACTGTCCCGGACAAGGTTTTACAC-GAAA-TCATATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACATAAATTCA-ATACG
* * *
65740380 ATGCCTATGTCCCAGACATGGTCTTACACATAAATCTCAATTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACATAAAT-TCAATACG
*
65740424 ATGCCAACGTCCCAGACGTGGTCTTACACA
1 ATGCCAACGTCCCAGACATGGTCTTACACA
65740454 ATATCACATA
Statistics
Matches: 92, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
42 29 0.32
43 26 0.28
44 32 0.35
45 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACATAAATTCAATACG
Found at i:65751605 original size:4 final size:4
Alignment explanation
Indices: 65751596--65751622 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
65751586 TGTGTTTTGA
65751596 ATTG ATTG ATTG ATTG ATTG ATTG ATT
1 ATTG ATTG ATTG ATTG ATTG ATTG ATT
65751623 TTCTTTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
ATTG
Found at i:65755280 original size:5 final size:6
Alignment explanation
Indices: 65755265--65755290 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
65755255 GATGCTGTCT
65755265 TTTTTA TTTTTA TTTTTA TTTTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TT
65755291 AGGATCTGGG
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:65759873 original size:16 final size:16
Alignment explanation
Indices: 65759852--65759896 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
65759842 AAATTTAAAC
65759852 ATTTTATTAAAATAAT
1 ATTTTATTAAAATAAT
*
65759868 ATTTTAAGTAAAATAAT
1 ATTTT-ATTAAAATAAT
65759885 -TTTTATTTAAAA
1 ATTTTA-TTAAAA
65759897 AATTAATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 1 0.04
16 14 0.56
17 10 0.40
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATTTTATTAAAATAAT
Found at i:65759943 original size:16 final size:15
Alignment explanation
Indices: 65759908--65759949 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
65759898 ATTAATATGC
65759908 TATTTAA-AAAAAAT
1 TATTTAATAAAAAAT
65759922 TAATTTAATAAAAAAT
1 T-ATTTAATAAAAAAT
*
65759938 ATATTTCATAAA
1 -TATTTAATAAA
65759950 TATGATTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.04
15 6 0.25
16 16 0.67
17 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (15 bp):
TATTTAATAAAAAAT
Found at i:65760239 original size:7 final size:7
Alignment explanation
Indices: 65760219--65760251 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
65760209 TCTCTTTATT
65760219 ATATTTA
1 ATATTTA
65760226 A-ATTTA
1 ATATTTA
65760232 ATATTTA
1 ATATTTA
65760239 ATATTTA
1 ATATTTA
65760246 ATATTT
1 ATATTT
65760252 TATTTTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATATTTA
Found at i:65780014 original size:11 final size:11
Alignment explanation
Indices: 65779998--65780024 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
65779988 AGATTTTTTG
65779998 TGTGTATTTAT
1 TGTGTATTTAT
65780009 TGTGTATTTAT
1 TGTGTATTTAT
65780020 TGTGT
1 TGTGT
65780025 GATCAAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.22, T:0.63
Consensus pattern (11 bp):
TGTGTATTTAT
Found at i:65783186 original size:117 final size:117
Alignment explanation
Indices: 65782980--65783204 Score: 441
Period size: 117 Copynumber: 1.9 Consensus size: 117
65782970 TATAAACTGA
65782980 GCTGTAAATATTTTTAAAAATATTTACGGAGTGTCATTAAGGTAGTATTAAAGTTTCGTTAGAAA
1 GCTGTAAATATTTTTAAAAATATTTACGGAGTGTCATTAAGGTAGTATTAAAGTTTCGTTAGAAA
65783045 ATTTTAACGTTTTGATAGTTAATTAAGTAAAAAGAACTAAATTTTTATAAAC
66 ATTTTAACGTTTTGATAGTTAATTAAGTAAAAAGAACTAAATTTTTATAAAC
*
65783097 GCTGTAAATATTTTTATAAATATTTACGGAGTGTCATTAAGGTAGTATTAAAGTTTCGTTAGAAA
1 GCTGTAAATATTTTTAAAAATATTTACGGAGTGTCATTAAGGTAGTATTAAAGTTTCGTTAGAAA
65783162 ATTTTAACGTTTTGATAGTTAATTAAGTAAAAAGAACTAAATT
66 ATTTTAACGTTTTGATAGTTAATTAAGTAAAAAGAACTAAATT
65783205 GAAAAAGCTG
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
117 107 1.00
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.40
Consensus pattern (117 bp):
GCTGTAAATATTTTTAAAAATATTTACGGAGTGTCATTAAGGTAGTATTAAAGTTTCGTTAGAAA
ATTTTAACGTTTTGATAGTTAATTAAGTAAAAAGAACTAAATTTTTATAAAC
Found at i:65784344 original size:41 final size:42
Alignment explanation
Indices: 65784282--65784372 Score: 123
Period size: 41 Copynumber: 2.2 Consensus size: 42
65784272 TCGTGTTTAC
65784282 TTTCCGTTTAGCTCTCATGAGCTTCA-GTTAACTCA-TATGAG
1 TTTCCGTTTAGCTCTCATGAGCTTCACGTTAAC-CATTATGAG
** * *
65784323 TTTCCGTTTAGCTCTTTTGAGCTTCACTTTAACCATTATGGG
1 TTTCCGTTTAGCTCTCATGAGCTTCACGTTAACCATTATGAG
65784365 TTTCCGTT
1 TTTCCGTT
65784373 CAACCCTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
41 26 0.59
42 18 0.41
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (42 bp):
TTTCCGTTTAGCTCTCATGAGCTTCACGTTAACCATTATGAG
Found at i:65787629 original size:9 final size:9
Alignment explanation
Indices: 65787611--65787659 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
65787601 TTTGGGTTAA
65787611 AATTAACCG
1 AATTAACCG
*
65787620 AATTACCCG
1 AATTAACCG
65787629 AATTAACCG
1 AATTAACCG
*
65787638 AATTACCCG
1 AATTAACCG
*
65787647 AATTAACCA
1 AATTAACCG
65787656 AATT
1 AATT
65787660 GAATCACTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:65787634 original size:18 final size:18
Alignment explanation
Indices: 65787611--65787659 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
65787601 TTTGGGTTAA
65787611 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
65787629 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
*
65787647 AATTAACCAAATT
1 AATTAACCGAATT
65787660 GAATCACTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.24
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:65793181 original size:21 final size:21
Alignment explanation
Indices: 65793129--65793194 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
65793119 ATCAAACTAA
* *
65793129 TATAGTTTTTAGATTATTTTAA
1 TATAATTTTTAGATTA-TTTAT
* *
65793151 AATAACTTTTAGATTATTTAT
1 TATAATTTTTAGATTATTTAT
*
65793172 TTTAATTTTTAGATT-TTTAT
1 TATAATTTTTAGATTATTTAT
65793192 TAT
1 TAT
65793195 TTTGATTTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
20 7 0.19
21 16 0.44
22 13 0.36
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.61
Consensus pattern (21 bp):
TATAATTTTTAGATTATTTAT
Found at i:65795410 original size:21 final size:21
Alignment explanation
Indices: 65795370--65795436 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
65795360 AATTAAATAA
** *
65795370 TAAATACTAAAACCCTAAACTT
1 TAAATACT-AAATTCTAAACCT
65795392 TAAATACTAAATTCTAAACCT
1 TAAATACTAAATTCTAAACCT
*
65795413 TAAAT-CTAAGATT-TAAACCC
1 TAAATACTAA-ATTCTAAACCT
65795433 TAAA
1 TAAA
65795437 GCTGAGATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
20 14 0.35
21 18 0.45
22 8 0.20
ACGTcount: A:0.49, C:0.19, G:0.01, T:0.30
Consensus pattern (21 bp):
TAAATACTAAATTCTAAACCT
Found at i:65795429 original size:20 final size:20
Alignment explanation
Indices: 65795385--65795447 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
65795375 ACTAAAACCC
*
65795385 TAAACTTTAAATACTAA-ATT
1 TAAACCTTAAAT-CTAAGATT
65795405 CTAAACCTTAAATCTAAGATT
1 -TAAACCTTAAATCTAAGATT
* * *
65795426 TAAACCCTAAAGCTGAGATT
1 TAAACCTTAAATCTAAGATT
65795446 TA
1 TA
65795448 TTAATATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 23 0.62
21 14 0.38
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.33
Consensus pattern (20 bp):
TAAACCTTAAATCTAAGATT
Found at i:65796072 original size:5 final size:5
Alignment explanation
Indices: 65796051--65796095 Score: 72
Period size: 5 Copynumber: 8.8 Consensus size: 5
65796041 TCGGTCACGC
*
65796051 TTCTT TTCATC TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCT
1 TTCTT TTC-TT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCT
65796096 CTGACACTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 33 0.89
6 4 0.11
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (5 bp):
TTCTT
Found at i:65799189 original size:27 final size:27
Alignment explanation
Indices: 65799159--65799213 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
65799149 TGGTTCATTT
*
65799159 GTAGTTTTATGAAGAGTATTAAATGCC
1 GTAGTTTTATGAAGAGCATTAAATGCC
65799186 GTAGTTTTATGAAGAGCATTAAATGCC
1 GTAGTTTTATGAAGAGCATTAAATGCC
65799213 G
1 G
65799214 GAGTACCCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.35
Consensus pattern (27 bp):
GTAGTTTTATGAAGAGCATTAAATGCC
Found at i:65801089 original size:41 final size:41
Alignment explanation
Indices: 65801044--65801133 Score: 144
Period size: 41 Copynumber: 2.2 Consensus size: 41
65801034 CTGTTTGGCG
* *
65801044 TCACCAATGTCAGAATTTTGGTGGTGCCAAATAGATTGACA
1 TCACCAATGTCAGAATTTTGATGGTGCAAAATAGATTGACA
* *
65801085 TCACCAATGTCAGAATTTTGATGGTGTAAAATAGATTGACG
1 TCACCAATGTCAGAATTTTGATGGTGCAAAATAGATTGACA
65801126 TCACCAAT
1 TCACCAAT
65801134 CCTCAATCCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (41 bp):
TCACCAATGTCAGAATTTTGATGGTGCAAAATAGATTGACA
Found at i:65801270 original size:41 final size:41
Alignment explanation
Indices: 65801181--65801270 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 41
65801171 TTAAAATGAT
* *
65801181 TTTTTATTTGGTGGTGCCAACGTCTTTGGCATCACCACTATG
1 TTTTT-TTTGGTGGTGCCAACGACATTGGCATCACCACTATG
** * *
65801223 AATTTTTTGGTGGTGCC-ACTGACATTGGCATCATCACTGTG
1 TTTTTTTTGGTGGTGCCAAC-GACATTGGCATCACCACTATG
65801264 TTTTTTT
1 TTTTTTT
65801271 CTGTTAATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
40 2 0.05
41 34 0.87
42 3 0.08
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (41 bp):
TTTTTTTTGGTGGTGCCAACGACATTGGCATCACCACTATG
Found at i:65802355 original size:35 final size:35
Alignment explanation
Indices: 65802316--65802399 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 35
65802306 GAAGGATAAG
* * *
65802316 GAAAAAAGAAAGTGTGGGAAAAA-ATGAATAAGAAA
1 GAAAAAAAAAAGTG-GAGAAAAACACGAATAAGAAA
*
65802351 GAAAAAAAAAAGTGGAGAAAAACTGACGAATGAGAAA
1 GAAAAAAAAAAGTGGAGAAAAAC--ACGAATAAGAAA
65802388 GAAAAAAAAAAG
1 GAAAAAAAAAAG
65802400 AAAGTGGGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
34 7 0.17
35 13 0.31
37 22 0.52
ACGTcount: A:0.65, C:0.02, G:0.24, T:0.08
Consensus pattern (35 bp):
GAAAAAAAAAAGTGGAGAAAAACACGAATAAGAAA
Found at i:65813317 original size:29 final size:29
Alignment explanation
Indices: 65813257--65813325 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
65813247 TTATATAAAT
*
65813257 AATATTTATCTTTATGATTATTAAATATTA
1 AATATTTAT-TTTATGATTATTAAAGATTA
65813287 AATATTTATTTTATGATAATATT-AAGA-TA
1 AATATTTATTTTATGAT--TATTAAAGATTA
65813316 AATA-TTATTT
1 AATATTTATTT
65813326 ATCTTTAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
28 6 0.17
29 14 0.39
30 12 0.33
31 4 0.11
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (29 bp):
AATATTTATTTTATGATTATTAAAGATTA
Found at i:65815939 original size:5 final size:5
Alignment explanation
Indices: 65815931--65815957 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
65815921 AATAATTATA
65815931 ATTGT ATTGT ATTGT ATTGT ATTGT AT
1 ATTGT ATTGT ATTGT ATTGT ATTGT AT
65815958 GACATCTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.59
Consensus pattern (5 bp):
ATTGT
Found at i:65821352 original size:24 final size:24
Alignment explanation
Indices: 65821320--65821389 Score: 131
Period size: 24 Copynumber: 2.9 Consensus size: 24
65821310 AACGTCCCTC
65821320 CTTCAGCACCTGGCTTTCCTGGCT
1 CTTCAGCACCTGGCTTTCCTGGCT
65821344 CTTCAGCACCTGGCTTTCCTGGCT
1 CTTCAGCACCTGGCTTTCCTGGCT
*
65821368 CTTCAGCATCTGGCTTTCCTGG
1 CTTCAGCACCTGGCTTTCCTGG
65821390 TTCCTTCCCT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.09, C:0.36, G:0.21, T:0.34
Consensus pattern (24 bp):
CTTCAGCACCTGGCTTTCCTGGCT
Found at i:65824098 original size:14 final size:15
Alignment explanation
Indices: 65824071--65824101 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
65824061 CACACTAACA
65824071 AATTTAACAAATCTG
1 AATTTAACAAATCTG
65824086 AATTTAA-AAATCTG
1 AATTTAACAAATCTG
65824100 AA
1 AA
65824102 AAATAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.32
Consensus pattern (15 bp):
AATTTAACAAATCTG
Found at i:65825108 original size:24 final size:24
Alignment explanation
Indices: 65825081--65825128 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
65825071 GGTTGAGTCG
* *
65825081 TTGGCA-ATGTTGGTATCGTTGGCA
1 TTGGCAGAT-TTGGGATCGCTGGCA
65825105 TTGGCAGATTTGGGATCGCTGGCA
1 TTGGCAGATTTGGGATCGCTGGCA
65825129 ATGGAGGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.17, C:0.15, G:0.35, T:0.33
Consensus pattern (24 bp):
TTGGCAGATTTGGGATCGCTGGCA
Found at i:65839434 original size:35 final size:35
Alignment explanation
Indices: 65839395--65839463 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
65839385 GACTTCCATG
*
65839395 GATTGAGTTAACGGAACCGAACCAATCAACAAAAC
1 GATTGAGTTAAAGGAACCGAACCAATCAACAAAAC
65839430 GATTGAGTTAAAGGAACCGAACCAATCAACAAAA
1 GATTGAGTTAAAGGAACCGAACCAATCAACAAAA
65839464 AAGGAAAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.48, C:0.20, G:0.17, T:0.14
Consensus pattern (35 bp):
GATTGAGTTAAAGGAACCGAACCAATCAACAAAAC
Found at i:65841371 original size:19 final size:19
Alignment explanation
Indices: 65841349--65841385 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
65841339 CATTCAATAG
*
65841349 AAACCAAAAAGTTCAACAA
1 AAACCAAAAACTTCAACAA
*
65841368 AAACCCAAAACTTCAACA
1 AAACCAAAAACTTCAACA
65841386 GAAATAGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.27, G:0.03, T:0.11
Consensus pattern (19 bp):
AAACCAAAAACTTCAACAA
Found at i:65852906 original size:17 final size:17
Alignment explanation
Indices: 65852884--65852944 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
65852874 GACAAGTTGG
65852884 CTAATTTGGGGAAGTTA
1 CTAATTTGGGGAAGTTA
****
65852901 CTAATTATGGACCTTGTTA
1 CTAATT-TGG-GGAAGTTA
65852920 TCTAATTTGGGGAAGTTA
1 -CTAATTTGGGGAAGTTA
65852938 CTAATTT
1 CTAATTT
65852945 TAGGAAGAGA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 13 0.39
18 7 0.21
19 7 0.21
20 6 0.18
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (17 bp):
CTAATTTGGGGAAGTTA
Found at i:65854984 original size:19 final size:19
Alignment explanation
Indices: 65854937--65855032 Score: 111
Period size: 19 Copynumber: 4.8 Consensus size: 19
65854927 AAATTAAATC
*
65854937 TCTAAGATTACAAAATCATATA
1 TCTAAGATTAC-ATATC--ATA
65854959 TTCTAAGATTACATATCATA
1 -TCTAAGATTACATATCATA
65854979 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
* *
65854998 TCTAGGATTGCATATCATA
1 TCTAAGATTACATATCATA
* *
65855017 TCTAATATTGCATATC
1 TCTAAGATTACATATC
65855033 CTCAAAATTA
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
19 50 0.74
20 3 0.04
22 4 0.06
23 11 0.16
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:65865699 original size:20 final size:20
Alignment explanation
Indices: 65865674--65865711 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
65865664 GGAGCAATTG
*
65865674 AATCAATTTGATTAAAATCA
1 AATCAAATTGATTAAAATCA
65865694 AATCAAATTGATTAAAAT
1 AATCAAATTGATTAAAAT
65865712 TATCTCCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (20 bp):
AATCAAATTGATTAAAATCA
Found at i:65869120 original size:28 final size:28
Alignment explanation
Indices: 65869084--65869141 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
65869074 ATGTAAAACA
65869084 ATAAACATGCTCATCATGTTTCTAGTTC
1 ATAAACATGCTCATCATGTTTCTAGTTC
*
65869112 ATAAGCATGCTCATCATGTTTCTAGTTC
1 ATAAACATGCTCATCATGTTTCTAGTTC
65869140 AT
1 AT
65869142 CAGTAGCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.40
Consensus pattern (28 bp):
ATAAACATGCTCATCATGTTTCTAGTTC
Found at i:65884715 original size:32 final size:31
Alignment explanation
Indices: 65884670--65884765 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
65884660 CTTAGATAAT
65884670 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
65884701 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
65884733 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
65884764 TT
1 TT
65884766 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:65901732 original size:38 final size:38
Alignment explanation
Indices: 65901676--65901749 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
65901666 TGTTAAGTAT
* *
65901676 GACTTCTATTTTCAGTCAAATTTGAGAAATAAACTTAC
1 GACTCCTATTTTCAGTCAAATTTAAGAAATAAACTTAC
65901714 GACTCCTATTTTCAGTCAAATTTAAGAAATAAACTT
1 GACTCCTATTTTCAGTCAAATTTAAGAAATAAACTT
65901750 TTATTTAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (38 bp):
GACTCCTATTTTCAGTCAAATTTAAGAAATAAACTTAC
Found at i:65905818 original size:14 final size:15
Alignment explanation
Indices: 65905794--65905823 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
65905784 CTATTTCCCA
65905794 AAATATTATTTATTT
1 AAATATTATTTATTT
65905809 AAAT-TTATTTATTT
1 AAATATTATTTATTT
65905823 A
1 A
65905824 TTTATTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AAATATTATTTATTT
Found at i:65907922 original size:21 final size:21
Alignment explanation
Indices: 65907882--65907922 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
65907872 TCGTGATTTA
*
65907882 AAAAGTTATTCCTTTTAAAAG
1 AAAAGTTATTCCTTTCAAAAG
65907903 AAAAGTTATTACC-TTCAAAA
1 AAAAGTTATT-CCTTTCAAAA
65907923 CCTTGTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (21 bp):
AAAAGTTATTCCTTTCAAAAG
Found at i:65908551 original size:27 final size:27
Alignment explanation
Indices: 65908504--65908557 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
65908494 CAGTAACAGA
* * *
65908504 ACAGAACAATGTGGGCTTTAGCCCAAT
1 ACAGAACAAGGTAGGCCTTAGCCCAAT
65908531 ACAGAACAAGGTAGGCCTTAGCCCAAT
1 ACAGAACAAGGTAGGCCTTAGCCCAAT
65908558 GCCATATCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (27 bp):
ACAGAACAAGGTAGGCCTTAGCCCAAT
Found at i:65908758 original size:23 final size:25
Alignment explanation
Indices: 65908728--65908779 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
65908718 TAGCCCTACA
65908728 CAGTAAT-ATTA-CAGCAAAGATGC
1 CAGTAATAATTACCAGCAAAGATGC
*
65908751 CAGTAATAATTACGCAGCAAAGCTGC
1 CAGTAATAATTAC-CAGCAAAGATGC
65908777 CAG
1 CAG
65908780 AACAGTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 7 0.28
24 4 0.16
26 14 0.56
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (25 bp):
CAGTAATAATTACCAGCAAAGATGC
Found at i:65909117 original size:27 final size:27
Alignment explanation
Indices: 65909047--65909167 Score: 93
Period size: 27 Copynumber: 4.5 Consensus size: 27
65909037 GATATTTTGG
* * *
65909047 TAATTTTGCAAATTCAGGGTACTTTAG-
1 TAATTTTGCAAATTGAGGGCA-TTTCGA
** *
65909074 TAATTTCACAAATTGAGGGGATTTCGA
1 TAATTTTGCAAATTGAGGGCATTTCGA
* *
65909101 TAATTTTGCAAACTGAGGGCAATTCGA
1 TAATTTTGCAAATTGAGGGCATTTCGA
* * * *
65909128 TAATTTTACAAGTCGAGGGTATTTC-A
1 TAATTTTGCAAATTGAGGGCATTTCGA
*
65909154 GTAATTTTGTAAAT
1 -TAATTTTGCAAAT
65909168 CGAAGTATTC
Statistics
Matches: 73, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
26 5 0.07
27 68 0.93
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (27 bp):
TAATTTTGCAAATTGAGGGCATTTCGA
Found at i:65909272 original size:63 final size:63
Alignment explanation
Indices: 65909173--65909292 Score: 188
Period size: 63 Copynumber: 1.9 Consensus size: 63
65909163 TAAATCGAAG
*
65909173 TATTCTAAACAGAGATAACAGTGCGAATTGGACTAAGGCCCATTCTCGGCCCAAATGAGCCCA
1 TATTCTAAACAGAGATAACAGTGCGAATTGGACTAAGGCCCATTCTCGACCCAAATGAGCCCA
* * *
65909236 TATTCTAAACAGAGATAA-TGATGCGAATTGGCCTAAGGCCCATTCTCGACCTAAATG
1 TATTCTAAACAGAGATAACAG-TGCGAATTGGACTAAGGCCCATTCTCGACCCAAATG
65909293 GGCTCACACC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
62 1 0.02
63 51 0.98
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (63 bp):
TATTCTAAACAGAGATAACAGTGCGAATTGGACTAAGGCCCATTCTCGACCCAAATGAGCCCA
Found at i:65912664 original size:23 final size:25
Alignment explanation
Indices: 65912634--65912679 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
65912624 TATAGAGATA
*
65912634 ATGAATAA-C-ATTTGTTTATTTCT
1 ATGAATAATCAATTTGATTATTTCT
65912657 ATGAATAATCAATTTGATTATTT
1 ATGAATAATCAATTTGATTATTT
65912680 TAGTAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 1 0.05
25 11 0.55
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.50
Consensus pattern (25 bp):
ATGAATAATCAATTTGATTATTTCT
Found at i:65918164 original size:63 final size:63
Alignment explanation
Indices: 65918113--65918236 Score: 167
Period size: 63 Copynumber: 2.0 Consensus size: 63
65918103 TACATGGTTT
* *
65918113 GGACACACGTCCGTGTCCCTAGCCCGTGTGGCTCTAATTCATAAAAAGTGAGTAACACGGTGG
1 GGACAAACGCCCGTGTCCCTAGCCCGTGTGGCTCTAATTCATAAAAAGTGAGTAACACGGTGG
* ** * ** *
65918176 GGAGAAACGCCCGTGTCCCTAGCTTGTGTGTCTCTAATTCATAACCAGTGAGTTACACGGT
1 GGACAAACGCCCGTGTCCCTAGCCCGTGTGGCTCTAATTCATAAAAAGTGAGTAACACGGT
65918237 CTACCACATG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (63 bp):
GGACAAACGCCCGTGTCCCTAGCCCGTGTGGCTCTAATTCATAAAAAGTGAGTAACACGGTGG
Found at i:65918254 original size:12 final size:12
Alignment explanation
Indices: 65918237--65918262 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
65918227 GTTACACGGT
65918237 CTACCACATGGC
1 CTACCACATGGC
65918249 CTACCACATGGC
1 CTACCACATGGC
65918261 CT
1 CT
65918263 GGCGCACGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.42, G:0.15, T:0.19
Consensus pattern (12 bp):
CTACCACATGGC
Found at i:65923197 original size:30 final size:31
Alignment explanation
Indices: 65923158--65923217 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
65923148 GGAGGTGGGA
*
65923158 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
65923189 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
65923218 TAAAAGGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:65923541 original size:18 final size:18
Alignment explanation
Indices: 65923515--65923552 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
65923505 AAAATTCGAG
*
65923515 TTAATTCGAATAACTAGA
1 TTAACTCGAATAACTAGA
*
65923533 TTAACTCGAATAACTCGA
1 TTAACTCGAATAACTAGA
65923551 TT
1 TT
65923553 CGTTTAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (18 bp):
TTAACTCGAATAACTAGA
Found at i:65933527 original size:24 final size:23
Alignment explanation
Indices: 65933467--65933528 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
65933457 TCAATCTATA
* *
65933467 ATTTCATTCCATTCCATTTATAT
1 ATTTCATTTCATTCCATTTACAT
*
65933490 GTTTCATTTCCATTCCATTTAACAT
1 ATTTCATTT-CATTCCATTT-ACAT
*
65933515 ATTTTATTTCATTC
1 ATTTCATTTCATTC
65933529 TTAATATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
23 7 0.22
24 15 0.47
25 10 0.31
ACGTcount: A:0.24, C:0.21, G:0.02, T:0.53
Consensus pattern (23 bp):
ATTTCATTTCATTCCATTTACAT
Found at i:65936703 original size:173 final size:174
Alignment explanation
Indices: 65936403--65936749 Score: 687
Period size: 173 Copynumber: 2.0 Consensus size: 174
65936393 ATTTATTGTA
65936403 TGTTATTTTTAAGTTAACATTTGTATCCTAAATATGTAGTTTTCACACACATATACATATATTAG
1 TGTTATTTTTAAGTTAACATTTGTATCCTAAATATGTAGTTTTCACACACATATACATATATTAG
65936468 AAATTCTAATTCTAATTTATTTTTTTATATATTTCCTAAAGTTAACAGTCTAACTTCTAATACCA
66 AAATTCTAATTCTAATTTATTTTTTTATATATTTCCTAAAGTTAACAGTCTAACTTCTAATACCA
65936533 ATTCAGTCATAACTTTCGTAGTATAGATTATATCGGTATATTCG
131 ATTCAGTCATAACTTTCGTAGTATAGATTATATCGGTATATTCG
65936577 TGTTATTTTT-AGTTAACATTTGTATCCTAAATATGTAGTTTTCACACACATATACATATATTAG
1 TGTTATTTTTAAGTTAACATTTGTATCCTAAATATGTAGTTTTCACACACATATACATATATTAG
65936641 AAATTCTAATTCTAATTTATTTTTTTATATATTTCCTAAAGTTAACAGTCTAACTTCTAATACCA
66 AAATTCTAATTCTAATTTATTTTTTTATATATTTCCTAAAGTTAACAGTCTAACTTCTAATACCA
65936706 ATTCAGTCATAACTTTCGTAGTATAGATTATATCGGTATATTCG
131 ATTCAGTCATAACTTTCGTAGTATAGATTATATCGGTATATTCG
65936750 AAAGATGGTA
Statistics
Matches: 173, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
173 163 0.94
174 10 0.06
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (174 bp):
TGTTATTTTTAAGTTAACATTTGTATCCTAAATATGTAGTTTTCACACACATATACATATATTAG
AAATTCTAATTCTAATTTATTTTTTTATATATTTCCTAAAGTTAACAGTCTAACTTCTAATACCA
ATTCAGTCATAACTTTCGTAGTATAGATTATATCGGTATATTCG
Found at i:65940026 original size:7 final size:7
Alignment explanation
Indices: 65940014--65940038 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
65940004 TTCGAGTTTA
65940014 GGCTTTG
1 GGCTTTG
65940021 GGCTTTG
1 GGCTTTG
65940028 GGCTTTG
1 GGCTTTG
65940035 GGCT
1 GGCT
65940039 CGGGGTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.16, G:0.44, T:0.40
Consensus pattern (7 bp):
GGCTTTG
Found at i:65943007 original size:28 final size:28
Alignment explanation
Indices: 65942959--65943028 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
65942949 TATATGTAAA
65942959 TTCAATGATACATGAAACATTTTAAAATT
1 TTCAATGATA-ATGAAACATTTTAAAATT
65942988 TTCAATGATAATGAAACATTTTAAAATT
1 TTCAATGATAATGAAACATTTTAAAATT
*
65943016 TTAAAT-ATAATGA
1 TTCAATGATAATGA
65943029 TAAATTATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 7 0.17
28 23 0.57
29 10 0.25
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (28 bp):
TTCAATGATAATGAAACATTTTAAAATT
Found at i:65943132 original size:33 final size:33
Alignment explanation
Indices: 65943071--65943133 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
65943061 ATTAAAAAAT
* * * **
65943071 AATATTTTAATATAATGATATATGAAATATTTA
1 AATAATTTAATATAATAATACACAAAATATTTA
65943104 AATAATTTAATATAATAATACACAAAATAT
1 AATAATTTAATATAATAATACACAAAATAT
65943134 AAATTAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (33 bp):
AATAATTTAATATAATAATACACAAAATATTTA
Done.