Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009580.1 Hibiscus syriacus cultivar Beakdansim tig00116954_pilon, whole genome shotgun sequence
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: 1633873
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 4 of 6
Found at i:702972 original size:51 final size:53
Alignment explanation
Indices: 702903--703044 Score: 198
Period size: 53 Copynumber: 2.7 Consensus size: 53
702893 AGCGGGTTCA
* * * * *
702903 CTCCATCTTGCTTTAGGGAGTAGAACTCGAACAGTCTTCTG-CT-GGGGGTCG
1 CTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGAGGTCG
*
702954 CTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGAGTTCG
1 CTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGAGGTCG
* *
703007 CTCCCTCTTGCTTCAGGGAGTAAAACTAGAACAATCTT
1 CTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTT
703045 ATGGTGTGAT
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 38 0.47
52 2 0.02
53 41 0.51
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.29
Consensus pattern (53 bp):
CTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGAGGTCG
Found at i:703039 original size:53 final size:51
Alignment explanation
Indices: 702898--703044 Score: 195
Period size: 51 Copynumber: 2.8 Consensus size: 51
702888 TGATTAGCGG
* * * * * *
702898 GTTCACTCCATCTTGCTTTAGGGAGTAGAACTCGAACAGTCTTCTGCTGGG
1 GTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCTCGA
*
702949 GGTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGA
1 GTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTG-CT-CGA
* *
703002 GTTCGCTCCCTCTTGCTTCAGGGAGTAAAACTAGAACAATCTT
1 GTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTT
703045 ATGGTGTGAT
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 41 0.49
52 2 0.02
53 41 0.49
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (51 bp):
GTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCTCGA
Found at i:703573 original size:114 final size:118
Alignment explanation
Indices: 703416--703686 Score: 342
Period size: 114 Copynumber: 2.3 Consensus size: 118
703406 TAAAATGGCC
* * ** * *
703416 CGAAGGACTT-ATCATCTTGCTCG-AAGACTTAC--AAAGACCGAAGGATTTCATCATCATGCTC
1 CGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTC
***
703477 AAAAGACTTACTGATGGATTTGCTT-CTACTCTTTGGT-AAGGCTTAC-AATT
66 AAAAGACTTACTGATGGATTTGCTTACTACTCTTCCATGAAGGCTTACAAATT
703527 -GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTC
1 CGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTC
* *
703591 GAAAGACTTACTGATGGGTTTGCTTCACTACTCTTCCATGAAGGCTTACAAATT
66 AAAAGACTTACTGATGGATTTGCTT-ACTACTCTTCCATGAAGGCTTACAAATT
*
703645 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTATTGATG
1 ---CGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
703687 ACACTTACTG
Statistics
Matches: 136, Mismatches: 12, Indels: 13
0.84 0.07 0.08
Matches are distributed among these distances:
110 8 0.06
111 12 0.09
112 9 0.07
114 48 0.35
116 9 0.07
117 9 0.07
118 4 0.03
122 37 0.27
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (118 bp):
CGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTC
AAAAGACTTACTGATGGATTTGCTTACTACTCTTCCATGAAGGCTTACAAATT
Found at i:703586 original size:42 final size:42
Alignment explanation
Indices: 703527--703607 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
703517 GCTTACAATT
*
703527 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCC
1 GAAGGACTTAATCATCATGCTCGAAAGACTTACTGATGGCCC
*
703569 GAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGG
1 GAAGGACTTAATCATCATGCTCGAAAGACTTACTGATGG
703608 GTTTGCTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (42 bp):
GAAGGACTTAATCATCATGCTCGAAAGACTTACTGATGGCCC
Found at i:703598 original size:22 final size:21
Alignment explanation
Indices: 703537--703600 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 21
703527 GAAGGATTTA
703537 ATCATCATGCTCGAAAGACTT
1 ATCATCATGCTCGAAAGACTT
* * *
703558 A-C-TGATGGCCCGAAGGACTT
1 ATCATCAT-GCTCGAAAGACTT
703578 CATCATCATGCTCGAAAGACTT
1 -ATCATCATGCTCGAAAGACTT
703600 A
1 A
703601 CTGATGGGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
19 3 0.09
20 12 0.36
21 3 0.09
22 12 0.36
23 3 0.09
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (21 bp):
ATCATCATGCTCGAAAGACTT
Found at i:703755 original size:93 final size:93
Alignment explanation
Indices: 703596--703779 Score: 332
Period size: 93 Copynumber: 2.0 Consensus size: 93
703586 TGCTCGAAAG
703596 ACTTACTGATGGGTTTGCTTCACTACTCTTCCATGAAGGCTTACAAATTACCCGAAGGATTTAAT
1 ACTTACTGATGGGTTTGCTTCACTACTCTTCCATGAAGGCTTACAAATTACCCGAAGGATTTAAT
* *
703661 CATCATGCTCGAAAGACTTATTGATGAC
66 CATCACGCTCGAAAGACTTACTGATGAC
* *
703689 ACTTACTGATGGGTTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTACCCTAAGGATTTAAT
1 ACTTACTGATGGGTTTGCTTCACTACTCTTCCATGAAGGCTTACAAATTACCCGAAGGATTTAAT
703754 CATCACGCTCGAAAGACTTACTGATG
66 CATCACGCTCGAAAGACTTACTGATG
703780 GCCGAAGGAC
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 87 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (93 bp):
ACTTACTGATGGGTTTGCTTCACTACTCTTCCATGAAGGCTTACAAATTACCCGAAGGATTTAAT
CATCACGCTCGAAAGACTTACTGATGAC
Found at i:703788 original size:41 final size:41
Alignment explanation
Indices: 703743--703822 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
703733 AAATTACCCT
*
703743 AAGGATTTAATCATCACGCTCGAAAGACTTACTGATGGCCG
1 AAGGACTTAATCATCACGCTCGAAAGACTTACTGATGGCCG
* *
703784 AAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGC
1 AAGGACTTAATCATCACGCTCGAAAGACTTACTGATGGC
703823 ACTTACTGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (41 bp):
AAGGACTTAATCATCACGCTCGAAAGACTTACTGATGGCCG
Found at i:703790 original size:19 final size:20
Alignment explanation
Indices: 703760--703822 Score: 67
Period size: 19 Copynumber: 3.1 Consensus size: 20
703750 TAATCATCAC
703760 GCTCGAAAGACTTACTGATG
1 GCTCGAAAGACTTACTGATG
* *
703780 GC-CGAAGGACTTCATCATCAT-
1 GCTCGAAAGACTT-A-C-TGATG
703801 GCTCGAAAGACTTACTGATG
1 GCTCGAAAGACTTACTGATG
703821 GC
1 GC
703823 ACTTACTGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
19 12 0.35
20 6 0.18
21 4 0.12
22 12 0.35
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (20 bp):
GCTCGAAAGACTTACTGATG
Found at i:703801 original size:134 final size:135
Alignment explanation
Indices: 703646--704083 Score: 689
Period size: 134 Copynumber: 3.3 Consensus size: 135
703636 TTACAAATTA
* * * *
703646 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTATTGATGACACTTACTGATGGGTTTGCTTCA
1 CCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGGTTTGCTTCA
*
703711 CTACTCTTCCGTGAAGGCTTACAAATTACCCTAAGGATTTAATCATCACGCTCGAAAGACTTACT
66 CTACTCTTCCGTGAAGGCTTACAAATTACCCTAAGGATTTAATCATCATGCTCGAAAGACTTACT
703776 GATGG
131 GATGG
703781 -CCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGGTTTGCTTCA
1 CCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGGTTTGCTTCA
* * *
703845 CTACTCTTCCATGAAGGCTTACAAA-TAACCGAAGGA-TT-ATCATCATGCTCGAAAGACTTACT
66 CTACTCTTCCGTGAAGGCTTACAAATTACCCTAAGGATTTAATCATCATGCTCGAAAGACTTACT
703907 GATGG
131 GATGG
* * *
703912 CCCGAAAGACTTCATCATCATGCTCGTAAGAC-TATTGATGGCACTTACTGATGGGTTTGCTTCA
1 CCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGGTTTGCTTCA
*
703976 CTACTCTT-CGTGAAGG-TTACAAATTACCCTAAGAATTTAATCATCATGCTCGAAAGACTTACT
66 CTACTCTTCCGTGAAGGCTTACAAATTACCCTAAGGATTTAATCATCATGCTCGAAAGACTTACT
704039 GATGG
131 GATGG
*
704044 CCCGAATGAC-T--TCATCATGCTCGAAAGACTTACTGATGGC
1 CCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGC
704084 CCTCGAAAGA
Statistics
Matches: 280, Mismatches: 18, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
129 24 0.09
130 24 0.09
131 70 0.25
132 69 0.25
133 9 0.03
134 84 0.30
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (135 bp):
CCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGGTTTGCTTCA
CTACTCTTCCGTGAAGGCTTACAAATTACCCTAAGGATTTAATCATCATGCTCGAAAGACTTACT
GATGG
Found at i:703812 original size:22 final size:21
Alignment explanation
Indices: 703752--703814 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
703742 TAAGGATTTA
*
703752 ATCATCACGCTCGAAAGACTT
1 ATCATCATGCTCGAAAGACTT
* *
703773 A-C-TGATGGC-CGAAGGACTT
1 ATCATCAT-GCTCGAAAGACTT
703792 CATCATCATGCTCGAAAGACTT
1 -ATCATCATGCTCGAAAGACTT
703814 A
1 A
703815 CTGATGGCAC
Statistics
Matches: 32, Mismatches: 5, Indels: 10
0.68 0.11 0.21
Matches are distributed among these distances:
19 11 0.34
20 4 0.12
21 5 0.16
22 12 0.38
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (21 bp):
ATCATCATGCTCGAAAGACTT
Found at i:703828 original size:13 final size:13
Alignment explanation
Indices: 703810--703834 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
703800 TGCTCGAAAG
703810 ACTTACTGATGGC
1 ACTTACTGATGGC
703823 ACTTACTGATGG
1 ACTTACTGATGG
703835 GTTTGCTTCA
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:0.20, G:0.24, T:0.32
Consensus pattern (13 bp):
ACTTACTGATGGC
Found at i:704073 original size:19 final size:19
Alignment explanation
Indices: 704016--704074 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
704006 AAGAATTTAA
704016 TCATCATGCTCGAAAGACT
1 TCATCATGCTCGAAAGACT
* * *
704035 T-ACTGATGGCCCGAATGACT
1 TCA-TCAT-GCTCGAAAGACT
704055 TCATCATGCTCGAAAGACT
1 TCATCATGCTCGAAAGACT
704074 T
1 T
704075 ACTGATGGCC
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 14 0.45
21 1 0.03
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (19 bp):
TCATCATGCTCGAAAGACT
Found at i:704089 original size:22 final size:21
Alignment explanation
Indices: 704024--704119 Score: 112
Period size: 20 Copynumber: 4.7 Consensus size: 21
704014 AATCATCATG
704024 CTCGAAAGACTTACTGATGGC
1 CTCGAAAGACTTACTGATGGC
* *
704045 C-CGAATGACTT-CATCAT-G-
1 CTCGAAAGACTTAC-TGATGGC
704063 CTCGAAAGACTTACTGATGGCC
1 CTCGAAAGACTTACTGATGG-C
*
704085 CTCGAAAGACTTATTGATGGC
1 CTCGAAAGACTTACTGATGGC
704106 C-CGAAAGACTTACT
1 CTCGAAAGACTTACT
704120 AAGTGGGGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
18 1 0.02
19 14 0.22
20 26 0.41
21 3 0.05
22 19 0.30
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (21 bp):
CTCGAAAGACTTACTGATGGC
Found at i:704989 original size:17 final size:18
Alignment explanation
Indices: 704967--705000 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
704957 GACTCTGCCA
704967 TGATACTCGG-TGGTTTT
1 TGATACTCGGTTGGTTTT
704984 TGATACTCGGTTGGTTT
1 TGATACTCGGTTGGTTT
705001 GCTTTACAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.12, C:0.12, G:0.29, T:0.47
Consensus pattern (18 bp):
TGATACTCGGTTGGTTTT
Found at i:714046 original size:170 final size:173
Alignment explanation
Indices: 713720--714061 Score: 604
Period size: 170 Copynumber: 2.0 Consensus size: 173
713710 GATGAGATCT
713720 ATACGAACATGGAATAAGGCCGAAGAGACCCATCGTGAAGACTCGTTCCCCAAGTAAAAACCCAA
1 ATACGAACATGGAATAAGGCCGAAGAGACCCATCGTGAAGACTCGTTCCCCAAGTAAAAACCCAA
713785 AAAACTTTTGCTTACTATGTTGGATCTATAAATTATTGAGAAATAAAAAAAAGGGTTTTTACTCT
66 AAAACTTTTGCTTAC-ATGTTGGATCTATAAATTATTGAG-AATAAAAAAAAGGGTTTTTACTCT
713850 CTCTTAGCCTCTCTGTGAGTATTGCTTAGTTCTTTATTTGCACTC
129 CTCTTAGCCTCTCTGTGAGTATTGCTTAGTTCTTTATTTGCACTC
713895 ATACGAACATGGAA-ATAGGCCGAAGAGACCCATCGTGAAGACTCGTT-CCCAAGTAAAAACCCA
1 ATACGAACATGGAATA-AGGCCGAAGAGACCCATCGTGAAGACTCGTTCCCCAAGTAAAAACCCA
*
713958 AACAACTTTTGCTTAC-TGTTGGAATCTATAAATTATTGAG-A-AAAAAAAAGGGTTTTTACTCT
65 AAAAACTTTTGCTTACATGTTGG-ATCTATAAATTATTGAGAATAAAAAAAAGGGTTTTTACTCT
714020 CTCTTAGCCTCTCTGTGAGTATTGCTTAGTTCTTTATTTGCA
129 CTCTTAGCCTCTCTGTGAGTATTGCTTAGTTCTTTATTTGCA
714062 AATAACACAA
Statistics
Matches: 164, Mismatches: 1, Indels: 9
0.94 0.01 0.05
Matches are distributed among these distances:
170 63 0.38
171 1 0.01
172 6 0.04
173 17 0.10
174 32 0.20
175 45 0.27
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (173 bp):
ATACGAACATGGAATAAGGCCGAAGAGACCCATCGTGAAGACTCGTTCCCCAAGTAAAAACCCAA
AAAACTTTTGCTTACATGTTGGATCTATAAATTATTGAGAATAAAAAAAAGGGTTTTTACTCTCT
CTTAGCCTCTCTGTGAGTATTGCTTAGTTCTTTATTTGCACTC
Found at i:717260 original size:14 final size:14
Alignment explanation
Indices: 717241--717267 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
717231 GGACACAGTG
717241 CTCCTCCACGTTGC
1 CTCCTCCACGTTGC
717255 CTCCTCCACGTTG
1 CTCCTCCACGTTG
717268 ATCAGGTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.48, G:0.15, T:0.30
Consensus pattern (14 bp):
CTCCTCCACGTTGC
Found at i:730161 original size:350 final size:346
Alignment explanation
Indices: 729627--730323 Score: 1326
Period size: 352 Copynumber: 2.0 Consensus size: 346
729617 CACAACACAA
729627 ACATATTTCAAAGTTTATTACAAGGTTTTGGTTGCAAGATAATATCAGGTCTTCAGTCGACGTTA
1 ACATATTTCAAAGTTTATTACAAGGTTTTGGTTGCAAGATAATATCAGGTCTTCAGTCGACGTTA
729692 ATCTCGAGTTGATCTTAGATAACTACTACCTCCCTCCCCTTATTTAAAAAAGATGGCATGCGGAA
66 ATCTCGAGTTGATCTTAGATAACTACTACCTCCCTCCCCTTATTTAAAAAAGATGGCATGCGGAA
729757 CTTCGAATCCGTACATATTCGTATAATTGTTTTTGAGAGGTGGCATGTAAATATGTAATAGGTCT
131 CTTCGAATCCGTACATATTCGTATAATTGTTTTTGAGAGGTGGCATGTAAATATGTAATAGGTCT
729822 AAGTTTGAATTCGCTAGA-CATGTATAGGGATGGCAATGACGTGGGG-TGGTCTTCGACCGACCC
196 AAGTTTGAATTCGCTAGACCATGTATAGGGATGGCAATGACGTGGGGCTGGTCTTCGACCGACCC
729885 GAATCCGACTTGACATTATAACAACAAAACTCAACCATGATCTCAACTCAATCCGAGTTTAAAAT
261 GAATCCGACTTGACATTATAACAACAAAACTCAACCATGATCTCAACTCAATCCGAGTTTAAAAT
729950 ATTTACATTTGCCTCGAACCC
326 ATTTACATTTGCCTCGAACCC
729971 ACATATTTCAAAGTTTATTACAAGGTTTTGGTTGCAAGATAAATATCAGGTCTTCAGTCGACGTT
1 ACATATTTCAAAGTTTATTACAAGGTTTTGGTTGCAAGAT-AATATCAGGTCTTCAGTCGACGTT
730036 AATCTCGAGTTTGATCTTTAGATAACTACTACCTCCCTCCCCTTATTTAAAAAAAGAATGGCATG
65 AATCTCGAG-TTGATC-TTAGATAACTACTACCTCCCTCCCCTTATTT-AAAAAAG-ATGGCATG
730101 CGGAACTTTCGAATCCGTACATATTCGTATAATTGTTTTTGAGAGGTGGCATGTAAATATGTAAT
126 CGGAAC-TTCGAATCCGTACATATTCGTATAATTGTTTTTGAGAGGTGGCATGTAAATATGTAAT
730166 AGGTCTAAGTTTGAATTCGCTAGACCATGTATAGGGATGGCAATGACGTGGGGCTGGTCTTCGAC
190 AGGTCTAAGTTTGAATTCGCTAGACCATGTATAGGGATGGCAATGACGTGGGGCTGGTCTTCGAC
730231 CGACCCGAATCCGACTTGACATTATAACAACAAAACTCAACCATGATCTCAACTCAATCCGAGTT
255 CGACCCGAATCCGACTTGACATTATAACAACAAAACTCAACCATGATCTCAACTCAATCCGAGTT
730296 TAAAATATTTACATTTGCCTCGAACCC
320 TAAAATATTTACATTTGCCTCGAACCC
730323 A
1 A
730324 TGATAATTTT
Statistics
Matches: 345, Mismatches: 0, Indels: 8
0.98 0.00 0.02
Matches are distributed among these distances:
344 40 0.12
345 33 0.10
346 6 0.02
347 31 0.09
348 7 0.02
349 14 0.04
350 82 0.24
351 28 0.08
352 104 0.30
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (346 bp):
ACATATTTCAAAGTTTATTACAAGGTTTTGGTTGCAAGATAATATCAGGTCTTCAGTCGACGTTA
ATCTCGAGTTGATCTTAGATAACTACTACCTCCCTCCCCTTATTTAAAAAAGATGGCATGCGGAA
CTTCGAATCCGTACATATTCGTATAATTGTTTTTGAGAGGTGGCATGTAAATATGTAATAGGTCT
AAGTTTGAATTCGCTAGACCATGTATAGGGATGGCAATGACGTGGGGCTGGTCTTCGACCGACCC
GAATCCGACTTGACATTATAACAACAAAACTCAACCATGATCTCAACTCAATCCGAGTTTAAAAT
ATTTACATTTGCCTCGAACCC
Found at i:730638 original size:2 final size:2
Alignment explanation
Indices: 730631--730659 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
730621 GCACATACTT
730631 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
730660 GTATGTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:733166 original size:30 final size:29
Alignment explanation
Indices: 733099--733189 Score: 92
Period size: 31 Copynumber: 3.0 Consensus size: 29
733089 ATGGTATTAC
* * *
733099 AAATAGTTATTAAATTTATCGAACTTTTACAA
1 AAATGGTTA-TAAATTTATC-AAATTTTA-TA
733131 AAATGGTTATAAATTTATCAAATTGTTATA
1 AAATGGTTATAAATTTATCAAATT-TTATA
* *
733161 AAATGGTCAATAAATTTATTAAATTTTAT
1 AAATGGT-TATAAATTTATCAAATTTTAT
733190 GATCATAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
30 16 0.31
31 28 0.54
32 8 0.15
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (29 bp):
AAATGGTTATAAATTTATCAAATTTTATA
Found at i:747003 original size:22 final size:23
Alignment explanation
Indices: 746978--747021 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
746968 AAAAATTCTA
*
746978 TATAAAATTTT-AAAAATAAAAT
1 TATAAAATTTTCAAAAAGAAAAT
* *
747000 TATATATTTTTCAAAAAGAAAA
1 TATAAAATTTTCAAAAAGAAAA
747022 ACACAAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
TATAAAATTTTCAAAAAGAAAAT
Found at i:758438 original size:14 final size:15
Alignment explanation
Indices: 758404--758445 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
758394 TATTGTATTA
*
758404 TATATTAAATAGTTG
1 TATATTACATAGTTG
*
758419 TATATTGCATAGTT-
1 TATATTACATAGTTG
758433 TATATTACATAGT
1 TATATTACATAGT
758446 ATAAACTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.48
Consensus pattern (15 bp):
TATATTACATAGTTG
Found at i:758727 original size:31 final size:31
Alignment explanation
Indices: 758685--758748 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
758675 GAAAAGTTAA
*
758685 AGATGAAGCATTTAT-GTTAGTTCAACTTTTT
1 AGATGAAGCATTTATAG-TAGTTCAAATTTTT
*
758716 AGATGAGGCATTTATAGTAGTTCAAATTTTT
1 AGATGAAGCATTTATAGTAGTTCAAATTTTT
758747 AG
1 AG
758749 GTGATCACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (31 bp):
AGATGAAGCATTTATAGTAGTTCAAATTTTT
Found at i:761638 original size:24 final size:26
Alignment explanation
Indices: 761611--761659 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
761601 AACTTTTACA
761611 CTGAAATT-TT-AGATTCATCTTCAT
1 CTGAAATTGTTGAGATTCATCTTCAT
*
761635 CTGAATTTGGTTGAGATTCATCTTC
1 CTGAAATT-GTTGAGATTCATCTTC
761660 GTCTTCATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
26 2 0.10
27 12 0.57
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.45
Consensus pattern (26 bp):
CTGAAATTGTTGAGATTCATCTTCAT
Found at i:767933 original size:38 final size:38
Alignment explanation
Indices: 767888--767972 Score: 143
Period size: 38 Copynumber: 2.2 Consensus size: 38
767878 AATCTAATTT
767888 TTTTAATCGTTAATCAAACTGAATTTTTTTCCGAAAAG
1 TTTTAATCGTTAATCAAACTGAATTTTTTTCCGAAAAG
* * *
767926 TTTTAATCGTTAATCTAATTGAATTTTTTTCCGAAAAT
1 TTTTAATCGTTAATCAAACTGAATTTTTTTCCGAAAAG
767964 TTTTAATCG
1 TTTTAATCG
767973 AACCAAACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (38 bp):
TTTTAATCGTTAATCAAACTGAATTTTTTTCCGAAAAG
Found at i:768239 original size:35 final size:35
Alignment explanation
Indices: 768200--768276 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 35
768190 ACTAAATTTG
*
768200 AACAAAACTTTAACTGTTAATCGACTGATTAATCA
1 AACAAAACTTTAACTGTTAATCGACTGATTAATAA
*
768235 AACAAAACTTTAATTGTTAATCGACTGATTAATAA
1 AACAAAACTTTAACTGTTAATCGACTGATTAATAA
*
768270 AAAAAAA
1 AACAAAA
768277 AACTTCGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (35 bp):
AACAAAACTTTAACTGTTAATCGACTGATTAATAA
Found at i:772588 original size:85 final size:85
Alignment explanation
Indices: 772477--772735 Score: 367
Period size: 88 Copynumber: 3.0 Consensus size: 85
772467 CAATCGTCCC
* * * * *
772477 TAGCAAGCTGACATGCACATACATACATACATGGATCCATGTGTTCCGAGTTTTTCTGATAAAAT
1 TAGCAAGCTGACATGCATACAAATACATACATGGATCCATGTGTTCTGAGTTTTTCTGACAAAAT
*
772542 GTACAAGTGAAAATGGTTGT
66 GTACAGGTGAAAATGGTTGT
* **
772562 TAGCAAGCTGACATGCATACAGATACATACGTACCCGATCCATGTGTTCTGAGTTTTTCTGACAA
1 TAGCAAGCTGACATGCATACAAATACATAC--A-TGGATCCATGTGTTCTGAGTTTTTCTGACAA
*
772627 AATGTACCGGTGAAAATGGTTGT
63 AATGTACAGGTGAAAATGGTTGT
*
772650 TAGCAAGCTGACATGCATACAAATACATACATGGATCGATGTGTTCTGAGTTTTTCTGACAAAAT
1 TAGCAAGCTGACATGCATACAAATACATACATGGATCCATGTGTTCTGAGTTTTTCTGACAAAAT
*
772715 GTA-ACGGTGAAAACGGTTGT
66 GTACA-GGTGAAAATGGTTGT
772735 T
1 T
772736 CGTAGGGACT
Statistics
Matches: 155, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
85 76 0.49
86 1 0.01
87 1 0.01
88 77 0.50
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (85 bp):
TAGCAAGCTGACATGCATACAAATACATACATGGATCCATGTGTTCTGAGTTTTTCTGACAAAAT
GTACAGGTGAAAATGGTTGT
Found at i:792666 original size:105 final size:105
Alignment explanation
Indices: 792484--793575 Score: 1815
Period size: 105 Copynumber: 10.4 Consensus size: 105
792474 AGGTTTTACC
*
792484 CAGAGCCAATTCCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
*
792549 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
792589 CAGAGCCAATTCCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
*
792654 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
792694 CAGAGCCAATTCCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
792759 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * *
792799 CAGAGCCAATTTCAACTTCATAACGAAGAACATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
*
792864 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
792904 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
792969 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
793009 CAGAGCCAATTCCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
*
793074 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
793114 CAGAGCCAATTCCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
793179 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * *
793219 CAGAGCCAATTTCAACTTCATAACGAAGAACATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
*
793284 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
793324 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
** * *
793389 ACGAAGGGACCATTGGTTGTCAACAAATAATTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAA-CATTTCTCAATTT
* * * * ** * *
793430 CGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGCTCAACTTCACA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
* * ** * * *
793495 ACGAAGGGGCGGCTGACTGTCAACAAACAATTTCCCAGTTC
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTT
* ** *
793536 CAGAACCAATTTCAACTTCACGGCGGAGGATATTGGACTC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
793576 GGAACAATAC
Statistics
Matches: 938, Mismatches: 47, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
105 803 0.86
106 135 0.14
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:795346 original size:2 final size:2
Alignment explanation
Indices: 795339--795363 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
795329 TCATTTTACT
795339 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
795364 TATTTTATCT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:795401 original size:22 final size:21
Alignment explanation
Indices: 795362--795411 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
795352 ATATATATAT
*
795362 ATTATTTTATCTTATTATTTC
1 ATTATTTTATCTTATTATCTC
* * *
795383 TTTATTTTTTTTTATTTATCTC
1 ATTATTTTATCTTA-TTATCTC
795405 ATTATTT
1 ATTATTT
795412 AGTTTTTCTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (21 bp):
ATTATTTTATCTTATTATCTC
Found at i:795417 original size:25 final size:25
Alignment explanation
Indices: 795389--795462 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
795379 TTTCTTTATT
795389 TTTTTTTATTTATCTCATTATTTAG
1 TTTTTTTATTTATCTCATTATTTAG
* *
795414 TTTTTCTA-TTA-CT-ATTATATAG
1 TTTTTTTATTTATCTCATTATTTAG
*
795436 ATTTTTTT-TTTCCTCTCA-TATTTAG
1 -TTTTTTTATTT-ATCTCATTATTTAG
795461 TT
1 TT
795463 ATTATATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
22 8 0.21
23 10 0.26
24 5 0.13
25 15 0.38
26 1 0.03
ACGTcount: A:0.20, C:0.11, G:0.04, T:0.65
Consensus pattern (25 bp):
TTTTTTTATTTATCTCATTATTTAG
Found at i:795737 original size:23 final size:26
Alignment explanation
Indices: 795700--795756 Score: 84
Period size: 24 Copynumber: 2.3 Consensus size: 26
795690 TTAGTTTTTA
795700 TTTTATTTATACTA-T-TATATATCT
1 TTTTATTTATACTATTGTATATATCT
795724 TTTTATTTAT-CTATTGTATATATCT
1 TTTTATTTATACTATTGTATATATCT
795749 TTATTATT
1 TT-TTATT
795757 ATTACCATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 3 0.10
24 11 0.37
25 11 0.37
26 5 0.17
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTATTTATACTATTGTATATATCT
Found at i:795758 original size:29 final size:27
Alignment explanation
Indices: 795696--795759 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 27
795686 TTTTTTAGTT
795696 TTTATTTTATTTATACTATTATATATC
1 TTTATTTTATTTATACTATTATATATC
795723 --T-TTTTATTTAT-CTATTGTATATATC
1 TTTATTTTATTTATACTA-T-TATATATC
795748 TTTATTATTATT
1 TTTATT-TTATT
795760 ACCATCATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
23 3 0.10
24 11 0.35
25 9 0.29
27 1 0.03
28 2 0.06
29 5 0.16
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.66
Consensus pattern (27 bp):
TTTATTTTATTTATACTATTATATATC
Found at i:797140 original size:31 final size:31
Alignment explanation
Indices: 797099--797170 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
797089 AATGGTGATA
*
797099 AATTTAATAAGTTTAAGGATCCTTTTGTAAT
1 AATTTAATAAGTTTAAGGATCATTTTGTAAT
* * *
797130 AATTTGATAAGTTTAATGATCATTTTGTATT
1 AATTTAATAAGTTTAAGGATCATTTTGTAAT
*
797161 AGTTTAATAA
1 AATTTAATAA
797171 ATTTTAGTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.47
Consensus pattern (31 bp):
AATTTAATAAGTTTAAGGATCATTTTGTAAT
Found at i:810541 original size:29 final size:27
Alignment explanation
Indices: 810471--810541 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 27
810461 GTCTGATTAA
* *
810471 GTAAATTTAATAAATTTATAATGATTT
1 GTAATTTTAATAAATTTATAATAATTT
*
810498 GATAAATTTTGATAAATTTTATAATAATTTT
1 G-T-AATTTTAATAAA-TTTATAATAA-TTT
810529 GTAATTTTAATAA
1 GTAATTTTAATAA
810542 TTATTATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
27 1 0.03
28 1 0.03
29 20 0.56
30 10 0.28
31 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (27 bp):
GTAATTTTAATAAATTTATAATAATTT
Found at i:810548 original size:29 final size:27
Alignment explanation
Indices: 810471--810553 Score: 76
Period size: 29 Copynumber: 2.9 Consensus size: 27
810461 GTCTGATTAA
* * *
810471 GTAAATTTAATAAATTTATAATGATTT
1 GTAATTTTAATAATTTTATAATAATTT
*
810498 GATAAATTTTGATAAATTTTATAATAATTTT
1 G-T-AATTTTAAT-AATTTTATAATAA-TTT
*
810529 GTAATTTTAATAATTATTATTATAA
1 GTAATTTTAATAATT-TTATAATAA
810554 AATTGTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
27 1 0.02
28 5 0.11
29 23 0.51
30 12 0.27
31 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (27 bp):
GTAATTTTAATAATTTTATAATAATTT
Found at i:812369 original size:8 final size:8
Alignment explanation
Indices: 812356--812388 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
812346 AGATTTCCAG
812356 AAACTTGC
1 AAACTTGC
812364 AAACTTGC
1 AAACTTGC
812372 AAACTTGC
1 AAACTTGC
812380 AAACTTGC
1 AAACTTGC
812388 A
1 A
812389 TTCGATTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (8 bp):
AAACTTGC
Found at i:823379 original size:14 final size:14
Alignment explanation
Indices: 823348--823392 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
823338 CTGATACCTC
* **
823348 TTTCCACTTTCCAC
1 TTTCCATTTTCCTT
823362 TTTCCATTTTCCTT
1 TTTCCATTTTCCTT
823376 TTTCC-TTTTCCTT
1 TTTCCATTTTCCTT
823389 TTTC
1 TTTC
823393 TTTTCTACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 12 0.43
14 16 0.57
ACGTcount: A:0.07, C:0.33, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTCCATTTTCCTT
Found at i:823386 original size:13 final size:13
Alignment explanation
Indices: 823362--823397 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
823352 CACTTTCCAC
823362 TTTCCATTTTCCTT
1 TTTCC-TTTTCCTT
823376 TTTCCTTTTCCTT
1 TTTCCTTTTCCTT
823389 TTT-CTTTTC
1 TTTCCTTTTC
823398 TACTTTACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 6 0.27
13 11 0.50
14 5 0.23
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTCCTTTTCCTT
Found at i:824720 original size:29 final size:30
Alignment explanation
Indices: 824687--824754 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
824677 GTACACCAGA
824687 GGTCACTGAATTT-TCAGAA-GTTACAAAAT
1 GGTCACTGAATTTATC-GAACGTTACAAAAT
* *
824716 GGTCATTAAATTTATCGAACTGTTACAAAAT
1 GGTCACTGAATTTATCGAAC-GTTACAAAAT
*
824747 GATCACTG
1 GGTCACTG
824755 CGACGTTATC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
29 14 0.45
30 2 0.06
31 15 0.48
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (30 bp):
GGTCACTGAATTTATCGAACGTTACAAAAT
Found at i:824811 original size:31 final size:31
Alignment explanation
Indices: 824771--824853 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 31
824761 TATCATAAGT
* *
824771 GTAAAAGTTCAATAAATTTAATGATCATTTC
1 GTAACAGTTCAATAAATTTAATGACCATTTC
* * * * *
824802 GTAACAGTTCGATAAAATAAATGACCGTTTT
1 GTAACAGTTCAATAAATTTAATGACCATTTC
824833 GTAACAGTT-AGAT-AATTTAAT
1 GTAACAGTTCA-ATAAATTTAAT
824854 CACTATTTTG
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
30 6 0.15
31 35 0.85
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (31 bp):
GTAACAGTTCAATAAATTTAATGACCATTTC
Found at i:829543 original size:13 final size:13
Alignment explanation
Indices: 829525--829549 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
829515 GCAGGGAGGG
829525 GTGTGATGATTGA
1 GTGTGATGATTGA
829538 GTGTGATGATTG
1 GTGTGATGATTG
829550 TCTAGGTGGA
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:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (13 bp):
GTGTGATGATTGA
Found at i:832294 original size:30 final size:32
Alignment explanation
Indices: 832260--832320 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 32
832250 TCACATGAAA
832260 AATCATACAATAACA-ATGAAAATA-TGATAG
1 AATCATACAATAACATATGAAAATATTGATAG
*
832290 AATCATACAATAGCATATGAAAATATTGATA
1 AATCATACAATAACATATGAAAATATTGATA
832321 ATTCAATGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 14 0.50
31 9 0.32
32 5 0.18
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.26
Consensus pattern (32 bp):
AATCATACAATAACATATGAAAATATTGATAG
Found at i:833524 original size:220 final size:222
Alignment explanation
Indices: 833141--833584 Score: 874
Period size: 220 Copynumber: 2.0 Consensus size: 222
833131 TTTATATTAA
833141 CTCGGATAGTAGATGGCTTGGTGGGTGCAGAAAAAGCTTAAAATTTTGTTTCTTTTTTTTTTTGG
1 CTCGGATAGTAGATGGCTTGGTGGGTGCAGAAAAAGCTTAAAATTTTGTTTCTTTTTTTTTTTGG
833206 CAGCTGCCAGCTTGGAGAATGCAGAATTATTCTGTGTGAAGCAGGAGATAGACACAGGTTGCAGA
66 CAGCTGCCAGCTTGGAGAATGCAGAATTATTCTGTGTGAAGCAGGAGATAGACACAGGTTGCAGA
833271 AGCTGCAGCTCAATTTCCCCAGGTTAGTTCTCT-GCAAACTCACTGAGAAGCAACTAGGGAATGA
131 AGCTGCAGCTCAATTTCCCCAGGTTAGTTCTCTGGCAAACTCACTGAGAAGCAACTAGGGAATGA
833335 TCTTGATGACAAATATTATGAAAATCT
196 TCTTGATGACAAATATTATGAAAATCT
833362 CTCGGATAGTAGATGGCTTGGTGGGTGCAGAAAAAGCTTAAAA-TTTGTTTCTTTTTTTTTTTGG
1 CTCGGATAGTAGATGGCTTGGTGGGTGCAGAAAAAGCTTAAAATTTTGTTTCTTTTTTTTTTTGG
833426 CAGCTGCCAGCTTGGAGAATGCAGAATTATTCTGTGTGAAGCAGGAGATAGACACAGGTTGCAGA
66 CAGCTGCCAGCTTGGAGAATGCAGAATTATTCTGTGTGAAGCAGGAGATAGACACAGGTTGCAGA
833491 AGCTGCAGCTCAATTTCCCCAGGTTAGTTCTCTGGCAAACTCACTGAGAAGCAACTAGGGAATGA
131 AGCTGCAGCTCAATTTCCCCAGGTTAGTTCTCTGGCAAACTCACTGAGAAGCAACTAGGGAATGA
833556 TCTTGATGACAAATATTATGAAAATCT
196 TCTTGATGACAAATATTATGAAAATCT
833583 CT
1 CT
833585 ACAATTTGAA
Statistics
Matches: 222, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
220 119 0.54
221 103 0.46
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (222 bp):
CTCGGATAGTAGATGGCTTGGTGGGTGCAGAAAAAGCTTAAAATTTTGTTTCTTTTTTTTTTTGG
CAGCTGCCAGCTTGGAGAATGCAGAATTATTCTGTGTGAAGCAGGAGATAGACACAGGTTGCAGA
AGCTGCAGCTCAATTTCCCCAGGTTAGTTCTCTGGCAAACTCACTGAGAAGCAACTAGGGAATGA
TCTTGATGACAAATATTATGAAAATCT
Found at i:840297 original size:20 final size:21
Alignment explanation
Indices: 840268--840316 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
840258 ATTTAAAACT
* * *
840268 AAAATAAAAATAC-TATATAA
1 AAAATCAAAATACAAATACAA
840288 AAAATCAAAATACAAATACAA
1 AAAATCAAAATACAAATACAA
840309 AAAATCAA
1 AAAATCAA
840317 TAGTTAGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.18
Consensus pattern (21 bp):
AAAATCAAAATACAAATACAA
Found at i:843183 original size:93 final size:89
Alignment explanation
Indices: 843001--843183 Score: 246
Period size: 93 Copynumber: 2.0 Consensus size: 89
842991 ACCTCCCCCT
843001 TACCCCATACATGGGAAAAAAGGGAACAGCCATTTTTTTTTTTTCATAATACGAATTGTATATGT
1 TACCCCATACATGGGAAAAAAGGGAACAGCCATTTTTTTTTTTTCATAATACGAATTGTATATGT
843066 GCAATTTAGGTGATCTGTTATGTTACAA
66 GCAATTTAGGTGATC---T-TGTTACAA
843094 TACCCCATACTATGGG-AAAAAGGG-ACAGCCATTTTTTTTTTTTTCATAACTACGAATTATGTA
1 TACCCCATAC-ATGGGAAAAAAGGGAACAGCCA-TTTTTTTTTTTTCATAA-TACGAA-T-TGTA
843157 TATGTGCAATTTTCAGGTGATC-TGTTA
61 TATGTGCAA-TTT-AGGTGATCTTGTTA
843184 TGTTACAATC
Statistics
Matches: 83, Mismatches: 0, Indels: 14
0.86 0.00 0.14
Matches are distributed among these distances:
92 7 0.08
93 40 0.48
94 11 0.13
95 1 0.01
96 13 0.16
97 3 0.04
98 8 0.10
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (89 bp):
TACCCCATACATGGGAAAAAAGGGAACAGCCATTTTTTTTTTTTCATAATACGAATTGTATATGT
GCAATTTAGGTGATCTTGTTACAA
Found at i:843334 original size:2 final size:2
Alignment explanation
Indices: 843327--843391 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
843317 CTAAAATCAT
843327 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
843369 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
843392 TTGTATTTCT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:852094 original size:345 final size:339
Alignment explanation
Indices: 851426--852109 Score: 1289
Period size: 345 Copynumber: 2.0 Consensus size: 339
851416 GTTCGGTTTA
851426 AGAAATTGGATGTCTCAACCAAAAATGCAATTGAAGCCACTTTCTCGGAAGAGGAAGTTTGATCA
1 AGAAATTGGATGTCTCAACCAAAAATGCAATTGAAGCCACTTTCTCGGAAGAGGAAGTTTGATCA
851491 GTTATCAGCTCTGCAGGGTCTCGTGCTCCTAAGCCTGATGGTTTCAACTTGACTTCTACAGGAGG
66 GTTATCAGCTCTGCAGGGTCTCGTGCTCCTAAGCCTGATGGTTTCAACTTGACTTCTACAGGAGG
851556 TTTTGGTCTTCTCTGAAAGGGGAGATCAGGATTTTTTGCTTTATTTTTAGAGTGTATGAATGAGA
131 TTTTGGTCTTCTCTGAAAGGGGAGATCAGGATTTTTTGCTTTATTTTTAGAGTGTATGAATGAGA
851621 AGGTTTTCAACCAGTCCTTTATTGCGTTGATTCCCAAGAAAAATTGCTCCTGAATCCATTGAGAT
196 AGGTTTTCAACCAGTCCTTTATTGCGTTGATTCCCAAGAAAAATTGCTCCTGAATCCATTGAGAT
851686 TTCAGACCCATATCCCTTGTTAGCAGTTTGTATAAGATTTTAGCAAAGGTTCTTTCGAGGAGGTT
261 TTCAGACCCATATCCCTTGTTAGCAGTTTGTATAAGATTTTAGCAAAGGTTCTTTCGAGGAGGTT
851751 GGCCGGGTGCATTG
326 GGCCGGGTGCATTG
851765 AGAAATTGGATGTCTCAACCAAAAATGCAATTGAAGCCACTTTCTCGGAAGAGGAAGTTTGATCA
1 AGAAATTGGATGTCTCAACCAAAAATGCAATTGAAGCCACTTTCTCGGAAGAGGAAGTTTGATCA
851830 GTTATCAGCTCTGCAGGGTCTCGTGCTCCTAAGCCTGATGGTTTCAACCTTGACTTCTACAGGAG
66 GTTATCAGCTCTGCAGGGTCTCGTGCTCCTAAGCCTGATGGTTTCAA-CTTGACTTCTACAGGAG
851895 GTTTTGGTCTTCTCTGAAAGGGGAGATCATGGATTTTTTTGCTTTATTTTTTAGAGGTGTATTGA
130 GTTTTGGTCTTCTCTGAAAGGGGAGATCA-GGA-TTTTTTGCTTTA-TTTTTAGA-GTGTA-TGA
851960 ATGAGAAGGTTTTCAACCAGTCCTTTATTGCGTTGATTCCCAAG-AAAATTGCTCCTGAATCCAT
190 ATGAGAAGGTTTTCAACCAGTCCTTTATTGCGTTGATTCCCAAGAAAAATTGCTCCTGAATCCAT
*
852024 TGATGATTTCAGACCCATATCCCTTGTTAGCAGTTTGTATAAGATTTTAGCAAAGGTTCTTTCTA
255 TGA-GATTTCAGACCCATATCCCTTGTTAGCAGTTTGTATAAGATTTTAGCAAAGGTTCTTTCGA
852089 GGAGGTTGGCCGGGTGCATTG
319 GGAGGTTGGCCGGGTGCATTG
852110 GTGATGTGGG
Statistics
Matches: 337, Mismatches: 1, Indels: 8
0.97 0.00 0.02
Matches are distributed among these distances:
339 112 0.33
340 46 0.14
341 3 0.01
342 12 0.04
343 8 0.02
344 28 0.08
345 128 0.38
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (339 bp):
AGAAATTGGATGTCTCAACCAAAAATGCAATTGAAGCCACTTTCTCGGAAGAGGAAGTTTGATCA
GTTATCAGCTCTGCAGGGTCTCGTGCTCCTAAGCCTGATGGTTTCAACTTGACTTCTACAGGAGG
TTTTGGTCTTCTCTGAAAGGGGAGATCAGGATTTTTTGCTTTATTTTTAGAGTGTATGAATGAGA
AGGTTTTCAACCAGTCCTTTATTGCGTTGATTCCCAAGAAAAATTGCTCCTGAATCCATTGAGAT
TTCAGACCCATATCCCTTGTTAGCAGTTTGTATAAGATTTTAGCAAAGGTTCTTTCGAGGAGGTT
GGCCGGGTGCATTG
Found at i:867086 original size:156 final size:157
Alignment explanation
Indices: 866849--867163 Score: 614
Period size: 156 Copynumber: 2.0 Consensus size: 157
866839 TTACAAAATA
866849 ATTATTAAATTTATCGAACTGTTATAAAATAACCATTTTTTATTTTTTAAATTTCAATAACCAAA
1 ATTATTAAATTTATCGAACTGTTATAAAATAACCATTTTTTATTTTTTAAATTTCAATAACCAAA
866914 ACGATATTTGAAAACTTAATGACCAAAACGATTATTTGAATATAGTTCATTGACTTTTG-ATATT
66 ACGATATTTGAAAACTTAATGACCAAAACGATTATTTGAATATAGTTCATTGACTTTTGAATATT
866978 ATATCCTTGTATTTTACAAAGAGAGAG
131 ATATCCTTGTATTTTACAAAGAGAGAG
867005 ATTATTAAATTTATCGAACTGTTATAAAATAACCATTTTTTATTTTTTAAATTTCAATAACCAAA
1 ATTATTAAATTTATCGAACTGTTATAAAATAACCATTTTTTATTTTTTAAATTTCAATAACCAAA
867070 ACGATATTTGAAAACTTAATGACCAAAACGATTATTTGAATATAGTTCATTGACTTTTGATATAT
66 ACGATATTTGAAAACTTAATGACCAAAACGATTATTTGAATATAGTTCATTGACTTTTGA-ATAT
867135 TATATCCTTGTATTTTACAAAGAGAGAG
130 TATATCCTTGTATTTTACAAAGAGAGAG
867163 A
1 A
867164 GGTCAAGAAG
Statistics
Matches: 157, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
156 124 0.79
158 33 0.21
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (157 bp):
ATTATTAAATTTATCGAACTGTTATAAAATAACCATTTTTTATTTTTTAAATTTCAATAACCAAA
ACGATATTTGAAAACTTAATGACCAAAACGATTATTTGAATATAGTTCATTGACTTTTGAATATT
ATATCCTTGTATTTTACAAAGAGAGAG
Found at i:873887 original size:23 final size:23
Alignment explanation
Indices: 873838--873888 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
873828 GTGTTATATT
**
873838 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
873861 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
873884 ATATT
1 ATATT
873889 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:873913 original size:30 final size:31
Alignment explanation
Indices: 873877--874040 Score: 117
Period size: 30 Copynumber: 5.2 Consensus size: 31
873867 TAAATATCTT
*
873877 TATTAAAATAT-TATTAGATTATTTTATAAA
1 TATTAAAATATATATTATATTATTTTATAAA
* *
873907 TATTAAATATATAAATAATATTATTTATTATTAAA
1 TATTAAA-ATATATATTATATTA-TT-TTA-TAAA
* *
873942 TATATAAAAAATTTATTATA-TA-TTTATTAAA
1 TAT-TAAAATATATATTATATTATTTTA-TAAA
*
873973 -ATAAAAATATAATATTATATTA--TTATAAA
1 TATTAAAATAT-ATATTATATTATTTTATAAA
* * *
874002 TATTAATAA-ATATATTTTAAATATTTTATTAA
1 TATTAA-AATATATATTAT-ATTATTTTATAAA
874034 TATTAAA
1 TATTAAA
874041 TTCATAAAAA
Statistics
Matches: 107, Mismatches: 14, Indels: 25
0.73 0.10 0.17
Matches are distributed among these distances:
29 16 0.15
30 28 0.26
31 17 0.16
32 20 0.19
33 2 0.02
34 5 0.05
35 15 0.14
36 4 0.04
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (31 bp):
TATTAAAATATATATTATATTATTTTATAAA
Found at i:874002 original size:22 final size:20
Alignment explanation
Indices: 873977--874025 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
873967 ATTAAAATAA
*
873977 AAATATAATATTATATTATTAT
1 AAATATAATA-AATA-TATTAT
*
873999 AAATATTAATAAATATATTTT
1 AAATA-TAATAAATATATTAT
874020 AAATAT
1 AAATAT
874026 TTTATTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 1 0.04
21 10 0.42
22 8 0.33
23 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATATAATAAATATATTAT
Found at i:874006 original size:12 final size:12
Alignment explanation
Indices: 873989--874038 Score: 54
Period size: 11 Copynumber: 4.5 Consensus size: 12
873979 ATATAATATT
873989 ATATTATTATAA
1 ATATTATTATAA
874001 ATATTA--ATAA
1 ATATTATTATAA
*
874011 ATA-TATTTTAA
1 ATATTATTATAA
*
874022 ATATT-TTATTA
1 ATATTATTATAA
874033 ATATTA
1 ATATTA
874039 AATTCATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
9 2 0.06
10 7 0.23
11 15 0.48
12 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATATTATTATAA
Found at i:874231 original size:42 final size:42
Alignment explanation
Indices: 874175--874269 Score: 147
Period size: 42 Copynumber: 2.3 Consensus size: 42
874165 TTCCTCCAAC
* *
874175 CAAACACTG-GAAAACATTTTCCGAAAAACGAATTACGTGAAA
1 CAAACAC-GAGAAAACATTTTCCAAAAAACGAATTACATGAAA
*
874217 CAAACACGAGAAAACTTTTTCCAAAAAACGAATTACATGAAA
1 CAAACACGAGAAAACATTTTCCAAAAAACGAATTACATGAAA
874259 CAAACACGAGA
1 CAAACACGAGA
874270 TTTCGGGGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
41 1 0.02
42 48 0.98
ACGTcount: A:0.51, C:0.20, G:0.13, T:0.17
Consensus pattern (42 bp):
CAAACACGAGAAAACATTTTCCAAAAAACGAATTACATGAAA
Found at i:879992 original size:6 final size:6
Alignment explanation
Indices: 879981--880006 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
879971 TATAGTATAC
879981 GGACAT GGACAT GGACAT GGACAT GG
1 GGACAT GGACAT GGACAT GGACAT GG
880007 CGGAATTGGC
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:0.31, C:0.15, G:0.38, T:0.15
Consensus pattern (6 bp):
GGACAT
Found at i:883818 original size:17 final size:17
Alignment explanation
Indices: 883796--883837 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
883786 CACCTATTAA
883796 TCCTCAGTCATTGAGGT
1 TCCTCAGTCATTGAGGT
883813 TCCTCAGTCATTGAGGT
1 TCCTCAGTCATTGAGGT
*
883830 TACTCAGT
1 TCCTCAGT
883838 TTGTTTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (17 bp):
TCCTCAGTCATTGAGGT
Found at i:884906 original size:48 final size:48
Alignment explanation
Indices: 884844--884945 Score: 179
Period size: 48 Copynumber: 2.1 Consensus size: 48
884834 ATTTCGTAAT
*
884844 TTTACCTAATCGAAATATTCTCATAATTTC-TCATAAGTACCTTTAACA
1 TTTAACTAATCGAAATATTCTCATAATTTCAT-ATAAGTACCTTTAACA
884892 TTTAACTAATCGAAATATTCTCATAATTTCATATAAGTACCTTTAACA
1 TTTAACTAATCGAAATATTCTCATAATTTCATATAAGTACCTTTAACA
884940 TTTAAC
1 TTTAAC
884946 CTTTGATGAT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
48 51 0.98
49 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.40
Consensus pattern (48 bp):
TTTAACTAATCGAAATATTCTCATAATTTCATATAAGTACCTTTAACA
Found at i:887029 original size:164 final size:163
Alignment explanation
Indices: 886821--887149 Score: 585
Period size: 167 Copynumber: 2.0 Consensus size: 163
886811 TTCTTTTCAT
886821 ATCTTCAAGTAGATTTAGAAATACATCCTCACTAATCCTTAACCGGTTGAGTATACATTC-T-TC
1 ATCTTCAAGTAGATTTAGAAATACATCCTCACTAATCCTTAACCGGTTGAGTATACATTCTTATC
886884 AGAACATTTC-TTTTTTTCAATAAAAGAATCCGAATGAAAATGACCTTGAGTAATCAATTCAGTC
66 AGAACATTTCTTTTTTTTCAATAAAAGAATCCGAATGAAAATGACCTTGAGTAATCAATTCAGTC
886948 TTGGTCATGAGAATAGG-TCATAGTGCAGCAGC
131 TTGGTCATGAGAATAGGCTCATAGTGCAGCAGC
886980 ATCTTCAAGTAGATTTATAGAAATACAGATCCTTCACTAATCCTTAACCGGTTGAGTATACATTC
1 ATCTTCAAGTAGA-TT-TAGAAATAC--ATCC-TCACTAATCCTTAACCGGTTGAGTATACATTC
887045 TTATCAGAACATTTCTTTTTTTTCAATAAAAGAATCCGAATGAAAATGACCTTGAGTAATCAATT
61 TTATCAGAACATTTCTTTTTTTTCAATAAAAGAATCCGAATGAAAATGACCTTGAGTAATCAATT
887110 CAGTCTTGGTCATGAGAATAGGCTCATAGTGCAGCAGC
126 CAGTCTTGGTCATGAGAATAGGCTCATAGTGCAGCAGC
887148 AT
1 AT
887150 ATCCCAATTT
Statistics
Matches: 161, Mismatches: 0, Indels: 9
0.95 0.00 0.05
Matches are distributed among these distances:
159 13 0.08
160 2 0.01
161 9 0.06
163 4 0.02
164 32 0.20
165 1 0.01
166 12 0.07
167 71 0.44
168 17 0.11
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Consensus pattern (163 bp):
ATCTTCAAGTAGATTTAGAAATACATCCTCACTAATCCTTAACCGGTTGAGTATACATTCTTATC
AGAACATTTCTTTTTTTTCAATAAAAGAATCCGAATGAAAATGACCTTGAGTAATCAATTCAGTC
TTGGTCATGAGAATAGGCTCATAGTGCAGCAGC
Found at i:889632 original size:17 final size:18
Alignment explanation
Indices: 889599--889632 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
889589 TTAATTCTGT
*
889599 CTTATTATTTAATTCCAA
1 CTTATCATTTAATTCCAA
889617 CTTATCATTT-ATTCCA
1 CTTATCATTTAATTCCA
889633 GACCTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (18 bp):
CTTATCATTTAATTCCAA
Found at i:894766 original size:17 final size:18
Alignment explanation
Indices: 894733--894766 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
894723 TCAATTCTGT
*
894733 CTTATTATTTAATTCCAA
1 CTTATCATTTAATTCCAA
894751 CTTATCATTT-ATTCCA
1 CTTATCATTTAATTCCA
894767 GACCTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (18 bp):
CTTATCATTTAATTCCAA
Found at i:898104 original size:22 final size:23
Alignment explanation
Indices: 898067--898124 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 23
898057 AATTTGTTTG
*
898067 TATGACAAAATTTTC-TCTGTCTT
1 TATGAC-ACATTTTCTTCTGTCTT
898090 TATGACACATTTTCTTCTGTCTT
1 TATGACACATTTTCTTCTGTCTT
898113 T-TGACACATTTT
1 TATGACACATTTT
898125 TCGAACATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 18 0.55
23 15 0.45
ACGTcount: A:0.22, C:0.19, G:0.09, T:0.50
Consensus pattern (23 bp):
TATGACACATTTTCTTCTGTCTT
Found at i:901705 original size:2 final size:2
Alignment explanation
Indices: 901698--901728 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
901688 AAAACAAATA
901698 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
901729 CATGATTTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:903319 original size:12 final size:12
Alignment explanation
Indices: 903302--903327 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
903292 AAGTCCGAGT
903302 TCTCTCTCGCAA
1 TCTCTCTCGCAA
903314 TCTCTCTCGCAA
1 TCTCTCTCGCAA
903326 TC
1 TC
903328 CAAACCAAAT
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:0.15, C:0.42, G:0.08, T:0.35
Consensus pattern (12 bp):
TCTCTCTCGCAA
Found at i:910878 original size:136 final size:137
Alignment explanation
Indices: 910699--910972 Score: 487
Period size: 136 Copynumber: 2.0 Consensus size: 137
910689 CAATGCTGCC
*
910699 AAAGTCCTGTTTCACGGATTCAGCAACTTCCTGCGACACATAAGAATTAAAATAACATACTCATA
1 AAAGTCCTGTTTAACGGATTCAGCAACTTCCTGCGACACATAAGAATTAAAATAACATACTCATA
* *
910764 AATCTCATCTGCTAAGCATACAAAAGTACATATAGAAAGGGACCAAAAATCCTTTAA-TTATTTA
66 AATCTCATCTGCTAAGCATACAAAAGTACATATAGAAAGAGACCAAAAATCCTTAAATTTATTTA
910828 TGCCACA
131 TGCCACA
*
910835 AAAGTCCTGTTTAACGGATTCAGCAACTTCCTGCGACATATAAGAATTAAAATAACATACTCATA
1 AAAGTCCTGTTTAACGGATTCAGCAACTTCCTGCGACACATAAGAATTAAAATAACATACTCATA
* *
910900 AATCTCATCTGCTAAGCATTCAAAAGTACATATAGAAAGAGACCAAAAATCCTTAAATTTTTTTA
66 AATCTCATCTGCTAAGCATACAAAAGTACATATAGAAAGAGACCAAAAATCCTTAAATTTATTTA
910965 TGCCACA
131 TGCCACA
910972 A
1 A
910973 TAGGTGGTCT
Statistics
Matches: 131, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
136 117 0.89
137 14 0.11
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.27
Consensus pattern (137 bp):
AAAGTCCTGTTTAACGGATTCAGCAACTTCCTGCGACACATAAGAATTAAAATAACATACTCATA
AATCTCATCTGCTAAGCATACAAAAGTACATATAGAAAGAGACCAAAAATCCTTAAATTTATTTA
TGCCACA
Found at i:912910 original size:6 final size:6
Alignment explanation
Indices: 912899--912938 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
912889 GCCGACGGAG
*
912899 AAGCCA AAGCCA AAGCTA AAGCCA AAGCCA AAGCCA AAGC
1 AAGCCA AAGCCA AAGCCA AAGCCA AAGCCA AAGCCA AAGC
912939 TAAAAGCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.50, C:0.30, G:0.17, T:0.03
Consensus pattern (6 bp):
AAGCCA
Found at i:914008 original size:31 final size:31
Alignment explanation
Indices: 913970--914038 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
913960 GTCAAGGGAC
* *
913970 CAAAATCGAACTAATCGATAACATGAGTGAT
1 CAAAATCGAACTAATAGATAACATAAGTGAT
* * *
914001 CAAAATCGAATTAATAGATAATATAAGTGTT
1 CAAAATCGAACTAATAGATAACATAAGTGAT
914032 CAAAATC
1 CAAAATC
914039 ACTTTTTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (31 bp):
CAAAATCGAACTAATAGATAACATAAGTGAT
Found at i:914163 original size:38 final size:38
Alignment explanation
Indices: 914107--914194 Score: 140
Period size: 38 Copynumber: 2.3 Consensus size: 38
914097 CAAAATCGAA
*
914107 TGAATCGATAATAGAAGTGATCAAAATCACTTTTTATT
1 TGAATCGATAACAGAAGTGATCAAAATCACTTTTTATT
* *
914145 TGAATCGATAACATAAGTGATCAAAATCACTTTTTGTT
1 TGAATCGATAACAGAAGTGATCAAAATCACTTTTTATT
*
914183 TGAATCGGTAAC
1 TGAATCGATAAC
914195 TAAAATTAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (38 bp):
TGAATCGATAACAGAAGTGATCAAAATCACTTTTTATT
Found at i:916369 original size:37 final size:36
Alignment explanation
Indices: 916294--916369 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
916284 TTTTTATATT
*
916294 TTTAATTTTATAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTATAAAAAAATTATATAAATATTATCAA
* *
916330 TTTAATTTTTTAAATAAAA-TATATAAATATTTTACAA
1 TTTAATTTTATAAA-AAAATTATATAAATATTAT-CAA
916367 TTT
1 TTT
916370 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (36 bp):
TTTAATTTTATAAAAAAATTATATAAATATTATCAA
Found at i:974706 original size:37 final size:37
Alignment explanation
Indices: 974630--974706 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
974620 TTTTTATATT
*
974630 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
974667 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
974704 TTT
1 TTT
974707 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:974888 original size:20 final size:20
Alignment explanation
Indices: 974852--974889 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
974842 ATCCTATTCC
**
974852 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
974872 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
974890 GTGAACCAAA
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:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:982684 original size:22 final size:22
Alignment explanation
Indices: 982639--982680 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
982629 TATATTATTT
* *
982639 TTTTGGTATTTTTAGTATTTGA
1 TTTTGATATTTTTAGAATTTGA
982661 TTTTGATA-TTTTAGAATTTG
1 TTTTGATATTTTTAGAATTTG
982681 GATTATTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.21, C:0.00, G:0.17, T:0.62
Consensus pattern (22 bp):
TTTTGATATTTTTAGAATTTGA
Found at i:992151 original size:160 final size:164
Alignment explanation
Indices: 991964--992287 Score: 620
Period size: 160 Copynumber: 2.0 Consensus size: 164
991954 GGGAGAAAAA
991964 CTATTACATTAGTTCTATTGCTGGTTCTAACAGTGGAAGCTCCC-TGTTGTTATGTCCAAAGGTC
1 CTATTACATTAGTTCTATTGCTGGTTCTAACAGTGGAAGCTCCCTTGTTGTTATGTCCAAAGGTC
992028 AGTTAATATTTTGGTTTG-TTAAATTGTCTGATGAAATTCTGGTTTTGATGG-ATAAGTAGATAA
66 AGTTAATATTTTGGTTTGTTTAAATTGTCTGATGAAATTCTGGTTTTGATGGAATAAGTAGATAA
992091 GTAAAGGTC-AAATCACAAGGTGTTAAGATTAGG
131 GTAAAGGTCAAAATCACAAGGTGTTAAGATTAGG
992124 CTATTACATTAGTTCTATTGCTGGTTCTAACAGTGGAAGCTCCCTTGTTGTTATGTCCAAAGGTC
1 CTATTACATTAGTTCTATTGCTGGTTCTAACAGTGGAAGCTCCCTTGTTGTTATGTCCAAAGGTC
992189 AGTTAATATTTTGGTTTGTTTAAATTGTCTGATGAAATTCTGGTTTTGATGGAATAAGTAGATAA
66 AGTTAATATTTTGGTTTGTTTAAATTGTCTGATGAAATTCTGGTTTTGATGGAATAAGTAGATAA
992254 GTAAAGGTCAAAATCACAAGGTGTTAAGATTAGG
131 GTAAAGGTCAAAATCACAAGGTGTTAAGATTAGG
992288 TTGGGGGTGG
Statistics
Matches: 160, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
160 44 0.28
161 38 0.24
162 33 0.21
163 21 0.13
164 24 0.15
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (164 bp):
CTATTACATTAGTTCTATTGCTGGTTCTAACAGTGGAAGCTCCCTTGTTGTTATGTCCAAAGGTC
AGTTAATATTTTGGTTTGTTTAAATTGTCTGATGAAATTCTGGTTTTGATGGAATAAGTAGATAA
GTAAAGGTCAAAATCACAAGGTGTTAAGATTAGG
Found at i:993754 original size:18 final size:18
Alignment explanation
Indices: 993731--993766 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
993721 GGGACTGAGT
993731 TATTTATGTACTTATTAA
1 TATTTATGTACTTATTAA
993749 TATTTATGTACTTATTAA
1 TATTTATGTACTTATTAA
993767 CGTAATATCT
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:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (18 bp):
TATTTATGTACTTATTAA
Found at i:994036 original size:2 final size:2
Alignment explanation
Indices: 994024--994058 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
994014 TTAATCTTCG
994024 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
994059 AATTCATTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:997665 original size:40 final size:42
Alignment explanation
Indices: 997612--997691 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 42
997602 TCGAAGAAAC
***
997612 AAAAATAATCCCTTGTTGTTTACCA-TTTA-TTTTCCACTAA
1 AAAAATAATCCCTTAACGTTTACCATTTTAGTTTTCCACTAA
*
997652 AAAAATACTCCCTTAACGTTTACCATTTTAGTTTTCCACT
1 AAAAATAATCCCTTAACGTTTACCATTTTAGTTTTCCACT
997692 GGAAATTGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 21 0.62
41 4 0.12
42 9 0.26
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (42 bp):
AAAAATAATCCCTTAACGTTTACCATTTTAGTTTTCCACTAA
Found at i:1003035 original size:2 final size:2
Alignment explanation
Indices: 1003028--1003066 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1003018 AATAGAAAAC
1003028 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1003067 TAAATAGGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1004674 original size:21 final size:20
Alignment explanation
Indices: 1004647--1004744 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
1004637 AATCAGTGTC
1004647 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
1004668 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
1004688 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
1004708 ACAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1004729 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1004745 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 31 0.51
21 30 0.49
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1004697 original size:41 final size:41
Alignment explanation
Indices: 1004647--1004744 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 41
1004637 AATCAGTGTC
* *
1004647 CAAAATCGCAACGCGATTCTT-GAAAATCGCAATGCG-ATAGT
1 CAAAATCGCAACGCGATT-TTACAAAATCGCAACGCGAATA-T
* **
1004688 CAAATTCGCATTGCGATTTTACAAAATCGCAACGCGAATAT
1 CAAAATCGCAACGCGATTTTACAAAATCGCAACGCGAATAT
*
1004729 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1004745 ACACATAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
40 2 0.04
41 41 0.89
42 3 0.07
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.21
Consensus pattern (41 bp):
CAAAATCGCAACGCGATTTTACAAAATCGCAACGCGAATAT
Found at i:1004754 original size:20 final size:20
Alignment explanation
Indices: 1004731--1004901 Score: 107
Period size: 20 Copynumber: 8.6 Consensus size: 20
1004721 GCGAATATGA
1004731 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
1004751 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
1004771 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
** *
1004791 AAATCGCAACGCGTTTCCGT
1 AAATCGCAACGCGTAACCAT
* * *
1004811 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* *
1004831 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
* **
1004851 AAATCGCAACGAG-AATCTGT
1 AAATCGCAACGCGTAA-CCAT
* *
1004871 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
1004891 AAATCGCAACG
1 AAATCGCAACG
1004902 AGAATCTGTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.02
20 127 0.97
21 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:1004758 original size:61 final size:61
Alignment explanation
Indices: 1004587--1004763 Score: 173
Period size: 61 Copynumber: 2.9 Consensus size: 61
1004577 AAAATGACCA
* * * *
1004587 ACAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGATCCCCAGAATCGCAAAT-C-AGTGT
1 ACAAAATCGCAACGCGAATATGAAAATCGCAACGCGATACACAAAATCGC-AATGCGAGTGT
* * * * ** * * * *
1004646 CCAAAATCGCAACGCGATTCTTGAAAATCGCAATGCGATAGTCAAATTCGCATTGCGATTTT
1 ACAAAATCGCAACGCGAAT-ATGAAAATCGCAACGCGATACACAAAATCGCAATGCGAGTGT
1004708 ACAAAATCGCAACGCGAATATGAAAATCGCAACGCGA-ACACATAAATCGCAATGCG
1 ACAAAATCGCAACGCGAATATGAAAATCGCAACGCGATACACA-AAATCGCAATGCG
1004764 TATCCGTAAA
Statistics
Matches: 92, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
59 16 0.17
60 5 0.05
61 51 0.55
62 20 0.22
ACGTcount: A:0.40, C:0.25, G:0.18, T:0.18
Consensus pattern (61 bp):
ACAAAATCGCAACGCGAATATGAAAATCGCAACGCGATACACAAAATCGCAATGCGAGTGT
Found at i:1004796 original size:60 final size:58
Alignment explanation
Indices: 1004711--1004920 Score: 208
Period size: 60 Copynumber: 3.5 Consensus size: 58
1004701 CGATTTTACA
* ** * *
1004711 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGCGAAC-CGTAAATCGCAA-GCGTATCCGT
* ** *
1004771 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTTTCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGCG-AACCGTAAATCGCAA-GCGTATCCGT
* *
1004831 AAATCGCAACGAT-AATCCGTAAATCGCAACGAGAATCTGTAAATCGCAA-CGATAATCCGT
1 AAATCGCAACG-TGAATCCGTAAATCGCAACGCGAA-CCGTAAATCGCAAGCG-T-ATCCGT
* * *
1004891 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGTGAATCCGTAAATCGCAAC
1004921 ACTGAAATTT
Statistics
Matches: 125, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
58 2 0.02
59 1 0.01
60 120 0.96
61 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (58 bp):
AAATCGCAACGTGAATCCGTAAATCGCAACGCGAACCGTAAATCGCAAGCGTATCCGT
Found at i:1004902 original size:20 final size:20
Alignment explanation
Indices: 1004765--1004920 Score: 174
Period size: 20 Copynumber: 7.8 Consensus size: 20
1004755 CGCAATGCGT
*
1004765 ATCCGTAAATCGCAACG-TGT
1 ATCCGTAAATCGCAACGAT-A
*
1004785 ATCCGTAAATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
* * *
1004805 TTCCGTATATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
1004825 ATCCGTAAATCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
1004845 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
*
1004865 ATCTGTAAATCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
1004885 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
* *
1004905 ATCTGTAAATCACAAC
1 ATCCGTAAATCGCAAC
1004921 ACTGAAATTT
Statistics
Matches: 121, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
19 1 0.01
20 119 0.98
22 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (20 bp):
ATCCGTAAATCGCAACGATA
Found at i:1004902 original size:40 final size:40
Alignment explanation
Indices: 1004731--1004920 Score: 208
Period size: 40 Copynumber: 4.8 Consensus size: 40
1004721 GCGAATATGA
* *
1004731 AAATCGCAACGCGAA-CACATAAATCGCAATGCG-T-ATCCGT
1 AAATCGCAACGAGAATC-CGTAAATCGCAA--CGATAATCCGT
* * * *
1004771 AAATCGCAACGTGTATCCGTAAATCGCAACGCGT-TTCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACG-ATAATCCGT
* * *
1004811 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
*
1004851 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
1004891 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGAGAATCCGTAAATCGCAAC
1004921 ACTGAAATTT
Statistics
Matches: 133, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.02
39 1 0.01
40 129 0.97
41 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (40 bp):
AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
Found at i:1005640 original size:24 final size:24
Alignment explanation
Indices: 1005601--1005647 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1005591 AAATTTGGTC
1005601 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
1005625 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
1005648 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:1005839 original size:12 final size:12
Alignment explanation
Indices: 1005822--1005846 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1005812 ATATAATCCT
1005822 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1005834 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1005846 G
1 G
1005847 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1008139 original size:19 final size:19
Alignment explanation
Indices: 1008117--1008475 Score: 436
Period size: 19 Copynumber: 20.4 Consensus size: 19
1008107 CGGAAATTAC
*
1008117 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1008136 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
1008150 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
1008170 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1008184 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1008203 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1008222 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
1008236 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1008255 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1008274 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
1008288 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1008307 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1008326 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
1008340 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1008359 ACTCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1008378 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1008397 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1008416 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
1008430 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1008449 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1008468 AATCGCAA
1 AATCGCAA
1008476 CGAGAGAATC
Statistics
Matches: 297, Mismatches: 12, Indels: 62
0.80 0.03 0.17
Matches are distributed among these distances:
14 54 0.18
15 1 0.00
16 24 0.08
17 23 0.08
18 2 0.01
19 180 0.61
20 13 0.04
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1008204 original size:33 final size:33
Alignment explanation
Indices: 1008117--1008456 Score: 262
Period size: 33 Copynumber: 9.8 Consensus size: 33
1008107 CGGAAATTAC
* * *
1008117 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1008150 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAG
* *
1008184 AATCGCAATGCGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* * * *
1008216 AAT-GAAAAT-CGCAACGACAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAG
*
1008255 AATCGCAATGCGAAATGAAAATCGCAACGACAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* *
1008288 AATCGCAATGCGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* * * *
1008320 AAT-GAAAAT-CGCAACGACAGAATCGCAATGCGAAATG
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CGAGA-G
*
1008357 AAACTCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AA-TCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
*
1008397 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1008430 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
1008457 TGCGAAATGA
Statistics
Matches: 249, Mismatches: 31, Indels: 54
0.75 0.09 0.16
Matches are distributed among these distances:
31 14 0.06
32 14 0.06
33 103 0.41
34 31 0.12
35 4 0.02
36 4 0.02
38 49 0.20
39 14 0.06
40 15 0.06
41 1 0.00
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:1008232 original size:52 final size:52
Alignment explanation
Indices: 1008145--1008475 Score: 492
Period size: 52 Copynumber: 6.2 Consensus size: 52
1008135 AAATCCCAAC
*
1008145 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1008198 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1008250 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1008302 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
* *
1008354 ATGAAACTCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGACA-G--AATCGCAATGCGAA
*
1008411 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGACA-G--AATCGCAATGCGAA
1008463 ATGAAAATCGCAA
1 ATGAAAATCGCAA
1008476 CGAGAGAATC
Statistics
Matches: 269, Mismatches: 4, Indels: 11
0.95 0.01 0.04
Matches are distributed among these distances:
52 216 0.80
53 16 0.06
54 5 0.02
55 6 0.02
57 26 0.10
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
Found at i:1008268 original size:71 final size:72
Alignment explanation
Indices: 1008184--1008497 Score: 369
Period size: 71 Copynumber: 4.5 Consensus size: 72
1008174 GCAACGAGAG
*
1008184 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGACA-G-AATCGCAATG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATG--AATCGCAAGCGAAATGAAATCGCAATG
1008246 CGAAATGAA
64 CGAAATGAA
*
1008255 AATCGCAATGCGAAATGAAAATCGCAA--CGACA-GAATCGCAATGCGAAATGAAAATCGCAATG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAATCGCAA-GCGAAATG-AAATCGCAATG
1008317 CGAAATGAA
64 CGAAATGAA
*
1008326 AATCGCAA--CGACA-G--AATCGCAATGCGAAATGAAACTCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-AA-TCGCAA-GCGAAATG-AAATCGCAA
1008386 TGCGAAATGAA
62 TGCGAAATGAA
1008397 AATCGCAATGCGAAATGAAAATCGCAA--CGAAA-GAATCGCAATGCGAAATGAAAATCGCAATG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAATCGCAA-GCGAAATG-AAATCGCAATG
1008459 CGAAATGAA
64 CGAAATGAA
*
1008468 AATCGCAA--CG--A-GAGAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAAT
1008498 TATAAACGCA
Statistics
Matches: 219, Mismatches: 6, Indels: 38
0.83 0.02 0.14
Matches are distributed among these distances:
66 26 0.12
67 1 0.00
68 15 0.07
69 12 0.05
70 2 0.01
71 142 0.65
72 2 0.01
73 5 0.02
74 6 0.03
76 8 0.04
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAATCGCAAGCGAAATGAAATCGCAATGCG
AAATGAA
Found at i:1008551 original size:142 final size:142
Alignment explanation
Indices: 1008117--1008497 Score: 523
Period size: 142 Copynumber: 2.7 Consensus size: 142
1008107 CGGAAATTAC
* * *
1008117 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA-AATCGCAATGCGGAAATGAAAATCGCAACG
1 AATCGCAATGCGAAATGAAAATCGCAACGA--AAGAATCGCAATGC-GAAATGAAAATCGCAATG
* * * * *
1008180 AGAGAATCG-CAATGCGAAATGA-A-AATCGCAATGCGAAATGAAA-ATCGCAA--CGACA-G--
63 CGA-AAT-GAAAAT-CGCAACGACAGAATCGCAATGCGAAATGAAACA-CGCAATGCGAAATGAA
1008236 AATCGCAATGCGAAATGAA
124 AATCGCAATGCGAAATGAA
*
1008255 AATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
*
1008320 AATGAAAATCGCAACGACAGAATCGCAATGCGAAATGAAACTCGCAATGCGAAATGAAAATCGCA
66 AATGAAAATCGCAACGACAGAATCGCAATGCGAAATGAAACACGCAATGCGAAATGAAAATCGCA
1008385 ATGCGAAATGAA
131 ATGCGAAATGAA
1008397 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
*
1008462 AATGAAAATCGCAACGAGAGAATCGCAATGCGAAAT
66 AATGAAAATCGCAACGACAGAATCGCAATGCGAAAT
1008498 TATAAACGCA
Statistics
Matches: 220, Mismatches: 12, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
135 7 0.03
136 7 0.03
137 45 0.20
138 37 0.17
139 5 0.02
140 1 0.00
142 118 0.54
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (142 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
AATGAAAATCGCAACGACAGAATCGCAATGCGAAATGAAACACGCAATGCGAAATGAAAATCGCA
ATGCGAAATGAA
Found at i:1008612 original size:19 final size:19
Alignment explanation
Indices: 1008504--1008604 Score: 142
Period size: 19 Copynumber: 5.6 Consensus size: 19
1008494 AAATTATAAA
1008504 CGCATTGCGA-TTTCATTT
1 CGCATTGCGATTTTCATTT
1008522 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
1008542 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
1008558 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
1008575 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
1008594 CGCATTGCGAT
1 CGCATTGCGAT
1008605 AGTCATTTTT
Statistics
Matches: 74, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 46 0.62
20 8 0.11
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:1008738 original size:13 final size:14
Alignment explanation
Indices: 1008711--1008746 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
1008701 CATCAATTAC
1008711 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1008725 ACAAATCATC-TTT
1 ACAAATCAACTTTT
1008738 ACAAATCAA
1 ACAAATCAA
1008747 TTAAACAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1010710 original size:19 final size:19
Alignment explanation
Indices: 1010670--1010771 Score: 106
Period size: 19 Copynumber: 5.6 Consensus size: 19
1010660 TAGTTTACTT
* *
1010670 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-GAAAA
*
1010690 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACGAAAA
*
1010709 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACGAAAA
1010728 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAACGAAAA
*
1010742 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACGAAAA
*
1010761 TCGCAATGCGA
1 TCGCAACGCGA
1010772 TTTTGGTTTC
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
14 8 0.11
16 6 0.08
17 6 0.08
19 39 0.54
20 13 0.18
ACGTcount: A:0.46, C:0.25, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACGAAAA
Found at i:1010789 original size:19 final size:19
Alignment explanation
Indices: 1010767--1010879 Score: 120
Period size: 19 Copynumber: 6.5 Consensus size: 19
1010757 AAAATCGCAA
1010767 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1010786 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
1010800 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1010819 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
1010833 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1010852 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1010871 TGCGATTTT
1 TGCGATTTT
1010880 AACTTTCGTG
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
14 22 0.29
15 1 0.01
16 2 0.03
17 2 0.03
18 2 0.03
19 48 0.62
ACGTcount: A:0.07, C:0.18, G:0.28, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:1010809 original size:33 final size:33
Alignment explanation
Indices: 1010767--1010858 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
1010757 AAAATCGCAA
1010767 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
1010800 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
1010833 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
1010859 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:1011077 original size:93 final size:93
Alignment explanation
Indices: 1010942--1011407 Score: 886
Period size: 93 Copynumber: 5.1 Consensus size: 93
1010932 ATGGATTGCA
*
1010942 TTAC-TTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAAAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1011005 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1011033 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1011098 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1011126 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1011191 TAGCAGAA-TGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1011218 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1011282 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1011310 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
1011375 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1011403 TTACT
1 TTACT
1011408 AAGCAATCTA
Statistics
Matches: 369, Mismatches: 2, Indels: 6
0.98 0.01 0.02
Matches are distributed among these distances:
91 57 0.15
92 83 0.22
93 229 0.62
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:1011296 original size:184 final size:186
Alignment explanation
Indices: 1010942--1011407 Score: 886
Period size: 184 Copynumber: 2.5 Consensus size: 186
1010932 ATGGATTGCA
*
1010942 TTAC-TTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAAAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1011005 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
1011070 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
1011126 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1011191 TAGCAGAA-TGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
1011254 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
1011310 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
1011375 TAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACT
1011408 AAGCAATCTA
Statistics
Matches: 277, Mismatches: 2, Indels: 5
0.98 0.01 0.02
Matches are distributed among these distances:
184 150 0.54
185 68 0.25
186 59 0.21
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:1013126 original size:14 final size:14
Alignment explanation
Indices: 1013107--1013196 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
1013097 TTGAAATGAA
1013107 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1013121 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
1013140 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1013154 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1013173 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1013187 AATCGCAACG
1 AATCGCAACG
1013197 CGAAATAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1013144 original size:33 final size:33
Alignment explanation
Indices: 1013099--1013212 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
1013089 TCTTTTGGTT
1013099 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
1013132 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1013165 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1013198 GAAAT-AAAATCGCAA
1 GAAATGAAAATCGCAA
1013213 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
32 10 0.13
33 69 0.87
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1013145 original size:19 final size:19
Alignment explanation
Indices: 1013121--1013217 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 19
1013111 GCAACGAGAG
*
1013121 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
1013140 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
1013154 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
1013173 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
1013187 AATCGCAACGCGAAAT-AA
1 AATCGCAACGCGAAATGAA
*
1013205 AATCGCAATGCGA
1 AATCGCAACGCGA
1013218 TTTTGGTTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 21
0.71 0.06 0.24
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 4 0.06
17 4 0.06
18 15 0.24
19 18 0.29
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:1013267 original size:19 final size:19
Alignment explanation
Indices: 1013243--1013331 Score: 71
Period size: 19 Copynumber: 4.9 Consensus size: 19
1013233 GCGATTCTCT
1013243 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
1013262 CGTTGCGA--TT-A--TCT
1 CGTTGCGATTTTCATTTCG
* *
1013276 CGTTGCTATTGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*** *
1013295 CGTTGCGACAGTCATTCTCT
1 CGTTGCGATTTTCATT-TCG
1013315 CGTTGCGATTTTCATTT
1 CGTTGCGATTTTCATTT
1013332 ATCTCGTTGC
Statistics
Matches: 53, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
14 9 0.17
16 2 0.04
17 3 0.06
19 24 0.45
20 15 0.28
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:1013330 original size:39 final size:33
Alignment explanation
Indices: 1013213--1013331 Score: 139
Period size: 33 Copynumber: 3.4 Consensus size: 33
1013203 AAAATCGCAA
**
1013213 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
1013246 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
* *
1013279 TGCTATTGTCATTTCGCGTTGCGACAGTCATTCTCTCGT
1 TGCGATTTTCATTTCGCGTT--G-C-G--ATTCTCTCGT
1013318 TGCGATTTTCATTT
1 TGCGATTTTCATTT
1013332 ATCTCGTTGC
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
33 48 0.67
35 1 0.01
36 1 0.01
37 1 0.01
39 21 0.29
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:1013465 original size:33 final size:33
Alignment explanation
Indices: 1013423--1013493 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1013413 AATACTAACT
1013423 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
1013456 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1013489 TGAAA
1 TGAAA
1013494 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:1013726 original size:22 final size:22
Alignment explanation
Indices: 1013674--1013728 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1013664 TGGTTGTGAG
**
1013674 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
1013696 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
1013718 GGATTTCTTCG
1 GGATTTCTTCG
1013729 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:1013900 original size:20 final size:20
Alignment explanation
Indices: 1013875--1014068 Score: 203
Period size: 20 Copynumber: 9.7 Consensus size: 20
1013865 CTTTAAATAT
1013875 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1013895 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
* *
1013917 -TCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATA
*
1013936 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
1013956 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
1013976 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1013996 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
1014016 CGCATTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1014036 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1014056 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1014069 TGGAAAATCG
Statistics
Matches: 143, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
19 2 0.01
20 124 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1014062 original size:60 final size:60
Alignment explanation
Indices: 1013875--1014068 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
1013865 CTTTAAATAT
* ** *
1013875 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTACAGATA
* *** * *
1013936 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACAGATA
* * * * *
1013996 CACGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACAGATA
1014056 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1014069 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACAGATA
Found at i:1016000 original size:21 final size:20
Alignment explanation
Indices: 1015947--1016005 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
1015937 AAAAAATATT
* * *
1015947 ATTTTATAAATAATTTAATA
1 ATTTTAAAAATTATTTTATA
**
1015967 ATTTTAATGATTATTTTATA
1 ATTTTAAAAATTATTTTATA
1015987 ATTTTTAAAAATTAATTTT
1 A-TTTTAAAAATT-ATTTT
1016006 TCCTTCATAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 16 0.53
21 9 0.30
22 5 0.17
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTTTAAAAATTATTTTATA
Found at i:1022188 original size:32 final size:32
Alignment explanation
Indices: 1022147--1022210 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
1022137 ATTTAATAGT
1022147 AAATAATCATTAAAATTTATCATACTTTTACA
1 AAATAATCATTAAAATTTATCATACTTTTACA
1022179 AAATAATCATTAAAATTTATCATACTTTTACA
1 AAATAATCATTAAAATTTATCATACTTTTACA
1022211 CCTATTATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (32 bp):
AAATAATCATTAAAATTTATCATACTTTTACA
Found at i:1024035 original size:25 final size:25
Alignment explanation
Indices: 1023974--1024038 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
1023964 AATATTACAA
* *
1023974 TAATAATAGTAAT-ATTTGATAATTT
1 TAATAATA-AAATAATTTGATAAATT
* *
1023999 TAATCAT-GAATAATTTGATAAATT
1 TAATAATAAAATAATTTGATAAATT
1024023 TAATAATAAAATAATT
1 TAATAATAAAATAATT
1024039 CAATGACAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
23 3 0.09
24 17 0.52
25 13 0.39
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (25 bp):
TAATAATAAAATAATTTGATAAATT
Found at i:1034120 original size:21 final size:22
Alignment explanation
Indices: 1034094--1034138 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
1034084 TATATATTTC
1034094 AACATCCAAACATAATT-AAAA
1 AACATCCAAACATAATTGAAAA
*
1034115 AACATCTAAACATAATTGAAAA
1 AACATCCAAACATAATTGAAAA
1034137 AA
1 AA
1034139 ATGTCAGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.62, C:0.16, G:0.02, T:0.20
Consensus pattern (22 bp):
AACATCCAAACATAATTGAAAA
Found at i:1034296 original size:65 final size:68
Alignment explanation
Indices: 1034165--1034289 Score: 184
Period size: 65 Copynumber: 1.9 Consensus size: 68
1034155 TGAAAAAAAA
* * *
1034165 AATAATCGAGTGATCAAAACATAAATTAGATAACATATAAGTGACTAAATAAGTAGTTTATCCTA
1 AATAATCGAATGATCAAAACATAAATTAAATAACATATAAGTGACCAAATAAGTAGTTTATCCTA
1034230 AAT
66 AAT
* *
1034233 AATAATCGAATGAT-TAAACATAAATTAAAT-A-ATATATGTGACCAAATAAGTAGTTTA
1 AATAATCGAATGATCAAAACATAAATTAAATAACATATAAGTGACCAAATAAGTAGTTTA
1034290 CTCTAAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
65 24 0.46
66 1 0.02
67 14 0.27
68 13 0.25
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (68 bp):
AATAATCGAATGATCAAAACATAAATTAAATAACATATAAGTGACCAAATAAGTAGTTTATCCTA
AAT
Found at i:1037169 original size:17 final size:17
Alignment explanation
Indices: 1037149--1037200 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
1037139 GTTTATAATT
1037149 TATTTTAATTTAGTCAC
1 TATTTTAATTTAGTCAC
* * *
1037166 TATTTTGATTT-GCCATT
1 TATTTTAATTTAGTCA-C
*
1037183 TATTTGAATTTAGTCAC
1 TATTTTAATTTAGTCAC
1037200 T
1 T
1037201 GATCTTTATA
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
16 3 0.12
17 20 0.77
18 3 0.12
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.54
Consensus pattern (17 bp):
TATTTTAATTTAGTCAC
Found at i:1038878 original size:56 final size:56
Alignment explanation
Indices: 1038792--1038909 Score: 236
Period size: 56 Copynumber: 2.1 Consensus size: 56
1038782 CTGATCTATA
1038792 ACCTCTACTGTCCGACCAGTATAGAATCGAGATTACAACTTGTCTCCTTCATCTCC
1 ACCTCTACTGTCCGACCAGTATAGAATCGAGATTACAACTTGTCTCCTTCATCTCC
1038848 ACCTCTACTGTCCGACCAGTATAGAATCGAGATTACAACTTGTCTCCTTCATCTCC
1 ACCTCTACTGTCCGACCAGTATAGAATCGAGATTACAACTTGTCTCCTTCATCTCC
1038904 ACCTCT
1 ACCTCT
1038910 CCACCTCTCC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.31
Consensus pattern (56 bp):
ACCTCTACTGTCCGACCAGTATAGAATCGAGATTACAACTTGTCTCCTTCATCTCC
Found at i:1056397 original size:23 final size:21
Alignment explanation
Indices: 1056345--1056406 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
1056335 TTTTGGTACA
*
1056345 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
1056365 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
1056386 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
1056407 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:1060597 original size:20 final size:20
Alignment explanation
Indices: 1060572--1060618 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1060562 AACTCTAATT
1060572 TCGCAACGCGAATATGTAAA
1 TCGCAACGCGAATATGTAAA
* * *
1060592 TTGCAACGTGAATTTGTAAA
1 TCGCAACGCGAATATGTAAA
1060612 TCGCAAC
1 TCGCAAC
1060619 ACAGAAGTCA
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:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGAATATGTAAA
Found at i:1060649 original size:20 final size:20
Alignment explanation
Indices: 1060616--1060654 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1060606 TGTAAATCGC
* * *
1060616 AACACAGAAGTCAATTTCGA
1 AACACAAAACTCAAATTCGA
1060636 AACACAAAACTCAAATTCG
1 AACACAAAACTCAAATTCG
1060655 CAACGCGAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.23, G:0.10, T:0.18
Consensus pattern (20 bp):
AACACAAAACTCAAATTCGA
Found at i:1060702 original size:20 final size:19
Alignment explanation
Indices: 1060677--1060792 Score: 92
Period size: 19 Copynumber: 5.9 Consensus size: 19
1060667 GTGCAACACA
1060677 GAAGTCAAATTCGCAACGC
1 GAAGTCAAATTCGCAACGC
*
1060696 GATAGTCAAATTCGCAACAC
1 GA-AGTCAAATTCGCAACGC
* *
1060716 AAAAGTCAAATTCACAACGC
1 -GAAGTCAAATTCGCAACGC
* *
1060736 GGAATTTCAAATTCGCAAC-T
1 -GAA-GTCAAATTCGCAACGC
* *
1060756 GAATTTCAAATTCGCAAC-T
1 GAA-GTCAAATTCGCAACGC
*
1060775 GAATTTCAAATTCGCAAC
1 GAA-GTCAAATTCGCAAC
1060793 TGAATTTCAA
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
19 39 0.46
20 33 0.39
21 13 0.15
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (19 bp):
GAAGTCAAATTCGCAACGC
Found at i:1060705 original size:55 final size:57
Alignment explanation
Indices: 1060571--1060713 Score: 150
Period size: 55 Copynumber: 2.5 Consensus size: 57
1060561 GAACTCTAAT
* *
1060571 TTCGCAACGCGAATATGT-AAATT-GCAACGTGAATTTGTAAATCGCAACACAGAAGTCAAT
1 TTCGCAACGCG-ATA-GTCAAATTCGCAACGCGAATTTG---ATCGCAACACAGAAGTCAAA
* * * * *
1060631 TTCGAAACACAAAACTCAAATTCGCAACGCGAATTTG-T-GCAACACAGAAGTCAAA
1 TTCGCAACGCGATAGTCAAATTCGCAACGCGAATTTGATCGCAACACAGAAGTCAAA
1060686 TTCGCAACGCGATAGTCAAATTCGCAAC
1 TTCGCAACGCGATAGTCAAATTCGCAAC
1060714 ACAAAAGTCA
Statistics
Matches: 69, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
55 39 0.57
56 1 0.01
58 1 0.01
59 7 0.10
60 21 0.30
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (57 bp):
TTCGCAACGCGATAGTCAAATTCGCAACGCGAATTTGATCGCAACACAGAAGTCAAA
Found at i:1060734 original size:40 final size:41
Alignment explanation
Indices: 1060669--1060754 Score: 122
Period size: 40 Copynumber: 2.1 Consensus size: 41
1060659 GCGAATTTGT
* *
1060669 GCAACACAGAAGTCAAATTCGCAACGC-G-ATAGTCAAATTC
1 GCAACACAAAAGTCAAATTCACAACGCGGAAT-GTCAAATTC
*
1060709 GCAACACAAAAGTCAAATTCACAACGCGGAATTTCAAATTC
1 GCAACACAAAAGTCAAATTCACAACGCGGAATGTCAAATTC
1060750 GCAAC
1 GCAAC
1060755 TGAATTTCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
40 25 0.61
41 14 0.34
42 2 0.05
ACGTcount: A:0.42, C:0.26, G:0.15, T:0.17
Consensus pattern (41 bp):
GCAACACAAAAGTCAAATTCACAACGCGGAATGTCAAATTC
Found at i:1060818 original size:19 final size:19
Alignment explanation
Indices: 1060737--1060809 Score: 146
Period size: 19 Copynumber: 3.8 Consensus size: 19
1060727 TCACAACGCG
1060737 GAATTTCAAATTCGCAACT
1 GAATTTCAAATTCGCAACT
1060756 GAATTTCAAATTCGCAACT
1 GAATTTCAAATTCGCAACT
1060775 GAATTTCAAATTCGCAACT
1 GAATTTCAAATTCGCAACT
1060794 GAATTTCAAATTCGCA
1 GAATTTCAAATTCGCA
1060810 TCTAGATTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 54 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (19 bp):
GAATTTCAAATTCGCAACT
Found at i:1062604 original size:11 final size:10
Alignment explanation
Indices: 1062588--1062620 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
1062578 CACGTGAGGA
1062588 TTATTTTATT
1 TTATTTTATT
1062598 CTTATTTTA-T
1 -TTATTTTATT
1062608 TTATTTTATT
1 TTATTTTATT
1062618 TTA
1 TTA
1062621 CTGTCTTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.38
10 5 0.24
11 8 0.38
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (10 bp):
TTATTTTATT
Done.