Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 89 of 290
Found at i:29906232 original size:42 final size:42
Alignment explanation
Indices: 29906155--29906256 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
29906145 AGGTGGAACG
* * * *
29906155 GAAGCTCATAAGAGCTGAATGGAAACCTATAAGGGTTAAACT
1 GAAGCTCATAAGAGTTAAATGGAAACCCATAAGGGTTAAACA
* *
29906197 GAAGCTCAAAAGAGTTAAATGGAAACCCATTAGGGTTAAACA
1 GAAGCTCATAAGAGTTAAATGGAAACCCATAAGGGTTAAACA
* *
29906239 GAAACTCATATGAGTTAA
1 GAAGCTCATAAGAGTTAA
29906257 CAAAAGCTTG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.22
Consensus pattern (42 bp):
GAAGCTCATAAGAGTTAAATGGAAACCCATAAGGGTTAAACA
Found at i:29909082 original size:40 final size:40
Alignment explanation
Indices: 29909027--29909158 Score: 237
Period size: 40 Copynumber: 3.3 Consensus size: 40
29909017 ATTGGAATAT
* * *
29909027 ATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGATAT
1 ATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATAG
29909067 ATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATAG
1 ATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATAG
29909107 ATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATAG
1 ATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATAG
29909147 ATCCGGGCTAAG
1 ATCCGGGCTAAG
29909159 TGATATATCC
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATAG
Found at i:29909188 original size:101 final size:101
Alignment explanation
Indices: 29909070--29909258 Score: 324
Period size: 101 Copynumber: 1.9 Consensus size: 101
29909060 ATGATATATC
* * *
29909070 CGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATAGATCCGGGCTAAGACCCGAAGGCAATTAT
1 CGGGCTAAAACCCGAAGGCAATTATGCGAGATGATAGATCCGGGCTAAAACCCGAAGGCAATTAT
*
29909135 GCGAGTTGATAGATCCGGGCTAAGTGATATATCCGG
66 GCGAGATGATAGATCCGGGCTAAGTGATATATCCGG
*
29909171 CGGGCTAAAACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAAACCCGAAGGCAATTAT
1 CGGGCTAAAACCCGAAGGCAATTATGCGAGATGATAGATCCGGGCTAAAACCCGAAGGCAATTAT
*
29909236 GCGAGATGATATATCCGGGCTAA
66 GCGAGATGATAGATCCGGGCTAA
29909259 AACCCGAAGG
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 82 1.00
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.20
Consensus pattern (101 bp):
CGGGCTAAAACCCGAAGGCAATTATGCGAGATGATAGATCCGGGCTAAAACCCGAAGGCAATTAT
GCGAGATGATAGATCCGGGCTAAGTGATATATCCGG
Found at i:29909222 original size:40 final size:40
Alignment explanation
Indices: 29909171--29909431 Score: 477
Period size: 40 Copynumber: 6.5 Consensus size: 40
29909161 ATATATCCGG
29909171 CGGGCTAAAACCCGAAGGCAATTATGCGAGATGATATATC
1 CGGGCTAAAACCCGAAGGCAATTATGCGAGATGATATATC
29909211 CGGGCTAAAACCCGAAGGCAATTATGCGAGATGATATATC
1 CGGGCTAAAACCCGAAGGCAATTATGCGAGATGATATATC
29909251 CGGGCTAAAACCCGAAGGCAATTATGCGAGATGATATATC
1 CGGGCTAAAACCCGAAGGCAATTATGCGAGATGATATATC
29909291 CGGGCTAAAACCCGAAGGCAATTATGCGAGATGATATATC
1 CGGGCTAAAACCCGAAGGCAATTATGCGAGATGATATATC
29909331 CGGGCTAAAACCCGAAGGCAATTATGCGAGATGATATATC
1 CGGGCTAAAACCCGAAGGCAATTATGCGAGATGATATATC
* * * *
29909371 CGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATGTT
1 CGGGCTAAAACCCGAAGGCAATTATGCGAGATGATATATC
*
29909411 CGGGCTAAGACCCGAAGGCAA
1 CGGGCTAAAACCCGAAGGCAA
29909432 ATGTGTTTGC
Statistics
Matches: 217, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (40 bp):
CGGGCTAAAACCCGAAGGCAATTATGCGAGATGATATATC
Found at i:29909286 original size:141 final size:141
Alignment explanation
Indices: 29909030--29909298 Score: 466
Period size: 141 Copynumber: 1.9 Consensus size: 141
29909020 GGAATATATC
** *
29909030 CGGGCTATGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTAT
1 CGGGCTAAAACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAAACCCGAAGGCAATTAT
* * *
29909095 GCGAGTTGATAGATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATAGATCCGGGCTAAGT
66 GCGAGATGATAGATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATGATAGATCCGGGCTAAGT
29909160 GATATATCCGG
131 GATATATCCGG
29909171 CGGGCTAAAACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAAACCCGAAGGCAATTAT
1 CGGGCTAAAACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAAACCCGAAGGCAATTAT
* *
29909236 GCGAGATGATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAA
66 GCGAGATGATAGATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATGATAGATCCGGGCTAA
29909299 AACCCGAAGG
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
141 120 1.00
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (141 bp):
CGGGCTAAAACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAAACCCGAAGGCAATTAT
GCGAGATGATAGATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATGATAGATCCGGGCTAAGT
GATATATCCGG
Found at i:29911745 original size:46 final size:46
Alignment explanation
Indices: 29911695--29911864 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
29911685 TTGAGCATCT
*
29911695 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * * *
29911741 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* * *
29911788 GAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
*
29911834 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
29911865 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 57 0.56
47 27 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:29911848 original size:93 final size:93
Alignment explanation
Indices: 29911689--29911859 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
29911679 GGATGGTTGA
* * **
29911689 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
29911754 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
29911782 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
29911847 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
29911860 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:29920596 original size:42 final size:42
Alignment explanation
Indices: 29920536--29920635 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
29920526 TCCTTACTCG
* * * *
29920536 TGTAACTCTCAAAGTTGCCTTACACGCTCGTGTGCTAGGCCT
1 TGTAACTCACTAACTTGCCTTACACGCTCGTGTGCCAGGCCT
*
29920578 TGTAACTCACTAACTTGCCTTACACGCTCGTGTGCCAGTCCT
1 TGTAACTCACTAACTTGCCTTACACGCTCGTGTGCCAGGCCT
*
29920620 TGTAACTCACTGACTT
1 TGTAACTCACTAACTT
29920636 AAACCTTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.20, C:0.30, G:0.18, T:0.32
Consensus pattern (42 bp):
TGTAACTCACTAACTTGCCTTACACGCTCGTGTGCCAGGCCT
Found at i:29926734 original size:19 final size:21
Alignment explanation
Indices: 29926701--29926741 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
29926691 AAATGTTAGG
29926701 AAAAAAACTCGTTAAG-TGCC
1 AAAAAAACTCGTTAAGTTGCC
*
29926721 AAAAAGACTC-TTAAGTTGCC
1 AAAAAAACTCGTTAAGTTGCC
29926741 A
1 A
29926742 CAACGAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.22
Consensus pattern (21 bp):
AAAAAAACTCGTTAAGTTGCC
Found at i:29927389 original size:23 final size:23
Alignment explanation
Indices: 29927362--29927407 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
29927352 AAAAATGAGT
*
29927362 ATTTTCTTTCTTTCTT-TTTTCTA
1 ATTTTCTTTATTT-TTCTTTTCTA
29927385 ATTTTCTTTATTTTTCTTTTCTA
1 ATTTTCTTTATTTTTCTTTTCTA
29927408 CTCACTTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (23 bp):
ATTTTCTTTATTTTTCTTTTCTA
Found at i:29931136 original size:4 final size:4
Alignment explanation
Indices: 29931127--29931180 Score: 65
Period size: 4 Copynumber: 13.2 Consensus size: 4
29931117 AAAGATAAAG
* *
29931127 ATAA ATAA ATAA CGA-AA ATAA ATAA ATAA ATAA ATAA ACAA ATAA ACAA
1 ATAA ATAA ATAA --ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
29931176 ATAA A
1 ATAA A
29931181 ATACATCAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
3 1 0.02
4 39 0.91
5 2 0.05
6 1 0.02
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.19
Consensus pattern (4 bp):
ATAA
Found at i:29933579 original size:43 final size:43
Alignment explanation
Indices: 29933517--29933846 Score: 294
Period size: 43 Copynumber: 7.7 Consensus size: 43
29933507 AAAAAGCATC
* *
29933517 ACTATAGAACGTGACCTTTAGCGGCACTTTTCCCACAAATGCT
1 ACTATAGAACGTGGCCTTTAGCGGCACTTTTCCCACAAACGCT
* * *
29933560 TCTATAGAATGTGGCCTTTAGCGGCGCTTTTCCCACAAACGC-
1 ACTATAGAACGTGGCCTTTAGCGGCACTTTTCCCACAAACGCT
* * * * * *
29933602 -CGT-TAGAACGTGGCCTTTAGTGACGCTTTTCGCACAAACACC
1 AC-TATAGAACGTGGCCTTTAGCGGCACTTTTCCCACAAACGCT
* * *
29933644 ACTATAGAACGTGGCCTTTAGTGGCACTTGTCCCACAAACGCC
1 ACTATAGAACGTGGCCTTTAGCGGCACTTTTCCCACAAACGCT
* * * * *
29933687 ACTATAGAACGTGGCTTTTAGTGGCGCTTTTTCCACAAAC-AT
1 ACTATAGAACGTGGCCTTTAGCGGCACTTTTCCCACAAACGCT
* ** * * *
29933729 -CGTTATAGAATGTGGCCTTTAGCAACACTTGTCCCATAAATGCT
1 AC--TATAGAACGTGGCCTTTAGCGGCACTTTTCCCACAAACGCT
* * * *
29933773 GCTATAGAATGTGACCTTTAGCGGCAC-TTTCACCATAAACGCT
1 ACTATAGAACGTGGCCTTTAGCGGCACTTTTC-CCACAAACGCT
* * *
29933816 GCTATAGAATGTGGCCTTCAGCGGCACTTTT
1 ACTATAGAACGTGGCCTTTAGCGGCACTTTT
29933847 ACTAAAAACG
Statistics
Matches: 238, Mismatches: 39, Indels: 19
0.80 0.13 0.06
Matches are distributed among these distances:
41 35 0.15
42 5 0.02
43 193 0.81
44 4 0.02
45 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (43 bp):
ACTATAGAACGTGGCCTTTAGCGGCACTTTTCCCACAAACGCT
Found at i:29934661 original size:13 final size:14
Alignment explanation
Indices: 29934635--29934663 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
29934625 ACAAACGATG
29934635 AATTAAACCATTAT
1 AATTAAACCATTAT
29934649 AATTAAA-CATTAT
1 AATTAAACCATTAT
29934662 AA
1 AA
29934664 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:29937824 original size:34 final size:34
Alignment explanation
Indices: 29937748--29937834 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 34
29937738 GATATGGTAT
* * *
29937748 TGAATTGGGCTAAGGCCCACATTGTTACTGCTAC
1 TGAAATGGGCTAAGGCCCACATTGATACTACTAC
* *
29937782 TGCAATGGGCTAAGGCCCACATTGATATTACTAC
1 TGAAATGGGCTAAGGCCCACATTGATACTACTAC
29937816 T-AATATGGGCTTAA-GCCCA
1 TGAA-ATGGGC-TAAGGCCCA
29937835 GACTGTTCAG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
33 1 0.02
34 41 0.91
35 3 0.07
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (34 bp):
TGAAATGGGCTAAGGCCCACATTGATACTACTAC
Found at i:29938277 original size:19 final size:19
Alignment explanation
Indices: 29938253--29938293 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
29938243 TTGGATTAAT
29938253 CAAGATAGTTTTTTCCAAA
1 CAAGATAGTTTTTTCCAAA
29938272 CAAGATAGTTTTTTCCAAA
1 CAAGATAGTTTTTTCCAAA
29938291 CAA
1 CAA
29938294 CCACAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (19 bp):
CAAGATAGTTTTTTCCAAA
Found at i:29942553 original size:38 final size:38
Alignment explanation
Indices: 29942479--29942606 Score: 192
Period size: 38 Copynumber: 3.5 Consensus size: 38
29942469 GGGTGTAAAC
* *
29942479 TATGTAAGTTATGTAAGT-TAT-GGTATGATATATATT
1 TATGTAAGTTATGTAAGTCCATAGATATGATATATATT
*
29942515 TTTGTAAGTTATGTAAGTCCATAGATATGATATATATT
1 TATGTAAGTTATGTAAGTCCATAGATATGATATATATT
*
29942553 TATGTAAGTTATGTAAGTCCATAGATATCATATATATT
1 TATGTAAGTTATGTAAGTCCATAGATATGATATATATT
29942591 TATGT-A-TTATGTAAGT
1 TATGTAAGTTATGTAAGT
29942607 TATGATCCAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
36 27 0.32
37 3 0.04
38 55 0.65
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.45
Consensus pattern (38 bp):
TATGTAAGTTATGTAAGTCCATAGATATGATATATATT
Found at i:29945111 original size:54 final size:54
Alignment explanation
Indices: 29945036--29945171 Score: 272
Period size: 54 Copynumber: 2.5 Consensus size: 54
29945026 GTTTATTTCA
29945036 CATTAAGATAAATATTATTTCACTTAAACCATTTATGATATGATATATATTTAC
1 CATTAAGATAAATATTATTTCACTTAAACCATTTATGATATGATATATATTTAC
29945090 CATTAAGATAAATATTATTTCACTTAAACCATTTATGATATGATATATATTTAC
1 CATTAAGATAAATATTATTTCACTTAAACCATTTATGATATGATATATATTTAC
29945144 CATTAAGATAAATATTATTTCACTTAAA
1 CATTAAGATAAATATTATTTCACTTAAA
29945172 GAAAAAGAAA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 82 1.00
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (54 bp):
CATTAAGATAAATATTATTTCACTTAAACCATTTATGATATGATATATATTTAC
Found at i:29946119 original size:41 final size:40
Alignment explanation
Indices: 29946042--29946124 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 40
29946032 TTAATATATA
*
29946042 TTAGCGGTGTTTGGAAAAAAACACCACTATCGCTCAACTT
1 TTAGCGGTGTTTGGAAAAAAACACCACTATCACTCAACTT
* * * *
29946082 TTAGCGGTGTTTGGACCAAAAACGCCATTATTACTCAACTT
1 TTAGCGGTGTTTGGA-AAAAAACACCACTATCACTCAACTT
29946123 TT
1 TT
29946125 TGAAGCGTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 15 0.41
41 22 0.59
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (40 bp):
TTAGCGGTGTTTGGAAAAAAACACCACTATCACTCAACTT
Found at i:29948505 original size:20 final size:21
Alignment explanation
Indices: 29948472--29948512 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
29948462 ATTGTTAATT
*
29948472 TATATATTTGAATTT-ATATA
1 TATATATTTCAATTTCATATA
*
29948492 TATATTTTTCAATTTCATATA
1 TATATATTTCAATTTCATATA
29948513 ATTAATAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (21 bp):
TATATATTTCAATTTCATATA
Found at i:29956826 original size:15 final size:14
Alignment explanation
Indices: 29956806--29956855 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
29956796 AAAACCTCAC
29956806 TTTTTATATCAATTT
1 TTTTTATAT-AATTT
29956821 TTTTTATA-AATATAT
1 TTTTTATATAAT-T-T
*
29956836 TTGTTATATAATTT
1 TTTTTATATAATTT
29956850 TTTTTA
1 TTTTTA
29956856 CTTATATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 3 0.10
14 7 0.23
15 17 0.57
16 3 0.10
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (14 bp):
TTTTTATATAATTT
Found at i:29957686 original size:15 final size:14
Alignment explanation
Indices: 29957641--29957690 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
29957631 ATAATATAAG
29957641 TAAAAAAAATTATA
1 TAAAAAAAATTATA
*
29957655 TAACAAATATATT-TA
1 TAA-AAA-AAATTATA
29957670 TAAAAAAAATTGATA
1 TAAAAAAAATT-ATA
29957685 TAAAAA
1 TAAAAA
29957691 GTGAGGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 4 0.13
14 6 0.20
15 16 0.53
16 4 0.13
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (14 bp):
TAAAAAAAATTATA
Found at i:29957732 original size:51 final size:51
Alignment explanation
Indices: 29957676--29957780 Score: 183
Period size: 51 Copynumber: 2.1 Consensus size: 51
29957666 TTTATAAAAA
* * *
29957676 AAATTGATATAAAAAGTGAGGTTTTGGTTGAAATAATAAAATTAAGATATT
1 AAATTGATATAAAAAGTGAGGCTTTGGTTAAAATAATAAAATTAAGATACT
29957727 AAATTGATATAAAAAGTGAGGCTTTGGTTAAAATAATAAAATTAAGATACT
1 AAATTGATATAAAAAGTGAGGCTTTGGTTAAAATAATAAAATTAAGATACT
29957778 AAA
1 AAA
29957781 AAAATATAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.50, C:0.02, G:0.16, T:0.32
Consensus pattern (51 bp):
AAATTGATATAAAAAGTGAGGCTTTGGTTAAAATAATAAAATTAAGATACT
Found at i:29961077 original size:30 final size:30
Alignment explanation
Indices: 29961043--29961103 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
29961033 TCCTTAACTC
29961043 AAACTTTTACAAAATTACAATTTTGCCCCT
1 AAACTTTTACAAAATTACAATTTTGCCCCT
* * * *
29961073 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTACAAAATTACAATTTTGCCCCT
29961103 A
1 A
29961104 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.39
Consensus pattern (30 bp):
AAACTTTTACAAAATTACAATTTTGCCCCT
Found at i:29962591 original size:25 final size:25
Alignment explanation
Indices: 29962545--29962592 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
29962535 ACGAGACTAA
** * *
29962545 AATTGCTCACAGGAGTTGTGAATAT
1 AATTGCTCACACAAGCTATGAATAT
29962570 AATTGCTCACACAAGCTATGAAT
1 AATTGCTCACACAAGCTATGAAT
29962593 CAGGACTTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (25 bp):
AATTGCTCACACAAGCTATGAATAT
Found at i:29972379 original size:28 final size:28
Alignment explanation
Indices: 29972347--29972458 Score: 113
Period size: 29 Copynumber: 4.0 Consensus size: 28
29972337 CCTGTATCTG
*
29972347 GCCCATTAGGCCC-AATCATATTCATAT
1 GCCCATTAGGCCCAAATCACATTCATAT
* *
29972374 AGCCCATTAGGCCCAAACCACCTGT-ATAT
1 -GCCCATTAGGCCCAAATCACAT-TCATAT
*
29972403 GACCCATTAGGCCCAAATCACATTTATAT
1 G-CCCATTAGGCCCAAATCACATTCATAT
* *
29972432 GGCCCGTTAGGCCC-AGTCACATTCATA
1 -GCCCATTAGGCCCAAATCACATTCATA
29972459 CTCATGCTCA
Statistics
Matches: 71, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
28 26 0.37
29 43 0.61
30 2 0.03
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.25
Consensus pattern (28 bp):
GCCCATTAGGCCCAAATCACATTCATAT
Found at i:29972397 original size:57 final size:58
Alignment explanation
Indices: 29972336--29972446 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
29972326 AAATTCACAT
* * *
29972336 ACCTGTATCTGGCCCATTAGGCCC-AATCATATTCATATAGCCCATTAGGCCCAAACC
1 ACCTGTATATGACCCATTAGGCCCAAATCACATTCATATAGCCCATTAGGCCCAAACC
* * *
29972393 ACCTGTATATGACCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATATGACCCATTAGGCCCAAATCACATTCATATAGCCCATTAGGCCCA
29972447 GTCACATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 22 0.47
58 25 0.53
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (58 bp):
ACCTGTATATGACCCATTAGGCCCAAATCACATTCATATAGCCCATTAGGCCCAAACC
Found at i:29976499 original size:40 final size:40
Alignment explanation
Indices: 29976455--29976630 Score: 151
Period size: 40 Copynumber: 4.4 Consensus size: 40
29976445 GGGGTATTAG
* *
29976455 AGTACAAACAGAGGCATGCATGTTCAATCAGGGGTGCCGA
1 AGTACAAACAGAGGCATGCATGTGCAATCAGGGGTACCGA
* * ** *
29976495 AGTACAAACAG-GGAAATGTATGTAAAATTAGGGGTACCGA
1 AGTACAAACAGAGG-CATGCATGTGCAATCAGGGGTACCGA
*
29976535 AGTACAAA-A-AGGTCCACGCATGTGCAATCAGGGGTACCGA
1 AGTACAAACAGAGG--CATGCATGTGCAATCAGGGGTACCGA
* * * * ** *
29976575 AGTTCAAATAGGGGCATGTATGTGCTCTCAGGGGTACCAA
1 AGTACAAACAGAGGCATGCATGTGCAATCAGGGGTACCGA
* *
29976615 AATACAAATAGAGGCA
1 AGTACAAACAGAGGCA
29976631 CGTTTGCGCA
Statistics
Matches: 108, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
39 5 0.05
40 100 0.93
41 1 0.01
42 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (40 bp):
AGTACAAACAGAGGCATGCATGTGCAATCAGGGGTACCGA
Found at i:29976608 original size:80 final size:80
Alignment explanation
Indices: 29976472--29976622 Score: 185
Period size: 80 Copynumber: 1.9 Consensus size: 80
29976462 ACAGAGGCAT
* * * * *
29976472 GCATGTTCAATCAGGGGTGCCGAAGTACAAACAGGGAAATGTATGTAAAATTAGGGGTACCGAAG
1 GCATGTGCAATCAGGGGTACCGAAGTACAAACAGGGAAATGTATGTAAAATCAGGGGTACCAAAA
29976537 TACAAAAAGGTCCAC
66 TACAAAAAGGTCCAC
* * ** ****
29976552 GCATGTGCAATCAGGGGTACCGAAGTTCAAATAGGGGCATGTATGTGCTCTCAGGGGTACCAAAA
1 GCATGTGCAATCAGGGGTACCGAAGTACAAACAGGGAAATGTATGTAAAATCAGGGGTACCAAAA
29976617 TACAAA
66 TACAAA
29976623 TAGAGGCACG
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 58 1.00
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (80 bp):
GCATGTGCAATCAGGGGTACCGAAGTACAAACAGGGAAATGTATGTAAAATCAGGGGTACCAAAA
TACAAAAAGGTCCAC
Found at i:29983593 original size:40 final size:40
Alignment explanation
Indices: 29983549--29983631 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 40
29983539 GTAAATGCGT
* *
29983549 TCAGGGGTACCGGAGTACAAACAGAGGCATGTATGTGCAA
1 TCAGGGGTACCGAAGTACAAACAGAGGCACGTATGTGCAA
* *
29983589 TCAGGGGTACCGAAGTACAAACAGAGGCACGTTTGTGTAA
1 TCAGGGGTACCGAAGTACAAACAGAGGCACGTATGTGCAA
29983629 TCA
1 TCA
29983632 TACAATAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.19
Consensus pattern (40 bp):
TCAGGGGTACCGAAGTACAAACAGAGGCACGTATGTGCAA
Found at i:29991552 original size:20 final size:20
Alignment explanation
Indices: 29991496--29991560 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
29991486 CACTCTCAAT
** *
29991496 CATATAAACAGTAATTCATT
1 CATATAAACAGTACCTCATC
*
29991516 CA-AT-AATAGTACCTCATC
1 CATATAAACAGTACCTCATC
* *
29991534 CGTATAAACAGTACTTCATC
1 CATATAAACAGTACCTCATC
29991554 CATATAA
1 CATATAA
29991561 CAATAATTTA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
18 11 0.31
19 4 0.11
20 20 0.57
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.31
Consensus pattern (20 bp):
CATATAAACAGTACCTCATC
Found at i:29991782 original size:24 final size:24
Alignment explanation
Indices: 29991750--29991807 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
29991740 GCTGATGGAT
29991750 AGTAAGCTCT-ATCGAGTTAAAAAC
1 AGTAAGCTCTGAT-GAGTTAAAAAC
* * *
29991774 AGTAAGCTCTGATGAGTTGAGAAT
1 AGTAAGCTCTGATGAGTTAAAAAC
29991798 AGTAAGCTCT
1 AGTAAGCTCT
29991808 TACGAGCTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 28 0.93
25 2 0.07
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (24 bp):
AGTAAGCTCTGATGAGTTAAAAAC
Found at i:29997985 original size:21 final size:22
Alignment explanation
Indices: 29997947--29997991 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
29997937 ATTATGAATA
*
29997947 TTAATTCATAATATAATTAATT
1 TTAATTCATAATACAATTAATT
* *
29997969 TTAATTC-TAATCCAATTTATT
1 TTAATTCATAATACAATTAATT
29997990 TT
1 TT
29997992 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAATTCATAATACAATTAATT
Found at i:30005313 original size:43 final size:42
Alignment explanation
Indices: 30005264--30005349 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 42
30005254 CCACCAGGAA
**
30005264 AGATCATTTTGGGTTTTCTTTCCCGAATAAGATGTTGGACGG
1 AGATCATTACGGGTTTTCTTTCCCGAATAAGATGTTGGACGG
*
30005306 ANGATCATTACGGGTTTTCTTTCCCTAATAAGATGTTGGACGG
1 A-GATCATTACGGGTTTTCTTTCCCGAATAAGATGTTGGACGG
30005349 A
1 A
30005350 TTTGATAGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 1 0.03
43 39 0.98
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.36
Consensus pattern (42 bp):
AGATCATTACGGGTTTTCTTTCCCGAATAAGATGTTGGACGG
Found at i:30006969 original size:16 final size:16
Alignment explanation
Indices: 30006944--30006974 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30006934 GAATGCTCGT
30006944 GAAAAAAAAAGAAAAA
1 GAAAAAAAAAGAAAAA
*
30006960 GAAAAGAAAAGAAAA
1 GAAAAAAAAAGAAAA
30006975 GAGCATATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
GAAAAAAAAAGAAAAA
Found at i:30007394 original size:5 final size:5
Alignment explanation
Indices: 30007377--30007423 Score: 58
Period size: 5 Copynumber: 8.6 Consensus size: 5
30007367 TTCTATATGG
30007377 ATTTT ACTTTT ATTTT ATTTT ATTTT ATCATTGT ATTTT ATTTT ATT
1 ATTTT A-TTTT ATTTT ATTTT ATTTT AT--TT-T ATTTT ATTTT ATT
30007424 AAGGATTTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
5 26 0.68
6 7 0.18
7 2 0.05
8 3 0.08
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.72
Consensus pattern (5 bp):
ATTTT
Found at i:30017694 original size:27 final size:26
Alignment explanation
Indices: 30017646--30017705 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
30017636 GCGAGGCTGC
*
30017646 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
30017673 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
30017699 CAAATAT
1 CAGATAT
30017706 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:30025172 original size:8 final size:8
Alignment explanation
Indices: 30025161--30025190 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
30025151 AGTGGGCCTG
30025161 TTGGCCCA
1 TTGGCCCA
*
30025169 TTGGCCCG
1 TTGGCCCA
30025177 TTGGCCCA
1 TTGGCCCA
30025185 TTGGCC
1 TTGGCC
30025191 TATTTTTGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.07, C:0.37, G:0.30, T:0.27
Consensus pattern (8 bp):
TTGGCCCA
Found at i:30025179 original size:16 final size:16
Alignment explanation
Indices: 30025155--30025190 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
30025145 TACCAAAGTG
*
30025155 GGCCTGTTGGCCCATT
1 GGCCCGTTGGCCCATT
30025171 GGCCCGTTGGCCCATT
1 GGCCCGTTGGCCCATT
30025187 GGCC
1 GGCC
30025191 TATTTTTGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.06, C:0.36, G:0.33, T:0.25
Consensus pattern (16 bp):
GGCCCGTTGGCCCATT
Found at i:30035198 original size:40 final size:40
Alignment explanation
Indices: 30035104--30035368 Score: 298
Period size: 40 Copynumber: 6.6 Consensus size: 40
30035094 TATTCAAATG
* * * *
30035104 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GCGACT
* * * * ***
30035145 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTCCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGCGACT
* * *
30035185 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGCGACT
* *
30035225 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGCGACT
*
30035265 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTG-GCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGCGACT
* * * * *
30035305 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGCGACT
*
30035345 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
30035369 CTTGCGCAAG
Statistics
Matches: 191, Mismatches: 31, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
40 164 0.86
41 27 0.14
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGCGACT
Found at i:30035283 original size:80 final size:80
Alignment explanation
Indices: 30035104--30035368 Score: 341
Period size: 80 Copynumber: 3.3 Consensus size: 80
30035094 TATTCAAATG
* * * * * *
30035104 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAGACCCGAAGGC
* * **
30035169 ATTCGTGCGAGTTCCT
65 ATTTGTGCTAGTGACT
* * *
30035185 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGACCCGAAGGCA
*
30035250 TTTGTGCTAGCGACT
66 TTTGTGCTAGTGACT
* * *
30035265 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTGGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGACCCGAAGGCA
* *
30035330 TTTATGCTAGTGACC
66 TTTGTGCTAGTGACT
*
30035345 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
30035369 CTTGCGCAAG
Statistics
Matches: 159, Mismatches: 25, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
80 128 0.81
81 31 0.19
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCTAGTGACT
Found at i:30035318 original size:120 final size:121
Alignment explanation
Indices: 30035104--30035368 Score: 336
Period size: 120 Copynumber: 2.2 Consensus size: 121
30035094 TATTCAAATG
* * * * *
30035104 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAAACCCGAAGGC
*** * **
30035169 ATTCGTGCGAGTTCCTATATCCAGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
66 ATTCGTGCGAGCGACTATATCCAGGCTAAGACCCGAAGGCATTTATGCTAGCGACC
* * *
30035225 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAAACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAAACCCGAAGGC
* * * *
30035289 ATTTGTGCTG-GCGACTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
66 ATTCGTGC-GAGCGACTATATCCAGGCTAAGACCCGAAGGCATTTATGCTAGCGACC
*
30035345 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
30035369 CTTGCGCAAG
Statistics
Matches: 123, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
120 91 0.74
121 32 0.26
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (121 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAAACCCGAAGGC
ATTCGTGCGAGCGACTATATCCAGGCTAAGACCCGAAGGCATTTATGCTAGCGACC
Found at i:30043434 original size:40 final size:40
Alignment explanation
Indices: 30043340--30043564 Score: 231
Period size: 40 Copynumber: 5.6 Consensus size: 40
30043330 TATTCGAATG
*
30043340 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * ** *
30043381 ATAACCAGACTAAGATCCGAAGGCATTCATGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* ** *
30043421 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
30043461 ATATCCGGGCTAAAATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
30043501 ATATCCGGGCTAAG-TCCCGAAGGCATATATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
30043541 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
30043565 CTTGCGCAAG
Statistics
Matches: 151, Mismatches: 28, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
39 1 0.01
40 122 0.81
41 27 0.18
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:30043547 original size:80 final size:80
Alignment explanation
Indices: 30043340--30043564 Score: 263
Period size: 80 Copynumber: 2.8 Consensus size: 80
30043330 TATTCGAATG
* * * *
30043340 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCAGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGATCCGAAGGC
*
30043405 ATTCATGCGAGTTGCT
65 ATTCATGCGAGTCGCT
* ** * *
30043421 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAATTATATCCGGGCTAAAATCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGATCCGAAGGCA
** *
30043486 TTTGTGCTAG-CGACT
66 TTCATGCGAGTCG-CT
* * * * *
30043501 ATATCCGGGCTAAGTCCCGAAGGCATATATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGATCCGAAGGC
30043565 CTTGCGCAAG
Statistics
Matches: 120, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
79 1 0.01
80 87 0.73
81 32 0.27
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGATCCGAAGGCA
TTCATGCGAGTCGCT
Found at i:30043554 original size:120 final size:121
Alignment explanation
Indices: 30043340--30043596 Score: 303
Period size: 120 Copynumber: 2.1 Consensus size: 121
30043330 TATTCGAATG
* * *
30043340 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCAGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATCCGAAGGC
* *
30043405 ATTCATGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAATT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAATT
* * *
30043461 ATATCCGGGCTAAAAT-CCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAG
1 ATATCCGGGCT-AAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGAT-CCGAAG
* * * * * *
30043523 GCATAT-ATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGC-CTTGCGCAAGTAGTT
64 GCAT-TCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAATT
30043580 ATATCC-GGCTAAATCCC
1 ATATCCGGGCTAAATCCC
30043597 AAAGATTTCT
Statistics
Matches: 117, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
117 4 0.03
118 6 0.05
119 19 0.16
120 56 0.48
121 29 0.25
122 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.24
Consensus pattern (121 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAATT
Found at i:30052491 original size:30 final size:31
Alignment explanation
Indices: 30052450--30052507 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
30052440 GATTTATAAG
30052450 AATCTGATTTCTATTCCAAATGGTTCAGTGT
1 AATCTGATTTCTATTCCAAATGGTTCAGTGT
**
30052481 AATC-GATTTCTATTCTGAATGGTTCAG
1 AATCTGATTTCTATTCCAAATGGTTCAG
30052508 CAGGTAAACG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (31 bp):
AATCTGATTTCTATTCCAAATGGTTCAGTGT
Found at i:30057509 original size:43 final size:42
Alignment explanation
Indices: 30057401--30057521 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 42
30057391 ACATTAGGGT
* *
30057401 TACTGAGATAACATGTAATACCTTATCTGGGATATGGAATCGA
1 TACT-AGATTACATGTAATACCATATCTGGGATATGGAATCGA
* * * * * *
30057444 TATTAGACTT-CGTGTAAGACCATAGCTGGGCTATTGGCATCGA
1 TACTAGA-TTACATGTAATACCATATCTGGGATA-TGGAATCGA
*
30057487 TACTAGATTACATATAATACCATATCTGGGATATG
1 TACTAGATTACATGTAATACCATATCTGGGATATG
30057522 ACATTGGTAC
Statistics
Matches: 61, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
42 25 0.41
43 36 0.59
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (42 bp):
TACTAGATTACATGTAATACCATATCTGGGATATGGAATCGA
Found at i:30061261 original size:16 final size:16
Alignment explanation
Indices: 30061242--30061272 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30061232 CTTATTCACT
30061242 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
30061258 TACTTACTTACTTAA
1 TACTCACTTACTTAA
30061273 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:30061278 original size:20 final size:20
Alignment explanation
Indices: 30061239--30061278 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
30061229 AAACTTATTC
* *
30061239 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
30061259 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
30061279 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:30061662 original size:107 final size:109
Alignment explanation
Indices: 30061511--30061710 Score: 289
Period size: 107 Copynumber: 1.9 Consensus size: 109
30061501 ATCCTTTTGA
* * *
30061511 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCGTACATGATATCCTTGCCTTA-GAAACCTCACCAA
* *
30061574 -TGCCATGCCTTGGCATGGTCTTACATGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTAGCATGGGCTTACATGGACCTTTGCCTTATAGT
* * *
30061618 AACTTATCAATGCCATGTCTTGACATGGTCGTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCGTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
30061683 TGTCATGCCTTAGCATGGGCTTACATGG
66 TGCCATGCCTTAGCATGGGCTTACATGG
30061711 TATCCTTAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
106 1 0.01
107 48 0.59
108 7 0.09
109 25 0.31
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (109 bp):
AACTTACCAATGCCATGTCTTGACATGGTCGTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTAGCATGGGCTTACATGGACCTTTGCCTTATAGT
Found at i:30069778 original size:55 final size:55
Alignment explanation
Indices: 30069641--30069778 Score: 147
Period size: 55 Copynumber: 2.5 Consensus size: 55
30069631 GTGGTGTTAT
* * * *
30069641 CCTTGGCATGGTCTTACATGGGA-CCTTTGTCTTATAGTAACTTATCAATGCCATG
1 CCTTGGCATGGTCTTACATGGTATCC-TTGTCCTATAGAAACTTACCAATGCCATG
* * * *
30069696 TCTTGACATGGTCTTACATGATTTCCTTG-CCT-TAGAAACCTTACCAATTGCCATG
1 CCTTGGCATGGTCTTACATGGTATCCTTGTCCTATAGAAA-CTTACCAA-TGCCATG
*
30069751 CCTTGGCATGGCCTTACATGGTATCCTT
1 CCTTGGCATGGTCTTACATGGTATCCTT
30069779 AAACCCTAAT
Statistics
Matches: 67, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
53 5 0.07
54 9 0.13
55 51 0.76
56 2 0.03
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (55 bp):
CCTTGGCATGGTCTTACATGGTATCCTTGTCCTATAGAAACTTACCAATGCCATG
Found at i:30081496 original size:39 final size:39
Alignment explanation
Indices: 30081437--30081599 Score: 231
Period size: 39 Copynumber: 4.2 Consensus size: 39
30081427 CAGTGATGTT
*
30081437 TATCCGGACTT-AGAGCCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAG-GTCCGCAGGCTATGTGCTGGAATTA
30081476 TATCCGGACTT-AGAGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAG-GTCCGCAGGCTATGTGCTGGAATTA
*
30081515 TATCCGGTCTTAAGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* ** *
30081554 TAACCGGACTTAAGGTCCGCAGGCTACATGCTGGAAATA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
*
30081593 TGTCCGG
1 TATCCGG
30081600 GCTAAAGTCC
Statistics
Matches: 114, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 112 0.98
40 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:30081626 original size:78 final size:78
Alignment explanation
Indices: 30081437--30081637 Score: 212
Period size: 78 Copynumber: 2.6 Consensus size: 78
30081427 CAGTGATGTT
* * * * * *
30081437 TATCCGGACTTAGAGCCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGAGTCCGCAGGCTA
1 TATCCGGGCTTAAAGTCCACAGGCTATGAGCTGGAATTATAACCGGACTTAGAGTCCGCAGGCTA
** *
30081502 TGTGCTGGAATTA
66 CATGCTGGAAATA
* * * *
30081515 TATCCGGTCTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACCGGACTTA-AGGTCCGCAGGCT
1 TATCCGGGCTTAAAGTCCACAGGCTATGAGCTGGAATTATAACCGGACTTAGA-GTCCGCAGGCT
30081579 ACATGCTGGAAATA
65 ACATGCTGGAAATA
* *
30081593 TGTCCGGGC-TAAAGTCCCACAGGCT-TCGAGCTGGTATTAT-ACCGG
1 TATCCGGGCTTAAAGT-CCACAGGCTAT-GAGCTGGAATTATAACCGG
30081638 GTTTAAATTC
Statistics
Matches: 106, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
77 12 0.11
78 94 0.89
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (78 bp):
TATCCGGGCTTAAAGTCCACAGGCTATGAGCTGGAATTATAACCGGACTTAGAGTCCGCAGGCTA
CATGCTGGAAATA
Found at i:30090779 original size:39 final size:39
Alignment explanation
Indices: 30090720--30090878 Score: 189
Period size: 39 Copynumber: 4.1 Consensus size: 39
30090710 AAATGATGTT
* *
30090720 TATCTGGACTTAGA-GTCCGCAGACTATGTGCTGGAATTA
1 TATCCGGACTTA-AGGTCCGCAGGCTATGTGCTGGAATTA
30090759 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
30090798 TAACCGGACTTAAGGTCCGTAGGCTACGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * * *
30090837 TATCCGGGC-TAAAGTCCCGCAGGCT-TCTAGCTGGTATTA
1 TATCCGGACTTAAGGT-CCGCAGGCTATGT-GCTGGAATTA
30090876 TAT
1 TAT
30090879 AGGGTTTAAA
Statistics
Matches: 105, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
38 7 0.07
39 98 0.93
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:30093176 original size:45 final size:45
Alignment explanation
Indices: 30093115--30093246 Score: 194
Period size: 45 Copynumber: 2.9 Consensus size: 45
30093105 CGATATCCTT
* * **
30093115 TCACTGGCATTATAGCCTGCTAGGCTCGAAA-TCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCAAATAGTATC
*
30093160 TCACCGGCATTGTAGCCTGCTAGGCTCAAAGGCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGTATC
*
30093205 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGT
30093247 GTCGCACGAT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
44 3 0.04
45 76 0.96
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGTATC
Found at i:30099477 original size:37 final size:37
Alignment explanation
Indices: 30099416--30099491 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
30099406 TTATTACGAA
* * *
30099416 GTCTCACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTCACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
30099453 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTCACCCGGACAAAATCCCCACACGAAGTCATCGG
30099490 GT
1 GT
30099492 ATTTAGAGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (37 bp):
GTCTCACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:30099691 original size:47 final size:47
Alignment explanation
Indices: 30099613--30099968 Score: 640
Period size: 47 Copynumber: 7.6 Consensus size: 47
30099603 CCCTTCGGAA
* * * * * *
30099613 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30099660 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30099707 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30099754 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30099801 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30099848 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30099895 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30099942 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
30099969 TATTCAAATA
Statistics
Matches: 299, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 299 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30102809 original size:40 final size:40
Alignment explanation
Indices: 30102759--30103070 Score: 471
Period size: 40 Copynumber: 7.8 Consensus size: 40
30102749 CCAGCATGAT
*
30102759 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
30102799 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** *
30102839 TGCTCTTCGGGACTTATTCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
30102879 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
30102919 TGCTCTTCGGGATTTAGCCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
30102959 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** *
30102999 TGCTCTTCGGGACTTATTCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
30103039 TGCTCTTCGGGATTTAGCCCGAATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
30103071 CTCAATTCTC
Statistics
Matches: 250, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 250 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:30104405 original size:37 final size:37
Alignment explanation
Indices: 30104342--30104487 Score: 211
Period size: 37 Copynumber: 3.9 Consensus size: 37
30104332 AGCTCAGATG
* * *
30104342 AAATCCCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
30104379 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
30104416 TACTTTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
30104453 TAATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
30104488 ATATATTTCC
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:30104469 original size:74 final size:74
Alignment explanation
Indices: 30104348--30104487 Score: 235
Period size: 74 Copynumber: 1.9 Consensus size: 74
30104338 GATGAAATCC
* *
30104348 CCACACGAAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCAGGTCTTACCCGG
1 CCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCAGGTCTCACCCGG
30104413 ACATACTTT
66 ACATACTTT
* * *
30104422 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTCACCCGG
1 CCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCAGGTCTCACCCGG
30104487 A
66 A
30104488 ATATATTTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 61 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (74 bp):
CCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCAGGTCTCACCCGG
ACATACTTT
Found at i:30104702 original size:47 final size:47
Alignment explanation
Indices: 30104650--30104929 Score: 425
Period size: 47 Copynumber: 6.0 Consensus size: 47
30104640 TTTCACACTA
* * * *
30104650 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
30104697 GCCATTCGGCCTTATCACACATATGCATGCTCACGTTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
30104744 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
30104791 GCCATTCGGTCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
30104838 GCCATTCGGCCTTATCACACATATGCATGCTCACGTTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* **
30104885 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
30104930 AAAATCCTAA
Statistics
Matches: 210, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 210 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:30104714 original size:25 final size:25
Alignment explanation
Indices: 30104686--30104761 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
30104676 ATGTTCATAT
30104686 TCACCACATTGGCCATTCGGCCTTA
1 TCACCACATTGGCCATTCGGCCTTA
* * *
30104711 TCA-CACATAT-G-CATGC-TCACGT-
1 TCACCACAT-TGGCCATTCGGC-CTTA
*
30104733 TCATCACATTGGCCATTCGGCCTTA
1 TCACCACATTGGCCATTCGGCCTTA
30104758 TCAC
1 TCAC
30104762 ATATATGCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 14
0.64 0.12 0.24
Matches are distributed among these distances:
22 5 0.14
23 12 0.32
24 12 0.32
25 8 0.22
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.29
Consensus pattern (25 bp):
TCACCACATTGGCCATTCGGCCTTA
Found at i:30104849 original size:141 final size:140
Alignment explanation
Indices: 30104642--30104930 Score: 490
Period size: 141 Copynumber: 2.0 Consensus size: 140
30104632 CCTACATATT
*
30104642 TCACACTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACA-TAGCCATTCGGCTTTACCACATATATGCATGTTCACATTCACCACATTGGCCATTCGGC
* *
30104707 CTTATCACACATATGCATGCTCACGTTCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
65 CTTATCACACATATGCATGCTCACGTTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
30104772 GTTCACATTCA
130 ATTCACATTCA
* *
30104783 TCACATAGGCCATTCGG-TCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGG
1 TCACATA-GCCATTCGGCT-TTACCACATATATGCATGTTCACATTCACCACATTGGCCATTCGG
30104847 CCTTATCACACATATGCATGCTCACGTTCATCACATTGGCCATTCGGCCTTATCACATATATACA
64 CCTTATCACACATATGCATGCTCACGTTCATCACATTGGCCATTCGGCCTTATCACATATATACA
30104912 CATTCACATTCA
129 CATTCACATTCA
30104924 TCACATA
1 TCACATA
30104931 AAATCCTAAA
Statistics
Matches: 140, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
140 3 0.02
141 137 0.98
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (140 bp):
TCACATAGCCATTCGGCTTTACCACATATATGCATGTTCACATTCACCACATTGGCCATTCGGCC
TTATCACACATATGCATGCTCACGTTCATCACATTGGCCATTCGGCCTTATCACATATATACACA
TTCACATTCA
Found at i:30104903 original size:22 final size:22
Alignment explanation
Indices: 30104829--30104904 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
30104819 GTTCACATTC
30104829 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
30104851 ATCACACATAT-G-CATGCTC-ACGTT
1 AT--CACAT-TGGCCAT--TCGGCCTT
30104875 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
30104898 ATCACAT
1 ATCACAT
30104905 ATATACACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.29
23 12 0.29
24 12 0.29
25 5 0.12
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:30118855 original size:16 final size:16
Alignment explanation
Indices: 30118831--30118877 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
30118821 TTATGCTTCC
30118831 AAATTAATTAATTTCT
1 AAATTAATTAATTTCT
*
30118847 AATTTAATTAATTTCT
1 AAATTAATTAATTTCT
30118863 AAATTAATTAATTTC
1 AAATTAATTAATTTC
30118878 AACCGTACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (16 bp):
AAATTAATTAATTTCT
Found at i:30119661 original size:16 final size:17
Alignment explanation
Indices: 30119637--30119684 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
30119627 TTATCATTTA
30119637 TTAAATAAAA-ATTATC
1 TTAAATAAAATATTATC
*
30119653 TTAATTAAAATATTAT-
1 TTAAATAAAATATTATC
*
30119669 TTCAATAAAATGATTA
1 TTAAATAAAAT-ATTA
30119685 AACTTCACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 18 0.67
17 9 0.33
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (17 bp):
TTAAATAAAATATTATC
Found at i:30122292 original size:15 final size:15
Alignment explanation
Indices: 30122272--30122300 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30122262 CATGCAAATT
30122272 AGAAAAGAAAGAAAA
1 AGAAAAGAAAGAAAA
30122287 AGAAAAGAAAGAAA
1 AGAAAAGAAAGAAA
30122301 GAAAAAGGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AGAAAAGAAAGAAAA
Found at i:30125628 original size:47 final size:47
Alignment explanation
Indices: 30125575--30126059 Score: 700
Period size: 47 Copynumber: 10.2 Consensus size: 47
30125565 AATTCTAAAT
30125575 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
30125622 TGTGATAAGGCTCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGC-C-TAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
30125671 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
30125718 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
30125765 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
30125812 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
30125861 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
30125908 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
*
30125957 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * *
30126004 TGTGACAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
30126051 TGTGATAAG
1 TGTGATAAG
30126060 TCCCGAAGGG
Statistics
Matches: 404, Mismatches: 28, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
47 273 0.68
48 1 0.00
49 130 0.32
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:30125723 original size:96 final size:95
Alignment explanation
Indices: 30125576--30126044 Score: 726
Period size: 96 Copynumber: 4.9 Consensus size: 95
30125566 ATTCTAAATT
* *
30125576 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTCTTAATG
1 GTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGC-C-TAATG
*
30125641 GCCGATGTGATGAATGTGAAAGTG-TATATGC
64 GCCGATGTGATGAATGTGAAAGTGATATATAC
* *
30125672 GTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGC
1 GTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGC
*
30125737 CGATGTGATGAATGTGAAAGTG-TATATGC
66 CGATGTGATGAATGTGAAAGTGATATATAC
* *
30125766 GTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAGC
1 GTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGC
*
30125831 CGATGTGATGAATGTGAAAGTGTATATATAT
66 CGATGTGATGAATGTGAAAGTG-ATATATAC
* *
30125862 GTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAGC
1 GTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGC
*
30125927 CGATGTGATGAATGTGAAAGTGTATATATAT
66 CGATGTGATGAATGTGAAAGTG-ATATATAC
* * * *
30125958 GTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGC
1 GTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGC
* *
30126023 CAATGTGATGGATGTGAAAGTG
66 CGATGTGATGAATGTGAAAGTG
30126045 CATAAATGTG
Statistics
Matches: 353, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
94 119 0.34
96 234 0.66
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (95 bp):
GTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGC
CGATGTGATGAATGTGAAAGTGATATATAC
Found at i:30125859 original size:143 final size:141
Alignment explanation
Indices: 30125575--30126059 Score: 718
Period size: 143 Copynumber: 3.4 Consensus size: 141
30125565 AATTCTAAAT
*
30125575 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTCTTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGG--CTTAAT
*
30125640 GGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGT
64 GGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCTTAATGGCCGATGTGATGAATGT
*
30125705 GAAAGTGTATATG
129 GAAAGTGTATATA
* * *
30125718 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCTTAATGG
* * *
30125783 CCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAGCCGATGTGATGAATGTGA
66 CCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
30125848 AAGTGTATATATA
131 AAGTG--TATATA
* * * *
30125861 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCTTAATGG
*
30125926 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGT
66 CCGATGTGATGAATGTGAAAGTG--TATATGTGTGATAAGGCTTAATGGCCGATGTGATGAATGT
30125991 GAAAGTGTATATA
129 GAAAGTGTATATA
* * * * * * **
30126004 TGTGACAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAG
30126060 TCCCGAAGGG
Statistics
Matches: 310, Mismatches: 28, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
141 74 0.24
143 193 0.62
145 43 0.14
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (141 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCTTAATGG
CCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
AAGTGTATATA
Found at i:30126233 original size:37 final size:37
Alignment explanation
Indices: 30126177--30126252 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
30126167 TCGAGCTCTA
* * *
30126177 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
30126214 AAGACCCGATAACTTCGTGTGGAGATTATGTTCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30126251 AA
1 AA
30126253 AACTTCGTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.28
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30127859 original size:18 final size:18
Alignment explanation
Indices: 30127836--30127875 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
30127826 AATGGAAAAT
* *
30127836 ATGAGAAATGATTATGAG
1 ATGAGAAATGAATATGAA
30127854 ATGAGAAATGAATATGAA
1 ATGAGAAATGAATATGAA
30127872 ATGA
1 ATGA
30127876 TGAATTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (18 bp):
ATGAGAAATGAATATGAA
Found at i:30128383 original size:22 final size:23
Alignment explanation
Indices: 30128357--30128402 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
30128347 CAACCAAATC
30128357 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
30128379 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
30128402 A
1 A
30128403 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:30128408 original size:23 final size:23
Alignment explanation
Indices: 30128364--30128408 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
30128354 ATCAATTCAA
*
30128364 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
30128387 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
30128409 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:30130092 original size:15 final size:15
Alignment explanation
Indices: 30130074--30130113 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
30130064 TGCTGCTGTC
30130074 CAAACTGTTTTTGTG
1 CAAACTGTTTTTGTG
30130089 CAAACTGTTTTTGTG
1 CAAACTGTTTTTGTG
*
30130104 CAAGCTGTTT
1 CAAACTGTTT
30130114 ATTACCATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.45
Consensus pattern (15 bp):
CAAACTGTTTTTGTG
Found at i:30132808 original size:14 final size:14
Alignment explanation
Indices: 30132789--30132816 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30132779 CATGTCTATA
30132789 TTTATTTTTTAAAT
1 TTTATTTTTTAAAT
30132803 TTTATTTTTTAAAT
1 TTTATTTTTTAAAT
30132817 CATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTATTTTTTAAAT
Found at i:30134672 original size:31 final size:29
Alignment explanation
Indices: 30134637--30134702 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 29
30134627 ATTCAAAAAT
30134637 TATACACGAACTGTGATTTAATGTGCAATTG
1 TATACACGAACTGTGATTT--TGTGCAATTG
* * *
30134668 TATACATGAACTTTGATTTTGTGCAATTT
1 TATACACGAACTGTGATTTTGTGCAATTG
30134697 TATACA
1 TATACA
30134703 TGAAATTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 15 0.47
31 17 0.53
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (29 bp):
TATACACGAACTGTGATTTTGTGCAATTG
Found at i:30134691 original size:29 final size:30
Alignment explanation
Indices: 30134637--30134716 Score: 99
Period size: 29 Copynumber: 2.6 Consensus size: 30
30134627 ATTCAAAAAT
* *
30134637 TATACACGAACTGTGATTTAATGTGCAATTG
1 TATACATGAACTTTGATTT-ATGTGCAATTG
*
30134668 TATACATGAACTTTGATTT-TGTGCAATTT
1 TATACATGAACTTTGATTTATGTGCAATTG
*
30134697 TATACATGAAATTTTGATTT
1 TATACATG-AACTTTGATTT
30134717 CATACAATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 17 0.39
30 10 0.23
31 17 0.39
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (30 bp):
TATACATGAACTTTGATTTATGTGCAATTG
Found at i:30134725 original size:30 final size:29
Alignment explanation
Indices: 30134662--30134725 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
30134652 ATTTAATGTG
** *
30134662 CAATTGTATACATGAACTTTGATTTTGTG
1 CAATTGTATACATGAACTTTGATTTCATA
* *
30134691 CAATTTTATACATGAAATTTTGATTTCATA
1 CAATTGTATACATG-AACTTTGATTTCATA
30134721 CAATT
1 CAATT
30134726 CTTTTAAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (29 bp):
CAATTGTATACATGAACTTTGATTTCATA
Found at i:30137504 original size:25 final size:25
Alignment explanation
Indices: 30137476--30137557 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
30137466 GGCTTTCTTA
*
30137476 AGCTTCCTGATAAATGGCTCGTAAG
1 AGCTTCCTGATAAATGGCTCGAAAG
* * ** *
30137501 AGCTTCCCGTTAAACAGCTC-ACATG
1 AGCTTCCTGATAAATGGCTCGA-AAG
*
30137526 AGCTTCCT-ATTATATGGCTCGAAAG
1 AGCTTCCTGA-TAAATGGCTCGAAAG
30137551 AGCTTCC
1 AGCTTCC
30137558 CGTTTACATG
Statistics
Matches: 42, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
25 41 0.98
26 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (25 bp):
AGCTTCCTGATAAATGGCTCGAAAG
Found at i:30137578 original size:25 final size:25
Alignment explanation
Indices: 30137492--30137583 Score: 64
Period size: 25 Copynumber: 3.6 Consensus size: 25
30137482 CTGATAAATG
*
30137492 GCTCGTAAGAGCTTCCCGTTAAACA-
1 GCTCGTAAGAGCTTCCCGTT-TACAT
** * *
30137517 GCTCACATGAGCTT-CC-TATTATAT
1 GCTCGTAAGAGCTTCCCGT-TTACAT
*
30137541 GGCTCGAAAGAGCTTCCCGTTTACAT
1 -GCTCGTAAGAGCTTCCCGTTTACAT
*
30137567 GCTCGTATGAGCATTCC
1 GCTCGTAAGAGC-TTCC
30137584 TGAATATGAC
Statistics
Matches: 50, Mismatches: 11, Indels: 11
0.69 0.15 0.15
Matches are distributed among these distances:
23 3 0.06
24 3 0.06
25 32 0.64
26 11 0.22
27 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (25 bp):
GCTCGTAAGAGCTTCCCGTTTACAT
Found at i:30137591 original size:50 final size:50
Alignment explanation
Indices: 30137476--30137591 Score: 139
Period size: 50 Copynumber: 2.3 Consensus size: 50
30137466 GGCTTTCTTA
* *
30137476 AGCTTCCTGATAAATGGCTCGTAAGAGCTTCCCGTTAAACAGCTCACATG
1 AGCTTCCTGATATATGGCTCGAAAGAGCTTCCCGTTAAACAGCTCACATG
* **
30137526 AGCTTCCT-ATTATATGGCTCGAAAGAGCTTCCCGTT-TACATGCTCGTATG
1 AGCTTCCTGA-TATATGGCTCGAAAGAGCTTCCCGTTAAACA-GCTCACATG
30137576 AGCATTCCTGA-ATATG
1 AGC-TTCCTGATATATG
30137592 ACAAATTGTT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
49 4 0.07
50 47 0.82
51 5 0.09
52 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (50 bp):
AGCTTCCTGATATATGGCTCGAAAGAGCTTCCCGTTAAACAGCTCACATG
Found at i:30139658 original size:18 final size:18
Alignment explanation
Indices: 30139631--30139665 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30139621 ACTTTGAAAT
* *
30139631 TCACTTCACTTCAATATA
1 TCACTACACTTAAATATA
30139649 TCACTACACTTAAATAT
1 TCACTACACTTAAATAT
30139666 GTTATTTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (18 bp):
TCACTACACTTAAATATA
Found at i:30141109 original size:18 final size:18
Alignment explanation
Indices: 30141077--30141119 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
30141067 GTTTAGCAAT
30141077 TATTTTTATCATAA-TAA
1 TATTTTTATCATAATTAA
30141094 TAATTTTTAT-AGTAATTAA
1 T-ATTTTTATCA-TAATTAA
30141113 TATTTTT
1 TATTTTT
30141120 TTAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 2 0.09
18 17 0.74
19 4 0.17
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (18 bp):
TATTTTTATCATAATTAA
Found at i:30143307 original size:26 final size:25
Alignment explanation
Indices: 30143271--30143330 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
30143261 ACTAATTTTC
* *
30143271 TCAAAATTTTATCGAGGGTAAAATCG
1 TCAAAAATTTA-CCAGGGTAAAATCG
* *
30143297 TCAAAAATTTACCAGGGTAGAATTG
1 TCAAAAATTTACCAGGGTAAAATCG
30143322 T-AAAAATTT
1 TCAAAAATTT
30143331 TACTTGGTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 8 0.27
25 12 0.40
26 10 0.33
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (25 bp):
TCAAAAATTTACCAGGGTAAAATCG
Found at i:30150074 original size:17 final size:18
Alignment explanation
Indices: 30150052--30150095 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
30150042 GTTTGATATT
30150052 GAAATGGAAAAG-GATGA
1 GAAATGGAAAAGAGATGA
*
30150069 GAAATGGAAAAGAGATGT
1 GAAATGGAAAAGAGATGA
30150087 GAAATGGAA
1 GAAATGGAA
30150096 TATGAAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.52, C:0.00, G:0.34, T:0.14
Consensus pattern (18 bp):
GAAATGGAAAAGAGATGA
Found at i:30153689 original size:34 final size:34
Alignment explanation
Indices: 30153642--30153706 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
30153632 GACAGGCTCC
*
30153642 TTTAGTTGCCATAGCCAAGCTATGGTTTTACTCA
1 TTTAGTTGCCATAGCCAAGCTATGGTCTTACTCA
*
30153676 TTTAGTTGTCATAGCCAAGCTATGGTCTTAC
1 TTTAGTTGCCATAGCCAAGCTATGGTCTTAC
30153707 AGGTTAGACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.38
Consensus pattern (34 bp):
TTTAGTTGCCATAGCCAAGCTATGGTCTTACTCA
Found at i:30157209 original size:19 final size:19
Alignment explanation
Indices: 30157185--30157224 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
30157175 AAAACCCCAG
* *
30157185 TTTACCTAGGGTGTCGGAC
1 TTTACCTAGGGCGTCAGAC
30157204 TTTACCTAGGGCGTCAGAC
1 TTTACCTAGGGCGTCAGAC
30157223 TT
1 TT
30157225 CAATTCCACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.17, C:0.23, G:0.28, T:0.33
Consensus pattern (19 bp):
TTTACCTAGGGCGTCAGAC
Found at i:30159368 original size:54 final size:54
Alignment explanation
Indices: 30159265--30159377 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
30159255 ACACACGACT
* *
30159265 GTGTCCTAGCCCATGTCTCTACCTGTGTAACTCACTGATTTGAGACACACGGTC
1 GTGTCCCAGCCCATGTCTCTACCTGTGTAACTCACTGACTTGAGACACACGGTC
* * * *
30159319 GTGTCCCAGCCCATGTCTCTGCCCT-TGTAACTCACTGGCTTGGGCCACACGGTC
1 GTGTCCCAGCCCATGTCTCT-ACCTGTGTAACTCACTGACTTGAGACACACGGTC
*
30159373 ATGTC
1 GTGTC
30159378 ACTAGCTCAT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 48 0.94
55 3 0.06
ACGTcount: A:0.17, C:0.33, G:0.22, T:0.28
Consensus pattern (54 bp):
GTGTCCCAGCCCATGTCTCTACCTGTGTAACTCACTGACTTGAGACACACGGTC
Found at i:30163519 original size:18 final size:16
Alignment explanation
Indices: 30163495--30163538 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 16
30163485 AAATGACTCA
30163495 GAAATTAATTTATATAT
1 GAAATTAATTTA-ATAT
30163512 GTAAATTATTATTTAATAT
1 G-AAATTA--ATTTAATAT
30163531 GAAATTAA
1 GAAATTAA
30163539 ATAATTGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 1 0.04
17 1 0.04
18 12 0.50
19 5 0.21
20 5 0.21
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (16 bp):
GAAATTAATTTAATAT
Found at i:30163701 original size:13 final size:13
Alignment explanation
Indices: 30163683--30163717 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
30163673 TGAGAAAATA
30163683 ATTTAATTAGTTT
1 ATTTAATTAGTTT
*
30163696 ATTTAATTATTTT
1 ATTTAATTAGTTT
*
30163709 AATTAATTA
1 ATTTAATTA
30163718 AAAGAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (13 bp):
ATTTAATTAGTTT
Found at i:30164982 original size:15 final size:16
Alignment explanation
Indices: 30164951--30164988 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
30164941 ACAGTGAGAG
30164951 AAAATATTTTATATTA
1 AAAATATTTTATATTA
30164967 AAAATATATTT-T-TTA
1 AAAATAT-TTTATATTA
30164982 AAAATAT
1 AAAATAT
30164989 CTAATAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.48
16 8 0.38
17 3 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAAATATTTTATATTA
Found at i:30168841 original size:16 final size:16
Alignment explanation
Indices: 30168820--30168866 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
30168810 TGTNTAAATT
30168820 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
30168836 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
30168851 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
30168867 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:30168846 original size:15 final size:15
Alignment explanation
Indices: 30168816--30168866 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
30168806 GATGTGTNTA
30168816 AATTAT-ATAT-TTT
1 AATTATAATATATTT
30168829 AATTATAATATATTT
1 AATTATAATATATTT
*
30168844 AATAATAAT-TATGTT
1 AATTATAATATAT-TT
30168859 AAATTATA
1 -AATTATA
30168867 TTTTATAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 6 0.19
14 7 0.22
15 13 0.41
16 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
AATTATAATATATTT
Found at i:30168961 original size:16 final size:16
Alignment explanation
Indices: 30168940--30168981 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
30168930 TTATTAAATT
*
30168940 ATATATTTTAATTATA
1 ATATATTTTAATAATA
30168956 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
30168971 AT-TATGTTTAA
1 ATATAT-TTTAA
30168982 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:30168966 original size:15 final size:15
Alignment explanation
Indices: 30168931--30168972 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
30168921 TTAAGAATTT
*
30168931 TATTAAATTAT-ATA
1 TATTTAATTATAATA
30168945 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
30168959 TATTTAATAATAAT
1 TATTTAATTATAAT
30168973 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:30169206 original size:45 final size:40
Alignment explanation
Indices: 30169107--30169216 Score: 114
Period size: 45 Copynumber: 2.6 Consensus size: 40
30169097 TTTTTCATTA
*
30169107 TGCTATTACACCTCTATTCCATT-CAATCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACAATCAAAAACAAGAT
* * * *
30169146 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACAATCAA--AAACA--AGA-T
*
30169191 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCCATTACA
30169217 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
39 21 0.37
40 6 0.11
42 4 0.07
44 2 0.04
45 24 0.42
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (40 bp):
TGCTATTACACCTCTATTCCATTACAATCAAAAACAAGAT
Found at i:30169218 original size:16 final size:16
Alignment explanation
Indices: 30169197--30169264 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
30169187 GATTTGCTAT
*
30169197 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
30169213 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
30169229 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
30169245 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
30169261 TACA
1 TACA
30169265 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:30170611 original size:12 final size:12
Alignment explanation
Indices: 30170582--30170615 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
30170572 TTATATACAT
30170582 AAAAAA-TATTA
1 AAAAAATTATTA
30170593 AATAAAATTATTA
1 AA-AAAATTATTA
30170606 AAAAAATTAT
1 AAAAAATTAT
30170616 ATTGTCAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.10
12 12 0.57
13 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAAATTATTA
Found at i:30175682 original size:99 final size:99
Alignment explanation
Indices: 30175510--30175707 Score: 369
Period size: 99 Copynumber: 2.0 Consensus size: 99
30175500 AGAGAAATGT
*
30175510 GGAAATTTTGTTCAAGTGATAAATCGACCATATAGCGGCTAACTCAGTAATTCTGAACCTATTTC
1 GGAAATTTTGTTCAAGTGATAAATCGACCATATAGCGACTAACTCAGTAATTCTGAACCTATTTC
30175575 CTCCTAGGTTTGATTTGGAAAAGAAATAAATAGC
66 CTCCTAGGTTTGATTTGGAAAAGAAATAAATAGC
*
30175609 GGAAATTTTGTTCAAGTGATAAATCGACCATATAGCGACTAACTCAGTAATTGTGAACCTATTTC
1 GGAAATTTTGTTCAAGTGATAAATCGACCATATAGCGACTAACTCAGTAATTCTGAACCTATTTC
*
30175674 CTCTTAGGTTTGATTTGGAAAAGAAATAAATAGC
66 CTCCTAGGTTTGATTTGGAAAAGAAATAAATAGC
30175708 TAACCCTTTA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 96 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (99 bp):
GGAAATTTTGTTCAAGTGATAAATCGACCATATAGCGACTAACTCAGTAATTCTGAACCTATTTC
CTCCTAGGTTTGATTTGGAAAAGAAATAAATAGC
Found at i:30176817 original size:39 final size:39
Alignment explanation
Indices: 30176762--30176841 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
30176752 AGATCAAACC
*
30176762 AAACCAAAAAGTTAGATGAAGTGCTTTTGGCTTTTGGGT
1 AAACCAAAAAGCTAGATGAAGTGCTTTTGGCTTTTGGGT
30176801 AAACCAAAAAGCTAGATGAAGTGCTTTTGGCTTTTGGGT
1 AAACCAAAAAGCTAGATGAAGTGCTTTTGGCTTTTGGGT
30176840 AA
1 AA
30176842 CTAGTTTTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (39 bp):
AAACCAAAAAGCTAGATGAAGTGCTTTTGGCTTTTGGGT
Found at i:30179756 original size:15 final size:17
Alignment explanation
Indices: 30179736--30179767 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
30179726 ATTTTATATA
30179736 TAATAT-TAAA-ATTTT
1 TAATATGTAAATATTTT
30179751 TAATATGTAAATATTTT
1 TAATATGTAAATATTTT
30179768 CAAATATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TAATATGTAAATATTTT
Found at i:30183132 original size:93 final size:92
Alignment explanation
Indices: 30182968--30183196 Score: 298
Period size: 93 Copynumber: 2.5 Consensus size: 92
30182958 TTATCTTCGA
* * * * ** * *
30182968 CATGATGCCATAGTATCTTTCAACTATGGTTTTACTTGTTTTC-TGTCATGTTGCCATGTTATCT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-TTCATTTCATGTCACGTTGCCATGGTATCT
** * *
30183032 TTCAACCATGGTCTTATTCATTTTCCCGT
65 TTCAACCATGGTCTTACACA-TTTCACAT
*
30183061 CATGTTGCCATGGTATCTTTCAACCACGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTT
*
30183126 TCAACCATGGTCTTACACATTTCATAT
66 TCAACCATGGTCTTACACATTTCACAT
*
30183153 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
30183197 ATCAAAAACA
Statistics
Matches: 119, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
92 53 0.45
93 66 0.55
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (92 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTT
TCAACCATGGTCTTACACATTTCACAT
Found at i:30183200 original size:46 final size:46
Alignment explanation
Indices: 30182968--30183196 Score: 298
Period size: 46 Copynumber: 5.0 Consensus size: 46
30182958 TTATCTTCGA
* * * * **
30182968 CATGATGCCATAGTATCTTTCAACTATGGTTTTACTTGTTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-TTCATTTCATGT
* **
30183014 CATGTTGCCATGTTATCTTTCAACCATGGTCTTATTCATTTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
*
30183061 CATGTTGCCATGGTATCTTTCAACCACGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* ** *
30183107 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
30183153 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
30183197 ATCAAAAACA
Statistics
Matches: 162, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
45 2 0.01
46 122 0.75
47 38 0.23
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:30188946 original size:18 final size:17
Alignment explanation
Indices: 30188913--30188951 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
30188903 TTGTATAAAT
30188913 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
30188931 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
30188948 TGTG
1 TGTG
30188952 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:30189204 original size:23 final size:23
Alignment explanation
Indices: 30189177--30189274 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
30189167 AGTTGTATTG
30189177 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
30189200 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
30189223 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
30189245 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
30189268 ATCAGTG
1 ATCAGTG
30189275 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:30189243 original size:45 final size:45
Alignment explanation
Indices: 30189179--30189267 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
30189169 TTGTATTGAT
* *
30189179 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
30189224 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
30189268 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:30190551 original size:19 final size:19
Alignment explanation
Indices: 30190529--30190575 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
30190519 CTTCCTTTCT
30190529 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
30190548 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
30190567 TTTGCATTA
1 TTTGCATTA
30190576 AAATTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:30205786 original size:51 final size:50
Alignment explanation
Indices: 30205611--30205811 Score: 242
Period size: 51 Copynumber: 3.9 Consensus size: 50
30205601 AACGGATACC
* * * *
30205611 AGTGGCCTGCATATAGTACCACCCTTGTAGT-CAAAGCTACCTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTA-TTTATTCACAA
* * * *
30205662 AGTCGCCTTCACATAGTATCACACTTGTGACCAAAACTATCTTACTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTAT-TTA-TTCACAA
* *
30205714 AGTGGCCTTCACATAGAACCACACTTGTGTCCAAAGCTGTTATATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATT-TATTCACAA
*
30205765 AGTGGCTTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTA-TTTATTC
30205812 CTAAGGTTCA
Statistics
Matches: 128, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
50 1 0.01
51 82 0.64
52 45 0.35
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (50 bp):
AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTATTCACAA
Found at i:30207741 original size:42 final size:42
Alignment explanation
Indices: 30207641--30207742 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 42
30207631 ATGTCCCAGC
* * *
30207641 TCGTGTGTCTAACCATGTAACTCACTGACTTGGCACACACGG
1 TCGTGTTTCAAACCATGTAACCCACTGACTTGGCACACACGG
* * * **
30207683 CCATG-TGCTAGCCCATGTAACCCACTGACTTGAG-ACACACGG
1 TCGTGTTTC-AAACCATGTAACCCACTGACTTG-GCACACACGG
30207725 TCGTGTTTCAAACCATGT
1 TCGTGTTTCAAACCATGT
30207743 CTCAAACCGT
Statistics
Matches: 44, Mismatches: 13, Indels: 6
0.70 0.21 0.10
Matches are distributed among these distances:
41 1 0.02
42 40 0.91
43 3 0.07
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (42 bp):
TCGTGTTTCAAACCATGTAACCCACTGACTTGGCACACACGG
Found at i:30208105 original size:3 final size:3
Alignment explanation
Indices: 30208097--30208134 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
30208087 AAACTAACCA
30208097 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
30208135 CATTTTGAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:30208622 original size:26 final size:26
Alignment explanation
Indices: 30208583--30208634 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
30208573 CACACAGCCG
*
30208583 TGCCCTTGTTGAGCCCAAGTCTAATT
1 TGCCCTTGTCGAGCCCAAGTCTAATT
30208609 TGCCCTTGTCGAGCCCAAGTCTAATT
1 TGCCCTTGTCGAGCCCAAGTCTAATT
30208635 CTACTCGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.33
Consensus pattern (26 bp):
TGCCCTTGTCGAGCCCAAGTCTAATT
Found at i:30211149 original size:46 final size:46
Alignment explanation
Indices: 30211099--30211271 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
30211089 TGGTTGAGCA
*
30211099 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
* * * * *
30211145 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACT-AG-GCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-TGAGAACG
* *
30211192 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
* *
30211238 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
30211272 GGGGCAGTTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 64 0.62
47 31 0.30
48 4 0.04
49 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
Found at i:30211255 original size:93 final size:93
Alignment explanation
Indices: 30211096--30211266 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
30211086 GGATGGTTGA
* *
30211096 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCGTTGAGT
30211161 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
30211189 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCGTTGAGT
30211254 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
30211267 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:30216192 original size:20 final size:21
Alignment explanation
Indices: 30216154--30216192 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
30216144 CTGTTTATCT
*
30216154 TTTATTAATTCTTTATTTGTG
1 TTTATTAATTCTATATTTGTG
*
30216175 TTTATT-ATTCTATGTTTG
1 TTTATTAATTCTATATTTG
30216193 ACTTAGTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.18, C:0.05, G:0.10, T:0.67
Consensus pattern (21 bp):
TTTATTAATTCTATATTTGTG
Found at i:30217680 original size:5 final size:5
Alignment explanation
Indices: 30217665--30217702 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
30217655 TCTGAGTCCA
*
30217665 TTTATT TTTAT TTTAT TTTAT TTTGT TTTA- TTTAT TTT
1 TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
30217703 TTGAAGACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
4 4 0.14
5 21 0.72
6 4 0.14
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:30223238 original size:25 final size:25
Alignment explanation
Indices: 30223200--30223247 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
30223190 TTGTAAATTA
30223200 GAAAAATATCTCTAGA-AATTTTTT
1 GAAAAATATCTCTAGAGAATTTTTT
*
30223224 GAAATAATCTCTCTAGAGAATTTT
1 GAAA-AATATCTCTAGAGAATTTT
30223248 CTCTCTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 11 0.52
26 6 0.29
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (25 bp):
GAAAAATATCTCTAGAGAATTTTTT
Found at i:30227728 original size:20 final size:20
Alignment explanation
Indices: 30227673--30227729 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
30227663 AAAAAAAAAA
*
30227673 ATTGTTTCT-GTGTTTTGCT
1 ATTGTTTCTACTGTTTTGCT
* *
30227692 ATTGTTTCCACTATTTTGCT
1 ATTGTTTCTACTGTTTTGCT
* *
30227712 GTTGTTTCTATTGTTTTG
1 ATTGTTTCTACTGTTTTG
30227730 TTGCTGTGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 8 0.27
20 22 0.73
ACGTcount: A:0.09, C:0.12, G:0.18, T:0.61
Consensus pattern (20 bp):
ATTGTTTCTACTGTTTTGCT
Found at i:30244042 original size:18 final size:18
Alignment explanation
Indices: 30243991--30244043 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
30243981 CCGGCACTCT
* *
30243991 ATAACAGTCAGTTATGCA
1 ATAACAGTCAATTATTCA
* * *
30244009 GTAACAATCATTTATTCA
1 ATAACAGTCAATTATTCA
30244027 ATAACAGTCAATTATTC
1 ATAACAGTCAATTATTC
30244044 CGTAGCAGTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:30244248 original size:48 final size:48
Alignment explanation
Indices: 30244190--30244289 Score: 164
Period size: 48 Copynumber: 2.1 Consensus size: 48
30244180 TAACTGTCTT
* * *
30244190 AGTCATGGTACACAAAGTACCTCATCGGAACTAATCTGAAATAGTCAC
1 AGTCACGGTACACAAAGTACCTCATCGGAACGAATCTGAAACAGTCAC
*
30244238 AGTCACGGTACACTAAGTACCTCATCGGAACGAATCTGAAACAGTCAC
1 AGTCACGGTACACAAAGTACCTCATCGGAACGAATCTGAAACAGTCAC
30244286 AGTC
1 AGTC
30244290 TGGCGACACT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (48 bp):
AGTCACGGTACACAAAGTACCTCATCGGAACGAATCTGAAACAGTCAC
Found at i:30245328 original size:11 final size:11
Alignment explanation
Indices: 30245303--30245344 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 11
30245293 ATATATATAA
30245303 TAATAATAA--
1 TAATAATAACT
30245312 TAATAATAACT
1 TAATAATAACT
30245323 TAATAATATACT
1 TAATAATA-ACT
30245335 TATATAATAA
1 TA-ATAATAA
30245345 GTAAATATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.31
11 8 0.28
12 6 0.21
13 6 0.21
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATAATAACT
Done.