Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 54 of 93
Found at i:20670621 original size:13 final size:13
Alignment explanation
Indices: 20670603--20670627 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20670593 AAATCAATTT
20670603 AGTCAACTAAGTC
1 AGTCAACTAAGTC
20670616 AGTCAACTAAGT
1 AGTCAACTAAGT
20670628 GCTCTCTGCC
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:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (13 bp):
AGTCAACTAAGTC
Found at i:20671106 original size:31 final size:32
Alignment explanation
Indices: 20671070--20671129 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
20671060 TTGATTGTTG
*
20671070 TAGGTTGTGGTTGAGCCT-TGAAAAACTACAT
1 TAGGTTGTAGTTGAGCCTGTGAAAAACTACAT
*
20671101 TAGGTTTTAGTTGAGCCTGTGAAAAACTA
1 TAGGTTGTAGTTGAGCCTGTGAAAAACTA
20671130 GTGTAAAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (32 bp):
TAGGTTGTAGTTGAGCCTGTGAAAAACTACAT
Found at i:20675426 original size:37 final size:37
Alignment explanation
Indices: 20675347--20675426 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
20675337 ACATATACAT
20675347 ACATCATCATGTGTGCACTCCCTACTCGCACACTCTA
1 ACATCATCATGTGTGCACTCCCTACTCGCACACTCTA
*
20675384 TCATCATCATGTGTGCACTCCCTACTCGCACACT-TCA
1 ACATCATCATGTGTGCACTCCCTACTCGCACACTCT-A
20675421 ACATCA
1 ACATCA
20675427 CCACCCAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
36 1 0.03
37 39 0.98
ACGTcount: A:0.25, C:0.38, G:0.10, T:0.28
Consensus pattern (37 bp):
ACATCATCATGTGTGCACTCCCTACTCGCACACTCTA
Found at i:20680091 original size:174 final size:173
Alignment explanation
Indices: 20679801--20680147 Score: 588
Period size: 174 Copynumber: 2.0 Consensus size: 173
20679791 ATAATCCAAA
* * **
20679801 GTATAAAATGATAATAGGTGAAGTTCATGGGCTTGACAAGTGTCATGGTGGTGTAAAATTTTTAA
1 GTATAAAATGATAATAGATGAAATTCATGGGCTTGACAAGTGTCATGGTGGTGTAAAATTTCAAA
* * *
20679866 AATTCCAATTATGTCCTCGTGGGCACTTGAAATGATCGTTTTGCCCTTATGCTCAGAATTGAAAT
66 AATTCCAATTATGTCCTCGTGGACACGTGAAATGATCGTTTTGCCCTTATGCTCAGAATTAAAAT
*
20679931 TTTTCACTTCTCAAATTCAAATTATGTTCTAACTAGTCAAACT
131 TTTTCACTTCTCAAATTCAAATTATGTTCCAACTAGTCAAACT
20679974 NGTATAAAATGATAATAGATGAAATTCATGGGCTTGACAAGTGTCATGGTGGTGTAAAATTTCAA
1 -GTATAAAATGATAATAGATGAAATTCATGGGCTTGACAAGTGTCATGGTGGTGTAAAATTTCAA
*
20680039 AAATTCCAATTATGTCCTCGTGGACACGTGAAATGA-CTGTTTTGCCCTTATGCTCGGAATTAAA
65 AAATTCCAATTATGTCCTCGTGGACACGTGAAATGATC-GTTTTGCCCTTATGCTCAGAATTAAA
20680103 ATTTTTCACTTCTCAAATTCAAATTATGTTCCAACTAGTCAAACT
129 ATTTTTCACTTCTCAAATTCAAATTATGTTCCAACTAGTCAAACT
20680148 TGATCAAAAA
Statistics
Matches: 163, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
173 1 0.01
174 162 0.99
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (173 bp):
GTATAAAATGATAATAGATGAAATTCATGGGCTTGACAAGTGTCATGGTGGTGTAAAATTTCAAA
AATTCCAATTATGTCCTCGTGGACACGTGAAATGATCGTTTTGCCCTTATGCTCAGAATTAAAAT
TTTTCACTTCTCAAATTCAAATTATGTTCCAACTAGTCAAACT
Found at i:20695036 original size:54 final size:54
Alignment explanation
Indices: 20694962--20695117 Score: 222
Period size: 54 Copynumber: 2.9 Consensus size: 54
20694952 ATCATTCCAT
* * *
20694962 CTCACCCAGCTCATGTGCATCCCACCACATTGTGCACATAGCCGGACATCTCAA
1 CTCACCTAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCCCAA
* * *
20695016 CTCACCTAGCTCATGTGCATCCAACCACATCGTGCATATAGCCGGACATCCCAT
1 CTCACCTAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCCCAA
* * * *
20695070 CTCACCTAGCTCATGTGTATCCCATCACATCATGCACTTAGCCGGACA
1 CTCACCTAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACA
20695118 GTATCACCAT
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.26, C:0.37, G:0.15, T:0.22
Consensus pattern (54 bp):
CTCACCTAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCCCAA
Found at i:20698122 original size:21 final size:21
Alignment explanation
Indices: 20698063--20698125 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
20698053 ATACATGTCA
* *
20698063 TCAACTGTACGAGGGTTCCTC
1 TCAACTGCACGAGGGTTTCTC
*
20698084 TCAACTGCACAAGGGTTTCTC
1 TCAACTGCACGAGGGTTTCTC
*
20698105 TCAACTGCATGAGGGTTTCTC
1 TCAACTGCACGAGGGTTTCTC
20698126 ATTAAAACCT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (21 bp):
TCAACTGCACGAGGGTTTCTC
Found at i:20703378 original size:36 final size:36
Alignment explanation
Indices: 20703292--20703438 Score: 185
Period size: 36 Copynumber: 4.2 Consensus size: 36
20703282 TCTCAAGCAC
*
20703292 TTGATTAAAATTGTTTAATTAAG---TTGTGCCTAA
1 TTGATTAAAATTGTTTAATTAAGTCATTGAGCCTAA
* * *
20703325 TTAATT-AAATTGTTTAATTAAGTCATTGGGCCTAG
1 TTGATTAAAATTGTTTAATTAAGTCATTGAGCCTAA
* **
20703360 TTGATTAAAATTATTTAATTAAGTCATTGAATCTAA
1 TTGATTAAAATTGTTTAATTAAGTCATTGAGCCTAA
* *
20703396 TTGATTAAAATTGTTTAATTAAGTAATTGCGCCTAA
1 TTGATTAAAATTGTTTAATTAAGTCATTGAGCCTAA
20703432 TTGATTA
1 TTGATTA
20703439 CACTAAATGT
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
32 16 0.17
33 5 0.05
35 13 0.14
36 62 0.65
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (36 bp):
TTGATTAAAATTGTTTAATTAAGTCATTGAGCCTAA
Found at i:20709457 original size:42 final size:42
Alignment explanation
Indices: 20709397--20709545 Score: 172
Period size: 42 Copynumber: 3.5 Consensus size: 42
20709387 TATTGACCTT
** *
20709397 GCTATGTGCGAGTAGGAGTGTGCATAAGCCGATGCTGACTCG
1 GCTATGTGCGAGTAGGAGTGCACATAAGCCGATGCTGACCCG
* * *
20709439 GCTATGTGCGAATGGGAGTGCACATAAGCCTATGCTGACCCG
1 GCTATGTGCGAGTAGGAGTGCACATAAGCCGATGCTGACCCG
* * **
20709481 GCTATGTGTGAGTAAGAGTGCACATAAGCCCGATGCTGACCTA
1 GCTATGTGCGAGTAGGAGTGCACATAAG-CCGATGCTGACCCG
* * *
20709524 GCCATGTGCTAGTGGGAGTGCA
1 GCTATGTGCGAGTAGGAGTGCA
20709546 TATGAGCTGA
Statistics
Matches: 88, Mismatches: 18, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 60 0.68
43 28 0.32
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.23
Consensus pattern (42 bp):
GCTATGTGCGAGTAGGAGTGCACATAAGCCGATGCTGACCCG
Found at i:20709608 original size:12 final size:12
Alignment explanation
Indices: 20709588--20709623 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
20709578 ATGATTGATA
*
20709588 TATATATATATG
1 TATACATATATG
*
20709600 TATACATATATA
1 TATACATATATG
20709612 TATACATATATG
1 TATACATATATG
20709624 GTGTATGGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (12 bp):
TATACATATATG
Found at i:20723205 original size:36 final size:36
Alignment explanation
Indices: 20723155--20723290 Score: 200
Period size: 36 Copynumber: 3.8 Consensus size: 36
20723145 TAGCCAAAGT
*
20723155 CATCATGTGCACCCCCACATCGCGCACAGCTAATAC
1 CATCGTGTGCACCCCCACATCGCGCACAGCTAATAC
* *
20723191 CATCGTGTGTACCCCCACATCGCGCACAACTAATAC
1 CATCGTGTGCACCCCCACATCGCGCACAGCTAATAC
* ** * *
20723227 CATCGTGTGCACCCCTACATCATGCACAGTTAATGC
1 CATCGTGTGCACCCCCACATCGCGCACAGCTAATAC
20723263 CATCGTGTGCACCCCCACATCGCGCACA
1 CATCGTGTGCACCCCCACATCGCGCACA
20723291 AGCAATATCA
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 87 1.00
ACGTcount: A:0.26, C:0.40, G:0.15, T:0.19
Consensus pattern (36 bp):
CATCGTGTGCACCCCCACATCGCGCACAGCTAATAC
Found at i:20733173 original size:2 final size:2
Alignment explanation
Indices: 20733164--20733199 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
20733154 AATAACACAC
20733164 AT AT -T 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 AT AT AT A
20733200 CATCATCATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20733303 original size:43 final size:43
Alignment explanation
Indices: 20733226--20733344 Score: 161
Period size: 43 Copynumber: 2.8 Consensus size: 43
20733216 ATCCCACCAT
* *
20733226 CATCAGCTCATGTGCACTCCCTAC-TCGCACATAGCTAGGTCAG
1 CATCAGCTCATGTGCATTCCC-ACATCACACATAGCTAGGTCAG
* * *
20733269 CATCAGCTCATGTGCATTCCCACATCACATATAGCTGGGTCAT
1 CATCAGCTCATGTGCATTCCCACATCACACATAGCTAGGTCAG
*
20733312 CATCAGCTCATGTGCATTCCCACA-CGCACATAG
1 CATCAGCTCATGTGCATTCCCACATCACACATAG
20733345 TTGGGTCATC
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 9 0.13
43 59 0.87
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.24
Consensus pattern (43 bp):
CATCAGCTCATGTGCATTCCCACATCACACATAGCTAGGTCAG
Found at i:20739273 original size:29 final size:28
Alignment explanation
Indices: 20739229--20739373 Score: 146
Period size: 29 Copynumber: 5.0 Consensus size: 28
20739219 TGGTAGCTTT
* *
20739229 AACATGCTTGTCTTAATTTATACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
20739257 AACATGTTTGATCTTAATTTAGACAAGAA
1 AACATGTTTG-TCTTAATTTAGACAAGAA
*
20739286 AATATGTTTGTCTTAATTTAAGACAAGAAA
1 AACATGTTTGTCTTAATTT-AGACAAG-AA
* * *
20739316 AATATTTTTTTGTCTTAATCTAGACAAGAA
1 AACA--TGTTTGTCTTAATTTAGACAAGAA
* * * *
20739346 TACATATTTGTCTCAAAGTTAGACAAGA
1 AACATGTTTGTCT-TAATTTAGACAAGA
20739374 TCAAATATTT
Statistics
Matches: 100, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
28 26 0.26
29 44 0.44
30 10 0.10
31 7 0.07
32 13 0.13
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (28 bp):
AACATGTTTGTCTTAATTTAGACAAGAA
Found at i:20739333 original size:32 final size:31
Alignment explanation
Indices: 20739236--20739395 Score: 133
Period size: 29 Copynumber: 5.4 Consensus size: 31
20739226 TTTAACATGC
* *
20739236 TTGTCTTAATTTATACAAG-AAAACA--TGT
1 TTGTCTTAATTTAGACAAGAAAAATATTTGT
20739264 TTGATCTTAATTTAGACAAG-AAAATA--TGT
1 TTG-TCTTAATTTAGACAAGAAAAATATTTGT
*
20739293 TTGTCTTAATTTAAGACAAGAAAAATATTTTT
1 TTGTCTTAATTT-AGACAAGAAAAATATTTGT
* *
20739325 TTGTCTTAATCTAGACAAGAATACATATTTG-
1 TTGTCTTAATTTAGACAAGAA-AAATATTTGT
* * * *
20739356 -TCTC-AAAGTTAGACAAGATCAAATATTT-T
1 TTGTCTTAATTTAGACAAGA-AAAATATTTGT
20739385 TTGTCTTAATT
1 TTGTCTTAATT
20739396 ACGGACAAGA
Statistics
Matches: 107, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
28 12 0.11
29 51 0.48
30 12 0.11
31 12 0.11
32 20 0.19
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (31 bp):
TTGTCTTAATTTAGACAAGAAAAATATTTGT
Found at i:20739341 original size:60 final size:60
Alignment explanation
Indices: 20739263--20739394 Score: 160
Period size: 60 Copynumber: 2.2 Consensus size: 60
20739253 AGAAAACATG
* * * * *
20739263 TTTGATCTTAATTTAGACAAGAAAATATGTTTGTCT-TAATTTAAGACAAGA-AAAATATTTT
1 TTTG-TCTTAATCTAGACAAGAAAACATATTTGTCTCAAAGTT-AGACAAGATAAAATA-TTT
* *
20739324 TTTGTCTTAATCTAGACAAGAATACATATTTGTCTCAAAGTTAGACAAGATCAAATATTT
1 TTTGTCTTAATCTAGACAAGAAAACATATTTGTCTCAAAGTTAGACAAGATAAAATATTT
20739384 TTTGTCTTAAT
1 TTTGTCTTAAT
20739395 TACGGACAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
60 49 0.79
61 13 0.21
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (60 bp):
TTTGTCTTAATCTAGACAAGAAAACATATTTGTCTCAAAGTTAGACAAGATAAAATATTT
Found at i:20742188 original size:29 final size:29
Alignment explanation
Indices: 20742146--20742209 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
20742136 AAAAACGTGA
20742146 GTACAATACTTAGTGAGTGAACAAGAAGG
1 GTACAATACTTAGTGAGTGAACAAGAAGG
20742175 GTACAATACTTAGTGAGTGAACAAGAAGG
1 GTACAATACTTAGTGAGTGAACAAGAAGG
*
20742204 GAACAA
1 GTACAA
20742210 GCATACCATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.44, C:0.11, G:0.27, T:0.19
Consensus pattern (29 bp):
GTACAATACTTAGTGAGTGAACAAGAAGG
Found at i:20749116 original size:22 final size:20
Alignment explanation
Indices: 20749088--20749130 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
20749078 TTTTTGGCTG
20749088 AGCTTGGTAAAAGCCATTGTAA
1 AGCTTGGTAAAAG-CA-TGTAA
*
20749110 AGCTTGGTGAAAGCATGTAA
1 AGCTTGGTAAAAGCATGTAA
20749130 A
1 A
20749131 TTTCACCGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 2 0.10
22 12 0.60
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.26
Consensus pattern (20 bp):
AGCTTGGTAAAAGCATGTAA
Found at i:20760365 original size:29 final size:28
Alignment explanation
Indices: 20760323--20760467 Score: 157
Period size: 29 Copynumber: 5.0 Consensus size: 28
20760313 TGACAGCTTT
*
20760323 AACATGTTTGTCTTAATTTAGACAAGAA
1 AACATATTTGTCTTAATTTAGACAAGAA
*
20760351 AACATGTTTGGTCTTAATTTAGACAAGAA
1 AACATATTT-GTCTTAATTTAGACAAGAA
* *
20760380 AATATATTTGTCTTAATTTAAGACAGGAA
1 AACATATTTGTCTTAATTT-AGACAAGAA
*
20760409 AA-ATAATTTTTTGTCTTAATCTAGACAAGAA
1 AACAT-A---TTTGTCTTAATTTAGACAAGAA
* *
20760440 TACATATTTGTCTCAAATTTAGACAAGA
1 AACATATTTGTCT-TAATTTAGACAAGA
20760468 TCAAATATTT
Statistics
Matches: 101, Mismatches: 8, Indels: 15
0.81 0.06 0.12
Matches are distributed among these distances:
28 28 0.28
29 49 0.49
31 10 0.10
32 14 0.14
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (28 bp):
AACATATTTGTCTTAATTTAGACAAGAA
Found at i:20760435 original size:60 final size:58
Alignment explanation
Indices: 20760323--20760488 Score: 199
Period size: 60 Copynumber: 2.8 Consensus size: 58
20760313 TGACAGCTTT
* * * * *
20760323 AACATGTTTGTCTTAATTTAGACAAG-AAAACATGTTTGGTCTTAATTTAGACAAGAA
1 AACATATTTGTCTTAATTTAGACAAGAAAAATATTTTTTGTCTTAATCTAGACAAGAA
* *
20760380 AATATATTTGTCTTAATTTAAGACAGGAAAAATAATTTTTTGTCTTAATCTAGACAAGAA
1 AACATATTTGTCTTAATTT-AGACAAGAAAAAT-ATTTTTTGTCTTAATCTAGACAAGAA
* * *
20760440 TACATATTTGTCTCAAATTTAGACAAGATCAAATATTTTTTGTCTTAAT
1 AACATATTTGTCT-TAATTTAGACAAGA-AAAATATTTTTTGTCTTAAT
20760489 TACGAGCAAG
Statistics
Matches: 92, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
57 17 0.18
58 6 0.07
59 4 0.04
60 56 0.61
61 9 0.10
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (58 bp):
AACATATTTGTCTTAATTTAGACAAGAAAAATATTTTTTGTCTTAATCTAGACAAGAA
Found at i:20760653 original size:79 final size:78
Alignment explanation
Indices: 20760522--20760680 Score: 300
Period size: 79 Copynumber: 2.0 Consensus size: 78
20760512 GAAGAGAATT
20760522 TTAGGAGGATTCTTGCAAAATGAATCTAGACATCCATGTTGATAAAAAGAGACTCCACATTTGAC
1 TTAGGAGGATTCTTGCAAAATGAATCTAGACATCCATGTTGATAAAAAGAGACTCCACATTTGAC
20760587 TATTACTCTTTTA
66 TATTACTCTTTTA
*
20760600 NTTAGGAGGATTCTTGCTAAATGAATCTAGACATCCATGTTGATAAAAAGAGACTCCACATTTGA
1 -TTAGGAGGATTCTTGCAAAATGAATCTAGACATCCATGTTGATAAAAAGAGACTCCACATTTGA
20760665 CTATTACTCTTTTA
65 CTATTACTCTTTTA
20760679 TT
1 TT
20760681 TATTATTAAT
Statistics
Matches: 79, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
78 2 0.03
79 77 0.97
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.35
Consensus pattern (78 bp):
TTAGGAGGATTCTTGCAAAATGAATCTAGACATCCATGTTGATAAAAAGAGACTCCACATTTGAC
TATTACTCTTTTA
Found at i:20762382 original size:25 final size:25
Alignment explanation
Indices: 20762354--20762429 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
20762344 CTCACCTTAT
20762354 TCATCCAATATTGACCATCAATATA
1 TCATCCAATATTGACCATCAATATA
* * * *
20762379 TCAT-C--T-TTCA-AACTCATTCTA
1 TCATCCAATATTGACCA-TCAATATA
20762400 TCATCCAATATTGACCATCAATATA
1 TCATCCAATATTGACCATCAATATA
20762425 TCATC
1 TCATC
20762430 TTTCAAACTC
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 13 0.35
22 2 0.05
24 2 0.05
25 18 0.49
26 1 0.03
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.36
Consensus pattern (25 bp):
TCATCCAATATTGACCATCAATATA
Found at i:20762403 original size:21 final size:21
Alignment explanation
Indices: 20762377--20762449 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
20762367 ACCATCAATA
20762377 TATCATCTTTCAAACTCATTC
1 TATCATCTTTCAAACTCATTC
* * * *
20762398 TATCATCCAATATT-GACCATCAATA
1 TATCAT-C--T-TTCAAAC-TCATTC
20762423 TATCATCTTTCAAACTCATTC
1 TATCATCTTTCAAACTCATTC
20762444 TATCAT
1 TATCAT
20762450 ATGAACCGAC
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
21 18 0.47
22 4 0.11
24 4 0.11
25 12 0.32
ACGTcount: A:0.33, C:0.26, G:0.01, T:0.40
Consensus pattern (21 bp):
TATCATCTTTCAAACTCATTC
Found at i:20762421 original size:46 final size:46
Alignment explanation
Indices: 20762354--20762449 Score: 192
Period size: 46 Copynumber: 2.1 Consensus size: 46
20762344 CTCACCTTAT
20762354 TCATCCAATATTGACCATCAATATATCATCTTTCAAACTCATTCTA
1 TCATCCAATATTGACCATCAATATATCATCTTTCAAACTCATTCTA
20762400 TCATCCAATATTGACCATCAATATATCATCTTTCAAACTCATTCTA
1 TCATCCAATATTGACCATCAATATATCATCTTTCAAACTCATTCTA
20762446 TCAT
1 TCAT
20762450 ATGAACCGAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.38
Consensus pattern (46 bp):
TCATCCAATATTGACCATCAATATATCATCTTTCAAACTCATTCTA
Found at i:20763955 original size:37 final size:37
Alignment explanation
Indices: 20763913--20764068 Score: 260
Period size: 37 Copynumber: 4.2 Consensus size: 37
20763903 GCAATATCAT
20763913 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
* *
20763950 CATCATCATGTGTGCACTCCTTACTCGCATAC-TCTAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTC-AA
*
20763987 CATCATCATGTGTGCACTCCCTACTCACACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
20764024 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
*
20764061 TATCATCA
1 CATCATCA
20764069 CAAAACATTA
Statistics
Matches: 110, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
36 2 0.02
37 106 0.96
38 2 0.02
ACGTcount: A:0.26, C:0.36, G:0.10, T:0.29
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
Found at i:20769100 original size:25 final size:25
Alignment explanation
Indices: 20769058--20769105 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
20769048 TGATTATAGG
* * *
20769058 TGGCAAGGCCACGGGTTGTTATACT
1 TGGCAAAGCCACGAGTTGATATACT
*
20769083 TGGCAAAGCTACGAGTTGATATA
1 TGGCAAAGCCACGAGTTGATATA
20769106 TGTGGTTGAG
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:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (25 bp):
TGGCAAAGCCACGAGTTGATATACT
Found at i:20774453 original size:37 final size:38
Alignment explanation
Indices: 20774400--20774521 Score: 178
Period size: 37 Copynumber: 3.3 Consensus size: 38
20774390 TAATGTTGTG
* *
20774400 TGATGATG-TTGAAGTGTTCGAGTAGGGAGTGCACACA
1 TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
*
20774437 TGATGATGATAG-AGTGTGCGAGTAGGGAGTGCATACA
1 TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
* *
20774474 TTATGATG-TTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
20774511 TGATGATGATA
1 TGATGATGATA
20774522 TTACATTGAG
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
36 2 0.03
37 69 0.93
38 3 0.04
ACGTcount: A:0.29, C:0.09, G:0.35, T:0.27
Consensus pattern (38 bp):
TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:20782718 original size:58 final size:57
Alignment explanation
Indices: 20782628--20782747 Score: 197
Period size: 58 Copynumber: 2.1 Consensus size: 57
20782618 AGGGTCTCAT
* *
20782628 CTTTGCATGCATGGCATTTATTAAATCTCATAAAATAAATCTATCACATGCATACTA
1 CTTTGCATGCATAGCATTTATTAAATCTCATAAAATAAATCTATCACATGCAAACTA
20782685 CTTTGCATTGCATAGCATTTATTAAAT-TGCATAAAATAAATCTATCACATGCAAACTA
1 CTTTGCA-TGCATAGCATTTATTAAATCT-CATAAAATAAATCTATCACATGCAAACTA
20782743 CTTTG
1 CTTTG
20782748 GATGATTATG
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
57 8 0.14
58 51 0.86
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (57 bp):
CTTTGCATGCATAGCATTTATTAAATCTCATAAAATAAATCTATCACATGCAAACTA
Found at i:20785886 original size:22 final size:22
Alignment explanation
Indices: 20785844--20785886 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
20785834 GTGAAGAATT
*
20785844 TCAAGAAAAAAAGTGTGAAAAA
1 TCAAGAAAAAAAGTGTAAAAAA
*
20785866 TCAAGGAAAACAAGTG-AAAAA
1 TCAA-GAAAAAAAGTGTAAAAA
20785887 GGTAGGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.63, C:0.07, G:0.19, T:0.12
Consensus pattern (22 bp):
TCAAGAAAAAAAGTGTAAAAAA
Found at i:20786734 original size:13 final size:13
Alignment explanation
Indices: 20786716--20786740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20786706 GGAGAAATTG
20786716 TGATTTTATAAAA
1 TGATTTTATAAAA
20786729 TGATTTTATAAA
1 TGATTTTATAAA
20786741 TTTTCTCAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:20798769 original size:68 final size:66
Alignment explanation
Indices: 20798660--20798799 Score: 201
Period size: 68 Copynumber: 2.1 Consensus size: 66
20798650 GTTTAGCCAA
* *
20798660 AACCTTTCACAATAGTTTTTATCGGGATCAACTAAAACCCAAAGTGATTTTTCCAAAGGCTCAAC
1 AACCTTTCACAATAGTTTTTATCGGGATCAACCAAAACCCAAAGTG-GTTTTCC-AAGGCTCAAC
20798725 CAC
64 CAC
* * *
20798728 AACCTTTCACAATGGTTTTTCAT-GGGCTTAACCAAAACCCAAAGTGGTTTTCCAAGGCTCAACC
1 AACCTTTCACAATAGTTTTT-ATCGGGATCAACCAAAACCCAAAGTGGTTTTCCAAGGCTCAACC
20798792 AC
65 AC
20798794 AACCTT
1 AACCTT
20798800 CAACAATCAA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
66 19 0.29
67 6 0.09
68 39 0.59
69 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (66 bp):
AACCTTTCACAATAGTTTTTATCGGGATCAACCAAAACCCAAAGTGGTTTTCCAAGGCTCAACCA
C
Found at i:20801003 original size:43 final size:43
Alignment explanation
Indices: 20800885--20801006 Score: 133
Period size: 43 Copynumber: 2.8 Consensus size: 43
20800875 TGACTCGGCT
* **
20800885 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACAAGATT
1 ATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGATGACAAGACC
* * *
20800928 ATGTGCGAGTAGGGAGTACGTATAACCCGGTGATGACCCAG-CC
1 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGA-CAAGACC
*
20800971 ATGTGCGAGTAGGGAGTGCGCATGAA-CTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCAT-AACCCGGTGATGA
20801007 TGATGATGAG
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 1 0.01
43 61 0.91
44 5 0.07
ACGTcount: A:0.27, C:0.16, G:0.37, T:0.20
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACAAGACC
Found at i:20801484 original size:60 final size:60
Alignment explanation
Indices: 20801328--20801488 Score: 154
Period size: 60 Copynumber: 2.7 Consensus size: 60
20801318 CTGTAGCTTC
* * *
20801328 TCGCTGCAGCGA-AAAGGAATCTCGTTGTAGCGAAAAA-C-TCTGTTTCATCAGCTGAATT
1 TCGCTGCAGTGAGAAA-GAATCTCGTTGTAGCGAAAAACCTTCTATTTCATCAGCTCAATT
* * * ** *
20801386 TCGCTGCAGTGAGAAAGAATTTCGCTGCAGTTCG--AAACCTTCTATTTC-TGGGTTACAATT
1 TCGCTGCAGTGAGAAAGAATCTCGTTGTAG--CGAAAAACCTTCTATTTCATCAGCT-CAATT
*
20801446 TTGCTGCAGTGAGAAAGAATCTCGTTGTAGCGAAAAACCTTCT
1 TCGCTGCAGTGAGAAAGAATCTCGTTGTAGCGAAAAACCTTCT
20801489 GTTTTGGTCT
Statistics
Matches: 82, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
58 27 0.33
59 7 0.09
60 48 0.59
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (60 bp):
TCGCTGCAGTGAGAAAGAATCTCGTTGTAGCGAAAAACCTTCTATTTCATCAGCTCAATT
Found at i:20808828 original size:11 final size:10
Alignment explanation
Indices: 20808790--20808839 Score: 52
Period size: 9 Copynumber: 5.2 Consensus size: 10
20808780 TTCTCTTTGG
20808790 TTTT-TCTCT
1 TTTTCTCTCT
*
20808799 TTTTCT-TCC
1 TTTTCTCTCT
*
20808808 TTTCCTCTCT
1 TTTTCTCTCT
20808818 ATTTTCTCTCT
1 -TTTTCTCTCT
20808829 TTTTCTC-CT
1 TTTTCTCTCT
20808838 TT
1 TT
20808840 ATGGCCGGCC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 15 0.44
10 10 0.29
11 9 0.26
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTCTCTCT
Found at i:20813513 original size:32 final size:32
Alignment explanation
Indices: 20813477--20813567 Score: 103
Period size: 35 Copynumber: 2.8 Consensus size: 32
20813467 TTTACCAAGA
*
20813477 TCAACTAAAACCTAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCTAAAGTGGTTTTTCAAAGGC
* **
20813509 TCAACCACAACCTTTCACAA-TGGTTTTTCATGGGC
1 TCAACCAAAACC--T-A-AAGTGGTTTTTCAAAGGC
20813544 TCAACCAAAACCTAAAGTGGTTTT
1 TCAACCAAAACCTAAAGTGGTTTT
20813568 CCAGGGCTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
31 2 0.04
32 18 0.37
33 1 0.02
34 1 0.02
35 25 0.51
36 2 0.04
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (32 bp):
TCAACCAAAACCTAAAGTGGTTTTTCAAAGGC
Found at i:20815305 original size:36 final size:36
Alignment explanation
Indices: 20815223--20815441 Score: 198
Period size: 35 Copynumber: 6.2 Consensus size: 36
20815213 AATTATTTAA
*
20815223 TTTAATCAATTAGGCCCAATAACTTAATTAAATAA-
1 TTTAATCAATTAGGCCCAATAACTTAATTAAACAAT
* * * *
20815258 TTTAATTAATTAAGCCCAACAATTTAATTAAACAAT
1 TTTAATCAATTAGGCCCAATAACTTAATTAAACAAT
*
20815294 TTTAATCAATTAGGCCCAATGACTTAATTAAACAAT
1 TTTAATCAATTAGGCCCAATAACTTAATTAAACAAT
* * * * *
20815330 TTTAATCAACTAGGGCTAATGACTTAATTAAATAA-
1 TTTAATCAATTAGGCCCAATAACTTAATTAAACAAT
* * * ** * * *
20815365 TTCAATTAAATAATCCTAATGACTTAATTAAATAA-
1 TTTAATCAATTAGGCCCAATAACTTAATTAAACAAT
* * *
20815400 TTTAATTAATTTGG--C-ACAACTTAATTAAACAAT
1 TTTAATCAATTAGGCCCAATAACTTAATTAAACAAT
20815433 TTTAATCAA
1 TTTAATCAA
20815442 GTGCTTGAGA
Statistics
Matches: 152, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
32 14 0.09
33 8 0.05
35 68 0.45
36 62 0.41
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (36 bp):
TTTAATCAATTAGGCCCAATAACTTAATTAAACAAT
Found at i:20815307 original size:71 final size:70
Alignment explanation
Indices: 20815223--20815441 Score: 228
Period size: 71 Copynumber: 3.1 Consensus size: 70
20815213 AATTATTTAA
* *
20815223 TTTAATCAATTAGGCCCAATAACTTAATTAAATAATTTAATTAATTAAGCCCAACAATTTAATTA
1 TTTAATCAATTAGGCCCAATGACTTAATTAAATAATTTAATTAATTAAG-CCAACAACTTAATTA
20815288 AACAAT
65 AACAAT
* * * * * **
20815294 TTTAATCAATTAGGCCCAATGACTTAATTAAACAATTTTAATCAACTAGGGCTAATGACTTAATT
1 TTTAATCAATTAGGCCCAATGACTTAATTAAATAA-TTTAATTAATTA-AGCCAACAACTTAATT
*
20815359 AAATAA-
64 AAACAAT
* * * ** * * *
20815365 TTCAATTAAATAATCCTAATGACTTAATTAAATAATTTAATTAATT-TGGC-ACAACTTAATTAA
1 TTTAATCAATTAGGCCCAATGACTTAATTAAATAATTTAATTAATTAAGCCAACAACTTAATTAA
20815428 ACAAT
66 ACAAT
20815433 TTTAATCAA
1 TTTAATCAA
20815442 GTGCTTGAGA
Statistics
Matches: 118, Mismatches: 27, Indels: 9
0.77 0.18 0.06
Matches are distributed among these distances:
67 14 0.12
68 8 0.07
70 9 0.08
71 61 0.52
72 25 0.21
73 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (70 bp):
TTTAATCAATTAGGCCCAATGACTTAATTAAATAATTTAATTAATTAAGCCAACAACTTAATTAA
ACAAT
Found at i:20818981 original size:17 final size:17
Alignment explanation
Indices: 20818959--20819007 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
20818949 TTAGAACCTA
20818959 AGAGTTTCTGGCTGCAG
1 AGAGTTTCTGGCTGCAG
*
20818976 AGAGTTTCTAGCTGCAG
1 AGAGTTTCTGGCTGCAG
*
20818993 CGAGTTTCTGGCTGC
1 AGAGTTTCTGGCTGC
20819008 CAAAACAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.16, C:0.20, G:0.33, T:0.31
Consensus pattern (17 bp):
AGAGTTTCTGGCTGCAG
Found at i:20831916 original size:19 final size:19
Alignment explanation
Indices: 20831878--20831916 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
20831868 GAAGGACAAT
*
20831878 AAGCTGCTGGAGAATGAAG
1 AAGCTGCTGGAGAATAAAG
20831897 AAGCTGCTGGAAGAA-AAAG
1 AAGCTGCTGG-AGAATAAAG
20831916 A
1 A
20831917 TATTTATAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.44, C:0.10, G:0.33, T:0.13
Consensus pattern (19 bp):
AAGCTGCTGGAGAATAAAG
Found at i:20832664 original size:76 final size:75
Alignment explanation
Indices: 20832538--20832691 Score: 281
Period size: 76 Copynumber: 2.0 Consensus size: 75
20832528 AATTGGGAGT
*
20832538 GTAATGATTTAAGTTGGACTTAAATCATACACTAAGTTTTTAACTTCTAAAAACTTAATTAAAAT
1 GTAATGATTTAAGTTGGACTTAAATCATACACTAAGTTTTTAACTTCTAAAAAATT-ATTAAAAT
20832603 AGTTTAATTAA
65 AGTTTAATTAA
*
20832614 GTAATGATTTAAGTTGGACTTAAATCATACACTAGGTTTTTAACTTCTAAAAAATTATTAAAATA
1 GTAATGATTTAAGTTGGACTTAAATCATACACTAAGTTTTTAACTTCTAAAAAATTATTAAAATA
20832679 GTTTAATTAA
66 GTTTAATTAA
20832689 GTA
1 GTA
20832692 TAAGGCAAAC
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
75 22 0.29
76 54 0.71
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (75 bp):
GTAATGATTTAAGTTGGACTTAAATCATACACTAAGTTTTTAACTTCTAAAAAATTATTAAAATA
GTTTAATTAA
Found at i:20835314 original size:89 final size:89
Alignment explanation
Indices: 20835205--20835376 Score: 238
Period size: 89 Copynumber: 1.9 Consensus size: 89
20835195 CTTAACCTTG
* * * *
20835205 AAAAGTTAGTGTAAGGGTTATCGCTTGATC-CTATTAGAAAGCAAGAATCCTTTTGTGGATAATG
1 AAAAGTTAGTGAAAGGGTTATCGCTTGATCTC-ATTAAAAAGCAAGAATCCCTTTATGGATAATG
*
20835269 TAAGGGTTGTCGCTTGATCTTGTGA
65 TAAGGGTTATCGCTTGATCTTGTGA
* * **
20835294 AAAAGTTGGTGAAAGGGTTATCGCTTGATCTCGTTAAAAAGCAAGAATCCCTTTATGGATTGTGT
1 AAAAGTTAGTGAAAGGGTTATCGCTTGATCTCATTAAAAAGCAAGAATCCCTTTATGGATAATGT
*
20835359 AAGGGTTATCTCTTGATC
66 AAGGGTTATCGCTTGATC
20835377 CCATTGAAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
89 71 0.99
90 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.34
Consensus pattern (89 bp):
AAAAGTTAGTGAAAGGGTTATCGCTTGATCTCATTAAAAAGCAAGAATCCCTTTATGGATAATGT
AAGGGTTATCGCTTGATCTTGTGA
Found at i:20835387 original size:53 final size:54
Alignment explanation
Indices: 20835306--20835409 Score: 147
Period size: 53 Copynumber: 1.9 Consensus size: 54
20835296 AAGTTGGTGA
* *
20835306 AAGGGTTATCGCTTGATCTCGTTAAAAAGCAAGAATCCCTTT-ATGGATTGTGT
1 AAGGGTTATCGCTTGATCCCATTAAAAAGCAAGAATCCCTTTAATGGATTGTGT
* * **
20835359 AAGGGTTATCTCTTGATCCCATTGAAAAGCAAGAATCGTTTTAATGGATTG
1 AAGGGTTATCGCTTGATCCCATTAAAAAGCAAGAATCCCTTTAATGGATTG
20835410 GAAATTCCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 36 0.82
54 8 0.18
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (54 bp):
AAGGGTTATCGCTTGATCCCATTAAAAAGCAAGAATCCCTTTAATGGATTGTGT
Found at i:20837339 original size:13 final size:13
Alignment explanation
Indices: 20837321--20837345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20837311 ATTCTTGAGT
20837321 TTATTCTTTTTTA
1 TTATTCTTTTTTA
20837334 TTATTCTTTTTT
1 TTATTCTTTTTT
20837346 TTTTAGTTTG
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:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTCTTTTTTA
Found at i:20840170 original size:14 final size:14
Alignment explanation
Indices: 20840153--20840197 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
20840143 ATTTTTCTCC
20840153 TTTTATTTTCTTCT
1 TTTTATTTTCTTCT
*
20840167 TTTTCTTTTCTT-T
1 TTTTATTTTCTTCT
*
20840180 TTTTTTTTTCTTTCT
1 TTTTATTTTC-TTCT
20840195 TTT
1 TTT
20840198 CTTTCTTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 10 0.37
14 13 0.48
15 4 0.15
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTATTTTCTTCT
Found at i:20840175 original size:5 final size:5
Alignment explanation
Indices: 20840152--20840201 Score: 54
Period size: 5 Copynumber: 10.8 Consensus size: 5
20840142 CATTTTTCTC
* *
20840152 CTTTT ATTTT CTTCT -TTTT CTTTT CTTTT -TTTT -TTTT C-TTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
20840198 CTTT
1 CTTT
20840202 CTTCTTTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
4 15 0.39
5 23 0.61
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (5 bp):
CTTTT
Found at i:20840175 original size:27 final size:27
Alignment explanation
Indices: 20840145--20840201 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
20840135 CCATGCCCAT
20840145 TTTTCTCCTTTTATTTTC-TTCTTTTTC
1 TTTTCTCCTTTTATTTTCTTTC-TTTTC
** *
20840172 TTTTCTTTTTTTTTTTTCTTTCTTTTC
1 TTTTCTCCTTTTATTTTCTTTCTTTTC
20840199 TTT
1 TTT
20840202 CTTCTTTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 23 0.88
28 3 0.12
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.81
Consensus pattern (27 bp):
TTTTCTCCTTTTATTTTCTTTCTTTTC
Found at i:20840193 original size:4 final size:4
Alignment explanation
Indices: 20840168--20840215 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
20840158 TTTTCTTCTT
20840168 TTTC TTTTC TTT- TTT- TTT- TTTC TTTC TTTTC TTTC -TTC TTTC TTTC
1 TTTC -TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC TTTC TTTC TTTC
20840214 TT
1 TT
20840216 CCACCTTCCA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
3 12 0.30
4 20 0.50
5 8 0.20
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (4 bp):
TTTC
Found at i:20840213 original size:11 final size:11
Alignment explanation
Indices: 20840159--20840216 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
20840149 CTCCTTTTAT
20840159 TTTCTTCTTT-
1 TTTCTTCTTTC
*
20840169 TTCTTTTCTTT-
1 TT-TCTTCTTTC
*
20840180 TTT-TTTTTTC
1 TTTCTTCTTTC
20840190 TTTC-T-TTTC
1 TTTCTTCTTTC
20840199 TTTCTTCTTTC
1 TTTCTTCTTTC
20840210 TTTCTTC
1 TTTCTTC
20840217 CACCTTCCAG
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
9 13 0.32
10 8 0.20
11 20 0.49
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTCTTCTTTC
Found at i:20840423 original size:35 final size:33
Alignment explanation
Indices: 20840343--20840488 Score: 159
Period size: 35 Copynumber: 4.2 Consensus size: 33
20840333 CTTCAATTTT
** *
20840343 TCAGCAGCTAAAGCTGCTCATATTAGCTTC-AAAA
1 TCAGCAGCT-AAGCTGCTC-TATTTCCCTCAAAAA
*
20840377 TCAGCAACTAAGCTGCTCTATTCTCCCTCAAAAAA
1 TCAGCAGCTAAGCTGCTCTATT-TCCCTC-AAAAA
*
20840412 TCAGCAGCTAAGCTGCTCTATTTCTCCTCTAAAA
1 TCAGCAGCTAAGCTGCTCTATTTC-CCTCAAAAA
* *
20840446 CCAGCAGCTAAGCTTCTCTATTTTCCCTTCAAAAA
1 TCAGCAGCTAAGCTGCTCTA-TTTCCC-TCAAAAA
20840481 TCAGCAGC
1 TCAGCAGC
20840489 CAAAAAAAAA
Statistics
Matches: 96, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
32 4 0.04
33 12 0.12
34 34 0.35
35 46 0.48
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (33 bp):
TCAGCAGCTAAGCTGCTCTATTTCCCTCAAAAA
Found at i:20840451 original size:69 final size:69
Alignment explanation
Indices: 20840343--20840488 Score: 183
Period size: 69 Copynumber: 2.1 Consensus size: 69
20840333 CTTCAATTTT
*
20840343 TCAGCAGCTAAAGCTGCTCATATTAGCTTCAAAATCAGCAACTAAGCTGCTCTATTCTCCC-TCA
1 TCAGCAGCTAAAGCTGCTCATATTAGCTTCAAAACCAGCAACTAAGCTGCTCTATTCTCCCTTC-
20840407 AAAAA
65 AAAAA
* * * *
20840412 TCAGCAGCT-AAGCTGCTC-TATT-TCTCCTCTAAAACCAGCAGCTAAGCTTCTCTATTTTCCCT
1 TCAGCAGCTAAAGCTGCTCATATTAGCT--TC-AAAACCAGCAACTAAGCTGCTCTATTCTCCCT
20840474 TCAAAAA
63 TCAAAAA
20840481 TCAGCAGC
1 TCAGCAGC
20840489 CAAAAAAAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
66 2 0.03
67 4 0.06
68 11 0.16
69 49 0.72
70 2 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (69 bp):
TCAGCAGCTAAAGCTGCTCATATTAGCTTCAAAACCAGCAACTAAGCTGCTCTATTCTCCCTTCA
AAAA
Found at i:20840603 original size:34 final size:36
Alignment explanation
Indices: 20840526--20840607 Score: 96
Period size: 34 Copynumber: 2.3 Consensus size: 36
20840516 TCGCACCTTA
* * *
20840526 CAACCTCCAAAATCAACTGCAAAAATCTGCACTTCT
1 CAACCTCCAAAACCAACAGCAAAAATCTACACTTCT
* * *
20840562 CAGCCTCCAAAACCAGCAGC-AAAA-CTACACTTTT
1 CAACCTCCAAAACCAACAGCAAAAATCTACACTTCT
20840596 CAACCTCCAAAA
1 CAACCTCCAAAA
20840608 TTAGTAGCTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
34 19 0.49
35 4 0.10
36 16 0.41
ACGTcount: A:0.40, C:0.35, G:0.06, T:0.18
Consensus pattern (36 bp):
CAACCTCCAAAACCAACAGCAAAAATCTACACTTCT
Found at i:20840930 original size:17 final size:18
Alignment explanation
Indices: 20840917--20840968 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 18
20840907 TTTTCTTTTT
20840917 TTTTCT-TCTTTCTTATC
1 TTTTCTATCTTTCTTATC
20840934 TTTTCTATCTTTC--ATC
1 TTTTCTATCTTTCTTATC
20840950 TTTATCTCATTCTTTCTTA
1 TTT-TCT-A-TCTTTCTTA
20840969 CCAACTTGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 6 0.21
17 9 0.31
18 7 0.24
19 6 0.21
21 1 0.03
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTCTATCTTTCTTATC
Found at i:20848884 original size:29 final size:28
Alignment explanation
Indices: 20848852--20848995 Score: 180
Period size: 29 Copynumber: 5.0 Consensus size: 28
20848842 AAATATTTTA
* * *
20848852 TCTTGTCTAAATTTGAGACAAATATGTAT
1 TCTTGTCTAAA-TTAAGACAAACATGTTT
* * *
20848881 TCTTGTCTAGATTAAGACAAAAAATATTT
1 TCTTGTCTAAATTAAGAC-AAACATGTTT
*
20848910 TCCTTGTCTTAAATTAAGACAAACATATTT
1 T-CTTGTC-TAAATTAAGACAAACATGTTT
20848940 TCTTGTCTAAATTAAGACCAAACATGTTT
1 TCTTGTCTAAATTAAGA-CAAACATGTTT
20848969 TCTTGTCTAAATTAAGACAAACATGTT
1 TCTTGTCTAAATTAAGACAAACATGTT
20848996 AAAGCTGCCA
Statistics
Matches: 103, Mismatches: 8, Indels: 9
0.86 0.07 0.08
Matches are distributed among these distances:
28 26 0.25
29 51 0.50
30 16 0.16
31 10 0.10
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATGTTT
Found at i:20848932 original size:59 final size:57
Alignment explanation
Indices: 20848830--20848994 Score: 204
Period size: 59 Copynumber: 2.8 Consensus size: 57
20848820 TCTTGTCCGT
* * *
20848830 AATTAAAACAAAAAATATTTTATCTTGTCTAAATTTGAGACAAATATGTATTCTTGTCTA
1 AATTAAGACAAAAAATA-TTT-TCTTGTCTAAA-TTAAGACAAACATGTATTCTTGTCTA
* * *
20848890 GATTAAGACAAAAAATATTTTCCTTGTCTTAAATTAAGACAAACATATTTTCTTGTCTA
1 AATTAAGACAAAAAATATTTT-CTTGTC-TAAATTAAGACAAACATGTATTCTTGTCTA
* * *
20848949 AATTAAGACCAAACATGTTTTCTTGTCTAAATTAAGACAAACATGT
1 AATTAAGACAAAAAATATTTTCTTGTCTAAATTAAGACAAACATGT
20848995 TAAAGCTGCC
Statistics
Matches: 92, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
57 18 0.20
58 7 0.08
59 48 0.52
60 19 0.21
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.38
Consensus pattern (57 bp):
AATTAAGACAAAAAATATTTTCTTGTCTAAATTAAGACAAACATGTATTCTTGTCTA
Found at i:20855393 original size:20 final size:20
Alignment explanation
Indices: 20855368--20855415 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
20855358 CTGCACTTGG
*
20855368 CAACAGCTTGTGCTGCTGCC
1 CAACAGCATGTGCTGCTGCC
* *
20855388 CAACAGCATGTGTTGCTGTC
1 CAACAGCATGTGCTGCTGCC
*
20855408 CGACAGCA
1 CAACAGCA
20855416 ACACAAAGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (20 bp):
CAACAGCATGTGCTGCTGCC
Found at i:20855529 original size:16 final size:18
Alignment explanation
Indices: 20855510--20855544 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
20855500 CCTCTCTTTT
20855510 TTTTAATA-AA-AAAATA
1 TTTTAATAGAAGAAAATA
20855526 TTTTAATAGAAGAAAATA
1 TTTTAATAGAAGAAAATA
20855544 T
1 T
20855545 ATATTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 2 0.12
18 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (18 bp):
TTTTAATAGAAGAAAATA
Found at i:20856878 original size:29 final size:28
Alignment explanation
Indices: 20856846--20856987 Score: 169
Period size: 29 Copynumber: 5.0 Consensus size: 28
20856836 AAATATTTTA
* * *
20856846 TCTTGTCTAAATTTGAGACAAATATGTAT
1 TCTTGTCTAAA-TTAAGACAAACATGTTT
* * * *
20856875 TCTTGTCTAGATTAGGATAAA-ATATTT
1 TCTTGTCTAAATTAAGACAAACATGTTT
*
20856902 TCCTTGTCTTAAATTAAGACAAACATATTT
1 T-CTTGTC-TAAATTAAGACAAACATGTTT
20856932 TCTTGTCTAAATTAAGACCAAACATGTTT
1 TCTTGTCTAAATTAAGA-CAAACATGTTT
20856961 TCTTGTCTAAATTAAGACAAACATGTT
1 TCTTGTCTAAATTAAGACAAACATGTT
20856988 AAAGCTGTCA
Statistics
Matches: 99, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
27 5 0.05
28 33 0.33
29 54 0.55
30 7 0.07
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.40
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATGTTT
Found at i:20856935 original size:57 final size:56
Alignment explanation
Indices: 20856824--20856984 Score: 171
Period size: 57 Copynumber: 2.8 Consensus size: 56
20856814 TCTTATCCGT
* * * *
20856824 AATTAAGACAAAAAATATTTTATCTTGTCTAAATTTGAGACAAATATGTATTCTTGTCTA
1 AATTAAGAC-CAAAATA-TTT-TCTTGTCTAAA-TTAAGACAAACATATATTCTTGTCTA
* * * *
20856884 GATTAGGA-TAAAATATTTTCCTTGTCTTAAATTAAGACAAACATATTTTCTTGTCTA
1 AATTAAGACCAAAATATTTT-CTTGTC-TAAATTAAGACAAACATATATTCTTGTCTA
*
20856941 AATTAAGACCAAACATGTTTTCTTGTCTAAATTAAGACAAACAT
1 AATTAAGACCAAA-ATATTTTCTTGTCTAAATTAAGACAAACAT
20856985 GTTAAAGCTG
Statistics
Matches: 86, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
56 1 0.01
57 54 0.63
58 19 0.22
59 6 0.07
60 6 0.07
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (56 bp):
AATTAAGACCAAAATATTTTCTTGTCTAAATTAAGACAAACATATATTCTTGTCTA
Found at i:20858501 original size:19 final size:19
Alignment explanation
Indices: 20858477--20858518 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
20858467 AAGTTTTCTC
* *
20858477 AATTAGTATCTAGCTTTAA
1 AATTAGCATCAAGCTTTAA
*
20858496 AATTAGCATCAAGCTTTAT
1 AATTAGCATCAAGCTTTAA
20858515 AATT
1 AATT
20858519 GTCTCTTCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (19 bp):
AATTAGCATCAAGCTTTAA
Found at i:20859452 original size:16 final size:15
Alignment explanation
Indices: 20859433--20859475 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
20859423 TTACTTATTT
*
20859433 TTAGTTGTTTTTATAA
1 TTAGTTATTTTTA-AA
*
20859449 TTAGGTTATTTTTAAG
1 TTA-GTTATTTTTAAA
20859465 TTAGTTATTTT
1 TTAGTTATTTT
20859476 AATTTTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 8 0.33
16 7 0.29
17 9 0.38
ACGTcount: A:0.23, C:0.00, G:0.14, T:0.63
Consensus pattern (15 bp):
TTAGTTATTTTTAAA
Found at i:20859473 original size:15 final size:15
Alignment explanation
Indices: 20859427--20859475 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
20859417 TATAATTTAC
20859427 TTATTTTT-AGTT-G
1 TTATTTTTAAGTTAG
*
20859440 TT-TTTATAA-TTAGG
1 TTATTTTTAAGTTA-G
20859454 TTATTTTTAAGTTAG
1 TTATTTTTAAGTTAG
20859469 TTATTTT
1 TTATTTT
20859476 AATTTTATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 6 0.21
13 3 0.10
14 3 0.10
15 14 0.48
16 3 0.10
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.65
Consensus pattern (15 bp):
TTATTTTTAAGTTAG
Found at i:20859487 original size:20 final size:20
Alignment explanation
Indices: 20859458--20859500 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
20859448 ATTAGGTTAT
*
20859458 TTTTAAGTTAGTT-ATTTTAA
1 TTTTAAGTTA-TTCATATTAA
*
20859478 TTTTATGTTATTCATATTAA
1 TTTTAAGTTATTCATATTAA
20859498 TTT
1 TTT
20859501 GGTTATTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (20 bp):
TTTTAAGTTATTCATATTAA
Found at i:20860627 original size:14 final size:14
Alignment explanation
Indices: 20860608--20860634 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20860598 TTGGTTTTAA
20860608 TTTTAGTTAATTAG
1 TTTTAGTTAATTAG
20860622 TTTTAGTTAATTA
1 TTTTAGTTAATTA
20860635 ATAAATTTTG
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:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (14 bp):
TTTTAGTTAATTAG
Found at i:20866364 original size:43 final size:43
Alignment explanation
Indices: 20866294--20866412 Score: 184
Period size: 43 Copynumber: 2.8 Consensus size: 43
20866284 GTAATTATGT
* *
20866294 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGATGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGATGA
* *
20866337 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGATGA
* *
20866380 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
20866413 GAGCTGGTGA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.22, C:0.21, G:0.37, T:0.20
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGATGA
Found at i:20866422 original size:43 final size:43
Alignment explanation
Indices: 20866304--20866425 Score: 181
Period size: 43 Copynumber: 2.8 Consensus size: 43
20866294 TGACTCGGCT
* * **
20866304 ATGTGCGAGTAGGGAGTGCGCATAAGCCGATGATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
*
20866347 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
20866390 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
20866426 TGATGATGAG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.23, C:0.19, G:0.39, T:0.20
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:20866436 original size:20 final size:19
Alignment explanation
Indices: 20866411--20866473 Score: 90
Period size: 20 Copynumber: 3.2 Consensus size: 19
20866401 GGGAGTGCGC
20866411 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGA-GATGATG
20866431 ATGAGCTGGTGACGATGATG
1 ATGAGCTGGTGA-GATGATG
* *
20866451 ATGGGTTGGTGAGATGATG
1 ATGAGCTGGTGAGATGATG
20866470 ATGA
1 ATGA
20866474 TGGGTATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 10 0.26
20 29 0.74
ACGTcount: A:0.25, C:0.05, G:0.41, T:0.29
Consensus pattern (19 bp):
ATGAGCTGGTGAGATGATG
Found at i:20869102 original size:5 final size:5
Alignment explanation
Indices: 20869092--20869133 Score: 59
Period size: 5 Copynumber: 8.6 Consensus size: 5
20869082 ACCTTACTCG
* *
20869092 ATTTT ATTTT ATTTT ATTTT ATTTC ATTTT -TTTT ACTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
20869134 ATGATTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:20872923 original size:20 final size:20
Alignment explanation
Indices: 20872894--20872958 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
20872884 ATTAGGTTAC
*
20872894 TTTTAGGTTAGTT-ATTTTAA
1 TTTTAGGTTA-TTCATATTAA
*
20872914 TTTTATGTTATTCATATTAA
1 TTTTAGGTTATTCATATTAA
*
20872934 -TTT-GGTTATTACTTATTAGA
1 TTTTAGGTTATT-CATATTA-A
20872954 TTTTA
1 TTTTA
20872959 TATTTCTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
18 6 0.17
19 11 0.31
20 16 0.44
21 3 0.08
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.60
Consensus pattern (20 bp):
TTTTAGGTTATTCATATTAA
Found at i:20873610 original size:61 final size:58
Alignment explanation
Indices: 20873494--20873612 Score: 202
Period size: 61 Copynumber: 2.0 Consensus size: 58
20873484 TGTTATTTGC
20873494 TTTTGTAATTTATGAGTGGATAAATTTCTTTTCTAGGATTGCAATTGAACACACATGT
1 TTTTGTAATTTATGAGTGGATAAATTTCTTTTCTAGGATTGCAATTGAACACACATGT
*
20873552 NTTTTGTAATTTATGAGTGGATAAATTTTCTTTTTCTAGGATTGCAATTGAACTCACATGT
1 -TTTTGTAATTTATGAGTGGATAAA-TTTC-TTTTCTAGGATTGCAATTGAACACACATGT
20873613 AGTCTAAATT
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
59 24 0.42
60 4 0.07
61 29 0.51
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (58 bp):
TTTTGTAATTTATGAGTGGATAAATTTCTTTTCTAGGATTGCAATTGAACACACATGT
Found at i:20874500 original size:32 final size:33
Alignment explanation
Indices: 20874455--20874553 Score: 94
Period size: 32 Copynumber: 3.0 Consensus size: 33
20874445 CACAACATTA
* *
20874455 TACAATAGATTTTCACGGGATCAACCAAAACC-
1 TACAATGGCTTTTCACGGGATCAACCAAAACCT
** * *
20874487 TA-AAGTGGCTTTTCAAAGGCTCAACCACAACCTT
1 TACAA-TGGCTTTTCACGGGATCAACCAAAACC-T
*
20874521 TAGCAATGGTTTTTCACGGGATCAACCAAAACC
1 TA-CAATGGCTTTTCACGGGATCAACCAAAACC
20874554 CAACAACTAA
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
31 2 0.04
32 23 0.45
34 2 0.04
35 22 0.43
36 2 0.04
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.24
Consensus pattern (33 bp):
TACAATGGCTTTTCACGGGATCAACCAAAACCT
Found at i:20874546 original size:35 final size:32
Alignment explanation
Indices: 20874464--20874553 Score: 92
Period size: 35 Copynumber: 2.7 Consensus size: 32
20874454 ATACAATAGA
20874464 TTTTCACGGGATCAACCAAAACCTAAAGTGGC
1 TTTTCACGGGATCAACCAAAACCTAAAGTGGC
** * * *
20874496 TTTTCAAAGGCTCAACCACAACCTTTAGCAA-TGGT
1 TTTTCACGGGATCAACCAAAACC--TA--AAGTGGC
20874531 TTTTCACGGGATCAACCAAAACC
1 TTTTCACGGGATCAACCAAAACC
20874554 CAACAACTAA
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
32 19 0.42
34 2 0.04
35 22 0.49
36 2 0.04
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (32 bp):
TTTTCACGGGATCAACCAAAACCTAAAGTGGC
Found at i:20876720 original size:180 final size:179
Alignment explanation
Indices: 20876417--20876779 Score: 645
Period size: 180 Copynumber: 2.0 Consensus size: 179
20876407 GGTTTTATAT
20876417 TGTGATATGTGATTGCTATGGATTCATGCACTATTGTAGTATGATGATATATAAATGTGTGTGTT
1 TGTGATATGTGATTGCTATGGATTCATGCACTATTGTAGTATGATGATATATAAATGTGTGTGTT
* *
20876482 GTGTATGATGAATGATATTGTGTATAATGACTGTAACCGTGTGTGTGTACGATGTGGGGGGATGC
66 GTGCATGATGAATGATATTGTGTATAATGACTGTAACCGTGTGTGTGCACGATGTGGGGGGATGC
* ** *
20876547 ACATGCCGGTGATGATGGTGGCGTGAGAGGTGGATGATGATAGTGCCCG
131 ACATGCCGATGACAATGGTGGCGTGAGAGATGGATGATGATAGTGCCCG
20876596 TNGTGATATGTGATTGCTATGGATTCATGCACTATTGTAGTATGATGATATATAAATGTGTGTGT
1 T-GTGATATGTGATTGCTATGGATTCATGCACTATTGTAGTATGATGATATATAAATGTGTGTGT
20876661 TGTGCATGATGAATGATATTGTGTATAATGACTGTAACCGTGTGTGTGCACGATGTGGGGGGATG
65 TGTGCATGATGAATGATATTGTGTATAATGACTGTAACCGTGTGTGTGCACGATGTGGGGGGATG
* *
20876726 CACATGTCGATGACAATGGTGGTGTGAGAGATGGATGATGATAGTGCCCG
130 CACATGCCGATGACAATGGTGGCGTGAGAGATGGATGATGATAGTGCCCG
20876776 TGTG
1 TGTG
20876780 CACGATGTGG
Statistics
Matches: 175, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
179 4 0.02
180 171 0.98
ACGTcount: A:0.24, C:0.09, G:0.33, T:0.34
Consensus pattern (179 bp):
TGTGATATGTGATTGCTATGGATTCATGCACTATTGTAGTATGATGATATATAAATGTGTGTGTT
GTGCATGATGAATGATATTGTGTATAATGACTGTAACCGTGTGTGTGCACGATGTGGGGGGATGC
ACATGCCGATGACAATGGTGGCGTGAGAGATGGATGATGATAGTGCCCG
Found at i:20889043 original size:31 final size:29
Alignment explanation
Indices: 20889005--20889077 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
20888995 AACAAGTTAT
20889005 TATGGATATTCAATATATCTTGCTTAACTAC
1 TATGGATATT--ATATATCTTGCTTAACTAC
* * *
20889036 TATGGATATTGTATATCTTGTTTAGCTAC
1 TATGGATATTATATATCTTGCTTAACTAC
*
20889065 TATAGATATTATA
1 TATGGATATTATA
20889078 AATATTTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 27 0.73
31 10 0.27
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (29 bp):
TATGGATATTATATATCTTGCTTAACTAC
Found at i:20890866 original size:2 final size:2
Alignment explanation
Indices: 20890859--20890891 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
20890849 ATAATATTTC
20890859 AT 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 AT A
20890892 CTACTACTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20890971 original size:2 final size:2
Alignment explanation
Indices: 20890964--20890998 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
20890954 CATAATATTC
20890964 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 T
20890999 CTACACCTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20894341 original size:54 final size:54
Alignment explanation
Indices: 20894259--20894459 Score: 251
Period size: 54 Copynumber: 3.7 Consensus size: 54
20894249 TGATATTGCT
* *
20894259 TGTGCACGATGTGGGGGGATGCACATGAGCAGGGCGAGACAATGACTCCAGTTA
1 TGTGCACGATGTGGGGGGATGCACATGAGCAGGGCGAGACGATGACTCCAGCTA
* ** *
20894313 TGTGCACGATGTGGGGGGATGCACATGAGCTA-GGTGAGGTGATGACTCAAGCTA
1 TGTGCACGATGTGGGGGGATGCACATGAGC-AGGGCGAGACGATGACTCCAGCTA
* * * ** *
20894367 TGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGACGAGGTGTCCGGCTA
1 TGTGCACGATGTGGGGGGATGCACATGAGCAGGGCGAGACGATGACTCCAGCTA
* * *
20894421 TGTTCATGATGTGGGGGGATGCACATGAGCTGGGCGAGA
1 TGTGCACGATGTGGGGGGATGCACATGAGCAGGGCGAGA
20894460 TGGTGGTGTA
Statistics
Matches: 128, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
54 127 0.99
55 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.41, T:0.21
Consensus pattern (54 bp):
TGTGCACGATGTGGGGGGATGCACATGAGCAGGGCGAGACGATGACTCCAGCTA
Found at i:20908098 original size:20 final size:20
Alignment explanation
Indices: 20908075--20908126 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
20908065 AATTATTATT
* * *
20908075 AACAAATTTCATCCATTACG
1 AACAAAATTCATCAATTACC
20908095 AACAAAATTCATCAATTACC
1 AACAAAATTCATCAATTACC
*
20908115 AACAAAGTTCAT
1 AACAAAATTCAT
20908127 AAAAAATACC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.46, C:0.23, G:0.04, T:0.27
Consensus pattern (20 bp):
AACAAAATTCATCAATTACC
Found at i:20909074 original size:2 final size:2
Alignment explanation
Indices: 20909054--20909104 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
20909044 TCATCAATCG
* * *
20909054 AT AT AT AA AT AA AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20909096 AT AT -T AT AT
1 AT AT AT AT AT
20909105 GTGTGTGTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:20909335 original size:2 final size:2
Alignment explanation
Indices: 20909328--20909381 Score: 78
Period size: 2 Copynumber: 28.5 Consensus size: 2
20909318 NNNNNACTAC
20909328 TA TA TA TA -A TA -A TA -A 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
*
20909367 TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA T
20909382 GTGTGTGTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
1 3 0.06
2 44 0.94
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:20910688 original size:35 final size:36
Alignment explanation
Indices: 20910607--20910700 Score: 163
Period size: 35 Copynumber: 2.6 Consensus size: 36
20910597 TCAACCTAGC
*
20910607 TCATGTGCACTCCCACACCGCACATAGCTAATGTCA
1 TCATGTGCACTCCCACACCGCACATAGCTAATATCA
20910643 TCATGTGCACTCCCACACCGCACATAGC-AATATCA
1 TCATGTGCACTCCCACACCGCACATAGCTAATATCA
*
20910678 TCATGCGCACTCCCACACCGCAC
1 TCATGTGCACTCCCACACCGCAC
20910701 CTCACCATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
35 28 0.50
36 28 0.50
ACGTcount: A:0.28, C:0.40, G:0.13, T:0.19
Consensus pattern (36 bp):
TCATGTGCACTCCCACACCGCACATAGCTAATATCA
Found at i:20915377 original size:30 final size:30
Alignment explanation
Indices: 20915341--20915408 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
20915331 TTCAATCATT
* * *
20915341 AATTATAAAGATTTATTTGACTCAAAACAA
1 AATTATAAAAATTAATTTGACTAAAAACAA
* *
20915371 AATTATAAAAATTAATTTGAGTAAAAATAA
1 AATTATAAAAATTAATTTGACTAAAAACAA
*
20915401 AAATATAA
1 AATTATAA
20915409 GGGTTTAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.32
Consensus pattern (30 bp):
AATTATAAAAATTAATTTGACTAAAAACAA
Found at i:20915659 original size:14 final size:15
Alignment explanation
Indices: 20915629--20915667 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
20915619 TATTTATTAA
*
20915629 TTTAAAAAATTATTT
1 TTTAAAAAAATATTT
20915644 TTTAAAAAAATA-TT
1 TTTAAAAAAATATTT
20915658 TTTAAAAAAA
1 TTTAAAAAAA
20915668 AATAAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTTAAAAAAATATTT
Found at i:20915671 original size:16 final size:15
Alignment explanation
Indices: 20915632--20915668 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
20915622 TTATTAATTT
* *
20915632 AAAAAATTATTTTTT
1 AAAAAAATATTTTTA
20915647 AAAAAAATATTTTTA
1 AAAAAAATATTTTTA
20915662 AAAAAAA
1 AAAAAAA
20915669 ATAAAAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAAAAATATTTTTA
Found at i:20915845 original size:10 final size:10
Alignment explanation
Indices: 20915825--20915855 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
20915815 TTTTTCTTTT
20915825 TAAATTAATAA
1 TAAA-TAATAA
20915836 TAAATAATAA
1 TAAATAATAA
20915846 TAAATAATAA
1 TAAATAATAA
20915856 AATTATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
TAAATAATAA
Found at i:20917067 original size:5 final size:5
Alignment explanation
Indices: 20917036--20917060 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
20917026 AGAGATGTAC
20917036 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
20917061 TTATTTTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:20923595 original size:16 final size:16
Alignment explanation
Indices: 20923571--20923614 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
20923561 GGTTCAACCT
*
20923571 GGTCATTTCATGTTCG
1 GGTCATTTCAGGTTCG
*
20923587 GGTCTTTTCAGGTTCG
1 GGTCATTTCAGGTTCG
* *
20923603 GATCATTCCAGG
1 GGTCATTTCAGG
20923615 GTCAGCAAGC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (16 bp):
GGTCATTTCAGGTTCG
Found at i:20934523 original size:14 final size:14
Alignment explanation
Indices: 20934512--20934559 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 14
20934502 TTATTAATGG
20934512 AATT-AAATTAATA
1 AATTAAAATTAATA
*
20934525 AATTAAAATTAATT
1 AATTAAAATTAATA
*
20934539 TA-TAAAA--AATA
1 AATTAAAATTAATA
20934550 AATTAAAATT
1 AATTAAAATT
20934560 TAAAATTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
11 4 0.15
12 5 0.19
13 9 0.33
14 9 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTAAAATTAATA
Found at i:20934536 original size:19 final size:19
Alignment explanation
Indices: 20934512--20934567 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 19
20934502 TTATTAATGG
20934512 AATTAAATTAATAAATTAA
1 AATTAAATTAATAAATTAA
*
20934531 AATT-AATTTAT-AA--AA
1 AATTAAATTAATAAATTAA
*
20934546 AA-TAAATTAA-AATTTAA
1 AATTAAATTAATAAATTAA
20934563 AATTA
1 AATTA
20934568 TATTTAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 11
0.67 0.07 0.26
Matches are distributed among these distances:
14 1 0.03
15 10 0.34
17 6 0.21
18 8 0.28
19 4 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTAAATTAATAAATTAA
Found at i:20935458 original size:14 final size:14
Alignment explanation
Indices: 20935439--20935465 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20935429 CTTTTTATAA
20935439 TTAAATTAATTAAT
1 TTAAATTAATTAAT
20935453 TTAAATTAATTAA
1 TTAAATTAATTAA
20935466 ATGAGATTTG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAAATTAATTAAT
Found at i:20941411 original size:35 final size:37
Alignment explanation
Indices: 20941341--20941411 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 37
20941331 ACTTGGTGTT
* *
20941341 TAGATTTTGTTATTATATTTGGGAGTAATCTTGTTGG
1 TAGATTTTGTTATTATATTTGGGAATAATCGTGTTGG
20941378 TAGATTTTG-T-TTATATTTTGGGAATAAT-GTGTTG
1 TAGATTTTGTTATTATA-TTTGGGAATAATCGTGTTG
20941412 ATTTGTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 10 0.32
36 12 0.39
37 9 0.29
ACGTcount: A:0.23, C:0.01, G:0.24, T:0.52
Consensus pattern (37 bp):
TAGATTTTGTTATTATATTTGGGAATAATCGTGTTGG
Found at i:20943858 original size:13 final size:13
Alignment explanation
Indices: 20943840--20943864 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20943830 TTCCAGAAAA
20943840 TTTATAAAATCAT
1 TTTATAAAATCAT
20943853 TTTATAAAATCA
1 TTTATAAAATCA
20943865 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:20945128 original size:19 final size:19
Alignment explanation
Indices: 20945104--20945140 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
20945094 CTTCTAAACT
20945104 TCAAATCATACTCCAATAC
1 TCAAATCATACTCCAATAC
*
20945123 TCAAATCATACTTCAATA
1 TCAAATCATACTCCAATA
20945141 AGTCAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:20947074 original size:17 final size:17
Alignment explanation
Indices: 20947044--20947076 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20947034 TTCTTGATAA
20947044 AATAAAACTCCTTATTG
1 AATAAAACTCCTTATTG
20947061 AATAATAACT-CTTATT
1 AATAA-AACTCCTTATT
20947077 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (17 bp):
AATAAAACTCCTTATTG
Found at i:20947278 original size:28 final size:28
Alignment explanation
Indices: 20947237--20947295 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
20947227 AAGACAAAAA
*
20947237 AAATATTTTATCTTGTCTAAATTGAGAC
1 AAATATTTTATCTTGTCTAAATTAAGAC
20947265 AAATATATTT-TCTTGTCTAAATTAAGAC
1 AAATAT-TTTATCTTGTCTAAATTAAGAC
20947293 AAA
1 AAA
20947296 AATGTTAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 26 0.90
29 3 0.10
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (28 bp):
AAATATTTTATCTTGTCTAAATTAAGAC
Found at i:20950178 original size:19 final size:19
Alignment explanation
Indices: 20950154--20950191 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
20950144 CTGCCAAACC
*
20950154 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
20950173 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
20950192 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:20957248 original size:19 final size:19
Alignment explanation
Indices: 20957224--20957261 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
20957214 CTACCAAACC
*
20957224 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
20957243 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
20957262 AGTCAAGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:20958580 original size:32 final size:32
Alignment explanation
Indices: 20958544--20958654 Score: 127
Period size: 32 Copynumber: 3.4 Consensus size: 32
20958534 TTTATCGGGA
* *
20958544 TCAACTAAAACCCAGAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
*
20958576 TCAACCACAACCTTTCACAA-TGGTTTTTCATAA-GC
1 TCAACCAAAACC---CA-AAGTGGTTTTTCA-AAGGC
20958611 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
*
20958643 TCAACCACAACC
1 TCAACCAAAACC
20958655 TACAACAATG
Statistics
Matches: 67, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
31 4 0.06
32 35 0.52
35 25 0.37
36 3 0.04
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (32 bp):
TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
Found at i:20958600 original size:35 final size:33
Alignment explanation
Indices: 20958561--20958671 Score: 138
Period size: 35 Copynumber: 3.3 Consensus size: 33
20958551 AAACCCAGAG
20958561 TGGTTTTTCAAAGGCTCAACCACAACCTTTCACAA
1 TGGTTTTTCAAAGGCTCAACCACAACC--TCACAA
*
20958596 TGGTTTTTCATAA-GCTCAACCAAAACC-CA-AA
1 TGGTTTTTCA-AAGGCTCAACCACAACCTCACAA
20958627 GTGGTTTTTCAAAGGCTCAACCACAACCTACAACAA
1 -TGGTTTTTCAAAGGCTCAACCACAACCT-C-ACAA
20958663 TGGTTTTTC
1 TGGTTTTTC
20958672 TCACGGGATC
Statistics
Matches: 67, Mismatches: 2, Indels: 14
0.81 0.02 0.17
Matches are distributed among these distances:
31 4 0.06
32 25 0.37
34 1 0.01
35 33 0.49
36 4 0.06
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (33 bp):
TGGTTTTTCAAAGGCTCAACCACAACCTCACAA
Found at i:20958630 original size:67 final size:68
Alignment explanation
Indices: 20958517--20958694 Score: 229
Period size: 67 Copynumber: 2.6 Consensus size: 68
20958507 GCTTAGCTAA
* ** * *
20958517 AACCTTTCACAATAGTTTTT-ATCGGGATCAACTAAAACCCAGAGTGGTTTTTCAAAGGCTCAAC
1 AACCTTTCACAATGGTTTTTCATCAAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
20958581 CAC
66 CAC
*
20958584 AACCTTTCACAATGGTTTTTCAT-AAGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
1 AACCTTTCACAATGGTTTTTCATCAAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
20958648 CAC
66 CAC
* *
20958651 AACC-TACAACAATGGTTTTTC-TCACGGGATCAACCAAAACCCAA
1 AACCTTTC-ACAATGGTTTTTCATCA--AGATCAACCAAAACCCAA
20958695 CAACTAACTT
Statistics
Matches: 97, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
66 3 0.03
67 76 0.78
68 2 0.02
69 16 0.16
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (68 bp):
AACCTTTCACAATGGTTTTTCATCAAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
CAC
Found at i:20958696 original size:35 final size:33
Alignment explanation
Indices: 20958541--20958697 Score: 115
Period size: 32 Copynumber: 4.6 Consensus size: 33
20958531 GTTTTTATCG
* * *
20958541 GGATCAACTAAAACCC-AGAGTGGTTTTTCAAA
1 GGATCAACCAAAACCCAACAATGGTTTTTCAAA
* *
20958573 GGCTCAACCACAACCTTTC-ACAATGGTTTTTCATAA
1 GGATCAACCAAAACC---CAACAATGGTTTTTCA-AA
* *
20958609 -GCTCAACCAAAACCCAA-AGTGGTTTTTCAAA
1 GGATCAACCAAAACCCAACAATGGTTTTTCAAA
* * **
20958640 GGCTCAACCACAACCTACAACAATGGTTTTTCTCACG
1 GGATCAACCAAAACC--CAACAATGG-TTTT-TCAAA
20958677 GGATCAACCAAAACCCAACAA
1 GGATCAACCAAAACCCAACAA
20958698 CTAACTTTTT
Statistics
Matches: 101, Mismatches: 13, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
31 2 0.02
32 37 0.37
33 1 0.01
34 3 0.03
35 36 0.36
36 6 0.06
37 16 0.16
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.23
Consensus pattern (33 bp):
GGATCAACCAAAACCCAACAATGGTTTTTCAAA
Found at i:20969635 original size:21 final size:21
Alignment explanation
Indices: 20969611--20969652 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
20969601 ACATATGTAC
20969611 CTTGTC-TACATTAAGACAACA
1 CTTGTCTTA-ATTAAGACAACA
20969632 CTTGTCTTAATTAAGACAACA
1 CTTGTCTTAATTAAGACAACA
20969653 TATTTTATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (21 bp):
CTTGTCTTAATTAAGACAACA
Found at i:20969645 original size:49 final size:51
Alignment explanation
Indices: 20969546--20969698 Score: 154
Period size: 50 Copynumber: 3.1 Consensus size: 51
20969536 AATTAAAAAT
* * *
20969546 TACAACACATATATCCTTGTTTAAATTAAGACAACTCTTGTCTTTAATTAA
1 TACAACATATATATCCTTGTCTAAATTAAGACAACACTTGTCTTTAATTAA
* *
20969597 TACAACATATGTA-CCTTGTCTACATTAAGACAACACTTGTC-TTAATTAA
1 TACAACATATATATCCTTGTCTAAATTAAGACAACACTTGTCTTTAATTAA
* ** * * * *
20969646 GACAACATAT-T-TTATTGTTTAAA-TAAAATAACTCTTGTCTTTAATTAA
1 TACAACATATATATCCTTGTCTAAATTAAGACAACACTTGTCTTTAATTAA
*
20969694 GACAA
1 TACAA
20969699 AACATATAAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
47 13 0.15
48 21 0.24
49 17 0.20
50 25 0.29
51 11 0.13
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (51 bp):
TACAACATATATATCCTTGTCTAAATTAAGACAACACTTGTCTTTAATTAA
Found at i:20970179 original size:21 final size:21
Alignment explanation
Indices: 20970147--20970212 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
20970137 AAATTGCTTT
20970147 AATGATCTTTGAACTTGTTTG
1 AATGATCTTTGAACTTGTTTG
* *
20970168 AGTGATCCTTGAACTTGTTTG
1 AATGATCTTTGAACTTGTTTG
* *
20970189 AATGATTTTTGAAGTTGTTTG
1 AATGATCTTTGAACTTGTTTG
20970210 AAT
1 AAT
20970213 ATGTTTTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.24, C:0.08, G:0.21, T:0.47
Consensus pattern (21 bp):
AATGATCTTTGAACTTGTTTG
Found at i:20970219 original size:21 final size:21
Alignment explanation
Indices: 20970147--20970226 Score: 90
Period size: 21 Copynumber: 3.8 Consensus size: 21
20970137 AAATTGCTTT
*
20970147 AATGATCTTTGAACTTGTTTG
1 AATGATTTTTGAACTTGTTTG
* **
20970168 AGTGATCCTTGAACTTGTTTG
1 AATGATTTTTGAACTTGTTTG
*
20970189 AATGATTTTTGAAGTTGTTTG
1 AATGATTTTTGAACTTGTTTG
20970210 AAT-ATGTTTTTGAACTT
1 AATGA--TTTTTGAACTT
20970227 AAAGTATTGA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
20 1 0.02
21 39 0.78
22 10 0.20
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (21 bp):
AATGATTTTTGAACTTGTTTG
Found at i:20970374 original size:23 final size:22
Alignment explanation
Indices: 20970348--20970394 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
20970338 TTTGAAGTGG
* *
20970348 TTTGAATGAGTTTTTCAATTTTT
1 TTTGAAT-AGTTTTTAAACTTTT
20970371 TTTGAATAGTTTTTAAACTTTT
1 TTTGAATAGTTTTTAAACTTTT
20970393 TT
1 TT
20970395 AAATAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.23, C:0.04, G:0.11, T:0.62
Consensus pattern (22 bp):
TTTGAATAGTTTTTAAACTTTT
Found at i:20970381 original size:22 final size:23
Alignment explanation
Indices: 20970307--20970394 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 23
20970297 TCAAAACTAC
* *
20970307 TTGAATGA-TCTTTAAAC-TTGT
1 TTGAATGAGTTTTTAAACTTTTT
* * **
20970328 TTGAATGA-TTTTTGAA-GTGGT
1 TTGAATGAGTTTTTAAACTTTTT
* *
20970349 TTGAATGAGTTTTTCAATTTTTT
1 TTGAATGAGTTTTTAAACTTTTT
20970372 TTGAAT-AGTTTTTAAACTTTTT
1 TTGAATGAGTTTTTAAACTTTTT
20970394 T
1 T
20970395 AAATAATTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
21 25 0.45
22 22 0.40
23 8 0.15
ACGTcount: A:0.25, C:0.05, G:0.16, T:0.55
Consensus pattern (23 bp):
TTGAATGAGTTTTTAAACTTTTT
Found at i:20970392 original size:21 final size:21
Alignment explanation
Indices: 20970317--20970405 Score: 63
Period size: 21 Copynumber: 4.1 Consensus size: 21
20970307 TTGAATGATC
20970317 TTTAAACTTGTTTGAAT-GATT
1 TTTAAACTTGTTTGAATAG-TT
* * *
20970338 TTTGAAGTGGTTTGAATGAGTT
1 TTTAAACTTGTTTGAAT-AGTT
** *
20970360 TTTCAATTTTTTTTGAATAGTT
1 TTT-AAACTTGTTTGAATAGTT
* * *
20970382 TTTAAACTTTTTTAAATAATT
1 TTTAAACTTGTTTGAATAGTT
20970403 TTT
1 TTT
20970406 GAAATGCCTA
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
21 31 0.58
22 12 0.23
23 10 0.19
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.56
Consensus pattern (21 bp):
TTTAAACTTGTTTGAATAGTT
Found at i:20970457 original size:21 final size:21
Alignment explanation
Indices: 20970433--20970475 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20970423 CCATGTGAAA
20970433 AGTTTCAAAATTACTTGAATG
1 AGTTTCAAAATTACTTGAATG
** *
20970454 AGTTTTGAAATTTCTTGAATG
1 AGTTTCAAAATTACTTGAATG
20970475 A
1 A
20970476 TATTTGAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (21 bp):
AGTTTCAAAATTACTTGAATG
Found at i:20970481 original size:21 final size:21
Alignment explanation
Indices: 20970440--20970483 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
20970430 AAAAGTTTCA
20970440 AAATTACTTGAATGAGTTTTG
1 AAATTACTTGAATGAGTTTTG
*
20970461 AAATTTCTTGAATGA-TATTTG
1 AAATTACTTGAATGAGT-TTTG
20970482 AA
1 AA
20970484 CATGTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (21 bp):
AAATTACTTGAATGAGTTTTG
Found at i:20972306 original size:31 final size:33
Alignment explanation
Indices: 20972254--20972320 Score: 93
Period size: 31 Copynumber: 2.1 Consensus size: 33
20972244 CTTCTCCATT
* *
20972254 TTTCCTATTTGGGCTAAGCCCATTTATTTT-TA
1 TTTCCTATTTGGGCCAAGCCCACTTATTTTCTA
*
20972286 TTTCCTA-TTGGGCCATGCCCACTTATTTTCTA
1 TTTCCTATTTGGGCCAAGCCCACTTATTTTCTA
20972318 TTT
1 TTT
20972321 ATTTTTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 19 0.61
32 12 0.39
ACGTcount: A:0.16, C:0.22, G:0.12, T:0.49
Consensus pattern (33 bp):
TTTCCTATTTGGGCCAAGCCCACTTATTTTCTA
Found at i:20972537 original size:24 final size:25
Alignment explanation
Indices: 20972504--20972550 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
20972494 AGCAGATTTC
20972504 CAGCAACAAAACT-TCTCAATTTTGG
1 CAGCAACAAAACTGTC-CAATTTTGG
*
20972529 CAGC-ACAAAGCTGTCCAATTTT
1 CAGCAACAAAACTGTCCAATTTT
20972551 TTTGCACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.28
Consensus pattern (25 bp):
CAGCAACAAAACTGTCCAATTTTGG
Found at i:20972606 original size:34 final size:34
Alignment explanation
Indices: 20972545--20972618 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
20972535 AAAGCTGTCC
* * * *
20972545 AATTTTTTTGCACAAACTACCAGCAAACAGCTCT
1 AATTTTTCTGCACAAACTACCAACAAACAACTCA
*
20972579 AATTTTTCTGCACAAATTGA-CAACAAACAACTCA
1 AATTTTTCTGCACAAACT-ACCAACAAACAACTCA
20972613 AATTTT
1 AATTTT
20972619 GAGCAGCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 33 0.97
35 1 0.03
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (34 bp):
AATTTTTCTGCACAAACTACCAACAAACAACTCA
Found at i:20972963 original size:32 final size:34
Alignment explanation
Indices: 20972901--20972964 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 34
20972891 TTTCTCTCCC
*
20972901 TTTTTCTCTTCATTTCTTTCTTCCTCTCCCACAG
1 TTTTTCTCTTCATTTATTTCTTCCTCTCCCACAG
* *
20972935 TTTTTCT-TTCCTTTATTT-TTCTTCTCCCAC
1 TTTTTCTCTTCATTTATTTCTTCCTCTCCCAC
20972965 TCTCAACCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 11 0.41
33 9 0.33
34 7 0.26
ACGTcount: A:0.08, C:0.33, G:0.02, T:0.58
Consensus pattern (34 bp):
TTTTTCTCTTCATTTATTTCTTCCTCTCCCACAG
Found at i:20974704 original size:28 final size:28
Alignment explanation
Indices: 20974631--20974718 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 28
20974621 TTAAGACAAC
* *
20974631 TCTTGTCTGTAATTAAGACAAAAAAGTATTTT
1 TCTTGTCT-AAATTAAGAC-AAAAA-T-GTTT
* *
20974663 ATCTTGTCTAAATTGAGACAAATATGTTT
1 -TCTTGTCTAAATTAAGACAAAAATGTTT
*
20974692 TCTTGTCTAAATTAAGATAAAAATGTT
1 TCTTGTCTAAATTAAGACAAAAATGTT
20974719 AAAGCTGCCA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 24 0.50
29 3 0.06
30 1 0.02
31 4 0.08
32 8 0.17
33 8 0.17
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAAAATGTTT
Found at i:20978643 original size:22 final size:22
Alignment explanation
Indices: 20978615--20978677 Score: 117
Period size: 22 Copynumber: 2.9 Consensus size: 22
20978605 TATTGGTATC
20978615 AGAGCTTTTGGTTTTAAAGATA
1 AGAGCTTTTGGTTTTAAAGATA
20978637 AGAGCTTTTGGTTTTAAAGATA
1 AGAGCTTTTGGTTTTAAAGATA
*
20978659 AGAGTTTTTGGTTTTAAAG
1 AGAGCTTTTGGTTTTAAAG
20978678 TGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.30, C:0.03, G:0.24, T:0.43
Consensus pattern (22 bp):
AGAGCTTTTGGTTTTAAAGATA
Found at i:20988963 original size:20 final size:20
Alignment explanation
Indices: 20988920--20988964 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
20988910 AAACTGTGGG
20988920 TTTT-GATTTTTAGGGGTAGA
1 TTTTGGATTTTTAGGGG-AGA
20988940 -TTTGGATTTTTAGGAGG-GA
1 TTTTGGATTTTTAGG-GGAGA
20988959 TTTTGG
1 TTTTGG
20988965 GTAACTGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 5 0.23
20 15 0.68
21 2 0.09
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (20 bp):
TTTTGGATTTTTAGGGGAGA
Found at i:20989843 original size:17 final size:19
Alignment explanation
Indices: 20989821--20989859 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
20989811 TAATAAAGCG
20989821 TAAAAAA-AATAAAAA-AA
1 TAAAAAAGAATAAAAATAA
20989838 TAAAAAAAGAATAAAAATAA
1 T-AAAAAAGAATAAAAATAA
20989858 TA
1 TA
20989860 TATATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 1 0.05
18 6 0.32
19 9 0.47
20 3 0.16
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (19 bp):
TAAAAAAGAATAAAAATAA
Found at i:20989873 original size:9 final size:8
Alignment explanation
Indices: 20989823--20989857 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
20989813 ATAAAGCGTA
20989823 AAAAAAAT
1 AAAAAAAT
20989831 AAAAAAAT
1 AAAAAAAT
*
20989839 AAAAAAAG
1 AAAAAAAT
20989847 AATAAAAAT
1 AA-AAAAAT
20989856 AA
1 AA
20989858 TATATATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:20990481 original size:21 final size:21
Alignment explanation
Indices: 20990433--20990488 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 21
20990423 GGAGAAACTT
20990433 AGAATAAAAAATAAAATATGGA
1 AGAATAAAAAATAAAATAT-GA
20990455 AGAATAAAAAATAGAAATAT-A
1 AGAATAAAAAATA-AAATATGA
*
20990476 ATAATAAAAAATA
1 AGAATAAAAAATA
20990489 TATAACGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 13 0.41
22 13 0.41
23 6 0.19
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (21 bp):
AGAATAAAAAATAAAATATGA
Found at i:20996566 original size:7 final size:8
Alignment explanation
Indices: 20996552--20996579 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
20996542 GTTGTGAAGT
20996552 GAAAAAAA
1 GAAAAAAA
20996560 GAAAAAAA
1 GAAAAAAA
20996568 GAAAAAAA
1 GAAAAAAA
20996576 GAAA
1 GAAA
20996580 GTGAGTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:20997015 original size:19 final size:20
Alignment explanation
Indices: 20996991--20997056 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
20996981 ATCAATCAAC
20996991 ATGAAGATTGAAAAAATG-A
1 ATGAAGATTGAAAAAATGAA
*
20997010 ATGAAGA-AGAAAAAATGAAA
1 ATGAAGATTGAAAAAATG-AA
* *
20997030 ATGAAAATTGAAAAAAAGAA
1 ATGAAGATTGAAAAAATGAA
*
20997050 AGGAAGA
1 ATGAAGA
20997057 AAAAGCATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 9 0.24
19 7 0.18
20 14 0.37
21 8 0.21
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.14
Consensus pattern (20 bp):
ATGAAGATTGAAAAAATGAA
Done.