Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 32 of 427
Found at i:8211363 original size:129 final size:132
Alignment explanation
Indices: 8211184--8211475 Score: 416
Period size: 129 Copynumber: 2.2 Consensus size: 132
8211174 ATCTACTCCA
* * * *
8211184 CTACTGCTTAGGGAGACAA-G-ATCTATAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAAG
1 CTACTGCTTAGGGAGATAAGGCTTGTA-AATTCAGCCTGTTACCCTACTGCTTAGGGAGTTAAAG
* *
8211247 CCCTTCGTCTTCGATCTATTTCCCTACTACTTAGGGGGTTAAGATCTGTAAAT-TT-AGCCTGTT
65 CCCATCATCTTCGATCTATTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTT
8211310 A-C
130 ACC
* * *
8211312 CTACTGCTTAGGGAGATAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTATGGAGTTAAAGC
1 CTACTGCTTAGGGAGATAAGGCTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGAGTTAAAGC
*
8211377 CCATCATCTTTGATCTATTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
66 CCATCATCTTCGATCTATTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
8211442 CC
131 CC
** *
8211444 CTACTGCTTAGGG-TTTAAGGCTTGTGAATTCA
1 CTACTGCTTAGGGAGATAAGGCTTGTAAATTCA
8211476 CTGATTCTNA
Statistics
Matches: 145, Mismatches: 14, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
128 18 0.12
129 84 0.58
130 5 0.03
131 24 0.17
132 14 0.10
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (132 bp):
CTACTGCTTAGGGAGATAAGGCTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGAGTTAAAGC
CCATCATCTTCGATCTATTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
CC
Found at i:8231168 original size:42 final size:42
Alignment explanation
Indices: 8231115--8231204 Score: 162
Period size: 42 Copynumber: 2.1 Consensus size: 42
8231105 GGTACGGAGA
* *
8231115 CTGGGGCGACGTGGCTGCTAAGGCGCTGGCACTGTATGAGGT
1 CTGGAGCGACGTGGCTGCTAAGGCGCTGACACTGTATGAGGT
8231157 CTGGAGCGACGTGGCTGCTAAGGCGCTGACACTGTATGAGGT
1 CTGGAGCGACGTGGCTGCTAAGGCGCTGACACTGTATGAGGT
8231199 CTGGAG
1 CTGGAG
8231205 GTTACAGAGG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.17, C:0.21, G:0.41, T:0.21
Consensus pattern (42 bp):
CTGGAGCGACGTGGCTGCTAAGGCGCTGACACTGTATGAGGT
Found at i:8232277 original size:22 final size:21
Alignment explanation
Indices: 8232236--8232277 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
8232226 GCTCCACCAG
*
8232236 ATCAAGTCAAAGATAGAGAAA
1 ATCAAGTCAAAGATAAAGAAA
8232257 ATCACAGTCAAA-ATCAAAGAA
1 ATCA-AGTCAAAGAT-AAAGAA
8232278 TTGAAACAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (21 bp):
ATCAAGTCAAAGATAAAGAAA
Found at i:8234013 original size:2 final size:2
Alignment explanation
Indices: 8234001--8234030 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8233991 TCTTGTTTAA
*
8234001 AT AT TT 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
8234031 TACTTGTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:8234231 original size:27 final size:27
Alignment explanation
Indices: 8234171--8234232 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
8234161 TAAATTGTTC
* *
8234171 CATATTATTTATTTTAAATTGCTTTTTG
1 CATA-TATTTATTTTAAAGTGCTTTTTA
*
8234199 TA-ATATTTATTTTAAACGTG-TTTTTA
1 CATATATTTATTTTAAA-GTGCTTTTTA
8234225 CATATATT
1 CATATATT
8234233 ACTCATCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
26 19 0.68
27 8 0.29
28 1 0.04
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.58
Consensus pattern (27 bp):
CATATATTTATTTTAAAGTGCTTTTTA
Found at i:8239891 original size:8 final size:8
Alignment explanation
Indices: 8239878--8239906 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
8239868 AAGGCAAAAA
8239878 AAAAACAC
1 AAAAACAC
8239886 AAAAACAC
1 AAAAACAC
8239894 AAAAACAC
1 AAAAACAC
8239902 AAAAA
1 AAAAA
8239907 AAAACAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAACAC
Found at i:8239907 original size:10 final size:10
Alignment explanation
Indices: 8239872--8239918 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
8239862 AAGACGAAGG
8239872 CAAAAAAAAA
1 CAAAAAAAAA
* *
8239882 -ACACAAAAA
1 CAAAAAAAAA
* *
8239891 CACAAAAACA
1 CAAAAAAAAA
8239901 CAAAAAAAAA
1 CAAAAAAAAA
8239911 CAAAAAAA
1 CAAAAAAA
8239919 TTCTAAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
9 7 0.23
10 23 0.77
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:8241399 original size:86 final size:88
Alignment explanation
Indices: 8241251--8241848 Score: 300
Period size: 87 Copynumber: 6.8 Consensus size: 88
8241241 ATTTACAAGC
* * *
8241251 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTGCAGATCTTAACCTCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGAGTAACAGACCGAAGATTTGCAGATCTTAACCTCCTAAGCAGTAG
*
8241316 GGAAACAGATCGAAGACGAAGGGT
66 GGAAACAGATCGAAGACGAA-GAT
* * *
8241340 CTTAAACCCCTAATCGGTAGAGTAACAGACCG-A-A-TTGCAGATCTT-ATCTCCCTAAGCAGTA
1 CTTAAACCCCTAAGCAGTAGAGTAACAGACCGAAGATTTGCAGATCTTAACCT-CCTAAGCAGTA
*
8241401 GGGAAACAGATCGAAGATGAAGAT
65 GGGAAACAGATCGAAGACGAAGAT
* * * * * * * *
8241425 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATG-GGCT-TTAACCCCCTAAGCAGTA
1 CTTAAACCCCTAAGCAGTAGAGTAACAGACCGAAGAT-TTGCAGATCTTAACCTCCTAAGCAGTA
* * *
8241488 GGGTAACA-AGCCG-AGTTTAC-AAG-C
65 GGGAAACAGA-TCGAAG---ACGAAGAT
* * *** * * *
8241512 CTTAACCCCCTAAGCAATAGAGTAACAGGTTGAAGATTTACAGATCTTAACCCCCTAAGTAGTAG
1 CTTAAACCCCTAAGCAGTAGAGTAACAGACCGAAGATTTGCAGATCTTAACCTCCTAAGCAGTAG
** * * **
8241577 GGAAACAGATAAAAGATGATGGG
66 GGAAACAGATCGAAGACGAAGAT
* * * * * * *
8241600 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCTG-A-ATTTACAAACCTTAAACC-CCTAAACAG
1 C-TTAAACCCCTAAGCAGTAGAGTAACAGA-CCGAAGATTTGCAGATCTT-AACCTCCTAAGCAG
* * * **
8241661 TAGGGTAACAG-GCTAAAGATTTACAGAT
63 TAGGGAAACAGATC-GAAGA-CGA-AGAT
* * * * * * * * * * *
8241689 CTTAACCCCCTAAGTAGTAGGGAAACAGATCAAAGATGATG-GGCT-TTAACCCCCTAAGTAGTA
1 CTTAAACCCCTAAGCAGTAGAGTAACAGACCGAAGAT-TTGCAGATCTTAACCTCCTAAGCAGTA
* * * *
8241752 GGGTAACA-AGCCGAATTTAC-AA-AC
65 GGGAAACAGA-TCGAA--GACGAAGAT
* * * * * *
8241776 CTTAAACCCCTAAGCAGTAGGGTAACAGACTGAAGATTTACAAATCTTAACCCCCTAACCAGTAG
1 CTTAAACCCCTAAGCAGTAGAGTAACAGACCGAAGATTTGCAGATCTTAACCTCCTAAGCAGTAG
*
8241841 GGTAACAG
66 GGAAACAG
8241849 GTTGAATTTA
Statistics
Matches: 389, Mismatches: 86, Indels: 68
0.72 0.16 0.13
Matches are distributed among these distances:
85 31 0.08
86 49 0.13
87 126 0.32
88 93 0.24
89 85 0.22
90 3 0.01
91 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (88 bp):
CTTAAACCCCTAAGCAGTAGAGTAACAGACCGAAGATTTGCAGATCTTAACCTCCTAAGCAGTAG
GGAAACAGATCGAAGACGAAGAT
Found at i:8241489 original size:44 final size:44
Alignment explanation
Indices: 8241252--8241759 Score: 270
Period size: 44 Copynumber: 11.6 Consensus size: 44
8241242 TTTACAAGCC
* * * *
8241252 TTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGAT-TTGCAGAT
1 TTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGATGATG-AGCT
* * * * *
8241296 CTTAACCTCCTAAGCAGTAGGGAAACAGATCGAAGACGAAG-GGT
1 -TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGAGCT
* * * * * * *
8241340 CTTAAACCCCTAATCGGTAGAGTAACAGACCGAA-TTGCA-GATC-
1 -TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATG-ATGAGCT
* * * * *
8241383 TTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATC-
1 TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGAGCT
* *
8241426 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCT
1 TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGAGCT
* * * ** *
8241470 TTAACCCCCTAAGCAGTAGGGTAACA-AGCCG-AGTTTACAAGCC
1 TTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGATGATGAGCT
* * * * * * *
8241513 TTAACCCCCTAAGCAATAGAGTAACAGGTTGAAGAT-TTACAGAT
1 TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAT-GAGCT
* * ** *
8241557 CTTAACCCCCTAAGTAGTAGGGAAACAGATAAAAGATGATGGGCT
1 -TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGAGCT
* * * ** * *
8241602 TTAACCCCCTAAGCAGTAGGGTAACA-AGCTGAA-TTTACAAACC
1 TTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGATGATGAGCT
* * * * * * *
8241645 TTAAACCCCTAAACAGTAGGGTAACAG-GCTAAAGAT-TTACAGAT
1 TTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGATGAT-GAGCT
* * * *
8241689 CTTAACCCCCTAAGTAGTAGGGAAACAGATCAAAGATGATGGGCT
1 -TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGAGCT
*
8241734 TTAACCCCCTAAGTAGTAGGGTAACA
1 TTAACCCCCTAAGCAGTAGGGTAACA
8241760 AGCCGAATTT
Statistics
Matches: 348, Mismatches: 95, Indels: 41
0.72 0.20 0.08
Matches are distributed among these distances:
42 26 0.07
43 111 0.32
44 115 0.33
45 91 0.26
46 5 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (44 bp):
TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGAGCT
Found at i:8241593 original size:132 final size:132
Alignment explanation
Indices: 8241239--8241848 Score: 813
Period size: 132 Copynumber: 4.6 Consensus size: 132
8241229 TAGAATCAGT
* *
8241239 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTGCAGATCTTAACCT
1 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* * * * * * *
8241304 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCCTAATCGGTAGAGTAAC-A
66 CCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCT-TTAACCCCCTAAGCAGTAGGGTAACAA
8241367 GACC
130 G-CC
* * * * * *
8241371 GAA-TTGC-AGATCTT-ATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAA
1 GAATTTACAAG-CCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATCTTAA
*
8241430 CCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAAC
63 CCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAAC
8241495 AAGCC
128 AAGCC
* * * * *
8241500 GAGTTTACAAGCCTTAACCCCCTAAGCAATAGAGTAACAGGTTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* *
8241565 CCTAAGTAGTAGGGAAACAGATAAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
66 CCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
*
8241630 CT
131 CC
* * *
8241632 GAATTTACAAACCTTAAACCCCTAAACAGTAGGGTAACAGGCTAAAGATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* *
8241697 CCTAAGTAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACAAG
66 CCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
8241762 CC
131 CC
* * *
8241764 GAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGACTGAAGATTTACAAATCTTAACCC
1 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* *
8241829 CCTAACCAGTAGGGTAACAG
66 CCTAAGCAGTAGGGAAACAG
8241849 GTTGAATTTA
Statistics
Matches: 422, Mismatches: 45, Indels: 22
0.86 0.09 0.04
Matches are distributed among these distances:
129 69 0.16
130 38 0.09
131 38 0.09
132 277 0.66
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (132 bp):
GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
CCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
CC
Found at i:8241911 original size:264 final size:260
Alignment explanation
Indices: 8241239--8242021 Score: 767
Period size: 264 Copynumber: 3.0 Consensus size: 260
8241229 TAGAATCAGT
* * * * * * *
8241239 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTGCAGATCTTAACCT
1 GAATTTACAAACCTTAAACCCCTAAGCAATAGAGTAACAGACTGAAGATTTACAAATCTTAACCC
* ** * * * * * * *
8241304 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGAGTAAC-AG
66 CCTAACCAGTAGGGAAACAGATAAAAGATGAAGAG-CTTTACCCCCTAAGCAGTAGGGTAACAAG
* * * * * * * * *
8241368 ACCGAATTG-CAGATCTT-ATCTCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGA-AGATCTTA
130 -CTGAA-TGACAAACCTTAAAC-CCCTAAACAGTAGGGTAACAGGT--AAAATTCACAGATCTTA
* *
8241429 ACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAA
190 ACCCCCTAAGTAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGTAGTAGGGTAA
8241494 CAAGCC
255 CAAGCC
* * * ** *
8241500 GAGTTTACAAGCCTTAACCCCCTAAGCAATAGAGTAACAGGTTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAACCTTAAACCCCTAAGCAATAGAGTAACAGACTGAAGATTTACAAATCTTAACCC
** * *
8241565 CCTAAGTAGTAGGGAAACAGATAAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
66 CCTAACCAGTAGGGAAACAGATAAAAGATGAAGAGCTTT-ACCCCCTAAGCAGTAGGGTAACAAG
* *
8241630 CTGAATTTACAAACCTTAAACCCCTAAACAGTAGGGTAACAGGCTAAAGATTTACAGATCTTAAC
130 CTGAA-TGACAAACCTTAAACCCCTAAACAGTAGGGTAACAGG-TAAA-ATTCACAGATCTTAAC
*
8241695 CCCCTAAGTAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACA
192 CCCCTAAGTAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACA
8241760 AGCC
257 AGCC
* *
8241764 GAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGACTGAAGATTTACAAATCTTAACCC
1 GAATTTACAAACCTTAAACCCCTAAGCAATAGAGTAACAGACTGAAGATTTACAAATCTTAACCC
* * ** * * * * * * *
8241829 CCTAACCAGTAGGGTAACAGGTTGAA-TTTACAGATCTTGT-CTCTCTAAGCATTAGTGG-AGAT
66 CCTAACCAGTAGGGAAACAGATAAAAGATGA-AGAGCTT-TACCCCCTAAGCAGTAG-GGTA-AC
* * * *
8241891 AATC-GAA-GACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTCACATATCTT
127 AAGCTGAATGAC--A-AACCTTAAACCCCTAAACAGTAGGGTAACAGGTAAAATTCACAGATCTT
* * * * * *
8241954 ATCACCCTAAGTAGTAGGGAAACAGATCGAATACGTTGGGCCTTAACCCCCTAAGTAGTAGGGTA
189 AACCCCCTAAGTAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGTAGTAGGGTA
8242019 ACA
254 ACA
8242022 GGCTAGAAAT
Statistics
Matches: 441, Mismatches: 66, Indels: 29
0.82 0.12 0.05
Matches are distributed among these distances:
260 3 0.01
261 116 0.26
262 100 0.23
263 27 0.06
264 194 0.44
265 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (260 bp):
GAATTTACAAACCTTAAACCCCTAAGCAATAGAGTAACAGACTGAAGATTTACAAATCTTAACCC
CCTAACCAGTAGGGAAACAGATAAAAGATGAAGAGCTTTACCCCCTAAGCAGTAGGGTAACAAGC
TGAATGACAAACCTTAAACCCCTAAACAGTAGGGTAACAGGTAAAATTCACAGATCTTAACCCCC
TAAGTAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACAAGCC
Found at i:8241920 original size:175 final size:175
Alignment explanation
Indices: 8241602--8241934 Score: 404
Period size: 175 Copynumber: 1.9 Consensus size: 175
8241592 ATGATGGGCT
*
8241602 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAAACCTTAAACCCCTAAACAGTAGGGT
1 TTAAACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAAACCTTAAACCCCTAAACAGTAGGGT
* * * **
8241667 AACAGGCTAAAGATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCAAAGATGATGGG
66 AACAGGCTAAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGAA
* * *
8241732 CTTTAACCCCCTAAGTAGTAGGGTAACAAGCCGAATTTACAAACC
131 CCTTAAACCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACC
* * *
8241777 TTAAACCCCTAAGCAGTAGGGTAAC-AGACTGAAGATTTACAAATCTTAACCCCCTAACCAGTAG
1 TTAAACCCCTAAGCAGTAGGGTAACAAG-CTG-A-ATTTACAAACCTTAAACCCCTAAACAGTAG
** ** * * * * * *
8241841 GGTAACAGG-TTGA-ATTTACAGATCTTGTCTCTCTAAGCATTAGTGGAGATA-ATCGAAGACGA
63 GGTAACAGGCTAAAGATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCAAAGACGA
8241903 AGAACCTTAAACCCCTAAGCAGTAGGGTAACA
127 AGAACCTTAAACCCCTAAGCAGTAGGGTAACA
8241935 GGTTAAATTC
Statistics
Matches: 132, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
174 2 0.02
175 86 0.65
176 8 0.06
177 36 0.27
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (175 bp):
TTAAACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAAACCTTAAACCCCTAAACAGTAGGGT
AACAGGCTAAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGAA
CCTTAAACCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACC
Found at i:8241964 original size:87 final size:87
Alignment explanation
Indices: 8241641--8242023 Score: 279
Period size: 87 Copynumber: 4.4 Consensus size: 87
8241631 TGAATTTACA
* * * * * * *
8241641 AACCTTAAACCCCTAAACAGTAGGGTAACAGGCTAAAGATTTACAGATCTTAACCCCCTAAGTAG
1 AACCTTAACCCCCTAAGCAGTAGGGTAACAGG-TTAA-ATTCACAGATCTTATCACCCTAAGCAG
* * *
8241706 TAGGGAAACAGATCAAAGATGATG
64 TAGGGAAACAGATCGAAGACGAAG
** * * * *** * * * *
8241730 GGCTTTAACCCCCTAAGTAGTAGGGTAACAAGCCGAATTTACAAACCTTA-AACCCCTAAGCAGT
1 AACCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAATTCACAGATCTTATCA-CCCTAAGCAGT
* **
8241794 AGGGTAACAGA-CTGAAGATTTACA-
65 AGGGAAACAGATC-GAAGA-CGA-AG
* * * * * * * *
8241818 AATCTTAACCCCCTAACCAGTAGGGTAACAGGTTGAATTTACAGATCTTGTCTCTCTAAGCATTA
1 AACCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAATTCACAGATCTTATCACCCTAAGCAGTA
* *
8241883 GTGGAGATA-ATCGAAGACGAAG
66 G-GGAAACAGATCGAAGACGAAG
* * *
8241905 AACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTCACATATCTTATCACCCTAAGTAGTA
1 AACCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAATTCACAGATCTTATCACCCTAAGCAGTA
* **
8241970 GGGAAACAGATCGAATACGTTG
66 GGGAAACAGATCGAAGACGAAG
** *
8241992 GGCCTTAACCCCCTAAGTAGTAGGGTAACAGG
1 AACCTTAACCCCCTAAGCAGTAGGGTAACAGG
8242024 CTAGAAATCA
Statistics
Matches: 225, Mismatches: 60, Indels: 20
0.74 0.20 0.07
Matches are distributed among these distances:
86 7 0.03
87 130 0.58
88 58 0.26
89 30 0.13
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (87 bp):
AACCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAATTCACAGATCTTATCACCCTAAGCAGTA
GGGAAACAGATCGAAGACGAAG
Found at i:8241964 original size:175 final size:176
Alignment explanation
Indices: 8241602--8241979 Score: 390
Period size: 175 Copynumber: 2.2 Consensus size: 176
8241592 ATGATGGGCT
*
8241602 TTAACCCCCTAAGCAGTAGGGTAACA-AGCTGAATTTACAAACCTTAAACCCCTAAACAGTAGGG
1 TTAAACCCCTAAGCAGTAGGGTAACAGAGCTGAATTTACAAACCTTAAACCCCTAAACAGTAGGG
* * * *
8241666 TAACAGGCTAAAGATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCAAAGATGATGG
66 TAACAGGCTAAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGA
* * * * * *
8241731 GCTTTAACCCCCTAAGTAGTAGGGTAACAAGCCGAATTTACAAACC
131 ACCTTAAACCCCTAAGCAGTAGGGTAACAAGCCAAATTCACAAACC
* * *
8241777 TTAAACCCCTAAGCAGTAGGGTAACAGA-CTGAAGATTTACAAATCTTAACCCCCTAACCAGTAG
1 TTAAACCCCTAAGCAGTAGGGTAACAGAGCTG-A-ATTTACAAACCTTAAACCCCTAAACAGTAG
** ** * * * * * *
8241841 GGTAACAGG-TTGA-ATTTACAGATCTTGTCTCTCTAAGCATTAGTGGAGATA-ATCGAAGACGA
64 GGTAACAGGCTAAAGATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCAAAGACGA
* ** * *
8241903 AGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTCACATATC
128 AGAACCTTAAACCCCTAAGCAGTAGGGTAACAAGCCAAATTCACAAACC
* * *
8241952 TT-ATCACCCTAAGTAGTAGGGAAACAGA
1 TTAAAC-CCCTAAGCAGTAGGGTAACAGA
8241980 TCGAATACGT
Statistics
Matches: 166, Mismatches: 32, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
174 2 0.01
175 119 0.72
176 9 0.05
177 36 0.22
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (176 bp):
TTAAACCCCTAAGCAGTAGGGTAACAGAGCTGAATTTACAAACCTTAAACCCCTAAACAGTAGGG
TAACAGGCTAAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGA
ACCTTAAACCCCTAAGCAGTAGGGTAACAAGCCAAATTCACAAACC
Found at i:8242121 original size:68 final size:68
Alignment explanation
Indices: 8242034--8242367 Score: 449
Period size: 68 Copynumber: 4.9 Consensus size: 68
8242024 CTAGAAATCA
*
8242034 AATCTCTTTTCCCTCAAATGGCGTTGGAGCGACTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA
1 AATCTCTTTTCCCTGAAATGGCGTTGGAGCGACTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA
8242099 GTG
66 GTG
** * **
8242102 GGTCTCTTTTCCCTGAAATGGCGTTGGAGCTACTAAAAGCCATTGCAGATCTCCTTGAAGTTTCA
1 AATCTCTTTTCCCTGAAATGGCGTTGGAGCGACTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA
*
8242167 GCG
66 GTG
* ** *
8242170 AACCTCTTCTT-CCTGAAATGGCGTTGGAGCGGTTAAAACCCACAGCAGATCTCCTTGAAGTTTC
1 AATCTCTT-TTCCCTGAAATGGCGTTGGAGCGACTAAAAGCCACAGCAGATCTCCTTGAAGTTTC
8242234 AGTG
65 AGTG
* *
8242238 AACCTCTTCTT-CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTC
1 AATCTCTT-TTCCCTGAAATGGCGTTGGAGCGACTAAAAGCCACAGCAGATCTCCTTGAAGTTTC
8242302 AGT-
65 AGTG
* * ** * *
8242305 AGATCTCTTCTCCCTGAAATGGCGTTGGAACGACTAAAAGTTACAGCAGATTTCCTTAAAGTT
1 A-ATCTCTTTTCCCTGAAATGGCGTTGGAGCGACTAAAAGCCACAGCAGATCTCCTTGAAGTT
8242368 CCAGCGAAAG
Statistics
Matches: 236, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
67 2 0.01
68 232 0.98
69 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.29
Consensus pattern (68 bp):
AATCTCTTTTCCCTGAAATGGCGTTGGAGCGACTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA
GTG
Found at i:8242495 original size:44 final size:43
Alignment explanation
Indices: 8242446--8242770 Score: 257
Period size: 44 Copynumber: 7.4 Consensus size: 43
8242436 GTCTGACATT
* * * *
8242446 CCTGTGCTTACAGTGAAACAGATCGAAGATTTCAGCA-TGGTATC
1 CCTGTGCTTATAG-GGAACAGATCGAAGATATCAG-ATTGGCATC
* * *
8242490 CCTGTGCTTATAGGGAACA-AGTTGAAAACAGT-AGATTTGGCATC
1 CCTGTGCTTATAGGGAACAGA-TCGAAGATA-TCAGA-TTGGCATC
* * *
8242534 CCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
1 CCTGTGCTTATAGGGAACAGATCGAAGATATCAGAT-TGGCATC
* * * *
8242578 CCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG-TATGGCATC
1 CCTGTGCTTATAGGGAA-CAGATCGAAGATATCAGAT-TGGCATC
* * * * *
8242622 TCTGTGTTTATAGGGAACA-AGTTGAAAATAGCAGATTTGGCATC
1 CCTGTGCTTATAGGGAACAGA-TCGAAGATATCAGA-TTGGCATC
* * *
8242666 CCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
1 CCTGTGCTTATAGGGAACAGATCGAAGATATCAGAT-TGGCATC
* * * *
8242710 CCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA-TGACATC
1 CCTGTGCTTATAGGGAA-CAGATCGAAGATATCAG-ATTGGCATC
8242754 CCTGTGCTTATAGGGAA
1 CCTGTGCTTATAGGGAA
8242771 TGAGTTAAAA
Statistics
Matches: 223, Mismatches: 43, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
42 3 0.01
43 24 0.11
44 163 0.73
45 32 0.14
46 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (43 bp):
CCTGTGCTTATAGGGAACAGATCGAAGATATCAGATTGGCATC
Found at i:8242662 original size:132 final size:132
Alignment explanation
Indices: 8242425--8242794 Score: 614
Period size: 132 Copynumber: 2.8 Consensus size: 132
8242415 GGAGCAGACT
* * *
8242425 GAAGATAGCAGGTCTGACATTCCTGTGCTTACAGTGAAACAGATCGAAGATTTCAGCATGGTATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
* *
8242490 CCTGTGCTTATAGGGAACAAGTTGAAAACAGTAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
66 CCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
8242555 TC
131 TC
* *
8242557 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGTATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
* *
8242622 TCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
66 CCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
8242687 TC
131 TC
*
8242689 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGACATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
** * *
8242754 CCTGTGCTTATAGGGAATGAGTTAAAAATAACAGATTTGGC
66 CCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGC
8242795 GTCTCTGTAG
Statistics
Matches: 220, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 220 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (132 bp):
GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
CCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
TC
Found at i:8242844 original size:44 final size:44
Alignment explanation
Indices: 8242781--8243004 Score: 304
Period size: 44 Copynumber: 5.1 Consensus size: 44
8242771 TGAGTTAAAA
* *
8242781 ATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAG
1 ATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAG
* *
8242825 ATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAG
1 ATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAG
* * *
8242869 ATAACAGATTTGGCGTTTCTGTAGCGGCAGAGAGCAGATCAAAT
1 ATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAG
* *
8242913 ATAACAGATTTGGTGTCTCTATAGCGGCGGAGAGCAGATCAAAG
1 ATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAG
* * ** * *
8242957 ATGACAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCAAAG
1 ATAACAGATTTGGCGTCTCTGTA-GCGGCGGAGAGCAGATCAAAG
8243002 ATA
1 ATA
8243005 GCAGGTATCG
Statistics
Matches: 160, Mismatches: 19, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
44 141 0.88
45 19 0.12
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (44 bp):
ATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAG
Found at i:8244392 original size:2 final size:2
Alignment explanation
Indices: 8244380--8244413 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
8244370 TCTTGTTTAA
*
8244380 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8244414 TATTTGTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:8253741 original size:136 final size:135
Alignment explanation
Indices: 8253494--8253909 Score: 608
Period size: 136 Copynumber: 3.1 Consensus size: 135
8253484 TCAATCGCTT
* * *
8253494 CACTGGAACTTCAAGGAGATAGGATTTGTTTTGATCTGCTCTACTGCGACTTTGGAGAGATGAGA
1 CACTGCAACTTC-AGGAGATAGG-TTTGTTTTGATCTGCTCTACTGCAACTTTAGAGAGATGAGA
*
8253559 TCTGTGATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTACTATCTTTAG
64 TCTGTGATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAG
*
8253624 TCTACTC
129 TCTGCTC
* * * *
8253631 CACTGCAACTTTAGGGAGATAGGTTTGTTTTGATTTGCTCTACTGCAAATTTAGAGATATGAGAT
1 CACTGCAACTTCA-GGAGATAGGTTTGTTTTGATCTGCTCTACTGCAACTTTAGAGAGATGAGAT
* * *
8253696 TTGTGATTTATAGCTTCAATCTGTTCAACTGCAACTTCAGAGAAATAAGATTTGCTATCTTTAGT
65 CTGTGATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGT
8253761 CTGCTC
130 CTGCTC
* *
8253767 CACTGCAACTTCAGG-G--A-G-TTATTTTGATCTGCTCTACTGCAACTTCAGAGAGATGAGATC
1 CACTGCAACTTCAGGAGATAGGTTTGTTTTGATCTGCTCTACTGCAACTTTAGAGAGATGAGATC
* * *
8253827 TGTGTTTTATAGCTTCAATTTGTTCCACTGCAACTTCAGGGAAATAAGAGTTGCTATCTTTAGTC
66 TGTGATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTC
8253892 TGCTC
131 TGCTC
*
8253897 CACTACAACTTCA
1 CACTGCAACTTCA
8253910 AAGAGATAAG
Statistics
Matches: 253, Mismatches: 25, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
130 113 0.45
131 1 0.00
132 1 0.00
134 1 0.00
135 2 0.01
136 116 0.46
137 19 0.08
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (135 bp):
CACTGCAACTTCAGGAGATAGGTTTGTTTTGATCTGCTCTACTGCAACTTTAGAGAGATGAGATC
TGTGATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTC
TGCTC
Found at i:8253774 original size:45 final size:45
Alignment explanation
Indices: 8253723--8253920 Score: 123
Period size: 45 Copynumber: 4.5 Consensus size: 45
8253713 AATCTGTTCA
8253723 ACTGCAACTTCAGAGAAATAAGATTTGCTATCTTTAGTCTGCTCC
1 ACTGCAACTTCAGAGAAATAAGATTTGCTATCTTTAGTCTGCTCC
* *
8253768 ACTGCAACTTCAG-G------GA---GTTAT-TTT-GATCTGCTCT
1 ACTGCAACTTCAGAGAAATAAGATTTGCTATCTTTAG-TCTGCTCC
* * * * * * *
8253802 ACTGCAACTTCAGAGAGATGAGATCTGTGTTTTATAGCTTCAATTTGTTCC
1 ACTGCAACTTCAGAGAAATAAGAT-T-TG--CTAT--CTTTAGTCTGCTCC
* *
8253853 ACTGCAACTTCAGGGAAATAAGAGTTGCTATCTTTAGTCTGCTCC
1 ACTGCAACTTCAGAGAAATAAGATTTGCTATCTTTAGTCTGCTCC
* * *
8253898 ACTACAACTTCAAAGAGATAAGA
1 ACTGCAACTTCAGAGAAATAAGA
8253921 CTTGTGACTT
Statistics
Matches: 114, Mismatches: 20, Indels: 38
0.66 0.12 0.22
Matches are distributed among these distances:
33 1 0.01
34 23 0.20
35 5 0.04
38 2 0.02
41 2 0.02
44 1 0.01
45 42 0.37
46 1 0.01
47 3 0.03
48 4 0.04
49 2 0.02
50 1 0.01
51 27 0.24
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (45 bp):
ACTGCAACTTCAGAGAAATAAGATTTGCTATCTTTAGTCTGCTCC
Found at i:8255342 original size:21 final size:20
Alignment explanation
Indices: 8255316--8255365 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 20
8255306 GACTGGATCC
*
8255316 ACTCTGCCTCATTCAGCTTT
1 ACTCTGCCTCATCCAGCTTT
8255336 AACTCTGCCTCATCCAGCTTT
1 -ACTCTGCCTCATCCAGCTTT
8255357 ACTTCTGCC
1 AC-TCTGCC
8255366 AAAACTCTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.16, C:0.38, G:0.10, T:0.36
Consensus pattern (20 bp):
ACTCTGCCTCATCCAGCTTT
Found at i:8267249 original size:3 final size:3
Alignment explanation
Indices: 8267225--8267271 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
8267215 TTAATTAGCT
* * *
8267225 TAA TAA T-A TGA TAA TAG CAA TAA TAA TAA TAA TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8267271 T
1 T
8267272 GAAGTAAAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8269211 original size:28 final size:29
Alignment explanation
Indices: 8269157--8269214 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
8269147 AATATATAAA
* * *
8269157 TTTTATTTTTAATCATATTTACATTTTAT
1 TTTTAATTTTAATCATAATCACATTTTAT
*
8269186 TTTTAATTTTAA-CATAATCACTTTTTAT
1 TTTTAATTTTAATCATAATCACATTTTAT
8269214 T
1 T
8269215 ATATTTTCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTTAATTTTAATCATAATCACATTTTAT
Found at i:8276541 original size:21 final size:21
Alignment explanation
Indices: 8276515--8276555 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8276505 AGACGAGCGA
* *
8276515 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
8276536 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
8276556 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:8281855 original size:24 final size:25
Alignment explanation
Indices: 8281810--8281857 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
8281800 TTCTTTTTAC
**
8281810 ATTTTTTGTGGTATTGGTGGTGTGA
1 ATTTTTTGTGGTATTGAAGGTGTGA
*
8281835 ATTTTTTG-GTTATTGAAGGTGTG
1 ATTTTTTGTGGTATTGAAGGTGTG
8281858 GTGAGGATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (25 bp):
ATTTTTTGTGGTATTGAAGGTGTGA
Found at i:8282223 original size:19 final size:18
Alignment explanation
Indices: 8282190--8282241 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 18
8282180 ATTTGCATAG
*
8282190 ATTTT-TTTTTCTTAAAA
1 ATTTTATTTTTTTTAAAA
*
8282207 CTTTCTATTTTTTTTAAAA
1 ATTT-TATTTTTTTTAAAA
*
8282226 ATTTTACTTTTTTTAA
1 ATTTTATTTTTTTTAA
8282242 TTTTTAAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 3 0.10
18 12 0.41
19 14 0.48
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTTATTTTTTTTAAAA
Found at i:8282236 original size:18 final size:19
Alignment explanation
Indices: 8282195--8282241 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
8282185 CATAGATTTT
* *
8282195 TTTTTCTTAAAACTTTCTAT
1 TTTTT-TTAAAAATTTCTAC
8282215 TTTTTTTAAAAATTT-TAC
1 TTTTTTTAAAAATTTCTAC
8282233 TTTTTTTAA
1 TTTTTTTAA
8282242 TTTTTAAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 11 0.44
19 9 0.36
20 5 0.20
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTTTAAAAATTTCTAC
Found at i:8283132 original size:15 final size:16
Alignment explanation
Indices: 8283084--8283137 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 16
8283074 TAAAAAATAT
8283084 AATTTTATAATTTTACTTA
1 AATTTTATAATTTTA---A
*
8283103 TAATTTTATAATTTTTA
1 -AATTTTATAATTTTAA
8283120 AATTTTA-AATTTTAA
1 AATTTTATAATTTTAA
8283135 AAT
1 AAT
8283138 GGCTTTCTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 10 0.31
16 7 0.22
17 1 0.03
20 14 0.44
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
AATTTTATAATTTTAA
Found at i:8285632 original size:21 final size:20
Alignment explanation
Indices: 8285604--8285642 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
8285594 ATAAATTAAA
8285604 ATATTAAAAATAT-TAAAATG
1 ATATTAAAAA-ATCTAAAATG
8285624 ATATATAAAAAATCTAAAA
1 ATAT-TAAAAAATCTAAAA
8285643 AGATTAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (20 bp):
ATATTAAAAAATCTAAAATG
Found at i:8287440 original size:38 final size:36
Alignment explanation
Indices: 8287389--8287460 Score: 108
Period size: 38 Copynumber: 1.9 Consensus size: 36
8287379 CACGTGCTAT
* *
8287389 AATCTGGAGTTGACTTAAATCATTTAGTGGGGCCCACC
1 AATCTCGAGTTGACTTAAAT--TTTAATGGGGCCCACC
8287427 AATCTCGAGTTGACTTAAATTTTAATGGGGCCCA
1 AATCTCGAGTTGACTTAAATTTTAATGGGGCCCA
8287461 TCGTTCTCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 13 0.41
38 19 0.59
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (36 bp):
AATCTCGAGTTGACTTAAATTTTAATGGGGCCCACC
Found at i:8290975 original size:42 final size:42
Alignment explanation
Indices: 8290922--8291045 Score: 151
Period size: 42 Copynumber: 3.0 Consensus size: 42
8290912 AAAAACGCCG
*
8290922 CTAAAAGTCACGATTTTTAGCGGCGTTTGTGGGAAAAAGTAA
1 CTAAAAGTCACGATTTTTAGCGGCGTTTGTGGGAAAAAGCAA
* * **
8290964 CTAAAAGTCACGATTTTTAGCGGCGGTTGTGGAAAAAACGCCG
1 CTAAAAGTCACGATTTTTAGCGGCGTTTGTGGGAAAAA-GCAA
** * *
8291007 CTAAAAGTCACGGCTGTTAGCGGCGTTTGT-AGAAAAAGC
1 CTAAAAGTCACGATTTTTAGCGGCGTTTGTGGGAAAAAGC
8291046 GCCGCTAAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 2 0.03
42 41 0.59
43 27 0.39
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (42 bp):
CTAAAAGTCACGATTTTTAGCGGCGTTTGTGGGAAAAAGCAA
Found at i:8291027 original size:43 final size:43
Alignment explanation
Indices: 8290911--8291073 Score: 193
Period size: 43 Copynumber: 3.8 Consensus size: 43
8290901 GTTTATTGAA
8290911 AAAAAACGCCGCTAAAAGTCACGATTTTTAGCGGCGTTTGTGG
1 AAAAAACGCCGCTAAAAGTCACGATTTTTAGCGGCGTTTGTGG
* *** *
8290954 GAAAAA-GTAACTAAAAGTCACGATTTTTAGCGGCGGTTGTGG
1 AAAAAACGCCGCTAAAAGTCACGATTTTTAGCGGCGTTTGTGG
** * *
8290996 AAAAAACGCCGCTAAAAGTCACGGCTGTTAGCGGCGTTTGTAG
1 AAAAAACGCCGCTAAAAGTCACGATTTTTAGCGGCGTTTGTGG
* * ** *
8291039 AAAAAGCGCCGCTAAAAATCGTGACTTTTAGCGGC
1 AAAAAACGCCGCTAAAAGTCACGATTTTTAGCGGC
8291074 ACTTTTTCTA
Statistics
Matches: 99, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
42 37 0.37
43 62 0.63
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.23
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAAGTCACGATTTTTAGCGGCGTTTGTGG
Found at i:8294009 original size:26 final size:26
Alignment explanation
Indices: 8293972--8294055 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
8293962 TGATACAAAT
* *
8293972 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
8293998 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
8294024 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
8294050 TGATAA
1 TGATAA
8294056 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:8295768 original size:27 final size:26
Alignment explanation
Indices: 8295664--8295778 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
8295654 TGGAGGAAGC
* *
8295664 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
*
8295691 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
8295718 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
** *
8295745 GTATCTGGTAACTCTGTCACATTATCT
1 GT-TCTGGTGGCTCTGCCACATTATCT
8295772 GTTCTGG
1 GTTCTGG
8295779 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 56 0.72
28 16 0.21
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:8295771 original size:54 final size:54
Alignment explanation
Indices: 8295664--8295778 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
8295654 TGGAGGAAGC
**
8295664 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTAACTCTGCCACATATATCT
* * * *
8295718 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTAACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTAACTCTGCCACATATATCT
8295772 GTTCTGG
1 GTTCTGG
8295779 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTAACTCTGCCACATATATCT
Found at i:8300163 original size:9 final size:9
Alignment explanation
Indices: 8300149--8300252 Score: 91
Period size: 9 Copynumber: 10.9 Consensus size: 9
8300139 ATGTATTAGT
8300149 TAAGTTATG
1 TAAGTTATG
8300158 TAAGTTGTTATG
1 TAA---GTTATG
*
8300170 TACGTTATG
1 TAAGTTATG
*
8300179 TGAGTTATG
1 TAAGTTATG
*
8300188 TAAATTATG
1 TAAGTTATG
8300197 TAATTTGTTATG
1 TAA---GTTATG
*
8300209 TAAATTATG
1 TAAGTTATG
*
8300218 TAAGTTATA
1 TAAGTTATG
*
8300227 TGAGTTATG
1 TAAGTTATG
8300236 TAAGTTATG
1 TAAGTTATG
*
8300245 TAATTTAT
1 TAAGTTAT
8300253 TGAAGTAATG
Statistics
Matches: 76, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
9 60 0.79
12 16 0.21
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:8300178 original size:21 final size:21
Alignment explanation
Indices: 8300149--8300241 Score: 90
Period size: 21 Copynumber: 4.7 Consensus size: 21
8300139 ATGTATTAGT
8300149 TAAGTTATGTAAGTTGTTATG
1 TAAGTTATGTAAGTTGTTATG
* *
8300170 TACGTTATGT--G-AGTTATG
1 TAAGTTATGTAAGTTGTTATG
* *
8300188 TAAATTATGTAATTTGTTATG
1 TAAGTTATGTAAGTTGTTATG
* *
8300209 TAAATTATGTAAGTT-ATATG
1 TAAGTTATGTAAGTTGTTATG
8300229 --AGTTATGTAAGTT
1 TAAGTTATGTAAGTT
8300242 ATGTAATTTA
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
18 26 0.43
19 1 0.02
20 4 0.07
21 29 0.48
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.47
Consensus pattern (21 bp):
TAAGTTATGTAAGTTGTTATG
Found at i:8300196 original size:39 final size:39
Alignment explanation
Indices: 8300153--8300241 Score: 115
Period size: 39 Copynumber: 2.3 Consensus size: 39
8300143 ATTAGTTAAG
** * *
8300153 TTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAA
1 TTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAA
* * *
8300192 TTATGTAATTTGTTATGTAAATTATGTAAGTTATATGAG
1 TTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAA
8300231 TTATGTAAGTT
1 TTATGTAAGTT
8300242 ATGTAATTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.30, C:0.01, G:0.20, T:0.48
Consensus pattern (39 bp):
TTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAA
Found at i:8301908 original size:2 final size:2
Alignment explanation
Indices: 8301901--8301928 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8301891 TTATTATTAT
8301901 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8301929 ATAAGTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8301955 original size:31 final size:32
Alignment explanation
Indices: 8301920--8301983 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
8301910 ATATATATAT
8301920 ATATATATAATAAGT-AAAAAAAAGGAATTGA
1 ATATATATAATAAGTAAAAAAAAAGGAATTGA
8301951 ATATATATAATAAGTAAAAAAAAAGGAATTGA
1 ATATATATAATAAGTAAAAAAAAAGGAATTGA
8301983 A
1 A
8301984 GAAGTAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 15 0.47
32 17 0.53
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (32 bp):
ATATATATAATAAGTAAAAAAAAAGGAATTGA
Found at i:8305775 original size:14 final size:14
Alignment explanation
Indices: 8305755--8305799 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
8305745 TCCTACACCT
8305755 TAAACCCTAAATTA
1 TAAACCCTAAATTA
*
8305769 TATACCCTAAATTA
1 TAAACCCTAAATTA
*
8305783 TAAACCCTAAACTA
1 TAAACCCTAAATTA
8305797 TAA
1 TAA
8305800 TGATAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAACCCTAAATTA
Found at i:8306351 original size:40 final size:41
Alignment explanation
Indices: 8306260--8306351 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 41
8306250 TTTCCCCAAT
* *
8306260 GCGCCGCTAATAGTCAAGCTATAGTGGCGTTTCTCATATAA
1 GCGCCGCTAATACTCAAGCTATAGCGGCGTTTCTCATATAA
* *
8306301 GCGCCGCTAATTCTCAA-CATATAGCGGCGTTTC-CTTATAA
1 GCGCCGCTAATACTCAAGC-TATAGCGGCGTTTCTCATATAA
8306341 GCGCCGCTAAT
1 GCGCCGCTAAT
8306352 GCTCGTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
40 18 0.39
41 28 0.61
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (41 bp):
GCGCCGCTAATACTCAAGCTATAGCGGCGTTTCTCATATAA
Found at i:8306370 original size:40 final size:39
Alignment explanation
Indices: 8306281--8306401 Score: 109
Period size: 40 Copynumber: 3.0 Consensus size: 39
8306271 AGTCAAGCTA
* * *** *
8306281 TAGTGGCGTTTCTCATATAAGCGCCGCTAATTCTCAACATA
1 TAGTGGCGTTTC-CTTATAAGCGCCGCTAATGCTC-TTTTT
*
8306322 TAGCGGCGTTTCCTTATAAGCGCCGCTAATGCTCGTTTTT
1 TAGTGGCGTTTCCTTATAAGCGCCGCTAATGCTC-TTTTT
** *
8306362 TAGTGGCGTTGTTGTT-GAAGCGCCGCTAATGCTCTTTTT
1 TAGTGGCGTT-TCCTTATAAGCGCCGCTAATGCTCTTTTT
8306401 T
1 T
8306402 CTTGTAGTGA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
39 6 0.09
40 47 0.70
41 14 0.21
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.37
Consensus pattern (39 bp):
TAGTGGCGTTTCCTTATAAGCGCCGCTAATGCTCTTTTT
Found at i:8307893 original size:11 final size:11
Alignment explanation
Indices: 8307877--8307901 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8307867 TTAGGAAATA
8307877 CTTAACCTTTT
1 CTTAACCTTTT
8307888 CTTAACCTTTT
1 CTTAACCTTTT
8307899 CTT
1 CTT
8307902 GATATGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.28, G:0.00, T:0.56
Consensus pattern (11 bp):
CTTAACCTTTT
Found at i:8310494 original size:15 final size:15
Alignment explanation
Indices: 8310474--8310507 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
8310464 GTATATACAA
8310474 AGACTAACAGACATC
1 AGACTAACAGACATC
8310489 AGACTAACAGACATC
1 AGACTAACAGACATC
8310504 AGAC
1 AGAC
8310508 ACAAATATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.26, G:0.15, T:0.12
Consensus pattern (15 bp):
AGACTAACAGACATC
Found at i:8315220 original size:20 final size:20
Alignment explanation
Indices: 8315197--8315234 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8315187 ATATGTTGAC
8315197 TATG-TTTAAAATATTTTAAA
1 TATGATTTAAAA-ATTTTAAA
*
8315217 TATGATTTTAAAATTTTA
1 TATGATTTAAAAATTTTA
8315235 TATTATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (20 bp):
TATGATTTAAAAATTTTAAA
Found at i:8315727 original size:28 final size:28
Alignment explanation
Indices: 8315695--8315750 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
8315685 TGTTGGTTGA
8315695 TCTACTTTCTAATTTCTCCTATTAAAAT
1 TCTACTTTCTAATTTCTCCTATTAAAAT
8315723 TCTACTTTCTAATTTCTCCTATTAAAAT
1 TCTACTTTCTAATTTCTCCTATTAAAAT
8315751 AAAGCCTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (28 bp):
TCTACTTTCTAATTTCTCCTATTAAAAT
Found at i:8327850 original size:16 final size:16
Alignment explanation
Indices: 8327829--8327861 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8327819 AAAGAATAAT
8327829 GTAACATATTTAACTA
1 GTAACATATTTAACTA
8327845 GTAACATATTTAACTA
1 GTAACATATTTAACTA
8327861 G
1 G
8327862 GACCGTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (16 bp):
GTAACATATTTAACTA
Found at i:8331489 original size:21 final size:21
Alignment explanation
Indices: 8331463--8331503 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8331453 AGACAAGCGA
* *
8331463 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
8331484 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
8331504 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:8334595 original size:2 final size:2
Alignment explanation
Indices: 8334588--8334621 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8334578 TTCTGTCTTA
8334588 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8334622 TGCAACATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8346696 original size:28 final size:28
Alignment explanation
Indices: 8346660--8346725 Score: 132
Period size: 28 Copynumber: 2.4 Consensus size: 28
8346650 CAAACTATCA
8346660 AGCCCAAATAATAAATTAAATTAAAAGC
1 AGCCCAAATAATAAATTAAATTAAAAGC
8346688 AGCCCAAATAATAAATTAAATTAAAAGC
1 AGCCCAAATAATAAATTAAATTAAAAGC
8346716 AGCCCAAATA
1 AGCCCAAATA
8346726 CATTTTTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.56, C:0.17, G:0.08, T:0.20
Consensus pattern (28 bp):
AGCCCAAATAATAAATTAAATTAAAAGC
Found at i:8350829 original size:24 final size:25
Alignment explanation
Indices: 8350802--8350852 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
8350792 TTTAAAATTT
8350802 AAAAATTATTAAA-AAAAT-TCATAA
1 AAAAATTA-TAAATAAAATGTCATAA
*
8350826 AAAAATTATAAATAAAATGTTATAA
1 AAAAATTATAAATAAAATGTCATAA
8350851 AA
1 AA
8350853 GTTTTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 13 0.54
25 7 0.29
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (25 bp):
AAAAATTATAAATAAAATGTCATAA
Found at i:8350836 original size:11 final size:11
Alignment explanation
Indices: 8350802--8350843 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 11
8350792 TTTAAAATTT
8350802 AAAAATTATTAA
1 AAAAATTA-TAA
8350814 AAAAATTCATAA
1 AAAAATT-ATAA
8350826 AAAAATTATAA
1 AAAAATTATAA
8350837 ATAAAAT
1 A-AAAAT
8350844 GTTATAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.18
12 22 0.79
13 1 0.04
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:8351927 original size:30 final size:32
Alignment explanation
Indices: 8351893--8351958 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 32
8351883 AAAAAATAAT
* *
8351893 ATATATATAAA-TTTAAAAAATAT-TAAAATG
1 ATATATAAAAACTCTAAAAAATATATAAAATG
* *
8351923 ATATATAAAAACTCTAAAAAATTTATAAAATT
1 ATATATAAAAACTCTAAAAAATATATAAAATG
8351955 ATAT
1 ATAT
8351959 TCGACAATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 10 0.33
31 10 0.33
32 10 0.33
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (32 bp):
ATATATAAAAACTCTAAAAAATATATAAAATG
Found at i:8353140 original size:19 final size:17
Alignment explanation
Indices: 8353111--8353153 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
8353101 TAAGTAAAAT
* *
8353111 ATAATTCTTGATAATATA
1 ATAATTATTGA-AATAGA
8353129 ATTAATTATTGAAATAGA
1 A-TAATTATTGAAATAGA
8353147 ATAATTA
1 ATAATTA
8353154 AACAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 6 0.27
18 7 0.32
19 9 0.41
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (17 bp):
ATAATTATTGAAATAGA
Found at i:8356276 original size:21 final size:23
Alignment explanation
Indices: 8356223--8356316 Score: 68
Period size: 25 Copynumber: 3.9 Consensus size: 23
8356213 AATATATATT
*
8356223 ATTTTTATTTATATATATTATCC
1 ATTTTTATTTATATATATTATAC
*
8356246 ATTATATTATTTTTAT-TATTATAC
1 ATT-T-TTATTTATATATATTATAC
*
8356270 A-TTTTATTTAAAAATTATATTATAC
1 ATTTTTATTT--ATA-TATATTATAC
*
8356295 A-TTATATTTTACTATATATTAT
1 ATTTTTA-TTTA-TATATATTAT
8356317 TCCTTACATT
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
21 6 0.11
22 1 0.02
23 5 0.09
24 19 0.33
25 23 0.40
26 3 0.05
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (23 bp):
ATTTTTATTTATATATATTATAC
Found at i:8356514 original size:26 final size:27
Alignment explanation
Indices: 8356462--8356537 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 27
8356452 ATTTCATTAT
*
8356462 ATTTTATTTATATATTTTATTACATAT-C
1 ATTTTA-TTATATATTATATTA-ATATAC
8356490 ATATTTATTATATATTATATT-ATATAC
1 AT-TTTATTATATATTATATTAATATAC
8356517 ATTTTATTATATATATATATT
1 ATTTTATTATATAT-TATATT
8356538 CTTTTATATT
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
26 16 0.36
27 9 0.20
28 15 0.34
29 4 0.09
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (27 bp):
ATTTTATTATATATTATATTAATATAC
Found at i:8356531 original size:28 final size:28
Alignment explanation
Indices: 8356448--8356537 Score: 98
Period size: 28 Copynumber: 3.2 Consensus size: 28
8356438 ATGATAGTAT
*
8356448 TTATATTTCATTAT-ATTTTATTTATATA
1 TTATATTACA-TATCATTTTATTTATATA
*
8356476 TTTTATTACATATCATATTTA-TTATATA
1 TTATATTACATATCAT-TTTATTTATATA
*
8356504 TTATATTATATA-CATTTTA-TTATATA
1 TTATATTACATATCATTTTATTTATATA
8356530 TATATATT
1 T-TATATT
8356538 CTTTTATATT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
26 12 0.22
27 12 0.22
28 27 0.49
29 4 0.07
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (28 bp):
TTATATTACATATCATTTTATTTATATA
Found at i:8356545 original size:16 final size:16
Alignment explanation
Indices: 8356461--8356546 Score: 65
Period size: 16 Copynumber: 5.6 Consensus size: 16
8356451 TATTTCATTA
8356461 TATTTTAT-T-TATA-
1 TATTTTATATATATAT
*
8356474 TATTTTAT-TACATAT
1 TATTTTATATATATAT
*
8356489 CATATTTAT-TATATAT
1 TAT-TTTATATATATAT
* * *
8356505 TATATTATATACATTT
1 TATTTTATATATATAT
*
8356521 TATTATATATATATAT
1 TATTTTATATATATAT
*
8356537 TCTTTTATAT
1 TATTTTATAT
8356547 TACTTATCAT
Statistics
Matches: 56, Mismatches: 13, Indels: 5
0.76 0.18 0.07
Matches are distributed among these distances:
13 9 0.16
14 3 0.05
15 6 0.11
16 38 0.68
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTTTATATATATAT
Found at i:8356565 original size:42 final size:42
Alignment explanation
Indices: 8356458--8356576 Score: 120
Period size: 42 Copynumber: 2.8 Consensus size: 42
8356448 TTATATTTCA
* * *
8356458 TTATATTTTATT-TATATATTTTATTACATATCATAT-TTATT
1 TTATATTATATTATATATATTTTATTATATAT-ATATATTCTT
* *
8356499 ATATATTATATTATATACATTTTATTATATATATATATTCTT
1 TTATATTATATTATATATATTTTATTATATATATATATTCTT
*
8356541 TTATATTA-CTTATCATATAGTTTATATTAT-TATATA
1 TTATATTATATTAT-ATATA-TTT-TATTATATATATA
8356577 CTTTGTTTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
41 18 0.28
42 32 0.49
43 9 0.14
44 6 0.09
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (42 bp):
TTATATTATATTATATATATTTTATTATATATATATATTCTT
Found at i:8356584 original size:21 final size:19
Alignment explanation
Indices: 8356504--8356587 Score: 66
Period size: 21 Copynumber: 4.3 Consensus size: 19
8356494 TTATTATATA
*
8356504 TTATATTA-TATACATTTT
1 TTATATTATTATATATTTT
8356522 ATTATA-TA-TATATATTCTT
1 -TTATATTATTATATATT-TT
**
8356541 TTATATTACTTATCATATAGT
1 TTATATTA-TTAT-ATATTTT
8356562 TTATATTATTATATACTTTGT
1 TTATATTATTATATA-TTT-T
8356583 TTATA
1 TTATA
8356588 AATTTTATTA
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
18 14 0.26
19 12 0.23
20 5 0.09
21 18 0.34
22 4 0.08
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.58
Consensus pattern (19 bp):
TTATATTATTATATATTTT
Found at i:8362386 original size:21 final size:20
Alignment explanation
Indices: 8362362--8362408 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
8362352 TTATAGTCCT
*
8362362 TTAAATATTTTTTATAATCTA
1 TTAAATATTCTTTAT-ATCTA
8362383 TTAAATA--CTTTATATCTA
1 TTAAATATTCTTTATATCTA
8362401 -TAAATATT
1 TTAAATATT
8362409 AATTATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 6 0.26
18 5 0.22
19 5 0.22
21 7 0.30
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAAATATTCTTTATATCTA
Found at i:8362406 original size:17 final size:19
Alignment explanation
Indices: 8362372--8362406 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
8362362 TTAAATATTT
8362372 TTTATAATCTATTAAATAC
1 TTTATAATCTATTAAATAC
8362391 TTTAT-ATCTA-TAAATA
1 TTTATAATCTATTAAATA
8362407 TTAATTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTATAATCTATTAAATAC
Found at i:8362439 original size:13 final size:13
Alignment explanation
Indices: 8362423--8362507 Score: 71
Period size: 13 Copynumber: 6.1 Consensus size: 13
8362413 ATAAAAATAG
8362423 TATATATTATTTT
1 TATATATTATTTT
*
8362436 TATATATTGTTTAT
1 TATATATTATTT-T
*
8362450 TATATTATTTTTTACT
1 TATA-TATTATTT--T
* *
8362466 TATAAATTATATT
1 TATATATTATTTT
*
8362479 TATTTATATATTTT
1 TATATAT-TATTTT
8362493 ATATATATTATTTT
1 -TATATATTATTTT
8362507 T
1 T
8362508 TAAAAAATTA
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
13 18 0.32
14 16 0.28
15 18 0.32
16 5 0.09
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (13 bp):
TATATATTATTTT
Found at i:8362478 original size:23 final size:22
Alignment explanation
Indices: 8362448--8362534 Score: 63
Period size: 22 Copynumber: 3.9 Consensus size: 22
8362438 TATATTGTTT
8362448 ATTATATTATTTTTTACTTATAA
1 ATTATATTATTTTTTA-TTATAA
* * *
8362471 ATTATATTTATTTATATATTTTAT
1 ATTATA-TTATTT-TTTATTATAA
*
8362495 A-TATATTATTTTTTA--AAAA
1 ATTATATTATTTTTTATTATAA
*
8362514 ATTATGTATTATTATTTATTA
1 ATTA--TATTATTTTTTATTA
8362535 ATTGTGTAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 13
0.70 0.11 0.19
Matches are distributed among these distances:
19 2 0.04
20 2 0.04
21 3 0.06
22 17 0.35
23 10 0.20
24 12 0.24
25 3 0.06
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (22 bp):
ATTATATTATTTTTTATTATAA
Found at i:8362516 original size:43 final size:46
Alignment explanation
Indices: 8362425--8362532 Score: 116
Period size: 47 Copynumber: 2.3 Consensus size: 46
8362415 AAAAATAGTA
* *
8362425 TATATTATTTTTATATATTGTTTATTATATTATTTTTTACTTATAAAT
1 TATATTATATTTATATATTGTTTATTATATTATTTTTTA--TAAAAAT
8362473 TATATT-TATTTATATA-T-TTTATATATATTATTTTTTA-AAAAAT
1 TATATTATATTTATATATTGTTTAT-TATATTATTTTTTATAAAAAT
8362516 TATGTATTATTATTTAT
1 TA--TATTA-TATTTAT
8362533 TAATTGTGTA
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
43 7 0.13
45 9 0.17
46 15 0.28
47 16 0.30
48 6 0.11
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (46 bp):
TATATTATATTTATATATTGTTTATTATATTATTTTTTATAAAAAT
Found at i:8362529 original size:47 final size:47
Alignment explanation
Indices: 8362425--8362532 Score: 120
Period size: 46 Copynumber: 2.3 Consensus size: 47
8362415 AAAAATAGTA
*
8362425 TATATTATT-TTTATATATTGTTTATTATATTATTTTTTACTTATAAAT
1 TATATTATTATTTATATATTGTTTATTATATTATTTTTTA--TAAAAAT
8362473 TATA-T-TTATTTATATA-T-TTTATATATATTATTTTTTA-AAAAAT
1 TATATTATTATTTATATATTGTTTAT-TATATTATTTTTTATAAAAAT
8362516 TATGTATTATTATTTAT
1 TA--TATTATTATTTAT
8362533 TAATTGTGTA
Statistics
Matches: 53, Mismatches: 1, Indels: 13
0.79 0.01 0.19
Matches are distributed among these distances:
43 7 0.13
45 7 0.13
46 18 0.34
47 17 0.32
48 4 0.08
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (47 bp):
TATATTATTATTTATATATTGTTTATTATATTATTTTTTATAAAAAT
Found at i:8362638 original size:19 final size:17
Alignment explanation
Indices: 8362592--8362626 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8362582 TTCATTATAT
8362592 TTACATTTTATTACATA
1 TTACATTTTATTACATA
*
8362609 TTACATTTTATTATATA
1 TTACATTTTATTACATA
8362626 T
1 T
8362627 ATATATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (17 bp):
TTACATTTTATTACATA
Found at i:8362641 original size:21 final size:21
Alignment explanation
Indices: 8362617--8362671 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
8362607 TATTACATTT
*
8362617 TATTATATATATATAT-TTTTA
1 TATTAT-TATATATATGGTTTA
8362638 TATTACTTAT-TATATGGTTTA
1 TATTA-TTATATATATGGTTTA
8362659 TATTATTATATAT
1 TATTATTATATAT
8362672 TTTGGTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 9 0.30
21 20 0.67
22 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (21 bp):
TATTATTATATATATGGTTTA
Found at i:8362680 original size:21 final size:21
Alignment explanation
Indices: 8362617--8362689 Score: 57
Period size: 21 Copynumber: 3.5 Consensus size: 21
8362607 TATTACATTT
8362617 TATTATATATATATATTT--TTA
1 TATTAT-TATATAT-TTTGGTTA
*
8362638 TATTACTTAT-TA-TATGGTTTA
1 TATTA-TTATATATTTTGG-TTA
8362659 TATTATTATATATTTTGGTTA
1 TATTATTATATATTTTGGTTA
*
8362680 TA-AATTATAT
1 TATTATTATAT
8362690 TATACACTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
18 2 0.05
20 13 0.30
21 23 0.53
22 5 0.12
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.59
Consensus pattern (21 bp):
TATTATTATATATTTTGGTTA
Found at i:8372650 original size:21 final size:20
Alignment explanation
Indices: 8372626--8372672 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
8372616 TTATAGTCCT
*
8372626 TTAAATATTTTTTATAATCTA
1 TTAAATATTCTTTAT-ATCTA
8372647 TTAAATA--CTTTATATCTA
1 TTAAATATTCTTTATATCTA
8372665 -TAAATATT
1 TTAAATATT
8372673 AATTATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 6 0.26
18 5 0.22
19 5 0.22
21 7 0.30
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAAATATTCTTTATATCTA
Found at i:8372670 original size:17 final size:19
Alignment explanation
Indices: 8372636--8372670 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
8372626 TTAAATATTT
8372636 TTTATAATCTATTAAATAC
1 TTTATAATCTATTAAATAC
8372655 TTTAT-ATCTA-TAAATA
1 TTTATAATCTATTAAATA
8372671 TTAATTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTATAATCTATTAAATAC
Found at i:8372703 original size:13 final size:13
Alignment explanation
Indices: 8372687--8372770 Score: 71
Period size: 14 Copynumber: 6.1 Consensus size: 13
8372677 ATAAAAATAG
8372687 TATATATTATTTT
1 TATATATTATTTT
*
8372700 TATATATTGTTTAT
1 TATATATTATTT-T
8372714 TATATTATT-TTTACT
1 TATA-TATTATTT--T
* *
8372729 TATAAATTATATT
1 TATATATTATTTT
*
8372742 TATTTATATATTTT
1 TATATAT-TATTTT
8372756 ATATATATTATTTT
1 -TATATATTATTTT
8372770 T
1 T
8372771 TTAAAAATTA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
13 18 0.32
14 22 0.39
15 17 0.30
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (13 bp):
TATATATTATTTT
Found at i:8372722 original size:15 final size:13
Alignment explanation
Indices: 8372687--8372770 Score: 55
Period size: 13 Copynumber: 5.8 Consensus size: 13
8372677 ATAAAAATAG
8372687 TATATATTATTT-T
1 TATATATT-TTTAT
8372700 TATATATTGTTTAT
1 TATATATT-TTTAT
8372714 TATATTATTTTTACT
1 TATA-TATTTTTA-T
*
8372729 TATAAATTATATTTAT
1 TAT--A-TATTTTTAT
8372745 T-TATATATTTTAT
1 TATATAT-TTTTAT
8372758 ATATATTATTTTT
1 -TATA-TATTTTT
8372771 TTAAAAATTA
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
12 3 0.05
13 17 0.29
14 10 0.17
15 15 0.25
16 5 0.08
17 9 0.15
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (13 bp):
TATATATTTTTAT
Found at i:8372757 original size:19 final size:19
Alignment explanation
Indices: 8372699--8372764 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 19
8372689 TATATTATTT
*
8372699 TTATATATTGTTTAT-TATA
1 TTATAT-TTATTTATATATA
* *
8372718 TTATTTTTACTTATA-A-A
1 TTATATTTATTTATATATA
*
8372735 TTATATTTATTTATATATT
1 TTATATTTATTTATATATA
*
8372754 TTATATATATT
1 TTATATTTATT
8372765 ATTTTTTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
17 14 0.38
18 8 0.22
19 15 0.41
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
TTATATTTATTTATATATA
Found at i:8372877 original size:17 final size:17
Alignment explanation
Indices: 8372855--8372889 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8372845 TTCATTATAT
8372855 TTACATTTTATTACATA
1 TTACATTTTATTACATA
*
8372872 TTACATTTTATTATATA
1 TTACATTTTATTACATA
8372889 T
1 T
8372890 ATGTTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (17 bp):
TTACATTTTATTACATA
Found at i:8372921 original size:21 final size:19
Alignment explanation
Indices: 8372880--8372932 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
8372870 TATTACATTT
*
8372880 TATTA-TATATATGTTTTTA
1 TATTATTATATATG-GTTTA
8372899 TATTACTTATTATATGGTTTA
1 TATTA-TTA-TATATGGTTTA
8372920 TATTATTATATAT
1 TATTATTATATAT
8372933 TTTGGTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 10 0.33
20 3 0.10
21 11 0.37
22 6 0.20
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (19 bp):
TATTATTATATATGGTTTA
Found at i:8372933 original size:24 final size:23
Alignment explanation
Indices: 8372883--8372933 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
8372873 TACATTTTAT
*
8372883 TATA-TATATGTTTTTATATTAC
1 TATATTATATGTTTATATATTAC
8372905 T-TATTATATGGTTTATATTATTA-
1 TATATTATAT-GTTTATA-TATTAC
8372928 TATATT
1 TATATT
8372934 TTGGTTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
21 2 0.08
22 6 0.25
23 7 0.29
24 9 0.38
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (23 bp):
TATATTATATGTTTATATATTAC
Found at i:8377629 original size:21 final size:21
Alignment explanation
Indices: 8377603--8377648 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
8377593 TTTAACAACC
8377603 AAAAT-AGAAAAAAAACTAATT
1 AAAATAAGAAAAAAAAC-AATT
*
8377624 AAAATAAGAAAAAAAGCAATT
1 AAAATAAGAAAAAAAACAATT
8377645 AAAA
1 AAAA
8377649 CAGGAATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.74, C:0.04, G:0.07, T:0.15
Consensus pattern (21 bp):
AAAATAAGAAAAAAAACAATT
Found at i:8378317 original size:27 final size:27
Alignment explanation
Indices: 8378287--8378341 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
8378277 GCGGCGCTTT
8378287 TAAAAAAAAGCCGCTAAAGACAAGGAC
1 TAAAAAAAAGCCGCTAAAGACAAGGAC
** *
8378314 TAAAAAAGTGCCGCTAAAGACCAGGAC
1 TAAAAAAAAGCCGCTAAAGACAAGGAC
8378341 T
1 T
8378342 TTTAGCGGCG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.49, C:0.20, G:0.20, T:0.11
Consensus pattern (27 bp):
TAAAAAAAAGCCGCTAAAGACAAGGAC
Found at i:8378354 original size:69 final size:70
Alignment explanation
Indices: 8378244--8378374 Score: 185
Period size: 69 Copynumber: 1.9 Consensus size: 70
8378234 AAATGCCGCT
* * *
8378244 ACTAAAAAACGCTGCTAAAGACTAGGATTTTTAGCGGCGC-T-TTTAAAAAAAAGCCGCTAAAGA
1 ACTAAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTGTTTAAAAAAAAGCCGCTAAAGA
8378307 CAAGG
66 CAAGG
* * *
8378312 ACTAAAAAAGTGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTGTTTTAAAAAATGCCGCTAA
1 ACTAAAAAA-CGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTGTTTAAAAAAAAGCCGCTAA
8378375 TTTGCCCAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
68 9 0.17
69 27 0.50
70 1 0.02
71 17 0.31
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (70 bp):
ACTAAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTGTTTAAAAAAAAGCCGCTAAAGA
CAAGG
Found at i:8378699 original size:21 final size:21
Alignment explanation
Indices: 8378673--8378712 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8378663 TTTTGCTTCG
*
8378673 CCTCCCTCGCTGCTGCCTCCA
1 CCTCCCGCGCTGCTGCCTCCA
8378694 CCTCCCGCGCTGCTGCCTC
1 CCTCCCGCGCTGCTGCCTC
8378713 TGCTCTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.03, C:0.57, G:0.17, T:0.23
Consensus pattern (21 bp):
CCTCCCGCGCTGCTGCCTCCA
Found at i:8384271 original size:9 final size:9
Alignment explanation
Indices: 8384257--8384411 Score: 141
Period size: 9 Copynumber: 16.3 Consensus size: 9
8384247 ATGTATTAGT
8384257 TAAGTTATG
1 TAAGTTATG
8384266 TAAGTTGTTATG
1 TAA---GTTATG
*
8384278 TACGTTATG
1 TAAGTTATG
*
8384287 TGAGTTATG
1 TAAGTTATG
* *
8384296 TAAATTATA
1 TAAGTTATG
8384305 TAAGTTATG
1 TAAGTTATG
*
8384314 TGAGTTATG
1 TAAGTTATG
8384323 TAAGTTGTTATG
1 TAA---GTTATG
8384335 TAA-TTATG
1 TAAGTTATG
8384343 TAAGTTATG
1 TAAGTTATG
*
8384352 TGAGTTATG
1 TAAGTTATG
8384361 TAAGTTGTTATG
1 TAA---GTTATG
*
8384373 TAAATTATG
1 TAAGTTATG
*
8384382 TAAGTTATA
1 TAAGTTATG
*
8384391 TGAGTTATG
1 TAAGTTATG
8384400 TAAGTTATG
1 TAAGTTATG
8384409 TAA
1 TAA
8384412 TCTATTTAAG
Statistics
Matches: 118, Mismatches: 18, Indels: 20
0.76 0.12 0.13
Matches are distributed among these distances:
8 8 0.07
9 84 0.71
12 26 0.22
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:8384349 original size:38 final size:39
Alignment explanation
Indices: 8384290--8384405 Score: 207
Period size: 38 Copynumber: 3.0 Consensus size: 39
8384280 CGTTATGTGA
*
8384290 GTTATGTAAATTATATAAGTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
8384329 GTTATGT-AATTATGTAAGTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
*
8384367 GTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
8384406 ATGTAATCTA
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
38 37 0.50
39 37 0.50
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.47
Consensus pattern (39 bp):
GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
Found at i:8385367 original size:183 final size:183
Alignment explanation
Indices: 8385059--8385390 Score: 583
Period size: 183 Copynumber: 1.8 Consensus size: 183
8385049 CCTAGAACAG
* *
8385059 ATGTAAGATTATAAGATTAGCACCAAATATATTTCAATTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAATTTAAACAAATATAAAAACTTTATCTAT
* *
8385124 ATCAGTACTAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGACAGCTTCAGTTGAACCAATAGTTGCAGGAGG
8385189 AGAAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGAAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
* * *
8385242 ATGTAAGATTATAAGAGTAGCACCAGATATATTTCAGTTTAAACAAATATAAAAATTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAATTTAAACAAATATAAAAACTTTATCTAT
*
8385307 ATCAGTACCAAATATTAATTCGAAGATTAAATGATAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGACAGCTTCAGTTGAACCAATAGTTGCAGGAGG
*
8385372 AGCAGGAAGCAGTAACTGA
131 AGAAGGAAGCAGTAACTGA
8385391 TGCTGAATCT
Statistics
Matches: 140, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
183 140 1.00
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAATTTAAACAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGACAGCTTCAGTTGAACCAATAGTTGCAGGAGG
AGAAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
Found at i:8386948 original size:22 final size:22
Alignment explanation
Indices: 8386920--8386963 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
8386910 GATTGAGTAA
8386920 ATGAGTTACCTTTTAAAGAGAC
1 ATGAGTTACCTTTTAAAGAGAC
8386942 ATGAGTTACCTTTTAAAGAGAC
1 ATGAGTTACCTTTTAAAGAGAC
8386964 TTCCTTAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (22 bp):
ATGAGTTACCTTTTAAAGAGAC
Found at i:8387523 original size:47 final size:47
Alignment explanation
Indices: 8387454--8387547 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
8387444 GAGAAGAAAC
8387454 CCAAGTTCTAAATGAGTAATGTTGCATCAGAACTTTAAAAATAAATT
1 CCAAGTTCTAAATGAGTAATGTTGCATCAGAACTTTAAAAATAAATT
8387501 CCAAGTTCTAAATGAGTAATGTTGCATCAGAACTTTAAAAATAAATT
1 CCAAGTTCTAAATGAGTAATGTTGCATCAGAACTTTAAAAATAAATT
8387548 GAAAGAGAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.32
Consensus pattern (47 bp):
CCAAGTTCTAAATGAGTAATGTTGCATCAGAACTTTAAAAATAAATT
Found at i:8388224 original size:22 final size:22
Alignment explanation
Indices: 8388196--8388238 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
8388186 CCTAGATCAA
8388196 GCAATAACCACGAAGCTAACAC
1 GCAATAACCACGAAGCTAACAC
*
8388218 GCAATAATCACGAAGCTAACA
1 GCAATAACCACGAAGCTAACA
8388239 AAACATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.28, G:0.14, T:0.12
Consensus pattern (22 bp):
GCAATAACCACGAAGCTAACAC
Found at i:8389858 original size:90 final size:92
Alignment explanation
Indices: 8389746--8389927 Score: 244
Period size: 90 Copynumber: 2.0 Consensus size: 92
8389736 CGTTTTTAAA
* ***
8389746 AAAAAACGCCGGTACTCCCCTAAAAATCCAATAAAAACGACATTGTTTTCGTTAAACT-ATAT-T
1 AAAAAACGCCGCTACTCCCCTAAAAATCCAATAAAAACGACACCATTTTCGTTAAACTGATATGT
*
8389809 TTTTTGCGGCGTTTTTTCAAA-AAACGC
66 TTTTTGCGACGTTTTTT-AAATAAACGC
* * * * *
8389836 AAAAAACGCCGCTACTCTCCTAAATATCCAATTAAAACGACGCCATTTTCGTTAAACTGCTATGT
1 AAAAAACGCCGCTACTCCCCTAAAAATCCAATAAAAACGACACCATTTTCGTTAAACTGATATGT
8389901 TTTTTGCGACGTTTTTTAAATAAACGC
66 TTTTTGCGACGTTTTTTAAATAAACGC
8389928 CACTAATCTC
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
90 50 0.63
91 6 0.08
92 23 0.29
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (92 bp):
AAAAAACGCCGCTACTCCCCTAAAAATCCAATAAAAACGACACCATTTTCGTTAAACTGATATGT
TTTTTGCGACGTTTTTTAAATAAACGC
Found at i:8391000 original size:26 final size:26
Alignment explanation
Indices: 8390964--8391125 Score: 270
Period size: 26 Copynumber: 6.2 Consensus size: 26
8390954 TGATACAAAT
*
8390964 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
8390990 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
8391016 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
8391042 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
8391068 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
8391094 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
8391120 TGATAA
1 TGATAA
8391126 GAATTTCATG
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 133 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:8393790 original size:2 final size:2
Alignment explanation
Indices: 8393783--8393810 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8393773 GCTACACTAA
8393783 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8393811 TACAAGGGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8393909 original size:14 final size:14
Alignment explanation
Indices: 8393890--8393950 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
8393880 CCTATAAACA
8393890 CTAAACCCTTAACC
1 CTAAACCCTTAACC
8393904 CTAAACCCTTATACC
1 CTAAACCCTTA-ACC
*
8393919 TTAAACTCC--AACC
1 CTAAAC-CCTTAACC
* *
8393932 CTAACCCCTAAACC
1 CTAAACCCTTAACC
*
8393946 TTAAA
1 CTAAA
8393951 TCATAATCCC
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
12 2 0.05
13 7 0.18
14 19 0.50
15 8 0.21
16 2 0.05
ACGTcount: A:0.38, C:0.39, G:0.00, T:0.23
Consensus pattern (14 bp):
CTAAACCCTTAACC
Found at i:8393931 original size:28 final size:28
Alignment explanation
Indices: 8393900--8393967 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 28
8393890 CTAAACCCTT
* *
8393900 AACCCTAAACCCTTATACCTTAAACTC-C
1 AACCCTAAACCCCTAAACCTTAAA-TCAC
*
8393928 AACCCT-AACCCCTAAACCTTAAATCAT
1 AACCCTAAACCCCTAAACCTTAAATCAC
8393955 AATCCCTAAACCC
1 AA-CCCTAAACCC
8393968 ATAATTCATC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 2 0.06
27 17 0.50
28 10 0.29
29 5 0.15
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.22
Consensus pattern (28 bp):
AACCCTAAACCCCTAAACCTTAAATCAC
Found at i:8394281 original size:41 final size:41
Alignment explanation
Indices: 8394224--8394443 Score: 264
Period size: 41 Copynumber: 5.4 Consensus size: 41
8394214 GGTTATATGA
*
8394224 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAGTGCTCTGG
1 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGG
* *
8394265 TTTTTAGCGGCATTTTACCGAAAGAGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGG
* * *
8394306 TCTTTAGCGGCGCTTTACCGGAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGG
* * * * **
8394347 TCTTTAGCGGCGTTTTACCAAAAGCGCCGCAAATG-TTTTA
1 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGG
*** * *
8394387 TTTTTAGCGGCGTTTTAGTAAAAAACGCCGCTATTGCTCT-G
1 TTTTTAGCGGCGTTTTA-CCGAAAGCGCCGCTAATGCTCTGG
8394428 TTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
8394444 TTGATAAAAC
Statistics
Matches: 154, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
40 18 0.12
41 134 0.87
42 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.34
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGG
Found at i:8395975 original size:9 final size:9
Alignment explanation
Indices: 8395955--8395996 Score: 63
Period size: 8 Copynumber: 5.0 Consensus size: 9
8395945 GCCACCAGCA
8395955 CACCTG-TC
1 CACCTGCTC
8395963 CACCTGCTC
1 CACCTGCTC
8395972 CACCTGC-C
1 CACCTGCTC
8395980 CACCTGCTC
1 CACCTGCTC
8395989 CACC-GCTC
1 CACCTGCTC
8395997 GTGTCAGCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 18 0.56
9 14 0.44
ACGTcount: A:0.12, C:0.57, G:0.12, T:0.19
Consensus pattern (9 bp):
CACCTGCTC
Found at i:8395975 original size:25 final size:25
Alignment explanation
Indices: 8395946--8395996 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
8395936 CTACTGCCTG
8395946 CCACCAGCACACCTG-TCCACCTGCT
1 CCACCAGCACACCTGCTCCACC-GCT
* *
8395971 CCACCTGCCCACCTGCTCCACCGCT
1 CCACCAGCACACCTGCTCCACCGCT
8395996 C
1 C
8395997 GTGTCAGCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.16, C:0.57, G:0.12, T:0.16
Consensus pattern (25 bp):
CCACCAGCACACCTGCTCCACCGCT
Found at i:8395977 original size:17 final size:17
Alignment explanation
Indices: 8395955--8395992 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
8395945 GCCACCAGCA
*
8395955 CACCTGTCCACCTGCTC
1 CACCTGCCCACCTGCTC
8395972 CACCTGCCCACCTGCTC
1 CACCTGCCCACCTGCTC
8395989 CACC
1 CACC
8395993 GCTCGTGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.13, C:0.58, G:0.11, T:0.18
Consensus pattern (17 bp):
CACCTGCCCACCTGCTC
Found at i:8397011 original size:3 final size:3
Alignment explanation
Indices: 8396951--8396993 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
8396941 TTTGCTAAAT
* * * *
8396951 TTA TTA TTA TTA TTA TTA TTA TTA GTA TTG TTA GTG TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8396994 CATTTACATA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:8397151 original size:3 final size:3
Alignment explanation
Indices: 8397145--8397206 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
8397135 TTTGCTACAC
* * * *
8397145 TAT TAT TAT TAT TAT TAT TAT CAT TAT AAC TAT TAT TTT TAT T-T CTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
8397193 TTT TAT TAC TAT TA
1 TAT TAT TAT TAT TA
8397207 CCTTGTTATT
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
2 1 0.02
3 43 0.96
4 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:8397253 original size:20 final size:21
Alignment explanation
Indices: 8397228--8397275 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
8397218 CTACCACTAC
8397228 TATTATTC-TTAGTAAC-ATAT
1 TATTATTCATT-GTAACTATAT
*
8397248 TATTA-TCATTGTTACTATAT
1 TATTATTCATTGTAACTATAT
8397268 TATTATTC
1 TATTATTC
8397276 CTTTTTTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 6 0.25
20 16 0.67
21 2 0.08
ACGTcount: A:0.31, C:0.10, G:0.04, T:0.54
Consensus pattern (21 bp):
TATTATTCATTGTAACTATAT
Found at i:8404259 original size:64 final size:64
Alignment explanation
Indices: 8404185--8404312 Score: 202
Period size: 64 Copynumber: 2.0 Consensus size: 64
8404175 TCATTCATGA
*
8404185 CACATTTAGTTAGGAGCATTGGATTCATTTCGATCATAGCATACTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTGGATTCATTTCGATCATAGCATACTAATTATTTGACATAAGCAT
* * * * *
8404249 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATCGTATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTGGATTCATTTCGATCATAGCATACTAATTATTTGACATAAGCAT
8404313 AGATACATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTGGATTCATTTCGATCATAGCATACTAATTATTTGACATAAGCAT
Found at i:8404476 original size:86 final size:86
Alignment explanation
Indices: 8404365--8404687 Score: 538
Period size: 86 Copynumber: 3.8 Consensus size: 86
8404355 TGAATTTACT
* *
8404365 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCCGAATTACAGATATTGTCTTCCTAAGCAGTAG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCCGAATTACAGATCTTGTCTCCCTAAGCAGTAG
8404430 TGGAGCAGATCAAAGACGGTG
66 TGGAGCAGATCAAAGACGGTG
* * * *
8404451 AGCCTTAACCCCCTAAGCAATAGGGTAACAGGCCAAATTACAGATCTTGTCTCCCTAATCAGAAG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCCGAATTACAGATCTTGTCTCCCTAAGCAGTAG
* *
8404516 TGGAGTAGATCAAAGACAGTG
66 TGGAGCAGATCAAAGACGGTG
* * *
8404537 AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTACAGATCTTGTCTCTCTAAGCAGTAG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCCGAATTACAGATCTTGTCTCCCTAAGCAGTAG
8404602 TGGAGCAGATCAAAGACGGTG
66 TGGAGCAGATCAAAGACGGTG
*
8404623 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTGTCTCCCTAAGCAGTAG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCCGAATTACAGATCTTGTCTCCCTAAGCAGTAG
8404688 GGTAACAAGC
Statistics
Matches: 218, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 218 1.00
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.22
Consensus pattern (86 bp):
AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCCGAATTACAGATCTTGTCTCCCTAAGCAGTAG
TGGAGCAGATCAAAGACGGTG
Found at i:8404640 original size:44 final size:43
Alignment explanation
Indices: 8404418--8404645 Score: 126
Period size: 44 Copynumber: 5.3 Consensus size: 43
8404408 ATATTGTCTT
8404418 CCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCC
1 CCTAAGCAGTAGTGGAGCAGATCAAAGAC-GTGAGCCTTAACCC
* * ** * * * ** *
8404462 CCTAAGCAATAG-GGTAACAGGCCAAATTAC-AGA-TCTTGTCTC
1 CCTAAGCAGTAGTGG-AGCAGATCAAA-GACGTGAGCCTTAACCC
* * *
8404504 CCTAATCAGAAGTGGAGTAGATCAAAGACAGTGAGCCTTAACCC
1 CCTAAGCAGTAGTGGAGCAGATCAAAGAC-GTGAGCCTTAACCC
* * * * ** * * ** *
8404548 CCTAAGTAGTAG-GGTAACAGGCTGAATTAC-AGA-TCTTGTCTC
1 CCTAAGCAGTAGTGG-AGCA-GATCAAAGACGTGAGCCTTAACCC
*
8404590 TCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCC
1 CCTAAGCAGTAGTGGAGCAGATCAAAGAC-GTGAGCCTTAACCC
8404634 CCTAAGCAGTAG
1 CCTAAGCAGTAG
8404646 GGTAACAGGC
Statistics
Matches: 122, Mismatches: 50, Indels: 24
0.62 0.26 0.12
Matches are distributed among these distances:
41 8 0.07
42 39 0.32
43 16 0.13
44 51 0.42
45 8 0.07
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (43 bp):
CCTAAGCAGTAGTGGAGCAGATCAAAGACGTGAGCCTTAACCC
Found at i:8404685 original size:42 final size:42
Alignment explanation
Indices: 8404547--8404694 Score: 138
Period size: 42 Copynumber: 3.5 Consensus size: 42
8404537 AGCCTTAACC
*
8404547 CCCTAAGTAGTAGGGTAACAGGCTGAATTACAGATCTTGTCT
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTGTCT
* * * * ** * * ** *
8404589 CTCTAAGCAGTAGTGG-AGCA-GATCAAAGACGGTGAGCCTTAACC
1 CCCTAAGCAGTAG-GGTAACAGGCTGAATTAC--AGA-TCTTGTCT
8404633 CCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTGTCT
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTGTCT
8404675 CCCTAAGCAGTAGGGTAACA
1 CCCTAAGCAGTAGGGTAACA
8404695 AGCCAAATTC
Statistics
Matches: 77, Mismatches: 23, Indels: 12
0.69 0.21 0.11
Matches are distributed among these distances:
41 6 0.08
42 38 0.49
43 8 0.10
44 19 0.25
45 6 0.08
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTGTCT
Found at i:8404837 original size:3 final size:3
Alignment explanation
Indices: 8404771--8404819 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
8404761 TTTGCTAAAT
* * * *
8404771 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTG TTA GTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8404819 T
1 T
8404820 CATTTACATA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:8404977 original size:3 final size:3
Alignment explanation
Indices: 8404971--8405038 Score: 66
Period size: 3 Copynumber: 22.7 Consensus size: 3
8404961 TTTGCTACAC
* * * *
8404971 TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT AAC TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
8405019 T-T CTAT TTT TAT TAC TAT TA
1 TAT -TAT TAT TAT TAT TAT TA
8405039 CCTTGTTATT
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
2 1 0.02
3 49 0.96
4 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:8405484 original size:42 final size:40
Alignment explanation
Indices: 8405387--8405495 Score: 128
Period size: 41 Copynumber: 2.7 Consensus size: 40
8405377 TAGATGGAGT
* * * *
8405387 TTTAGCGACGCTTTTAAAAAAACGCCGCAATAGGTCGACC
1 TTTAGCGGCGTTTTTTAAAAAACGCCGCAATAAGTCGACC
* * *
8405427 TTTAGCGGCGTTTTTTGAAAAAGCGCCGCCATAAGTCGGCC
1 TTTAGCGGCGTTTTTT-AAAAAACGCCGCAATAAGTCGACC
* *
8405468 TTTAGCGGCGTTTTTTTAAAATCGCCGC
1 TTTAGCGGCGTTTTTTAAAAAACGCCGC
8405496 TAAAGGTTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 23 0.39
41 36 0.61
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTTAAAAAACGCCGCAATAAGTCGACC
Found at i:8405694 original size:113 final size:114
Alignment explanation
Indices: 8405540--8405791 Score: 308
Period size: 113 Copynumber: 2.2 Consensus size: 114
8405530 GCTTAACATT
* * ** * *
8405540 TTAGTGGCGTTTTTATAAAAAACGCCGCTATAGGTCCACCTATAGCGGCGTTTTTGGAAAAACGC
1 TTAGTGGCG-TTTTCTAAAAAACGCCGCTAAAGGTAAACCTATAGCGGCGTTTGTGAAAAAACGC
* * *
8405605 CACTAAAATGTTAGGAAAAACGATGTCATTTTCTATGAGCTTAATTGGCA
65 CACTAAAATGTTAGGAAAAACGACGTCATTTTATATGAGCTCAATTGGCA
**
8405655 TTAGTGGCGTTTTCTGGAAAACGCCGCTAAAGG-AAACCTATAGCGGCGTTTGTGAAAAAACGCC
1 TTAGTGGCGTTTTCTAAAAAACGCCGCTAAAGGTAAACCTATAGCGGCGTTTGTGAAAAAACGCC
* * * **
8405719 ACTAAAATGTTAGGGAAAACGACGTCGTTTTATATGTGCTCCTTTGGCA
66 ACTAAAATGTTAGGAAAAACGACGTCATTTTATATGAGCTCAATTGGCA
* * **
8405768 GTAGCGGCGTTTTCCCAAAAACGC
1 TTAGTGGCGTTTTCTAAAAAACGC
8405792 AGCAAAAGAT
Statistics
Matches: 116, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
113 87 0.75
114 20 0.17
115 9 0.08
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (114 bp):
TTAGTGGCGTTTTCTAAAAAACGCCGCTAAAGGTAAACCTATAGCGGCGTTTGTGAAAAAACGCC
ACTAAAATGTTAGGAAAAACGACGTCATTTTATATGAGCTCAATTGGCA
Found at i:8406286 original size:15 final size:14
Alignment explanation
Indices: 8406268--8406310 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
8406258 CTTAATATTT
8406268 TTATAGGTTTAGGGG
1 TTAT-GGTTTAGGGG
*
8406283 TTATGGGTTTAAGGG
1 TTAT-GGTTTAGGGG
*
8406298 TTATGATTTAGGG
1 TTATGGTTTAGGG
8406311 TTGATGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (14 bp):
TTATGGTTTAGGGG
Found at i:8409504 original size:134 final size:133
Alignment explanation
Indices: 8409281--8409533 Score: 488
Period size: 134 Copynumber: 1.9 Consensus size: 133
8409271 TGGTGATTCC
8409281 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
8409346 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
8409411 TAT
131 TAT
*
8409414 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTTCATGTTTCTATCCAACTTATGTGTTTAGT
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTG-TTTTCATGTTTCTATCCAACTTATGTGTTTAGT
8409479 GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
65 GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
8409534 TGTTGAATTC
Statistics
Matches: 118, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
133 30 0.25
134 88 0.75
ACGTcount: A:0.20, C:0.10, G:0.19, T:0.52
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
TAT
Found at i:8411548 original size:21 final size:21
Alignment explanation
Indices: 8411524--8411563 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8411514 GTTTTTATGT
*
8411524 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
8411545 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
8411564 GAATTAGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:8413583 original size:371 final size:371
Alignment explanation
Indices: 8412592--8413870 Score: 2503
Period size: 371 Copynumber: 3.5 Consensus size: 371
8412582 CTTGTCCATT
*
8412592 AAAATTACAACAATAGCTGACTTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
8412657 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
8412722 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
8412787 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTATTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTATTTATAAAAATTAAACTA
8412852 CGATTCTTTTTTATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
261 CGATTCTTTTTTATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
8412917 ATTTAATATTTTTAAATTTCTTTAAAAGTTATAATTACTTTTTATC
326 ATTTAATATTTTTAAATTTCTTTAAAAGTTATAATTACTTTTTATC
8412963 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
8413028 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
8413093 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
8413158 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTATTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTATTTATAAAAATTAAACTA
8413223 CGATTCTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTATTTTAA
261 CGATTCTTTTTTATATTATTATATTCAAATTACTA-TTTTTTATATTAATAATGTTTTATTTTAA
8413288 TATTTAATATTTTTAAATTTCTTTAAAAGTTATAATTACTTTTTATC
325 TATTTAATATTTTTAAATTTCTTTAAAAGTTATAATTACTTTTTATC
8413335 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
8413400 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
8413465 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
8413530 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTA-TTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTATTTATAAAAATTAAACTA
*
8413594 CAATTCTTTTTTATATTATTATATTCAAA-TACTATTTTTTATATTAATAATGTTTTATTTTAAT
261 CGATTCTTTTTTATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
8413658 ATTTAATATTTTTAAATTTCTTTAAAAGTTATAATTAC-TTTTATC
326 ATTTAATATTTTTAAATTTCTTTAAAAGTTATAATTACTTTTTATC
8413703 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAA-ATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
8413767 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
8413832 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAA
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAA
8413871 TATTTCAATT
Statistics
Matches: 905, Mismatches: 2, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
367 115 0.13
368 60 0.07
369 68 0.08
370 5 0.01
371 339 0.37
372 318 0.35
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.39
Consensus pattern (371 bp):
AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTATTTATAAAAATTAAACTA
CGATTCTTTTTTATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
ATTTAATATTTTTAAATTTCTTTAAAAGTTATAATTACTTTTTATC
Found at i:8413985 original size:24 final size:24
Alignment explanation
Indices: 8413958--8414025 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
8413948 ATTATTATTG
*
8413958 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
8413982 AAATATTATTC-TCCGTTTTATTAC
1 AAATATTA-TCGTCCGTTTTATCAC
8414006 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
8414026 CCATTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:8414246 original size:15 final size:15
Alignment explanation
Indices: 8414202--8414257 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
8414192 AACGACATGT
8414202 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
8414218 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
8414231 ATATTATTTAATTAA
1 ATATTATTTAATTAA
8414246 ATATTATTTAAT
1 ATATTATTTAAT
8414258 CCCGTTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:8414374 original size:9 final size:9
Alignment explanation
Indices: 8414362--8414578 Score: 116
Period size: 9 Copynumber: 23.6 Consensus size: 9
8414352 TATTTGATAT
*
8414362 CATAATTTA
1 CATAACTTA
*
8414371 CATAGCTTA
1 CATAACTTA
* *
8414380 TATAACATA
1 CATAACTTA
*
8414389 TATAACTTA
1 CATAACTTA
8414398 CATAACTTA
1 CATAACTTA
* *
8414407 TATAACATA
1 CATAACTTA
8414416 CATAACTTA
1 CATAACTTA
* *
8414425 TATAAGTTA
1 CATAACTTA
*
8414434 TATAACTTA
1 CATAACTTA
* *
8414443 GATAA-ATA
1 CATAACTTA
*
8414451 TATAACTTA
1 CATAACTTA
8414460 CATAACTTA
1 CATAACTTA
8414469 CATAATACTTA
1 CAT-A-ACTTA
* *
8414480 AATATATTTTATA
1 CATA-A--CT-TA
*
8414493 TCATAATTTA
1 -CATAACTTA
8414503 CATAACTTA
1 CATAACTTA
8414512 CATAACTTA
1 CATAACTTA
* *
8414521 GATAA-ATA
1 CATAACTTA
* *
8414529 TATAATTTA
1 CATAACTTA
*
8414538 CATAA-ATA
1 CATAACTTA
* * *
8414546 TATATCATA
1 CATAACTTA
*
8414555 TCATAAATTA
1 -CATAACTTA
8414565 CATAACTTA
1 CATAACTTA
8414574 CATAA
1 CATAA
8414579 TACTTAAATA
Statistics
Matches: 162, Mismatches: 36, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
8 17 0.10
9 118 0.73
10 11 0.07
11 9 0.06
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:8414517 original size:105 final size:105
Alignment explanation
Indices: 8414378--8414602 Score: 285
Period size: 105 Copynumber: 2.2 Consensus size: 105
8414368 TTACATAGCT
* * * * *
8414378 TATATAACATAT-ATAACTTACATAACTTATATAACATACATAACTTATATAAGTTATATAACTT
1 TATATATCATATCATAACTTACATAACTTACATAACATACATAA-ATATATAAGTTACATAA-AT
*
8414442 AGATA-AATAT-ATAACTTACATAACTTACATAATACTTAAA
64 AGATATAATATCATAAATTACATAACTTACATAATACTTAAA
* * * * * * *
8414482 TATATTTTATATCATAATTTACATAACTTACATAACTTAGATAAATATATAATTTACATAAATAT
1 TATATATCATATCATAACTTACATAACTTACATAACATACATAAATATATAAGTTACATAAATAG
*
8414547 ATATCATATCATAAATTACATAACTTACATAATACTTAAA
66 ATATAATATCATAAATTACATAACTTACATAATACTTAAA
8414587 TATATATCATATCATA
1 TATATATCATATCATA
8414603 CATAACTAGT
Statistics
Matches: 102, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
103 5 0.05
104 27 0.26
105 70 0.69
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (105 bp):
TATATATCATATCATAACTTACATAACTTACATAACATACATAAATATATAAGTTACATAAATAG
ATATAATATCATAAATTACATAACTTACATAATACTTAAA
Found at i:8414542 original size:17 final size:17
Alignment explanation
Indices: 8414490--8414549 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
8414480 AATATATTTT
8414490 ATATCATAATTTACATAA
1 ATAT-ATAATTTACATAA
* * * *
8414508 CTTACATAACTTAGATAA
1 -ATATATAATTTACATAA
8414526 ATATATAATTTACATAA
1 ATATATAATTTACATAA
8414543 ATATATA
1 ATATATA
8414550 TCATATCATA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
17 20 0.61
18 11 0.33
19 2 0.06
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (17 bp):
ATATATAATTTACATAA
Found at i:8414639 original size:105 final size:102
Alignment explanation
Indices: 8414448--8414652 Score: 234
Period size: 105 Copynumber: 2.0 Consensus size: 102
8414438 ACTTAGATAA
* * * *
8414448 ATATATAACTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTACATAACTTAC
1 ATATATAAATTACATAACTTACATAATACTTAAATATATATCATATCATAATTAACATAACTTAC
* * *
8414513 ATAACTTAGATAAATATATAATTTACATAAATATATATC
66 AAAACTTACATAAATACATAA--TACATAAATATATATC
**
8414552 ATATCATAAATTACATAACTTACATAATACTTAAATATATATCATATCATACA-TAAC-TAGTTT
1 ATAT-ATAAATTACATAACTTACATAATACTTAAATATATATCATATCATA-ATTAACATAACTT
* * * *
8414615 ACAAAATTTACTTAACTTACATAATACATAAATCTATA
64 ACAAAACTTACATAA-ATACATAATACATAAATATATA
8414653 GTCGAAAATC
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
103 13 0.15
104 19 0.22
105 52 0.61
106 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (102 bp):
ATATATAAATTACATAACTTACATAATACTTAAATATATATCATATCATAATTAACATAACTTAC
AAAACTTACATAAATACATAATACATAAATATATATC
Found at i:8419834 original size:42 final size:42
Alignment explanation
Indices: 8419702--8419981 Score: 177
Period size: 42 Copynumber: 6.7 Consensus size: 42
8419692 ANATCTGCTT
* * * *
8419702 CCCTACTGCTTAGGGTGATAAGATCTTTAAAATC-AGCTTGTTA
1 CCCTACTGCTTAGGG-GTTAAGATCTGTAAATTCGA-CCTGTTA
* *** * * *
8419745 CCCTACTGCTTAGGGGGTTAAGCT-TGTTGTCTTCGATCTATTT
1 CCCTACTGCTTA-GGGGTTAAGATCTG-TAAATTCGACCTGTTA
*
8419788 CCCTACTGCTTAGGGGTTAAGATCTGTAAATTCAACCTGTTA
1 CCCTACTGCTTAGGGGTTAAGATCTGTAAATTCGACCTGTTA
* * ** *** *
8419830 CCCTACTGCTTAGGGTTTAAGGTCCATCGGCTTCGATCTGTT-
1 CCCTACTGCTTAGGGGTTAAGATCTGT-AAATTCGACCTGTTA
* * *
8419872 CCCTACTGCTTA-GGGTGAAAGATCTGCAAATTCG-CTTGTTA
1 CCCTACTGCTTAGGGGT-TAAGATCTGTAAATTCGACCTGTTA
* * *
8419913 CCCTACTGCTTAGGGGGTTAAGCTC-GT-TATCTCGATCTGTT-
1 CCCTACTGCTTA-GGGGTTAAGATCTGTAAAT-TCGACCTGTTA
8419954 -CCTACTGCTTAGGGG-TAAGAT-TGTAAAT
1 CCCTACTGCTTAGGGGTTAAGATCTGTAAAT
8419982 CTTCAATCTG
Statistics
Matches: 177, Mismatches: 47, Indels: 30
0.70 0.19 0.12
Matches are distributed among these distances:
38 7 0.04
39 6 0.03
40 17 0.10
41 23 0.13
42 69 0.39
43 51 0.29
44 4 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (42 bp):
CCCTACTGCTTAGGGGTTAAGATCTGTAAATTCGACCTGTTA
Done.