Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 22 of 425
Found at i:5746405 original size:14 final size:15
Alignment explanation
Indices: 5746378--5746406 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5746368 AATTTTATGA
5746378 ATTTCATGATGTGTT
1 ATTTCATGATGTGTT
5746393 ATTTCAT-ATGTGTT
1 ATTTCATGATGTGTT
5746407 GATGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (15 bp):
ATTTCATGATGTGTT
Found at i:5746599 original size:50 final size:51
Alignment explanation
Indices: 5746522--5746644 Score: 196
Period size: 50 Copynumber: 2.4 Consensus size: 51
5746512 GACCATGGCA
5746522 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
5746573 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
5746623 ACAAGTGAAAAGTGGTAGCTTC
1 ACAAGTGATAAGTGATAGCTTC
5746645 ACCTACCTGA
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
50 45 0.67
51 22 0.33
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:5746664 original size:31 final size:31
Alignment explanation
Indices: 5746626--5746688 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
5746616 ACAAATGACA
5746626 AGTGAAAAGTGGTAGCTTCACCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCACCTACCTGATC
**
5746657 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCACCTACCTGATC
5746688 A
1 A
5746689 CCGGCTACCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCACCTACCTGATC
Found at i:5746699 original size:46 final size:46
Alignment explanation
Indices: 5746647--5746734 Score: 158
Period size: 46 Copynumber: 1.9 Consensus size: 46
5746637 GTAGCTTCAC
* *
5746647 CTACCTGATCAGTGAAAAGTGGTAGCTTCTGCTACCTGATCACCGG
1 CTACCTGATCAGTGAAAAGTGGTAGCTCCGGCTACCTGATCACCGG
5746693 CTACCTGATCAGTGAAAAGTGGTAGCTCCGGCTACCTGATCA
1 CTACCTGATCAGTGAAAAGTGGTAGCTCCGGCTACCTGATCA
5746735 GTGAAAAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (46 bp):
CTACCTGATCAGTGAAAAGTGGTAGCTCCGGCTACCTGATCACCGG
Found at i:5746727 original size:31 final size:31
Alignment explanation
Indices: 5746689--5746789 Score: 175
Period size: 31 Copynumber: 3.3 Consensus size: 31
5746679 TACCTGATCA
5746689 CCGGCTACCTGATCAGTGAAAAGTGGTAGCT
1 CCGGCTACCTGATCAGTGAAAAGTGGTAGCT
*
5746720 CCGGCTACCTGATCAGTGAAAAATGGTAGCT
1 CCGGCTACCTGATCAGTGAAAAGTGGTAGCT
*
5746751 CCGGCTACCTGATCAGTGAATAGTGGTAGCT
1 CCGGCTACCTGATCAGTGAAAAGTGGTAGCT
*
5746782 TCGGCTAC
1 CCGGCTAC
5746790 AAGTGACAAG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 66 1.00
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (31 bp):
CCGGCTACCTGATCAGTGAAAAGTGGTAGCT
Found at i:5746919 original size:42 final size:43
Alignment explanation
Indices: 5746861--5746975 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 43
5746851 TATGTGATTC
* *
5746861 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGACTATGGCATCGATTATATGAAAAT
*
5746903 GTGTAAGACCATAGCTGGACTATGGCATC-ATTATGTGAAAAT
1 GTGTAAGACCATAGCTGGACTATGGCATCGATTATATGAAAAT
* * *
5746945 ATGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGACTATGGCATCGA
5746976 AAAAATGAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 63 0.97
43 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGACTATGGCATCGATTATATGAAAAT
Found at i:5750928 original size:42 final size:43
Alignment explanation
Indices: 5750851--5750935 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
5750841 TACAATGACT
*
5750851 AATTTGTCAATTTTTTTAATAAATGTGGAGAAATGCAATCTAA
1 AATTTGTCAATTTTTTTAATAAATGGGGAGAAATGCAATCTAA
5750894 AATTTGTCAATTTTTTTAATAAATGGGGAG-AATGCAATCTAA
1 AATTTGTCAATTTTTTTAATAAATGGGGAGAAATGCAATCTAA
5750936 CTCCTAAAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 12 0.29
43 29 0.71
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (43 bp):
AATTTGTCAATTTTTTTAATAAATGGGGAGAAATGCAATCTAA
Found at i:5751022 original size:18 final size:18
Alignment explanation
Indices: 5750995--5751034 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
5750985 CCTCCCTAAA
*
5750995 ATTACTTGCA-AAATTAAG
1 ATTACATGCATAAA-TAAG
5751013 ATTACATGCATAAATAAG
1 ATTACATGCATAAATAAG
5751031 ATTA
1 ATTA
5751035 AAAAACGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (18 bp):
ATTACATGCATAAATAAG
Found at i:5762080 original size:16 final size:17
Alignment explanation
Indices: 5762054--5762088 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
5762044 TTTTTTAAAG
5762054 TTTTATATTTTTTCTTA
1 TTTTATATTTTTTCTTA
*
5762071 TTTTAT-TTTTTTGTTA
1 TTTTATATTTTTTCTTA
5762087 TT
1 TT
5762089 AATTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (17 bp):
TTTTATATTTTTTCTTA
Found at i:5762168 original size:13 final size:14
Alignment explanation
Indices: 5762134--5762168 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
5762124 TTTTTTAAAG
5762134 TTTTAAA-TATTAT
1 TTTTAAATTATTAT
5762147 TTTTAAATTATT-T
1 TTTTAAATTATTAT
5762160 TTTTAAATT
1 TTTTAAATT
5762169 TTAAATGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTAAATTATTAT
Found at i:5762169 original size:21 final size:23
Alignment explanation
Indices: 5762145--5762190 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 23
5762135 TTTAAATATT
*
5762145 ATTTTTAAAT-TAT-TTTTTTAA
1 ATTTTTAAATGTATATTTTTGAA
5762166 A-TTTTAAATGTATATTTTTGAA
1 ATTTTTAAATGTATATTTTTGAA
5762188 ATT
1 ATT
5762191 ATTTCTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 8 0.38
21 4 0.19
22 8 0.38
23 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (23 bp):
ATTTTTAAATGTATATTTTTGAA
Found at i:5762207 original size:36 final size:34
Alignment explanation
Indices: 5762122--5762258 Score: 147
Period size: 36 Copynumber: 4.0 Consensus size: 34
5762112 TTATAATATA
5762122 TATTTTT-TAAAGTTTTAAATAT-TATTTTTAAAT
1 TATTTTTATAAA-TTTTAAATATATATTTTTAAAT
* *
5762155 TATTTTTTTAAATTTTAAATGTATATTTTTGAAAT
1 TATTTTTATAAATTTTAAATATATATTTTT-AAAT
* *
5762190 TATTTCTTATAAATTTTAAAAATATATATTTGAAAT
1 TATTT-TTATAAATTTTAAATATATAT-TTTTAAAT
* *
5762226 CATTTTT-TAAAATATTAAATA-ATATTTTTAAAT
1 TATTTTTAT-AAATTTTAAATATATATTTTTAAAT
5762259 ACTGAATATA
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
33 23 0.26
34 16 0.18
35 21 0.24
36 26 0.29
37 3 0.03
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.55
Consensus pattern (34 bp):
TATTTTTATAAATTTTAAATATATATTTTTAAAT
Found at i:5762240 original size:22 final size:21
Alignment explanation
Indices: 5762229--5762282 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
5762219 TTGAAATCAT
5762229 TTTTTAAAATATTAAATAATA
1 TTTTTAAAATATTAAATAATA
* *
5762250 TTTTT-AAATACTGAAT-ATA
1 TTTTTAAAATATTAAATAATA
5762269 TTTTTAATAATATT
1 TTTTTAA-AATATT
5762283 TAAACATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 8 0.29
20 10 0.36
21 10 0.36
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTTTAAAATATTAAATAATA
Found at i:5762356 original size:14 final size:15
Alignment explanation
Indices: 5762337--5762365 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5762327 ATCTTAAAAA
5762337 ATAA-TTAAAAAATT
1 ATAATTTAAAAAATT
5762351 ATAATTTAAAAAATT
1 ATAATTTAAAAAATT
5762366 CTGAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATTTAAAAAATT
Found at i:5762484 original size:17 final size:16
Alignment explanation
Indices: 5762462--5762496 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
5762452 TTGCTTTTGA
5762462 TTTTTTTTAATTTGTTT
1 TTTTTTTTAATTT-TTT
*
5762479 TTTTTTTTACTTTTTT
1 TTTTTTTTAATTTTTT
5762495 TT
1 TT
5762497 AACTTTTGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.86
Consensus pattern (16 bp):
TTTTTTTTAATTTTTT
Found at i:5762504 original size:29 final size:27
Alignment explanation
Indices: 5762462--5762516 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
5762452 TTGCTTTTGA
* *
5762462 TTTTTTTTAATTTGTTTTTTTTTTTAC
1 TTTTTTTTAATTTGTCTTTTTCTTTAC
5762489 TTTTTTTTAACTTTTGTCTTTTTCTTTA
1 TTTTTTTTAA--TTTGTCTTTTTCTTTA
5762517 AAATTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 10 0.42
29 14 0.58
ACGTcount: A:0.11, C:0.07, G:0.04, T:0.78
Consensus pattern (27 bp):
TTTTTTTTAATTTGTCTTTTTCTTTAC
Found at i:5762572 original size:13 final size:13
Alignment explanation
Indices: 5762556--5762598 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
5762546 TTCTATTTTG
*
5762556 TTTATTTTGTTTA
1 TTTATTTTATTTA
5762569 TTTATTTTATTTA
1 TTTATTTTATTTA
*
5762582 TTTATTATTATTAA
1 TTTATT-TTATTTA
5762596 TTT
1 TTT
5762599 TAAAAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 18 0.67
14 9 0.33
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:5762592 original size:23 final size:21
Alignment explanation
Indices: 5762529--5762600 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 21
5762519 ATTTTTTAAG
*
5762529 TTTTATATT-TTTTCTTATTCTA
1 TTTTAT-TTATTTTTTTATT-TA
*
5762551 TTTTGTTTATTTTGTTTATTTA
1 TTTTATTTATTTT-TTTATTTA
*
5762573 TTTTATTTATTTATTATTATTAA
1 TTTTATTTATTT-TT-TTATTTA
5762596 TTTTA
1 TTTTA
5762601 AAAAAATTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
21 2 0.05
22 23 0.55
23 17 0.40
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (21 bp):
TTTTATTTATTTTTTTATTTA
Found at i:5762667 original size:22 final size:22
Alignment explanation
Indices: 5762627--5762748 Score: 133
Period size: 22 Copynumber: 5.5 Consensus size: 22
5762617 ATTTGAAATG
5762627 TTTTATAATATATATTTTTTAAAA
1 TTTTA-AATAT-TATTTTTTAAAA
5762651 TTTTAAATATTATTTTTTAAAA
1 TTTTAAATATTATTTTTTAAAA
* *
5762673 TTTTGAAAT-TAATTTTTTTAAA
1 TTTT-AAATATTATTTTTTAAAA
5762695 TTTTAAATATTATTTTTTAAAA
1 TTTTAAATATTATTTTTTAAAA
* *
5762717 -ATTAAATA-TAGTTTTTAATAA
1 TTTTAAATATTATTTTTTAA-AA
* *
5762738 TATGAAATATT
1 TTTTAAATATT
5762749 TAAACATTTA
Statistics
Matches: 86, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
20 9 0.10
21 13 0.15
22 49 0.57
23 10 0.12
24 5 0.06
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTTAAATATTATTTTTTAAAA
Found at i:5762959 original size:13 final size:13
Alignment explanation
Indices: 5762941--5762973 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
5762931 AAACCTTTTT
5762941 AATTTT-TTATAAA
1 AATTTTATT-TAAA
5762954 AATTTTATTTAAA
1 AATTTTATTTAAA
5762967 AATTTTA
1 AATTTTA
5762974 ATGTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 17 0.89
14 2 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
AATTTTATTTAAA
Found at i:5763013 original size:20 final size:21
Alignment explanation
Indices: 5762988--5763038 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
5762978 TTAAATATTA
*
5762988 TTAAAAAAT-ATATTTAATAT
1 TTAAAAAATAATATTTAAAAT
5763008 TTAAAAAATAATATTTAAAAT
1 TTAAAAAATAATATTTAAAAT
5763029 TTAGAAAAAT
1 TTA-AAAAAT
5763039 TAATTTCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 9 0.32
21 13 0.46
22 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TTAAAAAATAATATTTAAAAT
Found at i:5763044 original size:21 final size:21
Alignment explanation
Indices: 5762988--5763049 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
5762978 TTAAATATTA
*
5762988 TTAAAAAA-TATATTTAATAT
1 TTAAAAAATTATATTTAAAAT
*
5763008 TTAAAAAATAATATTTAAAAT
1 TTAAAAAATTATATTTAAAAT
5763029 TTAGAAAAATTA-ATTTCAAAA
1 TTA-AAAAATTATATTT-AAAA
5763050 ATACATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 8 0.22
21 17 0.47
22 11 0.31
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
TTAAAAAATTATATTTAAAAT
Found at i:5763100 original size:21 final size:20
Alignment explanation
Indices: 5762988--5763153 Score: 69
Period size: 22 Copynumber: 8.0 Consensus size: 20
5762978 TTAAATATTA
*
5762988 TTAAAAAAT-ATATTTAATAT
1 TTAAAAAATAAT-TTTAAAAT
5763008 TTAAAAAATAATATTTAAAAT
1 TTAAAAAATAAT-TTTAAAAT
*
5763029 TT-AGAAA-AA--TT--AAT
1 TTAAAAAATAATTTTAAAAT
*
5763043 TTCAAAAATACATTTTTAAAAT
1 TTAAAAAATA-A-TTTTAAAAT
*
5763065 TTATAATAAATAATTTAAAAAT
1 TTA-AA-AAATAATTTTAAAAT
***
5763087 ATATATTTAA-AATTTTAAAAAAT
1 -T-TAAAAAATAATTTT--AAAAT
**
5763110 AATTTTAAAATAATGTTTAAAATT
1 --TTAAAAAATAAT-TTTAAAA-T
5763134 TTAAAAAATAATTTTAAAAT
1 TTAAAAAATAATTTTAAAAT
5763154 AATATTTAAA
Statistics
Matches: 113, Mismatches: 14, Indels: 38
0.68 0.08 0.23
Matches are distributed among these distances:
14 5 0.04
15 4 0.04
16 3 0.03
17 1 0.01
19 2 0.02
20 16 0.14
21 24 0.21
22 25 0.22
23 17 0.15
24 13 0.12
25 3 0.03
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (20 bp):
TTAAAAAATAATTTTAAAAT
Found at i:5763128 original size:12 final size:11
Alignment explanation
Indices: 5763072--5763165 Score: 79
Period size: 12 Copynumber: 8.4 Consensus size: 11
5763062 AATTTATAAT
*
5763072 AAATAATTTAA
1 AAATAATTTTA
5763083 AAATATATATTTA
1 AAATA-AT-TTTA
*
5763096 AAAT--TTTAAA
1 AAATAATTT-TA
5763106 AAATAATTTTA
1 AAATAATTTTA
5763117 AAATAATGTTTA
1 AAATAAT-TTTA
*
5763129 AAAT--TTTAAA
1 AAATAATTT-TA
5763139 AAATAATTTTA
1 AAATAATTTTA
5763150 AAATAATATTTA
1 AAATAAT-TTTA
5763162 AAAT
1 AAAT
5763166 TTTAAAAAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 19
0.74 0.05 0.21
Matches are distributed among these distances:
9 4 0.06
10 12 0.18
11 21 0.31
12 24 0.35
13 7 0.10
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (11 bp):
AAATAATTTTA
Found at i:5763133 original size:20 final size:19
Alignment explanation
Indices: 5763110--5763172 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 19
5763100 TTTAAAAAAT
5763110 AATTTTAAAATAATGTTTAA
1 AATTTTAAAATAAT-TTTAA
5763130 AATTTTAAAA-AA---T--
1 AATTTTAAAATAATTTTAA
5763143 AATTTTAAAATAATATTTAA
1 AATTTTAAAATAAT-TTTAA
5763163 AATTTTAAAA
1 AATTTTAAAA
5763173 AATATATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 14
0.72 0.00 0.28
Matches are distributed among these distances:
13 10 0.28
14 2 0.06
15 1 0.03
18 1 0.03
19 2 0.06
20 20 0.56
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
AATTTTAAAATAATTTTAA
Found at i:5763134 original size:33 final size:33
Alignment explanation
Indices: 5763006--5763176 Score: 227
Period size: 33 Copynumber: 5.0 Consensus size: 33
5762996 TATATTTAAT
5763006 ATTTAAAAAATAATATTTAAAA-TTTAGAAAAATTA
1 ATTT-AAAAATAATATTTAAAATTTTA-AAAAA-TA
* *
5763041 ATTTCAAAAATACATTTTTAAAATTTATAATAAATA
1 ATTT-AAAAATA-ATATTTAAAATTT-TAAAAAATA
5763077 ATTTAAAAATATATATTTAAAATTTTAAAAAATA
1 ATTTAAAAATA-ATATTTAAAATTTTAAAAAATA
* *
5763111 ATTTTAAAATAATGTTTAAAATTTTAAAAAATA
1 ATTTAAAAATAATATTTAAAATTTTAAAAAATA
*
5763144 ATTTTAAAATAATATTTAAAATTTTAAAAAATA
1 ATTTAAAAATAATATTTAAAATTTTAAAAAATA
5763177 TATATTATAA
Statistics
Matches: 124, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
33 53 0.43
34 18 0.15
35 30 0.24
36 15 0.12
37 6 0.05
38 2 0.02
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (33 bp):
ATTTAAAAATAATATTTAAAATTTTAAAAAATA
Found at i:5763160 original size:13 final size:14
Alignment explanation
Indices: 5763097--5763165 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 14
5763087 ATATATTTAA
5763097 AATTTTAAAA-AAT
1 AATTTTAAAATAAT
5763110 AATTTTAAAATAATGTTT
1 AATTTTAAAATAA----T
5763128 AAAATTTTAAAA-AAT
1 --AATTTTAAAATAAT
5763143 AATTTTAAAATAAT
1 AATTTTAAAATAAT
5763157 -A-TTTAAAAT
1 AATTTTAAAAT
5763166 TTTAAAAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 17
0.74 0.00 0.26
Matches are distributed among these distances:
12 8 0.17
13 21 0.44
14 5 0.10
15 1 0.02
18 1 0.02
19 2 0.04
20 10 0.21
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (14 bp):
AATTTTAAAATAAT
Found at i:5763173 original size:21 final size:21
Alignment explanation
Indices: 5762972--5763214 Score: 75
Period size: 23 Copynumber: 10.8 Consensus size: 21
5762962 TTAAAAATTT
*
5762972 TAATGTTTAAATATTATTAAAAA
1 TAATATTTAAA-ATT-TTAAAAA
* *
5762995 -ATATATTTAATATTTAAAAAA
1 TA-ATATTTAAAATTTTAAAAA
*
5763016 TAATATTTAAAATTTAGAAAAA
1 TAATATTTAAAATTT-TAAAAA
* *
5763038 TTAAT-TTCAAAAATACATTTTTAAAA
1 -TAATATT---TAA-A-ATTTTAAAAA
* * *
5763064 T-TTATAATAAATAATTTAAAAA
1 TAATAT-TTAAA-ATTTTAAAAA
5763086 TATATATTTAAAATTTTAAAAAA
1 TA-ATATTTAAAATTTT-AAAAA
*
5763109 TAAT-TTTAAAATAATGTTTAAAA
1 TAATATTTAAAAT--T-TTAAAAA
** ***
5763132 TTTTAAAAAATAATTTT-AAAA
1 TAATATTTAA-AATTTTAAAAA
5763153 TAATATTTAAAATTTTAAAAAA
1 TAATATTTAAAATTTT-AAAAA
*
5763175 TATATATTATAAAACATTTTAAATA
1 TA-ATATT-T-AAA-ATTTTAAAAA
* *
5763200 T-ACATTTCAAATTTT
1 TAATATTTAAAATTTT
5763215 TTAAAATTAA
Statistics
Matches: 164, Mismatches: 31, Indels: 53
0.66 0.12 0.21
Matches are distributed among these distances:
20 11 0.07
21 37 0.23
22 37 0.23
23 41 0.25
24 9 0.05
25 15 0.09
26 10 0.06
27 4 0.02
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (21 bp):
TAATATTTAAAATTTTAAAAA
Found at i:5763221 original size:23 final size:23
Alignment explanation
Indices: 5763082--5763221 Score: 87
Period size: 23 Copynumber: 6.2 Consensus size: 23
5763072 AAATAATTTA
**
5763082 AAAATATATATTTAAAATTTTAA
1 AAAATATATATTTAAAATTTTTT
*
5763105 AAAATA-AT-TTTAAAATAATGTTT
1 AAAATATATATTTAAAAT--TTTTT
** *
5763128 AAAAT-T-T-TAAAAAATAATTTT
1 AAAATATATATTTAAAAT-TTTTT
**
5763149 AAAATA-ATATTTAAAATTTTAA
1 AAAATATATATTTAAAATTTTTT
**
5763171 AAAATATATATTATAAAACATTTT
1 AAAATATATATT-TAAAATTTTTT
* *
5763195 -AAATATACATTTCAAATTTTTT
1 AAAATATATATTTAAAATTTTTT
5763217 AAAAT
1 AAAAT
5763222 TAATAACAAA
Statistics
Matches: 88, Mismatches: 20, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
21 17 0.19
22 26 0.30
23 38 0.43
24 7 0.08
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (23 bp):
AAAATATATATTTAAAATTTTTT
Found at i:5763245 original size:9 final size:9
Alignment explanation
Indices: 5763231--5763264 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
5763221 TTAATAACAA
5763231 AAAATAAAT
1 AAAATAAAT
5763240 AAAATAAAT
1 AAAATAAAT
5763249 AAACA-AAAT
1 AAA-ATAAAT
5763258 AAAATAA
1 AAAATAA
5763265 GAAAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:5763248 original size:13 final size:13
Alignment explanation
Indices: 5763218--5763260 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
5763208 AAATTTTTTA
* *
5763218 AAATTAATAACAAA
1 AAATAAATAA-AAT
5763232 AAATAAATAAAAT
1 AAATAAATAAAAT
*
5763245 AAATAAACAAAAT
1 AAATAAATAAAAT
5763258 AAA
1 AAA
5763261 ATAAGAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:5763262 original size:23 final size:24
Alignment explanation
Indices: 5763216--5763273 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
5763206 TCAAATTTTT
*
5763216 TAAAATTAAT-AACAAAAAATAAA
1 TAAAATAAATAAACAAAAAATAAA
*
5763239 TAAAATAAATAAACAAAATA-AAA
1 TAAAATAAATAAACAAAAAATAAA
*
5763262 TAAGAAAAAATA
1 TAA-AATAAATA
5763274 TAAAACTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.50
24 15 0.50
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (24 bp):
TAAAATAAATAAACAAAAAATAAA
Found at i:5767489 original size:2 final size:2
Alignment explanation
Indices: 5767482--5767511 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5767472 CTAATAGTGC
5767482 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5767512 AATTAAAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5767802 original size:20 final size:20
Alignment explanation
Indices: 5767766--5767804 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
5767756 TAATACTATT
*
5767766 TATAAAAATATATATATACG
1 TATAAAAATATACATATACG
5767786 TATAATAAA-ATACATATAC
1 TATAA-AAATATACATATAC
5767805 TAATATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (20 bp):
TATAAAAATATACATATACG
Found at i:5768402 original size:25 final size:25
Alignment explanation
Indices: 5768357--5768416 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
5768347 TAATAATAAG
* *
5768357 AATAATA-TAAATAATAGTAAATAT
1 AATAATATTAAATAACAGTAAAAAT
* *
5768381 AATAATATTAAGTAACATTAAAAAT
1 AATAATATTAAATAACAGTAAAAAT
5768406 AATTAAT-TTAA
1 AA-TAATATTAA
5768417 TAATAAAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 7 0.23
25 19 0.63
26 4 0.13
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (25 bp):
AATAATATTAAATAACAGTAAAAAT
Found at i:5769425 original size:12 final size:13
Alignment explanation
Indices: 5769398--5769423 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5769388 GGTGGTGGCA
5769398 GAGGCAAGTGGGG
1 GAGGCAAGTGGGG
5769411 GAGGCAAGTGGGG
1 GAGGCAAGTGGGG
5769424 AGCTAGGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.62, T:0.08
Consensus pattern (13 bp):
GAGGCAAGTGGGG
Found at i:5770360 original size:14 final size:14
Alignment explanation
Indices: 5770341--5770375 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
5770331 GTTGATTTTT
5770341 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
5770355 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
5770369 TTGAAAA
1 TTGAAAA
5770376 TTCCTCAGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:5770547 original size:77 final size:77
Alignment explanation
Indices: 5770355--5770889 Score: 278
Period size: 73 Copynumber: 6.9 Consensus size: 77
5770345 AAAGCAGAAA
* * * *
5770355 TTGA-AAAGCAGAAATTGAAAATTCCTCAGCGTGCCATGAGGCTCAACTCATCTTTCGCAATATG
1 TTGACAAA-CAGAAATTGAAAATACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATG
*
5770419 AGTT-A---ATTT
65 AGTTGATTTTTTT
* * * *
5770428 TTGACAAACAGAAGTTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAACATGA
1 TTGACAAACAGAAATTGAAAATACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATGA
5770493 GTTGATTTTTTT
66 GTTGATTTTTTT
* * * *
5770505 TTGA-AAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTAGCAATATG
1 TTGACAA-ACAGAAATTGAAAATACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATG
*
5770569 AATTGA----TTT
65 AGTTGATTTTTTT
* * ** *** * * * * *
5770578 TTGAAAAACATAAATTGAAAA-A-CAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTC
1 TTGACAAACAGAAATTGAAAATACCTCAGCGTG----T-CAT--GAG-G--CTCA-ACTCACCTC
* * * **
5770641 AC-C--TCTCGCAATATGAGTTGATTT
55 TCGCAATAT-G-AGT-TGA-TTTTTTT
* * *
5770665 TTGACAAATAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGACAAACAGAAATTGAAAATACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATGA
5770730 GTTGA--TTTTT
66 GTTGATTTTTTT
* * * * * *
5770740 TTGAAAAACAGGAATTAAAAATA-CTACAGCGTGACCTGAGGCTCAACTCACCTCTCACAATATG
1 TTGACAAACAGAAATTGAAAATACCT-CAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATG
5770804 AGTTGATTGATTTTTTTT
65 A---G-TTGA-TTTTTTT
*** * ** * * ** *
5770822 TTGAGTGACAGAAATAGAAAATACCTCAATGTATCTTGAGGCTCAACTCATTTCTTGCAATATGA
1 TTGACAAACAGAAATTGAAAATACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATGA
5770887 GTT
66 GTT
5770890 TAATTTTGAA
Statistics
Matches: 353, Mismatches: 69, Indels: 75
0.71 0.14 0.15
Matches are distributed among these distances:
71 5 0.01
72 1 0.00
73 75 0.21
74 8 0.02
75 61 0.17
76 4 0.01
77 62 0.18
78 16 0.05
79 14 0.04
80 2 0.01
81 10 0.03
82 64 0.18
83 2 0.01
84 3 0.01
87 21 0.06
88 1 0.00
89 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (77 bp):
TTGACAAACAGAAATTGAAAATACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTT
Found at i:5770597 original size:14 final size:14
Alignment explanation
Indices: 5770578--5770612 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
5770568 GAATTGATTT
*
5770578 TTGAAAAACATAAA
1 TTGAAAAACAGAAA
*
5770592 TTGAAAAACAGAAT
1 TTGAAAAACAGAAA
5770606 TTGAAAA
1 TTGAAAA
5770613 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.06, G:0.11, T:0.23
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:5770652 original size:87 final size:87
Alignment explanation
Indices: 5770505--5770685 Score: 272
Period size: 87 Copynumber: 2.1 Consensus size: 87
5770495 TGATTTTTTT
* * *
5770505 TTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTAGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGA
*
5770570 ATTGATTTTTGAAAAACATAAA
66 ATTGATTTTTGAAAAACAGAAA
* * *
5770592 TTGAAAAACAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGA
* * *
5770657 GTTGATTTTTGACAAATAGAAA
66 ATTGATTTTTGAAAAACAGAAA
5770679 TTGAAAA
1 TTGAAAA
5770686 TACCTCAGCG
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (87 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGA
ATTGATTTTTGAAAAACAGAAA
Found at i:5770652 original size:237 final size:235
Alignment explanation
Indices: 5770200--5770811 Score: 779
Period size: 237 Copynumber: 2.6 Consensus size: 235
5770190 AAAGTAGATT
* * *
5770200 TTGAAAATACCTC-GCCATGTGACCCGAGGCTCAACTCACTTCTCACAATATGAGTTGATTTTTT
1 TTGAAAATACCTCAG-C--GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
* * * * * *
5770264 TTTTGAAAAAAAAAACTG-AAATACCTCAGTATGTGAGCTGGGGCTCAACTCACCTTTCGCAATA
62 TTTTGAAAAAAGAAATTGAAAATACCTCA--ACGTGA-CTGAGGCTCAACTCACCTCTAGCAATA
* * *
5770328 TGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTGAAAATTCCTCAGCGTGCCATG
124 TGAGTTGA--TTTTTGAAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCATG
* * *
5770393 AGGCTCAACTCATCTTTCGCAATATGAGTTAATTTTTGACAAACAGAAG
187 AGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAA
* * *
5770442 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTTTTT
1 TTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT
* * *
5770507 GAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTAGCAATATGAAT
66 GAAA-AAAGAAATTGAAAATACCTCAACGTGAC-TGAGGCTCAACTCACCTCTAGCAATATGAGT
* *
5770572 TGATTTTTGAAAAACATAAATTGAAAAACAGAATTTGAAAATACCTCAGCGTGTCC-TGAGGCTC
129 TGATTTTTGAAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTG-CCATGAGGCTC
* *
5770636 AACTCACCTCTCGCAATATGAGTTGATTTTTGACAAATAGAAA
193 AACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAA
5770679 TTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTT
1 TTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT
* * *
5770742 GAAAAACAGGAATTAAAAATA-CTACAGCGTGACCTGAGGCTCAACTCACCTCTCA-CAATATGA
66 GAAAAA-AGAAATTGAAAATACCT-CAACGTGA-CTGAGGCTCAACTCACCTCT-AGCAATATGA
5770805 GTTGATT
127 GTTGATT
5770812 GATTTTTTTT
Statistics
Matches: 327, Mismatches: 34, Indels: 25
0.85 0.09 0.06
Matches are distributed among these distances:
234 3 0.01
235 62 0.19
236 2 0.01
237 144 0.44
238 3 0.01
239 47 0.14
240 42 0.13
241 10 0.03
242 13 0.04
243 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (235 bp):
TTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT
GAAAAAAGAAATTGAAAATACCTCAACGTGACTGAGGCTCAACTCACCTCTAGCAATATGAGTTG
ATTTTTGAAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCATGAGGCTCAAC
TCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAA
Found at i:5770725 original size:73 final size:73
Alignment explanation
Indices: 5770592--5770811 Score: 343
Period size: 73 Copynumber: 3.0 Consensus size: 73
5770582 AAAACATAAA
* *
5770592 TTGAAAAACAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
5770657 GTTGATTT
66 GTTGATTT
* *
5770665 TTGACAAATAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
5770730 GTTGATTTTT
66 GTTGA--TTT
* * *
5770740 TTGAAAAACAGGAATTAAAAATA-CTACAGCGTGACCTGAGGCTCAACTCACCTCTCACAATATG
1 TTGAAAAACAGAAATTGAAAATACCT-CAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
5770804 AGTTGATT
65 AGTTGATT
5770812 GATTTTTTTT
Statistics
Matches: 135, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
73 68 0.50
74 2 0.01
75 65 0.48
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (73 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:5770785 original size:75 final size:75
Alignment explanation
Indices: 5770592--5770811 Score: 340
Period size: 75 Copynumber: 3.0 Consensus size: 75
5770582 AAAACATAAA
*
5770592 TTGAAAAACA-GAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGGAA-TTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
5770656 AGTTGA--TTT
65 AGTTGATTTTT
* * *
5770665 TTGACAAATAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGGAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
5770730 GTTGATTTTT
66 GTTGATTTTT
* *
5770740 TTGAAAAACAGGAATTAAAAATA-CTACAGCGTGACCTGAGGCTCAACTCACCTCTCACAATATG
1 TTGAAAAACAGGAATTGAAAATACCT-CAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
5770804 AGTTGATT
65 AGTTGATT
5770812 GATTTTTTTT
Statistics
Matches: 134, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
73 63 0.47
74 4 0.03
75 67 0.50
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (75 bp):
TTGAAAAACAGGAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:5779408 original size:32 final size:32
Alignment explanation
Indices: 5779372--5779436 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
5779362 TGTATGCATT
5779372 TTAGCATTTTAATAGTTAATGAATGATGGGCA
1 TTAGCATTTTAATAGTTAATGAATGATGGGCA
*
5779404 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGAATGATGGGCA
5779436 T
1 T
5779437 GATAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGAATGATGGGCA
Found at i:5786276 original size:20 final size:20
Alignment explanation
Indices: 5786240--5786278 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
5786230 TAATACTATT
*
5786240 TATAAAAATATATATATACG
1 TATAAAAATATACATATACG
5786260 TATAATAAA-ATACATATAC
1 TATAA-AAATATACATATAC
5786279 TAATATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (20 bp):
TATAAAAATATACATATACG
Found at i:5786360 original size:2 final size:2
Alignment explanation
Indices: 5786353--5786385 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
5786343 TATTAAAAAG
*
5786353 AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5786386 ATAGTATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5786895 original size:25 final size:25
Alignment explanation
Indices: 5786850--5786909 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
5786840 TAATAATAAG
* *
5786850 AATAATA-TAAATAATAGTAAATAT
1 AATAATATTAAATAACAGTAAAAAT
* *
5786874 AATAATATTAAGTAACATTAAAAAT
1 AATAATATTAAATAACAGTAAAAAT
5786899 AATTAAT-TTAA
1 AA-TAATATTAA
5786910 TAATAAAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 7 0.23
25 19 0.63
26 4 0.13
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (25 bp):
AATAATATTAAATAACAGTAAAAAT
Found at i:5790265 original size:2 final size:2
Alignment explanation
Indices: 5790258--5790282 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5790248 AATAAATTCT
5790258 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
5790283 TTAAAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5791139 original size:17 final size:17
Alignment explanation
Indices: 5791093--5791136 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
5791083 TGACCCCAGA
*
5791093 CCCAAACCTAACAGAAG
1 CCCAAACCCAACAGAAG
5791110 CCCAAACCCAACAGAAG
1 CCCAAACCCAACAGAAG
5791127 CCC-AACCCAA
1 CCCAAACCCAA
5791137 ACACAAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 7 0.27
17 19 0.73
ACGTcount: A:0.45, C:0.43, G:0.09, T:0.02
Consensus pattern (17 bp):
CCCAAACCCAACAGAAG
Found at i:5792578 original size:2 final size:2
Alignment explanation
Indices: 5792571--5792596 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5792561 ATGTGTATGA
5792571 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
5792597 GTAATATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5796403 original size:13 final size:13
Alignment explanation
Indices: 5796365--5796413 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
5796355 TCTTCACTCC
*
5796365 AACCACCCCATTA
1 AACCACCCCACTA
* * *
5796378 AACCGCTCTACTA
1 AACCACCCCACTA
5796391 AACCACCCCACTA
1 AACCACCCCACTA
*
5796404 AACCATCCCA
1 AACCACCCCA
5796414 ACCACTCCAC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.37, C:0.47, G:0.02, T:0.14
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:5797192 original size:17 final size:19
Alignment explanation
Indices: 5797172--5797211 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
5797162 TGTTAGACTC
*
5797172 ATTTATC-TTACT-TTCGT
1 ATTTATCGTTACTATTCAT
5797189 ATTTATCGTTACTATTCAT
1 ATTTATCGTTACTATTCAT
5797208 ATTT
1 ATTT
5797212 GTGTTTATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 5 0.25
19 8 0.40
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (19 bp):
ATTTATCGTTACTATTCAT
Found at i:5806558 original size:206 final size:206
Alignment explanation
Indices: 5806200--5807076 Score: 1533
Period size: 206 Copynumber: 4.3 Consensus size: 206
5806190 TATCTGGCTA
* * *
5806200 AAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCAAAAACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
* *
5806264 TTGGCTTTCACGTGCTTACACTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
* * *
5806329 ACAAGTCGAAGTCTGACATCTCCATTTCGACGGAGAGCAGATACATAGTAGATCTGGCCTTCAAA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
5806394 TGTTTATACTG
196 TGTTTATACTG
* *
5806405 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAAGAGCAGATCGAAGACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
* * *
5806470 TTGGCTTTTGCGTGCTTACGCTAAAGCAAGTCTAAGATTATTTGGCAACTCTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
5806535 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
5806600 TGTTTATACTG
196 TGTTTATACTG
5806611 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
5806676 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
*
5806741 ACAAGTCGAAGTCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
5806806 TGTTTATACTG
196 TGTTTATACTG
* *
5806817 AAGCAAGATCCAAGATGATTTGGAATCCTTGTGCTTACAAGGAGCAAATCGAAGATATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
* *
5806882 TTAGCTTTAGCGTGCTTACGCTAAAGCAAGTC-AAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
* *
5806946 ACAAGTCGAAGTCTGGCATTTCCATTTCGACGGAGAGTAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
*
5807011 TGTTTATACCG
196 TGTTTATACTG
* *
5807022 AAGCAAGATCCAAGATGATTTGGCATCCTTATGCTTACAAGGAACAAATCGAAGA
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGA
5807077 AGTAGATTTG
Statistics
Matches: 641, Mismatches: 30, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
205 160 0.25
206 481 0.75
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (206 bp):
AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
TGTTTATACTG
Found at i:5807260 original size:45 final size:45
Alignment explanation
Indices: 5807164--5807260 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 45
5807154 AGATTGACGA
* * * *
5807164 AGCAAATTTGGCTTCTCTGTATTAGAAGGGGAGCAGATCGAAGAT
1 AGCAGATTTGGCGTCTCTATATTAGAAGGGGAGCAGATCAAAGAT
*
5807209 -GACAGATTTGGCGTCTCTATATTAGACGGGGAGCAGATCAAAGAT
1 AG-CAGATTTGGCGTCTCTATATTAGAAGGGGAGCAGATCAAAGAT
5807254 AGCAGAT
1 AGCAGAT
5807261 ATCGCTTTCC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
44 1 0.02
45 43 0.96
46 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (45 bp):
AGCAGATTTGGCGTCTCTATATTAGAAGGGGAGCAGATCAAAGAT
Found at i:5807496 original size:17 final size:17
Alignment explanation
Indices: 5807450--5807490 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
5807440 GCCTGGGTTA
*
5807450 AAAACCCAAC-AGC-CC
1 AAAACCCAACAACCTCC
5807465 AAAACCCAACAACCTCC
1 AAAACCCAACAACCTCC
*
5807482 AAAGCCCAA
1 AAAACCCAA
5807491 TCACCTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 10 0.45
16 2 0.09
17 10 0.45
ACGTcount: A:0.49, C:0.44, G:0.05, T:0.02
Consensus pattern (17 bp):
AAAACCCAACAACCTCC
Found at i:5807596 original size:13 final size:13
Alignment explanation
Indices: 5807578--5807656 Score: 68
Period size: 13 Copynumber: 6.8 Consensus size: 13
5807568 AAACCACTCC
5807578 AACCACCCCACTA
1 AACCACCCCACTA
*
5807591 AACCA-CTC-C--
1 AACCACCCCACTA
5807600 AACCACCCCACTA
1 AACCACCCCACTA
5807613 AACCA--CC-C--
1 AACCACCCCACTA
*
5807621 AACCACCCTACTA
1 AACCACCCCACTA
5807634 AACCACCCCACTA
1 AACCACCCCACTA
*
5807647 AACCATCCCA
1 AACCACCCCA
5807657 ACCACTCCAC
Statistics
Matches: 52, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 5 0.10
9 5 0.10
10 4 0.08
11 5 0.10
12 2 0.04
13 31 0.60
ACGTcount: A:0.38, C:0.53, G:0.00, T:0.09
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:5807623 original size:43 final size:43
Alignment explanation
Indices: 5807551--5807639 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
5807541 CAAATATCTT
*
5807551 CACTCTAACCACCCACTAAACCACTCCAACCACCCCACTAAAC
1 CACTCCAACCACCCACTAAACCACTCCAACCACCCCACTAAAC
*
5807594 CACTCCAACCACCCCACTAAACCAC-CCAACCACCCTACTAAAC
1 CACTCCAACCA-CCCACTAAACCACTCCAACCACCCCACTAAAC
5807637 CAC
1 CAC
5807640 CCCACTAAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 30 0.70
44 13 0.30
ACGTcount: A:0.37, C:0.53, G:0.00, T:0.10
Consensus pattern (43 bp):
CACTCCAACCACCCACTAAACCACTCCAACCACCCCACTAAAC
Found at i:5807641 original size:21 final size:22
Alignment explanation
Indices: 5807551--5807639 Score: 146
Period size: 22 Copynumber: 4.1 Consensus size: 22
5807541 CAAATATCTT
*
5807551 CACTCTAACCA-CCCACTAAAC
1 CACTCCAACCACCCCACTAAAC
5807572 CACTCCAACCACCCCACTAAAC
1 CACTCCAACCACCCCACTAAAC
5807594 CACTCCAACCACCCCACTAAAC
1 CACTCCAACCACCCCACTAAAC
*
5807616 CAC-CCAACCACCCTACTAAAC
1 CACTCCAACCACCCCACTAAAC
5807637 CAC
1 CAC
5807640 CCCACTAAAC
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
21 30 0.46
22 35 0.54
ACGTcount: A:0.37, C:0.53, G:0.00, T:0.10
Consensus pattern (22 bp):
CACTCCAACCACCCCACTAAAC
Found at i:5808117 original size:19 final size:18
Alignment explanation
Indices: 5808080--5808121 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
5808070 GGAGAGTGTG
*
5808080 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
5808098 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
5808117 TTATT
1 TTATT
5808122 ACTAATACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:5808180 original size:33 final size:39
Alignment explanation
Indices: 5808106--5808187 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 39
5808096 TATTATTTTC
*
5808106 TATTATTATTATTATTACTAATACCACTATTATCATCAT
1 TATTACTATTATTATTACTAATACCACTATTATCATCAT
*
5808145 TATTACTATTA-TATTA-TAATA-C-CT-TT-TCATTAT
1 TATTACTATTATTATTACTAATACCACTATTATCATCAT
5808178 TATTACTATT
1 TATTACTATT
5808188 GTGTTTTTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 16 0.39
34 2 0.05
35 2 0.05
36 1 0.02
37 5 0.12
38 5 0.12
39 10 0.24
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.52
Consensus pattern (39 bp):
TATTACTATTATTATTACTAATACCACTATTATCATCAT
Found at i:5808291 original size:17 final size:17
Alignment explanation
Indices: 5808266--5808303 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
5808256 AATTTAATAA
5808266 ATATATATTTT-TTTAGC
1 ATATATATTTTATTTA-C
*
5808283 ATATTTATTTTATTTAC
1 ATATATATTTTATTTAC
5808300 ATAT
1 ATAT
5808304 CATTACTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (17 bp):
ATATATATTTTATTTAC
Found at i:5810770 original size:13 final size:13
Alignment explanation
Indices: 5810752--5810776 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5810742 ACTAATCATA
5810752 ATTTTAGTAAAAT
1 ATTTTAGTAAAAT
5810765 ATTTTAGTAAAA
1 ATTTTAGTAAAA
5810777 ATCATTTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTTTAGTAAAAT
Found at i:5811986 original size:16 final size:15
Alignment explanation
Indices: 5811963--5811996 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
5811953 TAAAGGTGAT
*
5811963 TTTATCTTCTTTTTA
1 TTTATCTTATTTTTA
5811978 TTTACTCTTATTTTTA
1 TTTA-TCTTATTTTTA
5811994 TTT
1 TTT
5811997 TTTTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATCTTATTTTTA
Found at i:5812004 original size:11 final size:11
Alignment explanation
Indices: 5811988--5812012 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5811978 TTTACTCTTA
5811988 TTTTTATTTTT
1 TTTTTATTTTT
5811999 TTTTTATTTTT
1 TTTTTATTTTT
5812010 TTT
1 TTT
5812013 CCTTTTTTCG
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:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:5812069 original size:12 final size:12
Alignment explanation
Indices: 5812052--5812095 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
5812042 ATACATCATA
5812052 ATAAAAAAATAT
1 ATAAAAAAATAT
*
5812064 ATAAAAATATAT
1 ATAAAAAAATAT
5812076 ATACAAAACAA-AT
1 ATA-AAAA-AATAT
5812089 ATAAAAA
1 ATAAAAA
5812096 TTACATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 18 0.64
13 9 0.32
14 1 0.04
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (12 bp):
ATAAAAAAATAT
Found at i:5812389 original size:135 final size:137
Alignment explanation
Indices: 5812139--5812410 Score: 471
Period size: 135 Copynumber: 2.0 Consensus size: 137
5812129 CGCGGCGTCG
5812139 GCGACCGACGATCGACCGGTGATCGGCCCCCTTGGCCGGATTTCCTTTCCCCCCTCCCTTCACTC
1 GCGACCGACGATCGACCGGTGATCGGCCCCCTTGGCCGGATTTCCTTTCCCCCCTCCC-TCACTC
5812204 TTCTTTCCCCCTTCTTTTTTTAGGTATTTTATATATATTATGTATATATTTTTTAATGCCATTAG
65 TTCTTTCCCCCTTCTTTTTTTAGGTATTTTATATATATTATGTATATATTTTTTAATGCCATTAG
5812269 TTATATAC
130 TTATATAC
*
5812277 GCGACCGACGATCGACCGGTGA-CGGCCCCCCTTGGCCGGATTTCCTTT-CCCCCTCCC-CTCTC
1 GCGACCGACGATCGACCGGTGATCGG-CCCCCTTGGCCGGATTTCCTTTCCCCCCTCCCTCACTC
*
5812339 TTCTTTCCCTTCTT-TTTTTTTAGGTATTTTATATATATTATGTATATATTTTTTAATGCCATTA
65 TTCTTTCCC-CCTTCTTTTTTTAGGTATTTTATATATATTATGTATATATTTTTTAATGCCATTA
5812403 GTTATATA
129 GTTATATA
5812411 TTTCTTATGT
Statistics
Matches: 130, Mismatches: 2, Indels: 7
0.94 0.01 0.05
Matches are distributed among these distances:
135 71 0.55
136 3 0.02
137 12 0.09
138 44 0.34
ACGTcount: A:0.17, C:0.28, G:0.14, T:0.41
Consensus pattern (137 bp):
GCGACCGACGATCGACCGGTGATCGGCCCCCTTGGCCGGATTTCCTTTCCCCCCTCCCTCACTCT
TCTTTCCCCCTTCTTTTTTTAGGTATTTTATATATATTATGTATATATTTTTTAATGCCATTAGT
TATATAC
Found at i:5814420 original size:12 final size:12
Alignment explanation
Indices: 5814400--5814435 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
5814390 ATTCATTTAA
5814400 CATTCATGCATT
1 CATTCATGCATT
*
5814412 CATTTATGCATT
1 CATTCATGCATT
*
5814424 CATTCATTCATT
1 CATTCATGCATT
5814436 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:5821277 original size:69 final size:70
Alignment explanation
Indices: 5821103--5821277 Score: 235
Period size: 71 Copynumber: 2.5 Consensus size: 70
5821093 TTTTCAAGGG
* * *
5821103 AAATCAACTCATATTGCGAGAGATGAGTTAAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
5821168 TTTTCA
66 TTTT-A
* * ** * *
5821174 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTATG
1 AAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
5821239 TTTT-
66 TTTTA
**
5821243 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
5821278 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
69 31 0.34
71 60 0.66
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (70 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
TTTTA
Found at i:5821402 original size:72 final size:71
Alignment explanation
Indices: 5821277--5821442 Score: 235
Period size: 72 Copynumber: 2.3 Consensus size: 71
5821267 GAGTTAAGCC
** * *
5821277 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTAAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCACGC
5821341 TGAGGTA
65 TGAGGTA
* *
5821348 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCACGC
5821413 TGAGGTA
65 TGAGGTA
* *
5821420 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
5821443 ACGTTGTTCA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
71 12 0.14
72 69 0.81
73 4 0.05
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCACGCT
GAGGTA
Found at i:5821539 original size:140 final size:140
Alignment explanation
Indices: 5821375--5821721 Score: 604
Period size: 140 Copynumber: 2.5 Consensus size: 140
5821365 TTAATTTCAA
*
5821375 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTAATTTCTGTTTTCAA
* *
5821440 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTTTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCAAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
5821505 TCAAAATCAG
131 TCAAAATCAG
*
5821515 TTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTAATTTCTGTTTTCAA
5821580 TTTACGTTGTTCAAGAATCAACTCATATTGCAAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCAAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
5821645 TCAAAATCAG
131 TCAAAATCAG
* * * * * *
5821655 CTCATATTGCGAGAGGCGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTATGTTTTAAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTAATTTCTGTTTTCAA
5821720 TT
66 TT
5821722 GACTCATATT
Statistics
Matches: 196, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 196 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCAAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:5821820 original size:122 final size:123
Alignment explanation
Indices: 5821600--5821825 Score: 330
Period size: 122 Copynumber: 1.8 Consensus size: 123
5821590 TCAAGAATCA
* *
5821600 ACTCATATTGCAAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGC
1 ACTCATATTGCAAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGC
** * *
5821665 GAGAGGCGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTATGTTTTAAATTG
66 GAGAGGCGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAGTTTATGTTTTAAATTG
* *
5821723 ACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTTTTA-TTTTTCAAAATCAACTCATATTG
1 ACTCATATTGCAAGAGGTGAGTTGAA-CCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTG
* * *
5821786 CTAGAGGTGAGTTGAGGCTCAAGACACGCCGAGGTATTTT
65 CGAGAGGCGAGTTGAGCCTCAAGACACGCCGAGGTATTTT
5821826 CAATTTCCGT
Statistics
Matches: 91, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
122 57 0.63
123 34 0.37
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (123 bp):
ACTCATATTGCAAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGC
GAGAGGCGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAGTTTATGTTTTAAATTG
Found at i:5821838 original size:122 final size:123
Alignment explanation
Indices: 5821573--5821838 Score: 320
Period size: 122 Copynumber: 2.1 Consensus size: 123
5821563 TTAATTTCTG
** *
5821573 TTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCAAGAGGTGGGTTGAACCTTTTAATTTC
1 TTTTCAATTTACGTT-TT--A-AATTGACTCATATTGCAAGAGGTGAGTTGAACCTTTTAATTTC
* ** * *
5821638 TACTTTTTCAAAATCAGCTCATATTGCGAGAGGCGAGTTGAGCCTCGGGGCACGCTGAGGTA
62 TACTTTTTCAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAAGACACGCCGAGGTA
* * * * *
5821700 TTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTTTTA-
1 TTTTCAATTTACGTTTTAAATTGACTCATATTGCAAGAGGTGAGTTGAA-CCTTTTAATTTCTAC
* * *
5821763 TTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGGCTCAAGACACGCCGAGGTA
65 TTTTTCAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAAGACACGCCGAGGTA
*
5821822 TTTTCAATTTCCGTTTT
1 TTTTCAATTTACGTTTT
5821839 TCAATTTCTG
Statistics
Matches: 118, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
122 66 0.56
123 37 0.31
124 1 0.01
126 2 0.02
127 12 0.10
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.38
Consensus pattern (123 bp):
TTTTCAATTTACGTTTTAAATTGACTCATATTGCAAGAGGTGAGTTGAACCTTTTAATTTCTACT
TTTTCAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAAGACACGCCGAGGTA
Found at i:5821963 original size:74 final size:75
Alignment explanation
Indices: 5821857--5822003 Score: 215
Period size: 74 Copynumber: 2.0 Consensus size: 75
5821847 TGCCTTTCAA
* *
5821857 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
5821921 TTCTGTTGTC
66 TTCTGTTGTC
* * * * *
5821931 AAAAAAGTCAACTCGTATTGTGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCAA
5821996 TTTCTGTT
65 TTTCTGTT
5822004 TTTCAATTTC
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
74 38 0.59
76 26 0.41
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
TTCTGTTGTC
Found at i:5822008 original size:14 final size:14
Alignment explanation
Indices: 5821989--5822015 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5821979 CGCCGAGGTA
5821989 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
5822003 TTTTCAATTTCTG
1 TTTTCAATTTCTG
5822016 CCTTTCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:5822021 original size:14 final size:14
Alignment explanation
Indices: 5821990--5822023 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5821980 GCCGAGGTAT
**
5821990 TTTCAATTTCTGTT
1 TTTCAATTTCTGCC
5822004 TTTCAATTTCTGCC
1 TTTCAATTTCTGCC
5822018 TTTCAA
1 TTTCAA
5822024 AAAAAAATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.56
Consensus pattern (14 bp):
TTTCAATTTCTGCC
Found at i:5822047 original size:167 final size:168
Alignment explanation
Indices: 5821769--5822634 Score: 583
Period size: 167 Copynumber: 5.3 Consensus size: 168
5821759 TTTATTTTTC
* * * * *
5821769 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGGCTCAAG--ACACGCCGAGGTATTTTCAATTT
1 AAAACCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
*
5821832 CCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
66 CTGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-
*
5821897 AGG-ACACGCTGAGGTAATTTCAATTTCTGTTGTC-AAA
130 AGGCACACGCTGAGCTAATTTCAATTTCTGTTGTCAAAA
** * * *
5821934 AAAGTCAACTCGTATTGTGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAACCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
* *
5821999 CTGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTT
66 CTGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTA
* * *
5822064 GGCTCACGCGCTGAGCTATTTTCAATTTCTGTTTTCAAAAA
131 GG--CACACGCTGAGCTAATTTCAATTTCTGTTGTC-AAAA
* * * * *
5822105 AAAACCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGTTCACATGCTGAGGTATTTTCAATTT
1 AAAACCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
* *
5822170 CTG----TC---TT-T--C---AAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTC
66 CTGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-
* * * ** * * *
5822222 AGATCACACACTGAGGTTTTTTTTTTTTTCAATTTATATTTTTC---A
130 AG-GCACACGCTGA-G------CTAATTTCAATTTCT-GTTGTCAAAA
* * * *** * **
5822267 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGAGTCACATATCGAGGCATTTTCAAAA
1 AAAACCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG-GTCACACGCCGAGGTATTTTCAATT
* * ** *
5822331 TCTGCTTTTCAAGTTAAG--TTTC----AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT
65 TCTGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * * * *
5822390 CAAG-ACACGTTGAGGTATTTTCAATTTCTGTTTTC---A
130 -AGGCACACGCTGAGCTAATTTCAATTTCTGTTGTCAAAA
** *** * **
5822426 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTATTTTCAATTT
1 AAAACCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
** * * *
5822489 CTG-TTTTCAA-----AAC---AAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC
66 CTGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTA
* * * *
5822545 GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAA
131 GG--CACACGCTGAGCTAATTTCAATTTCTGT-TGTC---AAAA
* * * * *
5822589 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAGATCACAC
1 AAAACCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACAC
5822635 ACTGTGGTAT
Statistics
Matches: 568, Mismatches: 84, Indels: 98
0.76 0.11 0.13
Matches are distributed among these distances:
153 1 0.00
154 35 0.06
156 32 0.06
157 24 0.04
158 47 0.08
159 42 0.07
160 12 0.02
161 2 0.00
162 57 0.10
163 35 0.06
164 2 0.00
165 48 0.08
166 10 0.02
167 94 0.17
169 66 0.12
171 61 0.11
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (168 bp):
AAAACCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
CTGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTA
GGCACACGCTGAGCTAATTTCAATTTCTGTTGTCAAAA
Found at i:5822311 original size:82 final size:83
Alignment explanation
Indices: 5822184--5822389 Score: 233
Period size: 82 Copynumber: 2.4 Consensus size: 83
5822174 CTTTCAAAAA
*
5822184 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACA-CTGAGG-TTTT-TTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGATCACACATC-GAGGATTTTATCT
** * *
5822245 TTTTTTCAATTTATATTTTTC
65 GCTTTTCAAGTTA-A-GTTTC
* *
5822266 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAG-TCACATATCGAGGCATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGATCACACATCGAGG-ATTTT----
5822330 ATCTGCTTTTCAAGTTAAGTTTC
61 ATCTGCTTTTCAAGTTAAGTTTC
*
5822353 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
5822390 CAAGACACGT
Statistics
Matches: 107, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
82 44 0.41
83 6 0.06
84 4 0.04
87 40 0.37
88 1 0.01
89 12 0.11
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (83 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGATCACACATCGAGGATTTTATCTG
CTTTTCAAGTTAAGTTTC
Found at i:5822434 original size:72 final size:72
Alignment explanation
Indices: 5822349--5822500 Score: 270
Period size: 72 Copynumber: 2.1 Consensus size: 72
5822339 TCAAGTTAAG
*
5822349 TTTCAAAAATCAACTCATATTGCGA-AAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTCAAAAATCAACTCATATTGCGAGAA-ATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
5822413 ATTTCTGT
65 ATTTCTGT
*
5822421 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
5822486 TTTCTGT
66 TTTCTGT
5822493 TTTCAAAA
1 TTTCAAAA
5822501 CAAAAAAAAA
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
72 75 0.97
73 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (72 bp):
TTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
TTTCTGT
Found at i:5822455 original size:159 final size:154
Alignment explanation
Indices: 5822022--5822586 Score: 451
Period size: 162 Copynumber: 3.5 Consensus size: 154
5822012 TCTGCCTTTC
* * ** * *
5822022 AAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTC
1 AAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAG-T-ACACGCTGAGGTATTTTC
* * ** *
5822087 AATTTCTGTTTTCAAAAAAAAACCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-AGTTCACAT
64 AATTTCTGTTTTC----AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACACAT
* **
5822151 GCTGAGGTATTTTCAATTTCTGTCTTT-----CA
124 --TGAGGCATTTTCAAAATCTGT-TTTCAAAACA
* * *
5822180 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTTTTTTT
1 AAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAG-T-ACACGCTGAGG-------
* * * ** ** *
5822245 TTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCA
57 TATTTTCAATTTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
***
5822310 CATATCGAGGCATTTTCAAAATCTGCTTTTCAAGTTA
121 CAT-T-GAGGCATTTTCAAAATCTG-TTTTCAAAACA
*** *
5822347 AGTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAAG-ACACGTTGAGGTATTTT
1 A--AAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTC-AGTACACGCTGAGGTATTTT
* *
5822411 CAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
63 CAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAG
* **
5822476 GTATTTTCAATTTCTGTTTTCAAAACA
128 GCATTTTCAAAATCTGTTTTCAAAACA
* * * *
5822503 AAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTC
1 AAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAG-T-ACACGCTGAGGTATTTTC
5822568 AATTTCTGTCTTTCAAAAA
64 AATTTCTGT-TTTCAAAAA
5822587 AAAAAATCAA
Statistics
Matches: 333, Mismatches: 51, Indels: 47
0.77 0.12 0.11
Matches are distributed among these distances:
153 1 0.00
154 36 0.11
156 34 0.10
157 24 0.07
158 51 0.15
159 45 0.14
160 12 0.04
161 1 0.00
162 60 0.18
163 3 0.01
165 12 0.04
166 5 0.02
167 11 0.03
169 36 0.11
170 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (154 bp):
AAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGTACACGCTGAGGTATTTTCAA
TTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGCA
TTTTCAAAATCTGTTTTCAAAACA
Found at i:5822633 original size:81 final size:81
Alignment explanation
Indices: 5822425--5822647 Score: 265
Period size: 81 Copynumber: 2.7 Consensus size: 81
5822415 TTCTGTTTTC
* ** *
5822425 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA-CAC-GTTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGATCACAGCTGAGGTATTTTCAATT
5822488 TCTGTTTTCAAAACAAAAA
65 TCTGTTTTC--AACAAAAA
* * *
5822507 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA-GCTGAGGTATTTTCAATT
5822572 TCTGTCTTTC-A-AAAAA
65 TCTGT-TTTCAACAAAAA
* * * *
5822588 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA-GCTGAGGTATTTT
5822648 TTCAATTTAT
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
81 58 0.48
82 38 0.31
84 22 0.18
85 4 0.03
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (81 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACAGCTGAGGTATTTTCAATTT
CTGTTTTCAACAAAAA
Found at i:5823419 original size:10 final size:10
Alignment explanation
Indices: 5823404--5823428 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5823394 CTAACCCAAA
5823404 AAAAAAAAAG
1 AAAAAAAAAG
5823414 AAAAAAAAAG
1 AAAAAAAAAG
5823424 AAAAA
1 AAAAA
5823429 CCTAACCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:5823438 original size:35 final size:35
Alignment explanation
Indices: 5823388--5823454 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
5823378 AGCCCCCCAA
5823388 AAAAACCTAACCCAAAAAAAAAAAAGAAAAAAAAAG
1 AAAAACCTAACCC-AAAAAAAAAAAGAAAAAAAAAG
* *
5823424 AAAAACCTAA-CCAAAATAAAAAATAAAAAAA
1 AAAAACCTAACCCAAAAAAAAAAAGAAAAAAA
5823455 CCTAGCCACC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 17 0.59
35 2 0.07
36 10 0.34
ACGTcount: A:0.78, C:0.13, G:0.03, T:0.06
Consensus pattern (35 bp):
AAAAACCTAACCCAAAAAAAAAAAGAAAAAAAAAG
Found at i:5823689 original size:18 final size:17
Alignment explanation
Indices: 5823649--5823687 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
5823639 CCTAAAGGTG
*
5823649 ATTTTATCTTCTTTATT
1 ATTTTATCTTATTTATT
5823666 ATTTTACTCTTATTT-TT
1 ATTTTA-TCTTATTTATT
5823683 ATTTT
1 ATTTT
5823688 TATTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATCTTATTTATT
Found at i:5826619 original size:28 final size:28
Alignment explanation
Indices: 5826583--5826655 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
5826573 TTCCAAATTT
*
5826583 ATTTATTTTTTTAAGCTTTTAAAGGC-CAA
1 ATTT-TTTTTTTAA-CTTTTAAAGACTCAA
*** *
5826612 ATTTTTTTACCAACTTTTAAAGACTTAA
1 ATTTTTTTTTTAACTTTTAAAGACTCAA
5826640 ATTTTTTTTTTAACTT
1 ATTTTTTTTTTAACTT
5826656 GTAAGGAACC
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
27 10 0.29
28 21 0.60
29 4 0.11
ACGTcount: A:0.30, C:0.11, G:0.05, T:0.53
Consensus pattern (28 bp):
ATTTTTTTTTTAACTTTTAAAGACTCAA
Found at i:5827649 original size:24 final size:26
Alignment explanation
Indices: 5827603--5827660 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 26
5827593 TTAATAAATT
* *
5827603 AAAACATTATATTGAAAATAATGAAA
1 AAAATATTAGATTGAAAATAATGAAA
5827629 AAAATATTAGATT-AAAA-AATGAAA
1 AAAATATTAGATTGAAAATAATGAAA
*
5827653 AAGATATT
1 AAAATATT
5827661 TTCTATAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 14 0.48
25 4 0.14
26 11 0.38
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.28
Consensus pattern (26 bp):
AAAATATTAGATTGAAAATAATGAAA
Found at i:5828565 original size:17 final size:18
Alignment explanation
Indices: 5828531--5828581 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
5828521 TAGGGGTGTG
*
5828531 CAAAATTCGGGTAAAACCAA
1 CAAAATTC-GGT-TAACCAA
5828551 -AAAATTCGGTTAACCAA
1 CAAAATTCGGTTAACCAA
**
5828568 CCGAATTCGGTTAA
1 CAAAATTCGGTTAA
5828582 TCGGTCGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 6 0.22
18 14 0.52
19 7 0.26
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.22
Consensus pattern (18 bp):
CAAAATTCGGTTAACCAA
Found at i:5828870 original size:19 final size:20
Alignment explanation
Indices: 5828835--5828876 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
5828825 AATTACAAAT
5828835 AATTTAATAAATAAAAATAA
1 AATTTAATAAATAAAAATAA
*
5828855 AATTTAA-AACTAAAAATAA
1 AATTTAATAAATAAAAATAA
5828874 AAT
1 AAT
5828877 AAAAAACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AATTTAATAAATAAAAATAA
Found at i:5828882 original size:19 final size:19
Alignment explanation
Indices: 5828846--5828883 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
5828836 ATTTAATAAA
**
5828846 TAAAAATAAAATTTAAAAC
1 TAAAAATAAAATAAAAAAC
5828865 TAAAAATAAAATAAAAAAC
1 TAAAAATAAAATAAAAAAC
5828884 ATATAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (19 bp):
TAAAAATAAAATAAAAAAC
Found at i:5828915 original size:9 final size:9
Alignment explanation
Indices: 5828901--5828986 Score: 109
Period size: 9 Copynumber: 9.6 Consensus size: 9
5828891 TTTATACAAA
5828901 TAATTCGGT
1 TAATTCGGT
5828910 TAATTCGGT
1 TAATTCGGT
**
5828919 TAATTCATT
1 TAATTCGGT
* *
5828928 TAATTTGGG
1 TAATTCGGT
*
5828937 TAATTCGGG
1 TAATTCGGT
5828946 TAATTCGGT
1 TAATTCGGT
* *
5828955 TCATTCGAT
1 TAATTCGGT
5828964 TAATTCGGT
1 TAATTCGGT
5828973 TAATTCGGT
1 TAATTCGGT
5828982 TAATT
1 TAATT
5828987 TTATACTTAT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 65 1.00
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.45
Consensus pattern (9 bp):
TAATTCGGT
Found at i:5834867 original size:6 final size:6
Alignment explanation
Indices: 5834837--5834906 Score: 50
Period size: 6 Copynumber: 10.3 Consensus size: 6
5834827 ATAGGTTAAA
* *
5834837 AATTTT AAATTT AGTTTCT ATATTTT AATTTT ATTACTTTT AATTTT AAATTTT
1 AATTTT AATTTT AATTT-T A-ATTTT AATTTT A--A-TTTT AATTTT -AATTTT
5834891 AAAATTTT AATTTT AA
1 --AATTTT AATTTT AA
5834907 CCCAAATGGT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
6 26 0.49
7 11 0.21
8 11 0.21
9 5 0.09
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (6 bp):
AATTTT
Found at i:5834884 original size:21 final size:20
Alignment explanation
Indices: 5834858--5834906 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
5834848 TAGTTTCTAT
* *
5834858 ATTTTAATTTTATTACTTTTA
1 ATTTTAATTTTA-AAATTTTA
5834879 ATTTTAAATTTTAAAATTTTA
1 ATTTT-AATTTTAAAATTTTA
5834900 ATTTTAA
1 ATTTTAA
5834907 CCCAAATGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 16 0.64
22 7 0.28
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTAATTTTAAAATTTTA
Found at i:5834904 original size:14 final size:15
Alignment explanation
Indices: 5834878--5834906 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5834868 TATTACTTTT
5834878 AATTTTAAATTTTAA
1 AATTTTAAATTTTAA
5834893 AATTTT-AATTTTAA
1 AATTTTAAATTTTAA
5834907 CCCAAATGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTAAATTTTAA
Found at i:5847011 original size:136 final size:136
Alignment explanation
Indices: 5846767--5847187 Score: 781
Period size: 136 Copynumber: 3.1 Consensus size: 136
5846757 TATTGGGCCT
**
5846767 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
5846832 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
*
5846897 ATGTGC
131 ATATGC
5846903 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
5846968 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
5847033 ATATGC
131 ATATGC
*
5847039 AAGCCCATTTGGGTAACAGTGATACTGGGCCA-AGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
5847103 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
5847168 CATATGC
130 CATATGC
5847175 AAGCCCATTTGGG
1 AAGCCCATTTGGG
5847188 GAGACTACTC
Statistics
Matches: 279, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
135 93 0.33
136 186 0.67
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:5849063 original size:25 final size:26
Alignment explanation
Indices: 5848969--5849076 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
5848959 ACATGAATTC
5848969 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
5848995 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
5849021 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
5849047 TTATCATG-AACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
5849071 TTATCA
1 TTATCA
5849077 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
24 8 0.10
25 13 0.16
26 58 0.73
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:5853101 original size:136 final size:136
Alignment explanation
Indices: 5852857--5853278 Score: 781
Period size: 136 Copynumber: 3.1 Consensus size: 136
5852847 TATTGGGCCT
**
5852857 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
5852922 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
*
5852987 ATGTGC
131 ATATGC
5852993 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
5853058 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
5853123 ATATGC
131 ATATGC
* *
5853129 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
5853194 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
5853259 CATATGC
130 CATATGC
5853266 AAGCCCATTTGGG
1 AAGCCCATTTGGG
5853279 GAGACTACTC
Statistics
Matches: 279, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
136 257 0.92
137 22 0.08
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:5855098 original size:26 final size:26
Alignment explanation
Indices: 5855062--5855171 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
5855052 CATGATATTC
5855062 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
5855088 TTATTATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
5855114 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
5855140 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
5855166 TTATCA
1 TTATCA
5855172 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:5855866 original size:22 final size:24
Alignment explanation
Indices: 5855841--5855885 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
5855831 TATAGTATTG
5855841 TTATCACTATTATT-T-TTATATA
1 TTATCACTATTATTGTATTATATA
* *
5855863 TTATTATTATTATTGTATTATAT
1 TTATCACTATTATTGTATTATAT
5855886 TTAGCTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.63
23 1 0.05
24 6 0.32
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (24 bp):
TTATCACTATTATTGTATTATATA
Found at i:5855869 original size:16 final size:15
Alignment explanation
Indices: 5855848--5855909 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 15
5855838 TTGTTATCAC
5855848 TATTATTTTTATATA
1 TATTATTTTTATATA
* *
5855863 TTATTATTATTAT-TG
1 -TATTATTTTTATATA
*
5855878 TATTATATTTAGCTATA
1 TATTATTTTTA--TATA
5855895 TATATATTTTTATAT
1 TAT-TATTTTTATAT
5855910 TTCGTTTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
14 9 0.25
15 1 0.03
16 15 0.42
17 4 0.11
18 7 0.19
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTATTTTTATATA
Found at i:5855907 original size:24 final size:21
Alignment explanation
Indices: 5855848--5855911 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 21
5855838 TTGTTATCAC
*
5855848 TATTATTTTTATATATTATTAT
1 TATTATTTTTATAT-TTACTAT
5855870 TATTATTGTATTATATTTAGCTAT
1 TATTATT-T-TTATATTTA-CTAT
5855894 ATATATATTTTTATATTT
1 -TAT-TATTTTTATATTT
5855912 CGTTTCTTAC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
22 7 0.19
23 4 0.11
24 17 0.47
25 4 0.11
26 4 0.11
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (21 bp):
TATTATTTTTATATTTACTAT
Found at i:5855952 original size:12 final size:12
Alignment explanation
Indices: 5855935--5855969 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
5855925 TTTATGCATA
5855935 TATATTTATTAT
1 TATATTTATTAT
5855947 TATATTTATTAT
1 TATATTTATTAT
5855959 TA-ATATTATTA
1 TATAT-TTATTA
5855970 GCATTAGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 2 0.09
12 20 0.91
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TATATTTATTAT
Found at i:5856505 original size:52 final size:52
Alignment explanation
Indices: 5856409--5856507 Score: 128
Period size: 52 Copynumber: 1.9 Consensus size: 52
5856399 ATGTTATTTG
* * *
5856409 TTATATATTTCTTTTACTATTTCATGTATATATTTTTTAAATACCATAATAT
1 TTATATATTTCTTTTACTATCTCACGTATATATTTTATAAATACCATAATAT
* **
5856461 TTATAT-TTTTTTTGTACTATCTCACGTATATATTTTATCCATACCAT
1 TTATATATTTCTTT-TACTATCTCACGTATATATTTTATAAATACCAT
5856508 TATGAAGATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
51 6 0.15
52 34 0.85
ACGTcount: A:0.29, C:0.13, G:0.03, T:0.55
Consensus pattern (52 bp):
TTATATATTTCTTTTACTATCTCACGTATATATTTTATAAATACCATAATAT
Found at i:5856671 original size:2 final size:2
Alignment explanation
Indices: 5856664--5856698 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5856654 ATACATAGTT
5856664 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5856699 TGTTAATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5857158 original size:11 final size:11
Alignment explanation
Indices: 5857142--5857182 Score: 82
Period size: 11 Copynumber: 3.7 Consensus size: 11
5857132 TATAAGTATA
5857142 TATATATTATG
1 TATATATTATG
5857153 TATATATTATG
1 TATATATTATG
5857164 TATATATTATG
1 TATATATTATG
5857175 TATATATT
1 TATATATT
5857183 TTCACATTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (11 bp):
TATATATTATG
Found at i:5861835 original size:38 final size:38
Alignment explanation
Indices: 5861793--5861868 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
5861783 TGGCAATTAG
5861793 GAATACATCTTGATGACAGACCAAAAACGGGATTCTAC
1 GAATACATCTTGATGACAGACCAAAAACGGGATTCTAC
5861831 GAATACATCTTGATGACAGACCAAAAACGGGATTCTAC
1 GAATACATCTTGATGACAGACCAAAAACGGGATTCTAC
5861869 ATTCCTAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (38 bp):
GAATACATCTTGATGACAGACCAAAAACGGGATTCTAC
Found at i:5868214 original size:14 final size:13
Alignment explanation
Indices: 5868195--5868247 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 13
5868185 GTTTGCAGGT
5868195 AAAATATATTTCGG
1 AAAATA-ATTTCGG
*
5868209 AAAATAATTTCTGA
1 AAAATAATTTC-GG
5868223 AAAATAATTTTCTGG
1 AAAATAA-TTTC-GG
5868238 AAAATAATTT
1 AAAATAATTT
5868248 TTAGAAAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 5 0.14
14 17 0.49
15 13 0.37
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (13 bp):
AAAATAATTTCGG
Found at i:5868236 original size:15 final size:15
Alignment explanation
Indices: 5868209--5868248 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
5868199 TATATTTCGG
5868209 AAAATAA-TTTCTGA
1 AAAATAATTTTCTGA
*
5868223 AAAATAATTTTCTGG
1 AAAATAATTTTCTGA
5868238 AAAATAATTTT
1 AAAATAATTTT
5868249 TAGAAAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (15 bp):
AAAATAATTTTCTGA
Found at i:5868256 original size:14 final size:13
Alignment explanation
Indices: 5868208--5868261 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 13
5868198 ATATATTTCG
*
5868208 GAAAATAATTTCT
1 GAAAATAATTTTT
5868221 GAAAAATAATTTTCT
1 G-AAAATAATTTT-T
5868236 GGAAAATAATTTTT
1 -GAAAATAATTTTT
*
5868250 AGAAAATGATTT
1 -GAAAATAATTT
5868262 ACTTTTCTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
13 1 0.03
14 21 0.60
15 12 0.34
16 1 0.03
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (13 bp):
GAAAATAATTTTT
Found at i:5868418 original size:2 final size:2
Alignment explanation
Indices: 5868411--5868445 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5868401 GAACTTATTT
5868411 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5868446 TAATACATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5868769 original size:22 final size:22
Alignment explanation
Indices: 5868744--5868829 Score: 88
Period size: 22 Copynumber: 4.0 Consensus size: 22
5868734 ATCCAAGTGC
5868744 ATAACTAATATTACACCACATG
1 ATAACTAATATTACACCACATG
* *
5868766 ATAACTAATATTACAGCACATT
1 ATAACTAATATTACACCACATG
* **
5868788 ATAAC-AACATT-GTCCA-AGTG
1 ATAACTAATATTACACCACA-TG
5868808 CATAACTAATATTACACCACAT
1 -ATAACTAATATTACACCACAT
5868830 TATCAATATC
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
19 1 0.02
20 3 0.06
21 10 0.20
22 30 0.61
23 4 0.08
24 1 0.02
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (22 bp):
ATAACTAATATTACACCACATG
Found at i:5869838 original size:27 final size:32
Alignment explanation
Indices: 5869774--5869847 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 32
5869764 TGTCAATCAT
*
5869774 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAACATAATAAA
*
5869806 TTCAATATCTAACAAGCTT-GAA-AT-AT-AA
1 TTCAATATCTAACAAGCTTAAAACATAATAAA
5869834 -TCAATATCTAACAA
1 TTCAATATCTAACAA
5869848 AATCAAGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.35
28 2 0.05
29 2 0.05
30 2 0.05
31 2 0.05
32 18 0.45
ACGTcount: A:0.50, C:0.18, G:0.04, T:0.28
Consensus pattern (32 bp):
TTCAATATCTAACAAGCTTAAAACATAATAAA
Found at i:5871347 original size:2 final size:2
Alignment explanation
Indices: 5871340--5871364 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5871330 AAGTGCATAC
5871340 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5871365 AGTTTCTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5880023 original size:136 final size:137
Alignment explanation
Indices: 5879779--5880064 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
5879769 CATTGGGCCT
** * *
5879779 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
5879844 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
5879908 CATATGC
131 CATATGC
5879915 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
5879980 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
5880045 CATATGC
131 CATATGC
5880052 AAGCCCATTTGGG
1 AAGCCCATTTGGG
5880065 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 122 0.85
137 22 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:5880349 original size:25 final size:27
Alignment explanation
Indices: 5880312--5880365 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
5880302 TCAAACATGC
5880312 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
5880338 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
5880364 AT
1 AT
5880366 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:5881885 original size:26 final size:26
Alignment explanation
Indices: 5881844--5881927 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
5881834 CATGAATTTC
*
5881844 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGGAACATTTACCTAAACCA
* *
5881870 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGGAACATTTACCTAAACCA
*
5881896 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAAACCA
5881922 TTATCA
1 TTATCA
5881928 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAAACCA
Found at i:5882989 original size:19 final size:19
Alignment explanation
Indices: 5882965--5883002 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
5882955 GAAATGAATA
*
5882965 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
*
5882984 ATTTCAAGCAACTAGGTTG
1 ATTTCAAGCAAATAGGTTG
5883003 GCAATCTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:5883896 original size:2 final size:2
Alignment explanation
Indices: 5883889--5883920 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5883879 TTAAATTATG
5883889 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5883921 AAATAAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5883951 original size:19 final size:20
Alignment explanation
Indices: 5883918--5883957 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
5883908 ATATATATAT
5883918 ATAAAATAAAGAAAAT-AAA
1 ATAAAATAAAGAAAATGAAA
5883937 ATAAAATAACA-AAAATGAAA
1 ATAAAATAA-AGAAAATGAAA
5883957 A
1 A
5883958 ATGAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAGAAAATGAAA
Found at i:5884226 original size:17 final size:16
Alignment explanation
Indices: 5884204--5884247 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
5884194 GAGGTTAGGT
5884204 TTTTTTCTTTTTCTTCA
1 TTTTTTCTTTTT-TTCA
*
5884221 TTTTTTCTTTTTTTTA
1 TTTTTTCTTTTTTTCA
*
5884237 TTTTTTATTTT
1 TTTTTTCTTTT
5884248 GGGTTGTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTTCTTTTTTTCA
Found at i:5886393 original size:30 final size:30
Alignment explanation
Indices: 5886359--5886421 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
5886349 ATAGGAATTT
5886359 TGGTTGGTGTTCTGTATAAATGTAGAACTA
1 TGGTTGGTGTTCTGTATAAATGTAGAACTA
5886389 TGGTTGGTGTTCTGTATAAATGTAGAACTA
1 TGGTTGGTGTTCTGTATAAATGTAGAACTA
5886419 TGG
1 TGG
5886422 GGTATCCTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.06, G:0.29, T:0.40
Consensus pattern (30 bp):
TGGTTGGTGTTCTGTATAAATGTAGAACTA
Found at i:5886601 original size:7 final size:7
Alignment explanation
Indices: 5886591--5886617 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
5886581 TGACATTCAA
5886591 AGGGTTT
1 AGGGTTT
5886598 AGGGTTT
1 AGGGTTT
5886605 AGGGTTT
1 AGGGTTT
5886612 AGGGTT
1 AGGGTT
5886618 ATTTTTCGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.44, T:0.41
Consensus pattern (7 bp):
AGGGTTT
Done.