Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 30 of 103
Found at i:11307454 original size:43 final size:43
Alignment explanation
Indices: 11307420--11307529 Score: 148
Period size: 43 Copynumber: 2.6 Consensus size: 43
11307410 TCACCAGCTC
* * ** *
11307420 ATGCACACTCCCTACTCGCACATGGCTGGGTCATCACTGGTTT
1 ATGCGCACTCCCTACTTGCACATAACTGGGTCATCACTGGCTT
* * *
11307463 ATGCGCACTCCCTACTTTCACATAATTGGGTCATCATTGGCTT
1 ATGCGCACTCCCTACTTGCACATAACTGGGTCATCACTGGCTT
11307506 ATGCGCACTCCCTACTTGCACATA
1 ATGCGCACTCCCTACTTGCACATA
11307530 GCCGAGTCCA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.21, C:0.32, G:0.17, T:0.30
Consensus pattern (43 bp):
ATGCGCACTCCCTACTTGCACATAACTGGGTCATCACTGGCTT
Found at i:11325939 original size:23 final size:23
Alignment explanation
Indices: 11325909--11325967 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
11325899 TATACATATA
*
11325909 CCCATCATCATCATGCACACCAT
1 CCCATCATCACCATGCACACCAT
11325932 CCCATCATCACCATGCACACCAT
1 CCCATCATCACCATGCACACCAT
11325955 CCCATCATCACCA
1 CCCATCATCACCA
11325968 GCTCATGCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.31, C:0.47, G:0.03, T:0.19
Consensus pattern (23 bp):
CCCATCATCACCATGCACACCAT
Found at i:11328630 original size:43 final size:43
Alignment explanation
Indices: 11328583--11328729 Score: 148
Period size: 43 Copynumber: 3.5 Consensus size: 43
11328573 GGAGTCATCT
* *
11328583 TGTGCACCCCCACATCGCACATATGACATATATCATCATATCA
1 TGTGCACCCCCACATCGCGCACATGACATATATCATCATATCA
11328626 TGTGCACCCCCACATCGCGCACA--AC-TA-ATGC--C--ATCA
1 TGTGCACCCCCACATCGCGCACATGACATATAT-CATCATATCA
* ** *
11328662 TGTGCTTCCCCCACATCGCGCACATGGTATATATCATCATTATCG
1 TGTGC-ACCCCCACATCGCGCACATGACATATATCATCA-TATCA
*
11328707 TGTGCACCCCCACATCACGCACA
1 TGTGCACCCCCACATCGCGCACA
11328730 GCTAATGCCA
Statistics
Matches: 85, Mismatches: 8, Indels: 21
0.75 0.07 0.18
Matches are distributed among these distances:
36 9 0.11
37 17 0.20
38 1 0.01
39 2 0.02
40 6 0.07
41 4 0.05
42 1 0.01
43 21 0.25
44 16 0.19
45 8 0.09
ACGTcount: A:0.27, C:0.37, G:0.13, T:0.23
Consensus pattern (43 bp):
TGTGCACCCCCACATCGCGCACATGACATATATCATCATATCA
Found at i:11328662 original size:36 final size:36
Alignment explanation
Indices: 11328622--11328766 Score: 128
Period size: 37 Copynumber: 3.8 Consensus size: 36
11328612 ATATCATCAT
*
11328622 ATCATGTGCACCCCCACATCGCGCACAACTAATGCC
1 ATCATGTGCACCCCCACATCGCGCACAGCTAATGCC
* * *
11328658 ATCATGTGCTTCCCCCACATCGCGCACATGGTATATATCATC
1 ATCATGTGC-ACCCCCACATCGCGCACA-GCTA-AT-GC--C
* *
11328700 ATTATCGTGTGCACCCCCACATCACGCACAGCTAATGCC
1 ---ATCATGTGCACCCCCACATCGCGCACAGCTAATGCC
* *
11328739 ATCATGTGCTCCCCCTACATCGTGCACA
1 ATCATGTGCACCCCC-ACATCGCGCACA
11328767 TAGGCAATCT
Statistics
Matches: 86, Mismatches: 13, Indels: 19
0.73 0.11 0.16
Matches are distributed among these distances:
36 22 0.26
37 27 0.31
38 2 0.02
39 3 0.03
40 1 0.01
41 1 0.01
42 3 0.03
43 3 0.03
44 16 0.19
45 8 0.09
ACGTcount: A:0.25, C:0.38, G:0.14, T:0.23
Consensus pattern (36 bp):
ATCATGTGCACCCCCACATCGCGCACAGCTAATGCC
Found at i:11328780 original size:81 final size:81
Alignment explanation
Indices: 11328589--11328782 Score: 268
Period size: 81 Copynumber: 2.4 Consensus size: 81
11328579 ATCTTGTGCA
* * * *
11328589 CCCCCACATCGCACATATGACATATATCATCA-TATCATGTGCACCCCCACATCGCGCACAACTA
1 CCCCCACATCGCGCACATGGCATATATCATCATTATCATGTGCACCCCCACATCACGCACAACTA
11328653 ATGCCATCATGTGCTT
66 ATGCCATCATGTGCTT
* * *
11328669 CCCCCACATCGCGCACATGGTATATATCATCATTATCGTGTGCACCCCCACATCACGCACAGCTA
1 CCCCCACATCGCGCACATGGCATATATCATCATTATCATGTGCACCCCCACATCACGCACAACTA
11328734 ATGCCATCATGTGC-T
66 ATGCCATCATGTGCTT
* *
11328749 CCCCCTACATCGTGCACATAGGCA-ATCTCATCAT
1 CCCCC-ACATCGCGCACAT-GGCATATATCATCAT
11328783 CCACACTCCC
Statistics
Matches: 101, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
80 34 0.34
81 64 0.63
82 3 0.03
ACGTcount: A:0.27, C:0.37, G:0.13, T:0.24
Consensus pattern (81 bp):
CCCCCACATCGCGCACATGGCATATATCATCATTATCATGTGCACCCCCACATCACGCACAACTA
ATGCCATCATGTGCTT
Found at i:11330368 original size:43 final size:42
Alignment explanation
Indices: 11330320--11330449 Score: 161
Period size: 43 Copynumber: 3.0 Consensus size: 42
11330310 CCCGCCACAC
* *
11330320 TCAGCTCATATGCACTCCCTACTCGCAGATAGCCGGGTCATCA
1 TCAGCTCATGTGCACTCCCTAC-CGCAGATAGCCAGGTCATCA
* * *
11330363 TCAGCTCATGTGCACTCTCATACCGCATATAGCTAGGTCATCA
1 TCAGCTCATGTGCACTC-CCTACCGCAGATAGCCAGGTCATCA
* * *
11330406 TCAGCTCATGTGCACTCCCACACCGCACATAGCTAGGTCATCA
1 TCAGCTCATGTGCACTCCC-TACCGCAGATAGCCAGGTCATCA
11330449 T
1 T
11330450 TATTACACAA
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.01
43 72 0.94
44 4 0.05
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.25
Consensus pattern (42 bp):
TCAGCTCATGTGCACTCCCTACCGCAGATAGCCAGGTCATCA
Found at i:11334126 original size:17 final size:17
Alignment explanation
Indices: 11334104--11334137 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11334094 ATTTTTTTTG
11334104 AAGTAGGGGTTGTGAGC
1 AAGTAGGGGTTGTGAGC
*
11334121 AAGTAGTGGTTGTGAGC
1 AAGTAGGGGTTGTGAGC
11334138 TTTTGATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.44, T:0.26
Consensus pattern (17 bp):
AAGTAGGGGTTGTGAGC
Found at i:11336153 original size:23 final size:23
Alignment explanation
Indices: 11336104--11336442 Score: 198
Period size: 23 Copynumber: 14.7 Consensus size: 23
11336094 ACAATAAGTG
* * **
11336104 AGTCACGCAATCCCATATCAAAA
1 AGTCACGCGATTCCATATCAACT
*
11336127 AGTCACACGATTCCATATCAACT
1 AGTCACGCGATTCCATATCAACT
* *
11336150 AGTCACGTGATTCCAGAAT-AACT
1 AGTCACGCGATTCCA-TATCAACT
* * **
11336173 AGTAACGCGATTCTATATTTACT
1 AGTCACGCGATTCCATATCAACT
* * *
11336196 ACTCACACGATTCAATATCAACT
1 AGTCACGCGATTCCATATCAACT
* * * *
11336219 AGTCACGTGATTCTAAATC-CCAT
1 AGTCACGCGATTCCATATCAAC-T
* **
11336242 AGTCACCCGATTCCATATTTACT
1 AGTCACGCGATTCCATATCAACT
* * *
11336265 AGTCATGCGATTCCATCTTAAC-
1 AGTCACGCGATTCCATATCAACT
* * **
11336287 GGTTCACACGATTCCATATTTACT
1 AG-TCACGCGATTCCATATCAACT
* * * *
11336311 ACTCAAGCGATTCAATATGAACT
1 AGTCACGCGATTCCATATCAACT
* * * *
11336334 AGTAACGCGATTCCAAATCGATT
1 AGTCACGCGATTCCATATCAACT
* ** *
11336357 AGTCACGCGATTCCAAATTTAGT
1 AGTCACGCGATTCCATATCAACT
* * *
11336380 AGTCACGTGATTCCGTATCAAAT
1 AGTCACGCGATTCCATATCAACT
* * * *
11336403 ACTCATGTGATTCAATATCAACT
1 AGTCACGCGATTCCATATCAACT
*
11336426 GGTCACGCGATTCCATA
1 AGTCACGCGATTCCATA
11336443 CACACCATTC
Statistics
Matches: 235, Mismatches: 75, Indels: 12
0.73 0.23 0.04
Matches are distributed among these distances:
22 4 0.02
23 228 0.97
24 3 0.01
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (23 bp):
AGTCACGCGATTCCATATCAACT
Found at i:11336781 original size:26 final size:26
Alignment explanation
Indices: 11336739--11336804 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
11336729 TTCTCTTTCT
*
11336739 TAAATGATGCAAAAAAGAAAAATTTG
1 TAAATGATACAAAAAAGAAAAATTTG
* *
11336765 TAAATGATACAATAAAGAATAATTTG
1 TAAATGATACAAAAAAGAAAAATTTG
* *
11336791 GAGATGATACAAAA
1 TAAATGATACAAAA
11336805 CAATGTTATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.56, C:0.05, G:0.15, T:0.24
Consensus pattern (26 bp):
TAAATGATACAAAAAAGAAAAATTTG
Found at i:11340633 original size:23 final size:23
Alignment explanation
Indices: 11340607--11340654 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
11340597 ACCTAAACAA
*
11340607 CATTCACACAATGGCCTATAAAC
1 CATTCACACAATGACCTATAAAC
* *
11340630 CATTCACGCAATGACCTATCAAC
1 CATTCACACAATGACCTATAAAC
11340653 CA
1 CA
11340655 GTCATGCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.33, G:0.08, T:0.21
Consensus pattern (23 bp):
CATTCACACAATGACCTATAAAC
Found at i:11340663 original size:23 final size:23
Alignment explanation
Indices: 11340610--11340665 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
11340600 TAAACAACAT
* * *
11340610 TCACACAATGGCCTATAAACCAT
1 TCACGCAATGACCTATAAACCAG
*
11340633 TCACGCAATGACCTATCAACCAG
1 TCACGCAATGACCTATAAACCAG
*
11340656 TCATGCAATG
1 TCACGCAATG
11340666 TTAAAACCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.21
Consensus pattern (23 bp):
TCACGCAATGACCTATAAACCAG
Found at i:11343817 original size:20 final size:20
Alignment explanation
Indices: 11343776--11343834 Score: 91
Period size: 20 Copynumber: 2.9 Consensus size: 20
11343766 ATACGTATAT
11343776 ACCCATCATCATCATCTCACCA
1 ACCCATCATCATCA--TCACCA
11343798 ACCCATCATCATCATCACCA
1 ACCCATCATCATCATCACCA
*
11343818 GCCCATCATCATCATCA
1 ACCCATCATCATCATCA
11343835 TCAGCTCATG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 22 0.61
22 14 0.39
ACGTcount: A:0.32, C:0.44, G:0.02, T:0.22
Consensus pattern (20 bp):
ACCCATCATCATCATCACCA
Found at i:11343890 original size:43 final size:43
Alignment explanation
Indices: 11343842--11343994 Score: 209
Period size: 43 Copynumber: 3.6 Consensus size: 43
11343832 TCATCAGCTC
* **
11343842 ATGCGCACTCCTTACTCGCACATGGCTGGGTCATCACTGGGTT
1 ATGCGCACTCCCTACTCGCACATAACTGGGTCATCACTGGGTT
**
11343885 ATGCGCACTCCCTACTCGCACATAACTGGGTCATCACCAGGTT
1 ATGCGCACTCCCTACTCGCACATAACTGGGTCATCACTGGGTT
* * *
11343928 ATGCGCACTCCCTACTAGCACATAACCGGGTCATC-CTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACTGGGTCATCACT-GGGTT
*
11343971 ATGCGCACTCCCTACACGCACATA
1 ATGCGCACTCCCTACTCGCACATA
11343995 GCCCAGTCAA
Statistics
Matches: 97, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 1 0.01
43 96 0.99
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACTGGGTCATCACTGGGTT
Found at i:11351310 original size:2 final size:2
Alignment explanation
Indices: 11351268--11351302 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
11351258 ACACACTTAC
*
11351268 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11351303 CGTATATACC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11351321 original size:3 final size:3
Alignment explanation
Indices: 11351313--11351371 Score: 52
Period size: 3 Copynumber: 20.7 Consensus size: 3
11351303 CGTATATACC
* * * * *
11351313 CAT CAT CAT CAT C-T CAC CAA C-C CAT CAT CAT CAT CAT CAC CAG C-T
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
11351358 CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CA
11351372 CTAGCTCATG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
2 4 0.09
3 42 0.91
ACGTcount: A:0.32, C:0.41, G:0.02, T:0.25
Consensus pattern (3 bp):
CAT
Found at i:11351361 original size:23 final size:23
Alignment explanation
Indices: 11351310--11351371 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
11351300 ATACGTATAT
11351310 ACCCATCATCATCATC-TCACCA
1 ACCCATCATCATCATCATCACCA
11351332 ACCCATCATCATCATCATCACCA
1 ACCCATCATCATCATCATCACCA
* *
11351355 GCTCATCATCATCATCA
1 ACCCATCATCATCATCA
11351372 CTAGCTCATG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
22 16 0.43
23 21 0.57
ACGTcount: A:0.32, C:0.42, G:0.02, T:0.24
Consensus pattern (23 bp):
ACCCATCATCATCATCATCACCA
Found at i:11351362 original size:20 final size:20
Alignment explanation
Indices: 11351315--11351380 Score: 80
Period size: 20 Copynumber: 3.2 Consensus size: 20
11351305 TATATACCCA
*
11351315 TCATCATCATC-TCACCAACCC
1 TCATCATCATCATCACC-A-GC
11351336 ATCATCATCATCATCACCAGC
1 -TCATCATCATCATCACCAGC
*
11351357 TCATCATCATCATCACTAGC
1 TCATCATCATCATCACCAGC
11351377 TCAT
1 TCAT
11351381 GCGCACTCCC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 23 0.56
21 1 0.02
22 12 0.29
23 5 0.12
ACGTcount: A:0.30, C:0.39, G:0.03, T:0.27
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:11351427 original size:43 final size:42
Alignment explanation
Indices: 11351379--11351531 Score: 200
Period size: 43 Copynumber: 3.6 Consensus size: 42
11351369 TCACTAGCTC
*
11351379 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACAT-ACTGGGTCATCACCGGGTT
*
11351422 ATGCGCACTCCCTACTCGCACATAACTGGGTCATCATCGGGTT
1 ATGCGCACTCCCTACTCGCACAT-ACTGGGTCATCACCGGGTT
* * *
11351465 ATGTGCACTCCCTACTCGCACATAATCGGGTCATC-CTCGGCTT
1 ATGCGCACTCCCTACTCGCACATACT-GGGTCATCAC-CGGGTT
**
11351508 ATGCGCGTTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
11351532 GCCAAGTCAA
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
42 2 0.02
43 96 0.98
ACGTcount: A:0.19, C:0.35, G:0.21, T:0.25
Consensus pattern (42 bp):
ATGCGCACTCCCTACTCGCACATACTGGGTCATCACCGGGTT
Found at i:11352831 original size:27 final size:29
Alignment explanation
Indices: 11352784--11352838 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
11352774 TGATAAGTGC
*
11352784 TAGGGTGAAAAATTTACCGA-TTTGCCCT
1 TAGGGTGAAAAAATTACCGATTTTGCCCT
11352812 TAGGGTGAAAAAATTA-CGATTTTGCCC
1 TAGGGTGAAAAAATTACCGATTTTGCCC
11352839 CTATACTTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 3 0.12
28 22 0.88
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (29 bp):
TAGGGTGAAAAAATTACCGATTTTGCCCT
Found at i:11354406 original size:17 final size:17
Alignment explanation
Indices: 11354384--11354417 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11354374 TTATTTTAAT
*
11354384 AAATATTTTTCTATAAA
1 AAATATTTTTATATAAA
11354401 AAATATTTTTATATAAA
1 AAATATTTTTATATAAA
11354418 GATAATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATATTTTTATATAAA
Found at i:11356877 original size:28 final size:28
Alignment explanation
Indices: 11356846--11356930 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 28
11356836 CCGACTCATC
11356846 AGCTCATGTGCACTCCCACACCGCACAT
1 AGCTCATGTGCACTCCCACACCGCACAT
* * **
11356874 AGCTGGA-AT-CA-TCACC-CACCGGTCATT
1 AGCT-CATGTGCACTC-CCACACCGCACA-T
11356901 AGCTCATGTGCACTCCCACACCGCACAT
1 AGCTCATGTGCACTCCCACACCGCACAT
11356929 AG
1 AG
11356931 TTGGAATCAT
Statistics
Matches: 42, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
26 10 0.24
27 10 0.24
28 12 0.29
29 10 0.24
ACGTcount: A:0.26, C:0.39, G:0.16, T:0.19
Consensus pattern (28 bp):
AGCTCATGTGCACTCCCACACCGCACAT
Found at i:11356918 original size:55 final size:55
Alignment explanation
Indices: 11356841--11356994 Score: 263
Period size: 55 Copynumber: 2.8 Consensus size: 55
11356831 AACCACCGAC
11356841 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCACCCACCGG
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCACCCACCGG
* *
11356896 TCATTAGCTCATGTGCACTCCCACACCGCACATAGTTGGAATCATCACCCACCGG
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCACCCACCGG
* * *
11356951 TCATCAACTCATGTGCGCTCTCACACCGCACATAGCTGGAATCA
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCA
11356995 CCCGTCATCA
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.37, G:0.16, T:0.21
Consensus pattern (55 bp):
TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCACCCACCGG
Found at i:11357849 original size:15 final size:14
Alignment explanation
Indices: 11357825--11357858 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
11357815 AAAGAAGTAA
*
11357825 GAAAATAAAGGAAAG
1 GAAAAGAAAGG-AAG
11357840 GAAAAGAAAGGAAG
1 GAAAAGAAAGGAAG
11357854 GAAAA
1 GAAAA
11357859 CAAATGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (14 bp):
GAAAAGAAAGGAAG
Found at i:11371048 original size:13 final size:13
Alignment explanation
Indices: 11371030--11371054 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11371020 TTCCAGAAAA
11371030 TTTATAAAATCAT
1 TTTATAAAATCAT
11371043 TTTATAAAATCA
1 TTTATAAAATCA
11371055 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:11383964 original size:54 final size:53
Alignment explanation
Indices: 11383894--11384045 Score: 221
Period size: 45 Copynumber: 3.0 Consensus size: 53
11383884 ATGGTGATAC
11383894 TGTCCGGCTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGAGA
1 TGTCCGGCTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATG-GA
*
11383948 TGTCCAGCTATGTGCACGATGTGGTGGGATGCACATGAGC----T---A-GGA
1 TGTCCGGCTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGA
*
11383993 TGTCCGGCTATGTGCATGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGA
1 TGTCCGGCTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGA
11384046 ATGATTATTG
Statistics
Matches: 87, Mismatches: 3, Indels: 17
0.81 0.03 0.16
Matches are distributed among these distances:
45 40 0.46
46 1 0.01
47 1 0.01
49 1 0.01
50 1 0.01
52 1 0.01
53 3 0.03
54 39 0.45
ACGTcount: A:0.20, C:0.15, G:0.39, T:0.25
Consensus pattern (53 bp):
TGTCCGGCTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGA
Found at i:11389047 original size:16 final size:16
Alignment explanation
Indices: 11389023--11389054 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11389013 TTTAAACTGA
11389023 AAAACAAAAACTAACT
1 AAAACAAAAACTAACT
*
11389039 AAAATAAAAACTAACT
1 AAAACAAAAACTAACT
11389055 CTTAAAAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.69, C:0.16, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAACAAAAACTAACT
Found at i:11395869 original size:10 final size:10
Alignment explanation
Indices: 11395849--11395909 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
11395839 CAACAATAAC
11395849 TAAACTTAAAG
1 TAAA-TTAAAG
11395860 TAAATTAAAG
1 TAAATTAAAG
*
11395870 TATAAATAAAG
1 TA-AATTAAAG
*
11395881 TAAAATTAAAC
1 T-AAATTAAAG
* **
11395892 TAAAATAACT
1 TAAATTAAAG
11395902 TAAATTAA
1 TAAATTAA
11395910 CTACTCAACA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
10 21 0.51
11 19 0.46
12 1 0.02
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.30
Consensus pattern (10 bp):
TAAATTAAAG
Found at i:11395879 original size:11 final size:10
Alignment explanation
Indices: 11395855--11395899 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 10
11395845 TAACTAAACT
*
11395855 TAAAGTAAAT
1 TAAAGTAAAA
11395865 TAAAGTATAAA
1 TAAAGTA-AAA
11395876 TAAAGTAAAA
1 TAAAGTAAAA
*
11395886 TTAAACTAAAA
1 -TAAAGTAAAA
11395897 TAA
1 TAA
11395900 CTTAAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 13 0.42
11 18 0.58
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (10 bp):
TAAAGTAAAA
Found at i:11395879 original size:21 final size:20
Alignment explanation
Indices: 11395855--11395909 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
11395845 TAACTAAACT
*
11395855 TAAAGTAAATTAAAGTATAAA
1 TAAAGTAAATTAAACTA-AAA
11395876 TAAAGTAAAATTAAACTAAAA
1 TAAAGT-AAATTAAACTAAAA
**
11395897 TAACTTAAATTAA
1 TAAAGTAAATTAA
11395910 CTACTCAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 13 0.43
22 10 0.33
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (20 bp):
TAAAGTAAATTAAACTAAAA
Found at i:11398623 original size:26 final size:26
Alignment explanation
Indices: 11398567--11398625 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
11398557 GGCCGGCCAT
* *
11398567 AAGGAAAGAACAAGAGAGAAAATAGA
1 AAGGAAAGAACAAAAGAGAAAATACA
* *
11398593 GAGGAAAGGAAGAAAAGAGAAAA-ACA
1 AAGGAAA-GAACAAAAGAGAAAATACA
11398619 AAGGAAA
1 AAGGAAA
11398626 ACTAGAAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.66, C:0.03, G:0.29, T:0.02
Consensus pattern (26 bp):
AAGGAAAGAACAAAAGAGAAAATACA
Found at i:11401968 original size:13 final size:12
Alignment explanation
Indices: 11401945--11401988 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
11401935 CAAAGCCAAC
11401945 TTCTT-TTTCTT
1 TTCTTCTTTCTT
11401956 TTCTCTCTTTC-T
1 TTCT-TCTTTCTT
11401968 TTCTTCTTTTCTT
1 TTCTTC-TTTCTT
11401981 TTCTTCTT
1 TTCTTCTT
11401989 CTTCTTTGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 6 0.21
12 12 0.41
13 11 0.38
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
TTCTTCTTTCTT
Found at i:11405255 original size:15 final size:16
Alignment explanation
Indices: 11405235--11405275 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
11405225 TTAATATTCC
11405235 AAAATAAAATTTT-AA
1 AAAATAAAATTTTGAA
11405250 AAAAT-AAATTTTGGAA
1 AAAATAAAATTTT-GAA
11405266 AAAATTAAAA
1 AAAA-TAAAA
11405276 AAATTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 7 0.32
15 5 0.23
16 6 0.27
17 1 0.05
18 3 0.14
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (16 bp):
AAAATAAAATTTTGAA
Found at i:11410943 original size:21 final size:21
Alignment explanation
Indices: 11410918--11410957 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
11410908 AAAGAATGAT
11410918 GCCATCATTCAAAGTCAAGTA
1 GCCATCATTCAAAGTCAAGTA
11410939 GCCATCATTCAAAGTCAAG
1 GCCATCATTCAAAGTCAAG
11410958 CAACATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (21 bp):
GCCATCATTCAAAGTCAAGTA
Found at i:11415181 original size:221 final size:218
Alignment explanation
Indices: 11414774--11415209 Score: 802
Period size: 221 Copynumber: 2.0 Consensus size: 218
11414764 TTGTTTCCTG
11414774 GTTTCTAAAACACTTTACACATATGATATATATATATATATTATACATCAACAACTTTCAAATCA
1 GTTTCTAAAACACTTTACACATATGATATATATATATATATTATACATCAACAACTTTCAAATCA
11414839 ATTTGCATCAACAATTGCTTATTGTTTCTACTAGCTCATGCTTCCACAAAAGCAGTGTATAAATC
66 ATTTGCATCAACAATTGCTTATTGTTTCTACTAGCTCATGCTTCCACAAAAGCAGTGTATAAATC
11414904 ATTCCAAACCATGCATTAAAATCACTTATCATTTTCTAGAAACTTAGGCTTTCCACAAAGGCATT
131 ATTCCAAACCATGCATTAAAATCACTTATCATTTTCTAGAAACTTAGGCTTTCCACAAAGGCATT
11414969 GAATAATACTATACATATANCCTA
196 GAATAATACTATACATATA-CCTA
* * *
11414993 GTTTCTAAAATACTTTACATATATATATATATATATATATATTATACA-CAAACAACTTTCAAAT
1 GTTTCTAAAACACTTTACACATAT-GATATATATATATATATTATACATC-AACAACTTTCAAAT
11415057 CAATTTGCATCAACAATTGCTTATTGTTTCTACTAGCTCATGCTTTCCACAAAAGCAGTGTATAA
64 CAATTTGCATCAACAATTGCTTATTGTTTCTACTAGCTCATGC-TTCCACAAAAGCAGTGTATAA
11415122 ATCATTCCAAACCATGCATTAAAATCACTTATCATTTTCTAGAAACTTAGGCTTTCCACAAAGGC
128 ATCATTCCAAACCATGCATTAAAATCACTTATCATTTTCTAGAAACTTAGGCTTTCCACAAAGGC
11415187 ATTGAATAATACTATACATATAC
193 ATTGAATAATACTATACATATAC
11415210 TTTAATATAG
Statistics
Matches: 211, Mismatches: 3, Indels: 5
0.96 0.01 0.02
Matches are distributed among these distances:
219 23 0.11
220 80 0.38
221 108 0.51
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (218 bp):
GTTTCTAAAACACTTTACACATATGATATATATATATATATTATACATCAACAACTTTCAAATCA
ATTTGCATCAACAATTGCTTATTGTTTCTACTAGCTCATGCTTCCACAAAAGCAGTGTATAAATC
ATTCCAAACCATGCATTAAAATCACTTATCATTTTCTAGAAACTTAGGCTTTCCACAAAGGCATT
GAATAATACTATACATATACCTA
Found at i:11427014 original size:111 final size:111
Alignment explanation
Indices: 11426809--11427031 Score: 304
Period size: 111 Copynumber: 2.0 Consensus size: 111
11426799 ATTTATGAGG
* * * **
11426809 TTATGAAATGTATGCCATGAGATGTATGTGTTAAGTATATCATATACATTATGGGCTAAGCATGC
1 TTATGAAATGTATGCCATGAGATGCAAGTGTTAAGTATATCATATACACTAAAGGCTAAGCATGC
* * *
11426874 AAATGATTTATGAGGCTATCAAATGTATGCGATGAGATGTATGTGT
66 AAATGATTTATGAGGCTATCAAATATATGCCATGAGATGCATGTGT
* *
11426920 TTATGAAATGTATGCCATGATATGCAAGTGTTGAG-ATAGTCATATACACTAAAGGCTAAGCATG
1 TTATGAAATGTATGCCATGAGATGCAAGTGTTAAGTATA-TCATATACACTAAAGGCTAAGCATG
* * * *
11426984 TAAGTGATTTATGAGGTTATGAAATATATGCCATGAGATGCATGTGT
65 CAAATGATTTATGAGGCTATCAAATATATGCCATGAGATGCATGTGT
11427031 T
1 T
11427032 GAGATAGTCA
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
110 3 0.03
111 94 0.97
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.34
Consensus pattern (111 bp):
TTATGAAATGTATGCCATGAGATGCAAGTGTTAAGTATATCATATACACTAAAGGCTAAGCATGC
AAATGATTTATGAGGCTATCAAATATATGCCATGAGATGCATGTGT
Found at i:11427354 original size:17 final size:17
Alignment explanation
Indices: 11427332--11427385 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
11427322 TTATTTTTAG
11427332 TTATTTTTATAATTATT
1 TTATTTTTATAATTATT
11427349 TTATTTTTATTAAGTTATT
1 TTATTTTTA-TAA-TTATT
* *
11427368 TTACTTTTATATTTATT
1 TTATTTTTATAATTATT
11427385 T
1 T
11427386 CCTATAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 15 0.45
18 5 0.15
19 13 0.39
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (17 bp):
TTATTTTTATAATTATT
Found at i:11427368 original size:19 final size:18
Alignment explanation
Indices: 11427332--11427377 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
11427322 TTATTTTTAG
11427332 TTATTTTTA-TAATTATT
1 TTATTTTTATTAATTATT
11427349 TTATTTTTATTAAGTTATT
1 TTATTTTTATTAA-TTATT
*
11427368 TTACTTTTAT
1 TTATTTTTAT
11427378 ATTTATTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 9 0.35
18 3 0.12
19 14 0.54
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTATTTTTATTAATTATT
Found at i:11431245 original size:68 final size:67
Alignment explanation
Indices: 11431163--11431317 Score: 163
Period size: 68 Copynumber: 2.3 Consensus size: 67
11431153 GATGAATGCC
* *
11431163 ATATGATGTGAATTCTGCAT-ACCATATAAGATGATCAAGTATGCATGATGT-ATACTATAAG-A
1 ATATGATGTAAATTC--CATAACCATATAAGATGATCAAGTATGCATGAT-TAATACCATAAGAA
*
11431225 TGGTGT
63 T-ATGT
* * * * *
11431231 ATATGATGTAAATTCCATAGACCATATGAGGTGGTTAAGTATGCATGATTAATGCCATAAGAATA
1 ATATGATGTAAATTCCATA-ACCATATAAGATGATCAAGTATGCATGATTAATACCATAAGAATA
11431296 TGT
65 TGT
*
11431299 ATATGATGTATATTCCATA
1 ATATGATGTAAATTCCATA
11431318 TACTGCATGA
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
66 3 0.04
67 1 0.01
68 68 0.92
69 2 0.03
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (67 bp):
ATATGATGTAAATTCCATAACCATATAAGATGATCAAGTATGCATGATTAATACCATAAGAATAT
GT
Found at i:11444001 original size:19 final size:19
Alignment explanation
Indices: 11443974--11444011 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11443964 CCATTTGACT
11443974 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
11443993 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
11444012 GTTTAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:11447065 original size:31 final size:30
Alignment explanation
Indices: 11447027--11447103 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 30
11447017 GGGCTTGACA
*
11447027 CAAGGTGCAATGGGGATATACGTTGCCAACC
1 CAAGGTGCAATGGGGATATACATTGCC-ACC
*
11447058 CAAGGTGCAATGGGGATGTACATTGCCACC
1 CAAGGTGCAATGGGGATATACATTGCCACC
11447088 CTAAGGTGCAATGGGG
1 C-AAGGTGCAATGGGG
11447104 GTCAAACCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
30 4 0.09
31 39 0.91
ACGTcount: A:0.27, C:0.21, G:0.32, T:0.19
Consensus pattern (30 bp):
CAAGGTGCAATGGGGATATACATTGCCACC
Found at i:11450341 original size:19 final size:18
Alignment explanation
Indices: 11450309--11450350 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
11450299 TTTTAGTTGC
*
11450309 TTTTA-TAATTATTTTAT
1 TTTTATTAATTATTTTAA
11450326 TTTTATTAAGTTATTTTAA
1 TTTTATTAA-TTATTTTAA
11450345 TTTTAT
1 TTTTAT
11450351 GTTTATTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.23
18 3 0.14
19 14 0.64
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTATTAATTATTTTAA
Found at i:11455949 original size:35 final size:34
Alignment explanation
Indices: 11455836--11455950 Score: 176
Period size: 34 Copynumber: 3.4 Consensus size: 34
11455826 TATTGACTTC
* *
11455836 AAAATTAGCAGCTAAGCTGCTATATTTTTTCTCA
1 AAAATCAGCAGCTAACCTGCTATATTTTTTCTCA
11455870 AAAATCAGCAGCTAACCTGCTATATTTTTTCTCA
1 AAAATCAGCAGCTAACCTGCTATATTTTTTCTCA
* **
11455904 AAAATCAGCAGCTAACCTGCTCTATTTTCCCTCTA
1 AAAATCAGCAGCTAACCTGCTATATTTTTTCTC-A
11455939 AAAATCAGCAGC
1 AAAATCAGCAGC
11455951 CAAAACAACA
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
34 62 0.83
35 13 0.17
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.32
Consensus pattern (34 bp):
AAAATCAGCAGCTAACCTGCTATATTTTTTCTCA
Found at i:11456523 original size:19 final size:20
Alignment explanation
Indices: 11456499--11456536 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
11456489 TTTATCTATA
11456499 TATATA-TATATATT-TTTTT
1 TATATACTAT-TATTATTTTT
11456518 TATATACTATTATTATTTT
1 TATATACTATTATTATTTT
11456537 ACTATATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
TATATACTATTATTATTTTT
Found at i:11461154 original size:17 final size:18
Alignment explanation
Indices: 11461132--11461166 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11461122 TTTTCACTAG
*
11461132 ATGTAT-ATGTTGCCATA
1 ATGTATAATGTAGCCATA
11461149 ATGTATAATGTAGCCATA
1 ATGTATAATGTAGCCATA
11461167 TTCCAATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (18 bp):
ATGTATAATGTAGCCATA
Found at i:11466969 original size:22 final size:22
Alignment explanation
Indices: 11466944--11466997 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
11466934 TTCTAAACAC
11466944 ATTTAACTAACTAAAACTACCT
1 ATTTAACTAACTAAAACTACCT
11466966 ATTTAACTAACTAAAACTACCT
1 ATTTAACTAACTAAAACTACCT
11466988 ATTTAACTAA
1 ATTTAACTAA
11466998 AAATCAAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.33
Consensus pattern (22 bp):
ATTTAACTAACTAAAACTACCT
Found at i:11468911 original size:17 final size:17
Alignment explanation
Indices: 11468889--11468924 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
11468879 GGAGAGAGAT
11468889 TGCTTAATGGCTAAGTA
1 TGCTTAATGGCTAAGTA
11468906 TGCTTAATGGCTAAGTA
1 TGCTTAATGGCTAAGTA
11468923 TG
1 TG
11468925 ACACATGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (17 bp):
TGCTTAATGGCTAAGTA
Found at i:11471566 original size:18 final size:19
Alignment explanation
Indices: 11471543--11471595 Score: 72
Period size: 18 Copynumber: 2.7 Consensus size: 19
11471533 ACCTTACTCG
11471543 TTTTTATTTTATTTCA-TT
1 TTTTTATTTTATTTCATTT
*
11471561 TTTTTACTTTATTATCATTT
1 TTTTTATTTTATT-TCATTT
11471581 TTTTTATTATTATTT
1 TTTTTATT-TTATTT
11471596 TAATCTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 12 0.40
19 3 0.10
20 10 0.33
21 5 0.17
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTATTTTATTTCATTT
Found at i:11472574 original size:28 final size:29
Alignment explanation
Indices: 11472531--11472592 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
11472521 ATGTCTATGG
* *
11472531 GTAATTTTTCAGTTTT-TGGGGTAAAAAT
1 GTAATTTTTCACTTTTAGGGGGTAAAAAT
* *
11472559 GTAATTTTTGACTTTTACGGGGGTAAAAGT
1 GTAATTTTTCACTTTTA-GGGGGTAAAAAT
11472589 GTAA
1 GTAA
11472593 ATTTCAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 14 0.50
30 14 0.50
ACGTcount: A:0.29, C:0.05, G:0.24, T:0.42
Consensus pattern (29 bp):
GTAATTTTTCACTTTTAGGGGGTAAAAAT
Found at i:11472887 original size:8 final size:8
Alignment explanation
Indices: 11472874--11472899 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
11472864 AAAAATCAAG
11472874 AGAAATCA
1 AGAAATCA
11472882 AGAAATCA
1 AGAAATCA
11472890 AGAAATCA
1 AGAAATCA
11472898 AG
1 AG
11472900 CATTAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.12, G:0.15, T:0.12
Consensus pattern (8 bp):
AGAAATCA
Found at i:11478233 original size:20 final size:20
Alignment explanation
Indices: 11478204--11478246 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
11478194 ATTAGGTTAC
11478204 TTTTAAGTTAGTT-ATTTTAA
1 TTTTAAGTTA-TTCATTTTAA
* *
11478224 TTTTATGTTATTCCTTTTAA
1 TTTTAAGTTATTCATTTTAA
11478244 TTT
1 TTT
11478247 GGTTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTAAGTTATTCATTTTAA
Found at i:11481568 original size:19 final size:18
Alignment explanation
Indices: 11481540--11481577 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
11481530 AATGGAGAAA
11481540 TTTATAATAAAATAATAT
1 TTTATAATAAAATAATAT
11481558 TTTATTAATAAAATAATAT
1 TTTA-TAATAAAATAATAT
11481577 T
1 T
11481578 AAAATATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTATAATAAAATAATAT
Found at i:11484253 original size:21 final size:21
Alignment explanation
Indices: 11484211--11484268 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 21
11484201 AGGTTTTAAT
* * **
11484211 GAGAAACTCTCGTGCAGTTGA
1 GAGAAACCCTCGTACAACTGA
* *
11484232 GATAAACCCTTGTACAACTGA
1 GAGAAACCCTCGTACAACTGA
*
11484253 GAGGAACCCTCGTACA
1 GAGAAACCCTCGTACA
11484269 GATGATGATA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (21 bp):
GAGAAACCCTCGTACAACTGA
Found at i:11487102 original size:25 final size:25
Alignment explanation
Indices: 11487070--11487129 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
11487060 AGTTTGTGAT
**
11487070 ATATATGTGGCGAGGCCACGGGTTG
1 ATATATGTGGCGAGGCCACAAGTTG
*
11487095 ATATATGTGGCTAGGCCACAAGTTG
1 ATATATGTGGCGAGGCCACAAGTTG
*
11487120 ATATACGTGG
1 ATATATGTGG
11487130 TTACGACCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (25 bp):
ATATATGTGGCGAGGCCACAAGTTG
Found at i:11487773 original size:19 final size:20
Alignment explanation
Indices: 11487744--11487781 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
11487734 AAATATCTTT
11487744 TTCTTCTAGCAGCTTCTTCA
1 TTCTTCTAGCAGCTTCTTCA
*
11487764 TTCTTC-AGCAGGTTCTTC
1 TTCTTCTAGCAGCTTCTTC
11487782 TCCTTCTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.13, C:0.29, G:0.13, T:0.45
Consensus pattern (20 bp):
TTCTTCTAGCAGCTTCTTCA
Found at i:11488685 original size:42 final size:42
Alignment explanation
Indices: 11488625--11488786 Score: 166
Period size: 43 Copynumber: 3.8 Consensus size: 42
11488615 TATTGACCCA
*
11488625 GCTATGTGTGAGT-AGGAGTGCACATAAGCCGATGCTGACTTC
1 GCTATGTGCGAGTAAGGAGTGCACATAAGCCGATGCTGAC-TC
* * * *
11488667 GCTATGTGCGAGT-GGGAGTGCGCATTAGCCGATGCTGACCC
1 GCTATGTGCGAGTAAGGAGTGCACATAAGCCGATGCTGACTC
* * *
11488708 AGCTATGTGCGAGTAAGGAGTGCGCATAAGCCGCTGCTGACCTA
1 -GCTATGTGCGAGTAAGGAGTGCACATAAGCCGATGCTGA-CTC
** * * *
11488752 GCTATGTTTGAGTAGGGAGTGCACATGAGCTGATG
1 GCTATGTGCGAGTAAGGAGTGCACATAAGCCGATG
11488787 ATGATGGGAG
Statistics
Matches: 100, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.01
42 48 0.48
43 50 0.50
44 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.24
Consensus pattern (42 bp):
GCTATGTGCGAGTAAGGAGTGCACATAAGCCGATGCTGACTC
Found at i:11488746 original size:43 final size:42
Alignment explanation
Indices: 11488618--11488773 Score: 197
Period size: 42 Copynumber: 3.7 Consensus size: 42
11488608 ATGATGATAT
* *
11488618 TGACCCAGCTATGTGTGAGTAGGAGTGCACATAAGCCGATGC
1 TGACCCAGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGC
* * *
11488660 TGACTTC-GCTATGTGCGAGTGGGAGTGCGCATTAGCCGATGC
1 TGAC-CCAGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGC
*
11488702 TGACCCAGCTATGTGCGAGTAAGGAGTGCGCATAAGCCGCTGC
1 TGACCCAGCTATGTGCGAGT-AGGAGTGCGCATAAGCCGATGC
* **
11488745 TGACCTAGCTATGTTTGAGTAGGGAGTGC
1 TGACCCAGCTATGTGCGAGTA-GGAGTGC
11488774 ACATGAGCTG
Statistics
Matches: 98, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.01
42 53 0.54
43 44 0.45
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (42 bp):
TGACCCAGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGC
Found at i:11491801 original size:29 final size:29
Alignment explanation
Indices: 11491672--11491933 Score: 300
Period size: 29 Copynumber: 9.1 Consensus size: 29
11491662 TAATGTCTTC
* *
11491672 AATTAAGATAAAACATGTTATCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* * *
11491701 AATTGAGAC-AAATATGTTTGCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* * * * *
11491729 CATTAAGGCAAAACCTATTTTGCTGGTCTTA
1 AATTAAGACAAAACATGTTTT-CTTGTC-TA
*
11491760 AATTAAGAC-AAACATATTTTCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
11491788 AATTAAGACAAAACATGTTTTCTTGTCT-
1 AATTAAGACAAAACATGTTTTCTTGTCTA
11491816 AATTAAGACAAAA-ATGTTTTTCTTGTCTA
1 AATTAAGACAAAACATG-TTTTCTTGTCTA
* **
11491845 AATGAAGACAGCACATGTTTTCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* * *
11491874 AATTAAGACAACACATGCTTTCTTGTGTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
*
11491903 AATTAAGAC-AAACATGTTTTCTTATCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
11491931 AAT
1 AAT
11491934 GAAAATAAAA
Statistics
Matches: 197, Mismatches: 29, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
27 3 0.02
28 75 0.38
29 92 0.47
30 18 0.09
31 9 0.05
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (29 bp):
AATTAAGACAAAACATGTTTTCTTGTCTA
Found at i:11491846 original size:57 final size:57
Alignment explanation
Indices: 11491672--11491933 Score: 312
Period size: 57 Copynumber: 4.6 Consensus size: 57
11491662 TAATGTCTTC
* * * * *
11491672 AATTAAGATAAAACATGTTATCTTGTCTAAATTGAGACAAATATGTTTGCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGACAAACATGTTTTCTTGTCTA
* * * * * *
11491729 CATTAAGGCAAAACCTATTTTGCTGGTCTTAAATTAAGACAAACATATTTTCTTGTCTA
1 AATTAAGACAAAACATGTTTT-CTTGTC-TAAATTAAGACAAACATGTTTTCTTGTCTA
*
11491788 AATTAAGACAAAACATGTTTTCTTGTCT-AATTAAGACAAAAATGTTTTTCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGACAAACATG-TTTTCTTGTCTA
* ** * *
11491845 AATGAAGACAGCACATGTTTTCTTGTCTAAATTAAGACAACACATGCTTTCTTGTGTA
1 AATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGACAA-ACATGTTTTCTTGTCTA
*
11491903 AATTAAGAC-AAACATGTTTTCTTATCTAAAT
1 AATTAAGACAAAACATGTTTTCTTGTCTAAAT
11491934 GAAAATAAAA
Statistics
Matches: 172, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
56 14 0.08
57 72 0.42
58 39 0.23
59 47 0.27
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (57 bp):
AATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGACAAACATGTTTTCTTGTCTA
Found at i:11491879 original size:86 final size:85
Alignment explanation
Indices: 11491682--11491936 Score: 298
Period size: 86 Copynumber: 3.0 Consensus size: 85
11491672 AATTAAGATA
* * * * * * *
11491682 AAACATGTTATCTTGTCTAAATTGAGAC-AAATATGTTTGCTTGTCTACATTAAGGCAAAACCTA
1 AAACATGTTTTCTTGTCTAAATTAAGACAAAACATGTTTTCTTGTCTA-ATTAAGACAAAA-ATG
* * *
11491746 TTTTGCTGGTCTTAAATTAAGAC
64 TTTTTCTTGTC-TAAATGAAGAC
*
11491769 AAACATATTTTCTTGTCTAAATTAAGACAAAACATGTTTTCTTGTCTAATTAAGACAAAAATGTT
1 AAACATGTTTTCTTGTCTAAATTAAGACAAAACATGTTTTCTTGTCTAATTAAGACAAAAATGTT
11491834 TTTCTTGTCTAAATGAAGAC
66 TTTCTTGTCTAAATGAAGAC
* * * * *
11491854 AGCACATGTTTTCTTGTCTAAATTAAGACAACACATGCTTTCTTGTGTAAATTAAGACAAACATG
1 A-AACATGTTTTCTTGTCTAAATTAAGACAAAACATGTTTTCTTGTCT-AATTAAGACAAAAATG
*
11491919 -TTTTCTTATCTAAATGAA
64 TTTTTCTTGTCTAAATGAA
11491937 AATAAAACTT
Statistics
Matches: 147, Mismatches: 18, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
85 11 0.07
86 68 0.46
87 51 0.35
88 17 0.12
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (85 bp):
AAACATGTTTTCTTGTCTAAATTAAGACAAAACATGTTTTCTTGTCTAATTAAGACAAAAATGTT
TTTCTTGTCTAAATGAAGAC
Found at i:11493960 original size:55 final size:55
Alignment explanation
Indices: 11493881--11494089 Score: 265
Period size: 55 Copynumber: 3.8 Consensus size: 55
11493871 TGATGATGGG
* ** * * *
11493881 TGATTCCAGCTTTGTGCATTGTGGGAGTGCACATGAGTTGATTACCGGTGGATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTAATGACCGGTGGATGA
* *
11493936 TGATTCTAGCTATATGCGGTGTGGGAGTGCACATGAGCTAATGACCGGTGGATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTAATGACCGGTGGATGA
* * * * *
11493991 TGATTCCAGCTATGTACAGTGTGGGTGTGGACATGAGCTAATGACCGATGGATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTAATGACCGGTGGATGA
* * * *
11494046 TGATTCCAGCTATGTGTGGTGTGGCAGTGCGCATGAGCTGATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTAATGA
11494090 GCTAGTGGTT
Statistics
Matches: 131, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 131 1.00
ACGTcount: A:0.22, C:0.15, G:0.34, T:0.29
Consensus pattern (55 bp):
TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTAATGACCGGTGGATGA
Found at i:11494001 original size:27 final size:27
Alignment explanation
Indices: 11493971--11494057 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 27
11493961 AGTGCACATG
11493971 AGCTAATGACCGGTGGATGATGATTCC
1 AGCTAATGACCGGTGGATGATGATTCC
* * * *
11493998 AGCT-ATGTACAGTGTGGGTG-TGGACAT-G
1 AGCTAATG-ACCG-GTGGATGAT-GA-TTCC
*
11494026 AGCTAATGACCGATGGATGATGATTCC
1 AGCTAATGACCGGTGGATGATGATTCC
11494053 AGCTA
1 AGCTA
11494058 TGTGTGGTGT
Statistics
Matches: 44, Mismatches: 9, Indels: 14
0.66 0.13 0.21
Matches are distributed among these distances:
26 4 0.09
27 20 0.45
28 16 0.36
29 4 0.09
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (27 bp):
AGCTAATGACCGGTGGATGATGATTCC
Found at i:11501399 original size:55 final size:55
Alignment explanation
Indices: 11501317--11501525 Score: 292
Period size: 55 Copynumber: 3.8 Consensus size: 55
11501307 TGATGACAGG
* * *
11501317 TGATTCCAGCTATATGCGTTGTGGGAGTGCACATGAGCTGATGATCGGTGGATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
* * * * *
11501372 TGATTCTAGCTATGTGCGGTGTAGGAGTGCAAATGAGTTGATGACCGATGGATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
* * * *
11501427 TGACTCTAGCTATGTGCGGTGTTGGAGTGCACATGAGCTGATGACCCGTGGATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
**
11501482 TGATTCCAGCTGCGTGCGGTGTGGGAGTGCACATGAGCTGATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGA
11501526 GCCGATGGTT
Statistics
Matches: 135, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 135 1.00
ACGTcount: A:0.22, C:0.15, G:0.35, T:0.28
Consensus pattern (55 bp):
TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
Found at i:11503222 original size:21 final size:22
Alignment explanation
Indices: 11503196--11503236 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11503186 TTCATAGGCT
11503196 ATCTATCAATACAT-GTAGAAC
1 ATCTATCAATACATAGTAGAAC
*
11503217 ATCTATCAATAGATAGTAGA
1 ATCTATCAATACATAGTAGA
11503237 CATAATACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (22 bp):
ATCTATCAATACATAGTAGAAC
Found at i:11504302 original size:35 final size:35
Alignment explanation
Indices: 11504211--11504326 Score: 169
Period size: 35 Copynumber: 3.3 Consensus size: 35
11504201 CATCAGCTCT
***
11504211 TGTGCACTCCCTACACGCACAAGGCAATATCATCA
1 TGTGCACTCCCTACACGCACATTTCAATATCATCA
11504246 TGTGCACTCCCTACACGCACATTTCAATATCATCA
1 TGTGCACTCCCTACACGCACATTTCAATATCATCA
* *
11504281 TGTGCACTCCCTACATGCACATTTCAATACCATCA
1 TGTGCACTCCCTACACGCACATTTCAATATCATCA
**
11504316 CATGCACTCCC
1 TGTGCACTCCC
11504327 GCCCACATCA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 74 1.00
ACGTcount: A:0.28, C:0.36, G:0.10, T:0.25
Consensus pattern (35 bp):
TGTGCACTCCCTACACGCACATTTCAATATCATCA
Found at i:11507752 original size:19 final size:19
Alignment explanation
Indices: 11507728--11507764 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
11507718 TAAGAAGAGA
11507728 AAGGAAAGGAAAA-GAAAAC
1 AAGGAAA-GAAAATGAAAAC
11507747 AAGGAAAGAAAATGAAAA
1 AAGGAAAGAAAATGAAAA
11507765 AACTTGATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.70, C:0.03, G:0.24, T:0.03
Consensus pattern (19 bp):
AAGGAAAGAAAATGAAAAC
Found at i:11510726 original size:19 final size:19
Alignment explanation
Indices: 11510702--11510769 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
11510692 ATAGTGCCTG
11510702 TGTACACGATGTGGGGGGA
1 TGTACACGATGTGGGGGGA
****
11510721 TGTACACGATG-GCACTGA
1 TGTACACGATGTGGGGGGA
*
11510739 TTGTGCACGATGTGGGGGGA
1 -TGTACACGATGTGGGGGGA
*
11510759 TGCACACGATG
1 TGTACACGATG
11510770 GCGTCTGCTA
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
18 3 0.08
19 30 0.83
20 3 0.08
ACGTcount: A:0.22, C:0.16, G:0.40, T:0.22
Consensus pattern (19 bp):
TGTACACGATGTGGGGGGA
Found at i:11510749 original size:38 final size:40
Alignment explanation
Indices: 11510706--11510804 Score: 148
Period size: 38 Copynumber: 2.5 Consensus size: 40
11510696 TGCCTGTGTA
*
11510706 CACGATGTGGGGGGATGTACACGATGGC-ACTGAT-TGTG
1 CACGATGTGGGGGGATGCACACGATGGCGACTGATATGTG
* *
11510744 CACGATGTGGGGGGATGCACACGATGGCGTCTGCTATGTG
1 CACGATGTGGGGGGATGCACACGATGGCGACTGATATGTG
*
11510784 CATGATGTGGGGGGATGCACA
1 CACGATGTGGGGGGATGCACA
11510805 TGACCTGGGT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
38 27 0.49
39 4 0.07
40 24 0.44
ACGTcount: A:0.20, C:0.17, G:0.40, T:0.22
Consensus pattern (40 bp):
CACGATGTGGGGGGATGCACACGATGGCGACTGATATGTG
Found at i:11513520 original size:42 final size:42
Alignment explanation
Indices: 11513443--11513565 Score: 185
Period size: 42 Copynumber: 2.9 Consensus size: 42
11513433 AACTCTGTCT
* * *
11513443 CAGCTTATGTTCACTACC-ACACCGCACATAGCTGGGTCAGCA
1 CAGCTCATGTGCACT-CCTACACCGCACATGGCTGGGTCAGCA
*
11513485 TAGCTCATGTGCACTCCTACACCGCACATGGCTGGGTCAGCA
1 CAGCTCATGTGCACTCCTACACCGCACATGGCTGGGTCAGCA
*
11513527 CAGCTCATGTGAACTCCTACACCGCACATGGCTGGGTCA
1 CAGCTCATGTGCACTCCTACACCGCACATGGCTGGGTCA
11513566 TAATTATCAC
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
41 2 0.03
42 72 0.97
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.21
Consensus pattern (42 bp):
CAGCTCATGTGCACTCCTACACCGCACATGGCTGGGTCAGCA
Found at i:11519668 original size:43 final size:43
Alignment explanation
Indices: 11519602--11519720 Score: 159
Period size: 43 Copynumber: 2.8 Consensus size: 43
11519592 GTAATGACAT
* *
11519602 TGACTCGGTTATGTGTGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGTTATGTGTGAGTAGGGAGTGCGCATAACCCG-GTGA
11519645 TGACCCGGTTATGTGTGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGTTATGTGTGAGTAGGGAGTGCGCATAACCCGGTGA
* ** **
11519688 TGACCCAGCCATGTGCAAGTAGGGAGTGCGCAT
1 TGACCCGGTTATGTGTGAGTAGGGAGTGCGCAT
11519721 GAGCTAGTGA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 67 0.99
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.22
Consensus pattern (43 bp):
TGACCCGGTTATGTGTGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:11519731 original size:43 final size:43
Alignment explanation
Indices: 11519619--11519733 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
11519609 GTTATGTGTG
* ** **
11519619 AGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGTTATGTGTG
1 AGTAGGGAGTGCGCATAAGCC-AGTGATGACCCAGCCATGTGCA
* *
11519662 AGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCCATGTGCA
1 AGTAGGGAGTGCGCATAAGCCAGTGATGACCCAGCCATGTGCA
* *
11519705 AGTAGGGAGTGCGCATGAGCTAGTGATGA
1 AGTAGGGAGTGCGCATAAGCCAGTGATGA
11519734 TGATGATGGG
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 1 0.02
43 59 0.98
ACGTcount: A:0.25, C:0.18, G:0.37, T:0.19
Consensus pattern (43 bp):
AGTAGGGAGTGCGCATAAGCCAGTGATGACCCAGCCATGTGCA
Found at i:11521516 original size:21 final size:21
Alignment explanation
Indices: 11521488--11521537 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
11521478 TCCTTAACTT
11521488 TTTC-ATAGCATATATAAACA
1 TTTCTATAGCATATATAAACA
11521508 TTTCTATAGCATATATAAACA
1 TTTCTATAGCATATATAAACA
*
11521529 TCTCTATAG
1 TTTCTATAG
11521538 TGTATAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.38
Consensus pattern (21 bp):
TTTCTATAGCATATATAAACA
Found at i:11521675 original size:35 final size:35
Alignment explanation
Indices: 11521583--11521685 Score: 125
Period size: 39 Copynumber: 2.8 Consensus size: 35
11521573 CATTAGCTCT
* ***
11521583 TGTGCACTCCTTACACGCACAAGGCAATATCATCA
1 TGTGCACTCCCTACACGCACATTTCAATATCATCA
11521618 TGTGTACTCACTCCCTACACGCACATTTCAATATCATCA
1 TGTG----CACTCCCTACACGCACATTTCAATATCATCA
*
11521657 TGTGCACTCCCTATACGCACATTTCAATA
1 TGTGCACTCCCTACACGCACATTTCAATA
11521686 CCATTACACG
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
35 28 0.47
39 31 0.53
ACGTcount: A:0.29, C:0.32, G:0.11, T:0.28
Consensus pattern (35 bp):
TGTGCACTCCCTACACGCACATTTCAATATCATCA
Found at i:11521699 original size:35 final size:35
Alignment explanation
Indices: 11521626--11521701 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 35
11521616 CATGTGTACT
* ***
11521626 CACTCCCTACACGCACATTTCAATATCATCATGTG
1 CACTCCCTACACGCACATTTCAATACCATCACACG
* *
11521661 CACTCCCTATACGCACATTTCAATACCATTACACG
1 CACTCCCTACACGCACATTTCAATACCATCACACG
11521696 CACTCC
1 CACTCC
11521702 TGCCCACATC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.38, G:0.07, T:0.26
Consensus pattern (35 bp):
CACTCCCTACACGCACATTTCAATACCATCACACG
Found at i:11534045 original size:15 final size:15
Alignment explanation
Indices: 11534025--11534055 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11534015 AACTCGCTCT
11534025 CCCTTGGCAAGCACC
1 CCCTTGGCAAGCACC
11534040 CCCTTGGCAAGCACC
1 CCCTTGGCAAGCACC
11534055 C
1 C
11534056 ACATGCTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.48, G:0.19, T:0.13
Consensus pattern (15 bp):
CCCTTGGCAAGCACC
Found at i:11543315 original size:2 final size:2
Alignment explanation
Indices: 11543308--11543339 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11543298 AATCATCTCC
11543308 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
11543340 GTATGTCCAT
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):
AT
Found at i:11548946 original size:15 final size:15
Alignment explanation
Indices: 11548923--11548958 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
11548913 TTTAAAGATC
*
11548923 AAAGATTTTGATTTT
1 AAAGTTTTTGATTTT
*
11548938 AAAGTTTTTGGTTTT
1 AAAGTTTTTGATTTT
11548953 AAAGTT
1 AAAGTT
11548959 GTTTTAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.53
Consensus pattern (15 bp):
AAAGTTTTTGATTTT
Found at i:11549018 original size:14 final size:15
Alignment explanation
Indices: 11548993--11549025 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
11548983 TGCATGGCCC
11548993 AAGTTAAGTTAAGTT
1 AAGTTAAGTTAAGTT
11549008 AAGTT-AGTTAAGTT
1 AAGTTAAGTTAAGTT
11549022 AAGT
1 AAGT
11549026 CAGGTTAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (15 bp):
AAGTTAAGTTAAGTT
Found at i:11549032 original size:19 final size:19
Alignment explanation
Indices: 11548994--11549033 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11548984 GCATGGCCCA
*
11548994 AGTTAAGTTAAGTTAAGTT
1 AGTTAAGTTAAGTCAAGTT
*
11549013 AGTTAAGTTAAGTCAGGTT
1 AGTTAAGTTAAGTCAAGTT
11549032 AG
1 AG
11549034 GTAGAATAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (19 bp):
AGTTAAGTTAAGTCAAGTT
Found at i:11549035 original size:5 final size:5
Alignment explanation
Indices: 11548993--11549025 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
11548983 TGCATGGCCC
11548993 AAGTT AAGTT AAGTT AAGTT -AGTT AAGTT AAGT
1 AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGT
11549026 CAGGTTAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (5 bp):
AAGTT
Found at i:11554483 original size:13 final size:13
Alignment explanation
Indices: 11554465--11554489 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11554455 AGAGAAATTG
11554465 TGATTTTATAAAA
1 TGATTTTATAAAA
11554478 TGATTTTATAAA
1 TGATTTTATAAA
11554490 TTTTCTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:11556105 original size:109 final size:108
Alignment explanation
Indices: 11555914--11556130 Score: 398
Period size: 109 Copynumber: 2.0 Consensus size: 108
11555904 TAGTCATGCC
*
11555914 AATACAATAACATAAGCCATTAATTCAATTTTAAATTTACAATATATCAATGGTCTCCAATTACT
1 AATACAATAACATAAGCCATTAATTCAATTTTAAATTTACAACATATCAATGGTCTCCAATTACT
11555979 CTATTTTCAAAATCGTTATTTCGTTTCAAAACAATTTATAAAA
66 CTATTTTCAAAATCGTTATTTCGTTTCAAAACAATTTATAAAA
*
11556022 NAATACAATAACATAAGCCATTAATTCAATTTTAAATTTACAACATATCAGTGGTCTCCAATTAC
1 -AATACAATAACATAAGCCATTAATTCAATTTTAAATTTACAACATATCAATGGTCTCCAATTAC
*
11556087 TCTATTTTCAAAATCGTTATTTCGTTTCAAGACAATTTATAAAA
65 TCTATTTTCAAAATCGTTATTTCGTTTCAAAACAATTTATAAAA
11556131 TATTTTCATT
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 105 1.00
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (108 bp):
AATACAATAACATAAGCCATTAATTCAATTTTAAATTTACAACATATCAATGGTCTCCAATTACT
CTATTTTCAAAATCGTTATTTCGTTTCAAAACAATTTATAAAA
Found at i:11557358 original size:28 final size:30
Alignment explanation
Indices: 11557300--11557359 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 30
11557290 TTTTTGAAAT
* *
11557300 TTACACTTTTGCCCCCATAAAAGTCAAAAA
1 TTACACTTTTGCCCCCATAAAACTAAAAAA
*
11557330 TTACATTTTTG-CCCCA-AAAACTAAAAAA
1 TTACACTTTTGCCCCCATAAAACTAAAAAA
11557358 TT
1 TT
11557360 TCCCATAGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 12 0.44
29 5 0.19
30 10 0.37
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.30
Consensus pattern (30 bp):
TTACACTTTTGCCCCCATAAAACTAAAAAA
Found at i:11557945 original size:72 final size:72
Alignment explanation
Indices: 11557815--11557950 Score: 175
Period size: 72 Copynumber: 1.9 Consensus size: 72
11557805 GCTTTCCAAG
* * * * * * *
11557815 TATGCAAGCATATTGTCAATCATATGAATGACATGGCAAGTATTTTATAAGGTCGGGCTTGACAC
1 TATGCAAACATATTATCAAGCACATGAATGACATGGCAAATATATTATAAGATCGGGCTTGACAC
11557880 ATTCACT
66 ATTCACT
* *
11557887 TATGCAAACATTTTATCAAGCACATGAATGACATGGCAAATATATTAT-AGAATGGGGCTTGACA
1 TATGCAAACATATTATCAAGCACATGAATGACATGGCAAATATATTATAAG-ATCGGGCTTGACA
11557951 TTATTGATGC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
71 2 0.04
72 52 0.96
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.30
Consensus pattern (72 bp):
TATGCAAACATATTATCAAGCACATGAATGACATGGCAAATATATTATAAGATCGGGCTTGACAC
ATTCACT
Found at i:11559893 original size:56 final size:55
Alignment explanation
Indices: 11559825--11559962 Score: 145
Period size: 55 Copynumber: 2.5 Consensus size: 55
11559815 TTAAGGNATT
* ** * *
11559825 ATGTGCCCTCCCACACCGAACATAGCTGGATATAAACCA-CCACTAATCATCATCTC
1 ATGTGCACTCCCACACCGAACATAGCTACA-AT-AACCACCCACCAATCATCAGCTC
* * * *
11559881 ATGTGCACTCCCACACCGCACACAGCTACAATCACCACCCACCGATCATCAGCTC
1 ATGTGCACTCCCACACCGAACATAGCTACAATAACCACCCACCAATCATCAGCTC
*
11559936 ATGTGCACTCTCACACC-ACACATAGCT
1 ATGTGCACTCCCACACCGA-ACATAGCT
11559963 TGAATCATCT
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
54 4 0.06
55 39 0.57
56 25 0.37
ACGTcount: A:0.30, C:0.40, G:0.11, T:0.19
Consensus pattern (55 bp):
ATGTGCACTCCCACACCGAACATAGCTACAATAACCACCCACCAATCATCAGCTC
Found at i:11566608 original size:33 final size:33
Alignment explanation
Indices: 11566507--11566591 Score: 152
Period size: 33 Copynumber: 2.6 Consensus size: 33
11566497 TCAAACTATT
*
11566507 GCTTAGCTGCTGATTTTGAAGAGAAATAGAGCA
1 GCTTAACTGCTGATTTTGAAGAGAAATAGAGCA
*
11566540 GCTTAATTGCTGATTTTGAAGAGAAATAGAGCA
1 GCTTAACTGCTGATTTTGAAGAGAAATAGAGCA
11566573 GCTTAACTGCTGATTTTGA
1 GCTTAACTGCTGATTTTGA
11566592 TGTATATATG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.32
Consensus pattern (33 bp):
GCTTAACTGCTGATTTTGAAGAGAAATAGAGCA
Found at i:11566826 original size:5 final size:5
Alignment explanation
Indices: 11566761--11566823 Score: 101
Period size: 5 Copynumber: 12.8 Consensus size: 5
11566751 GAGGAAGAGA
* *
11566761 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAGAG AAGAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
11566811 AAAAG AAAA- AAAA
1 AAAAG AAAAG AAAA
11566824 AAATATATAT
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
4 4 0.07
5 52 0.93
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:11569059 original size:19 final size:19
Alignment explanation
Indices: 11569035--11569071 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
11569025 TAAGAAGAGA
11569035 AAGGAAAGGAAAA-GAAAAC
1 AAGGAAA-GAAAATGAAAAC
11569054 AAGGAAAGAAAATGAAAA
1 AAGGAAAGAAAATGAAAA
11569072 AACTTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.70, C:0.03, G:0.24, T:0.03
Consensus pattern (19 bp):
AAGGAAAGAAAATGAAAAC
Found at i:11572333 original size:22 final size:21
Alignment explanation
Indices: 11572294--11572334 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11572284 CCTAGGTAGA
* *
11572294 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAAGAAAAAGTGTG
11572315 AAAATTCAAAGAAACAAGTG
1 AAAATTCAAAGAAA-AAGTG
11572335 AAAAAAGGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.54, C:0.07, G:0.22, T:0.17
Consensus pattern (21 bp):
AAAATTCAAAGAAAAAGTGTG
Found at i:11572340 original size:22 final size:21
Alignment explanation
Indices: 11572293--11572340 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
11572283 CCCTAGGTAG
* * *
11572293 AAAAATTCAAGGGAAAAGTGT
1 AAAAATTCAAAGAAAAAGTGA
*
11572314 GAAAATTCAAAGAAACAAGTGA
1 AAAAATTCAAAGAAA-AAGTGA
11572336 AAAAA
1 AAAAA
11572341 GGTAAGATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.60, C:0.06, G:0.19, T:0.15
Consensus pattern (21 bp):
AAAAATTCAAAGAAAAAGTGA
Found at i:11577202 original size:28 final size:29
Alignment explanation
Indices: 11577161--11577225 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 29
11577151 AAGACAAAAA
11577161 AAATAT-TTTATCTTGTCTAAAT-TGAGAC
1 AAATATGTTTATCTTGTCTAAATAT-AGAC
11577189 AAATATGTTT-TCTTGTCTAAATATAGAC
1 AAATATGTTTATCTTGTCTAAATATAGAC
*
11577217 AAAAATGTT
1 AAATATGTT
11577226 AAAGCTGCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
28 30 0.88
29 4 0.12
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (29 bp):
AAATATGTTTATCTTGTCTAAATATAGAC
Found at i:11583529 original size:14 final size:13
Alignment explanation
Indices: 11583510--11583542 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
11583500 AATTTTAGAA
11583510 ATATTTTTAAATAT
1 ATATTTTTAAA-AT
11583524 ATATTTTTAAAAT
1 ATATTTTTAAAAT
11583537 A-ATTTT
1 ATATTTT
11583543 ATTAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.26
13 3 0.16
14 11 0.58
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATATTTTTAAAAT
Found at i:11583536 original size:15 final size:14
Alignment explanation
Indices: 11583509--11583554 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
11583499 AAATTTTAGA
11583509 AATATTTTT-AAAT
1 AATATTTTTAAAAT
11583522 ATATATTTTTAAAAT
1 A-ATATTTTTAAAAT
11583537 AAT-TTTATTAAAAAT
1 AATATTT-TT-AAAAT
11583552 AAT
1 AAT
11583555 TTGGAAAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.14
14 12 0.41
15 13 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATATTTTTAAAAT
Found at i:11583677 original size:20 final size:20
Alignment explanation
Indices: 11583652--11583711 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
11583642 GGCAGCAGCT
* *
11583652 TGTGCTACTGTCCGACAACA
1 TGTGCTGCTGTCCGGCAACA
* *
11583672 TGTGCTGCTGTTCGGCAGCA
1 TGTGCTGCTGTCCGGCAACA
*
11583692 TGTGCTGTTGTCCGGCAACA
1 TGTGCTGCTGTCCGGCAACA
11583712 GCACACTGCT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.17, C:0.27, G:0.28, T:0.28
Consensus pattern (20 bp):
TGTGCTGCTGTCCGGCAACA
Found at i:11588058 original size:28 final size:28
Alignment explanation
Indices: 11588027--11588089 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
11588017 AGAAAAAAAT
11588027 ATAT-TTTATCTTGTCTAAATTGAGACAA
1 ATATGTTT-TCTTGTCTAAATTGAGACAA
*
11588055 ATATGTTTTCTTGTCTAAATTTAGACAA
1 ATATGTTTTCTTGTCTAAATTGAGACAA
*
11588083 AAATGTT
1 ATATGTT
11588090 AAAGCTGCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 29 0.91
29 3 0.09
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (28 bp):
ATATGTTTTCTTGTCTAAATTGAGACAA
Found at i:11606225 original size:39 final size:39
Alignment explanation
Indices: 11606171--11606246 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
11606161 GAACATTGAG
11606171 GACAATGTTCACTTTAAGTTTAGGGAATTAATAAGCTTA
1 GACAATGTTCACTTTAAGTTTAGGGAATTAATAAGCTTA
*
11606210 GACAATGTTCACTTTAAGTTTGGGGAATTAATAAGCT
1 GACAATGTTCACTTTAAGTTTAGGGAATTAATAAGCT
11606247 AGAGCTTGTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.36
Consensus pattern (39 bp):
GACAATGTTCACTTTAAGTTTAGGGAATTAATAAGCTTA
Found at i:11615006 original size:43 final size:43
Alignment explanation
Indices: 11614936--11615054 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 43
11614926 GTAATTATGT
* *
11614936 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
*
11614979 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* *
11615022 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
11615055 GAGCTGGTGA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.22, C:0.21, G:0.38, T:0.19
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:11615064 original size:43 final size:43
Alignment explanation
Indices: 11614946--11615067 Score: 174
Period size: 43 Copynumber: 2.8 Consensus size: 43
11614936 TGACTCGGCT
* **
11614946 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAGCC
*
11614989 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
11615032 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
11615068 TGATGATGAG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 70 0.99
ACGTcount: A:0.23, C:0.19, G:0.39, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:11615078 original size:20 final size:20
Alignment explanation
Indices: 11615053--11615115 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
11615043 GGGAGTGCGC
11615053 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
11615073 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
11615093 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
11615112 ATGA
1 ATGA
11615116 TGGGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.25, C:0.03, G:0.41, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:11625158 original size:73 final size:73
Alignment explanation
Indices: 11624984--11625251 Score: 277
Period size: 73 Copynumber: 3.7 Consensus size: 73
11624974 CAGTTCAGAA
* * * * * *
11624984 ACAAAGAAGACTTAGTCGACTAAGAAGTATCGTTAGTCAACTAAGAGCTTACTACTAGAAATCTA
1 ACAAAGAAGACTTAATCGACTAAGAAGCATTGTTAGTCAACTAAGAGCTTACTACCA-AAAACTG
*
11625049 GA-TTACAAG
65 GATTTA-GAG
* * * *
11625058 ACAAAAAAAACTTAATCGACTAAGAAGCATTGTTAGTCAACCAAGAGCTTACTGCCAAAAACTGG
1 ACAAAGAAGACTTAATCGACTAAGAAGCATTGTTAGTCAACTAAGAGCTTACTACCAAAAACTGG
11625123 ATTTAGAG
66 ATTTAGAG
* * ** * *
11625131 ACAAAGATGACTTAATCGACTAAGAAGCATTGTCAGTTGACTAAGAGCTCACTACCAGAAACTGG
1 ACAAAGAAGACTTAATCGACTAAGAAGCATTGTTAGTCAACTAAGAGCTTACTACCAAAAACTGG
* *
11625196 GTTCAGAG
66 ATTTAGAG
* * * * * * *
11625204 ATAGAGACGACTTAATCTAGTAAGAAGCATAGTTAGTCGACTAAGAGC
1 ACAAAGAAGACTTAATCGACTAAGAAGCATTGTTAGTCAACTAAGAGC
11625252 ATTTTGTCTG
Statistics
Matches: 162, Mismatches: 31, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
73 110 0.68
74 52 0.32
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (73 bp):
ACAAAGAAGACTTAATCGACTAAGAAGCATTGTTAGTCAACTAAGAGCTTACTACCAAAAACTGG
ATTTAGAG
Found at i:11625684 original size:35 final size:35
Alignment explanation
Indices: 11625640--11625753 Score: 110
Period size: 35 Copynumber: 3.3 Consensus size: 35
11625630 GTTAGTTTTG
* *
11625640 GGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAA
1 GGTTGTGGTTGATCCCATGAAAAACCATTGTTAAA
* * * *
11625675 GGTTGTGGTTGA-GCCTTTAAAAAGCCATT-TT--G
1 GGTTGTGGTTGATCCCATGAAAAA-CCATTGTTAAA
* *
11625707 GGTTTTGGTTGATCCCATGAAAAATCATTGTTAAA
1 GGTTGTGGTTGATCCCATGAAAAACCATTGTTAAA
*
11625742 GGTTGTGTTTGA
1 GGTTGTGGTTGA
11625754 GCTTGTGAAA
Statistics
Matches: 61, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
32 15 0.25
33 10 0.16
34 10 0.16
35 26 0.43
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.38
Consensus pattern (35 bp):
GGTTGTGGTTGATCCCATGAAAAACCATTGTTAAA
Found at i:11629510 original size:21 final size:21
Alignment explanation
Indices: 11629486--11629528 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
11629476 AGGAAAAAGA
11629486 AGAAGAAGCTACTAGAAAATG
1 AGAAGAAGCTACTAGAAAATG
*
11629507 AGAAGAAGCTACTGGAAAATG
1 AGAAGAAGCTACTAGAAAATG
11629528 A
1 A
11629529 TATTTATAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.09, G:0.26, T:0.14
Consensus pattern (21 bp):
AGAAGAAGCTACTAGAAAATG
Found at i:11631683 original size:59 final size:58
Alignment explanation
Indices: 11631563--11631721 Score: 205
Period size: 59 Copynumber: 2.7 Consensus size: 58
11631553 CTTTAACATC
* * * * *
11631563 TTTGTCTTAATTTAGACAAG-AAAACATGTTTGGTCTTAATTTAGACAAGAAAATATG
1 TTTGTCTTAATTTAGACAAGAAAAATATTTTTTGTCTTAATCTAGACAAGAAAATATA
*
11631620 TTTGTCTTAATTTAAGACAAGAAAAATATTTTTTGTCCTAATCTAGACAAGAATAA-ATA
1 TTTGTCTTAATTT-AGACAAGAAAAATATTTTTTGTCTTAATCTAGACAAGAA-AATATA
*
11631679 TTTGTCTCAAATTTAGACAAGATAAAATATTTTTTGTCTTAAT
1 TTTGTCT-TAATTTAGACAAGA-AAAATATTTTTTGTCTTAAT
11631722 TACGGACAAG
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
57 13 0.15
58 7 0.08
59 43 0.48
60 26 0.29
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (58 bp):
TTTGTCTTAATTTAGACAAGAAAAATATTTTTTGTCTTAATCTAGACAAGAAAATATA
Found at i:11631706 original size:29 final size:27
Alignment explanation
Indices: 11631563--11631710 Score: 161
Period size: 29 Copynumber: 5.1 Consensus size: 27
11631553 CTTTAACATC
*
11631563 TTTGTCTTAATTTAGACAAGAAAACATG
1 TTTGTCTTAATTTAGACAAGAAAA-ATA
*
11631591 TTTGGTCTTAATTTAGACAAGAAAATATG
1 TTT-GTCTTAATTTAGACAAGAAAA-ATA
11631620 TTTGTCTTAATTTAAGACAAGAAAAATA
1 TTTGTCTTAATTT-AGACAAGAAAAATA
* *
11631648 TTTTTTGTCCTAATCTAGACAAGAATAAATA
1 ---TTTGTCTTAATTTAGACAAGAA-AAATA
*
11631679 TTTGTCTCAAATTTAGACAAGATAAAATA
1 TTTGTCT-TAATTTAGACAAGA-AAAATA
11631708 TTT
1 TTT
11631711 TTTGTCTTAA
Statistics
Matches: 105, Mismatches: 7, Indels: 15
0.83 0.06 0.12
Matches are distributed among these distances:
28 21 0.20
29 58 0.55
30 10 0.10
31 16 0.15
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (27 bp):
TTTGTCTTAATTTAGACAAGAAAAATA
Found at i:11633209 original size:54 final size:55
Alignment explanation
Indices: 11633053--11633251 Score: 216
Period size: 55 Copynumber: 3.7 Consensus size: 55
11633043 ATGTATACAA
* *
11633053 CCACCGGCTCATCAGCTCATGTGCACTCCTACACCACACATAGCTGGAATCATCAT
1 CCACCGG-TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCAT
* * * *
11633109 CCACCGGTCATTAGCTCATGTGCACTCCCACATCGCATAGAGCTGGAATCATCAT
1 CCACCGGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCAT
* * * *
11633164 CCACCGGTCATCAACT-TTGTGCACTCCGACACCGCACATTGCTGGAATCA-C-T
1 CCACCGGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCAT
* *
11633216 ----C-GTCATCACCGACATGTGCACTCCCACACCGCACAT
1 CCACCGGTCATCAGC-TCATGTGCACTCCCACACCGCACAT
11633252 CACCGATTAC
Statistics
Matches: 123, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
47 8 0.07
48 1 0.01
49 21 0.17
52 1 0.01
53 1 0.01
54 28 0.23
55 56 0.46
56 7 0.06
ACGTcount: A:0.25, C:0.37, G:0.16, T:0.22
Consensus pattern (55 bp):
CCACCGGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCAT
Found at i:11636156 original size:40 final size:40
Alignment explanation
Indices: 11636111--11636190 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
11636101 TTTTGCCTAT
11636111 GTATGCGTATGCGTGATGTAAATCATTAAGATTCATAGTA
1 GTATGCGTATGCGTGATGTAAATCATTAAGATTCATAGTA
11636151 GTATGCGTATGCGTGATGTAAATCATTAAGATTCATAGTA
1 GTATGCGTATGCGTGATGTAAATCATTAAGATTCATAGTA
11636191 TAAACAATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (40 bp):
GTATGCGTATGCGTGATGTAAATCATTAAGATTCATAGTA
Found at i:11637329 original size:41 final size:41
Alignment explanation
Indices: 11637238--11637342 Score: 131
Period size: 41 Copynumber: 2.6 Consensus size: 41
11637228 ACCCAGCTCA
* *
11637238 TGTGCATCCCCCCACATCATGCACAAGCAATATCATCGCTT
1 TGTGCATCCCCCCACATCGTGCACAAGCAATATCATCGCTG
* * *
11637279 TATGCATCCCCCCACATCGTGCACAAGCGATATCATC-ATCG
1 TGTGCATCCCCCCACATCGTGCACAAGCAATATCATCGCT-G
* *
11637320 TGTGTATCCCCCCACATTGTGCA
1 TGTGCATCCCCCCACATCGTGCA
11637343 TAGCTAATGC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 1 0.02
41 54 0.98
ACGTcount: A:0.25, C:0.36, G:0.14, T:0.25
Consensus pattern (41 bp):
TGTGCATCCCCCCACATCGTGCACAAGCAATATCATCGCTG
Found at i:11637567 original size:2 final size:2
Alignment explanation
Indices: 11637562--11637594 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11637552 CATAAAAAAN
11637562 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 T
11637595 CAATATTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11638212 original size:22 final size:22
Alignment explanation
Indices: 11638174--11638217 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11638164 ACTTCCATCA
11638174 AACACTTTCTAAGTTTACATGT
1 AACACTTTCTAAGTTTACATGT
*
11638196 AACACTATTCTCA-TTTACATGT
1 AACACT-TTCTAAGTTTACATGT
11638218 TGCCACCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (22 bp):
AACACTTTCTAAGTTTACATGT
Found at i:11646286 original size:19 final size:19
Alignment explanation
Indices: 11646258--11646295 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11646248 CCATTTAACT
11646258 TATTGAAGTATGATTTGAG
1 TATTGAAGTATGATTTGAG
*
11646277 TATTGGAGTATGATTTGAG
1 TATTGAAGTATGATTTGAG
11646296 GCTTAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGAAGTATGATTTGAG
Found at i:11654094 original size:43 final size:43
Alignment explanation
Indices: 11654002--11654126 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 43
11653992 CTTTGTGTTA
* * *
11654002 TAATGATGACCTAGCTATGTACGATGT-GGGAGTGCACATGAGC
1 TAATGATGACCTGGCTATGTGCGA-GTAGGGAGTGCACATAAGC
*
11654045 TAATGATGACCTGGCTATGTGCGAGTAGGGAGTGCGCATAAG-
1 TAATGATGACCTGGCTATGTGCGAGTAGGGAGTGCACATAAGC
* * *
11654087 TCGATGATGATCC-GACTATGTGCGAGTAAGGAGTGCACAT
1 T-AATGATGA-CCTGGCTATGTGCGAGTAGGGAGTGCACAT
11654127 GACGATGAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
42 3 0.04
43 66 0.93
44 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (43 bp):
TAATGATGACCTGGCTATGTGCGAGTAGGGAGTGCACATAAGC
Found at i:11659513 original size:28 final size:27
Alignment explanation
Indices: 11659467--11659520 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
11659457 TTGTCCTGGT
*
11659467 GGTGGAAAATTACAATTTTGCCCCTAG
1 GGTGGAAAATTACAATTTTACCCCTAG
**
11659494 GGTGGTAAAATTACTTTTTTACCCCTA
1 GGTGG-AAAATTACAATTTTACCCCTA
11659521 TACTCCAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTAG
Found at i:11659587 original size:19 final size:19
Alignment explanation
Indices: 11659563--11659600 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11659553 ACTTTTAAAC
*
11659563 CTCAAATCATACTCCAATA
1 CTCAAATAATACTCCAATA
11659582 CTCAAATAATACTCCAATA
1 CTCAAATAATACTCCAATA
11659601 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATAATACTCCAATA
Found at i:11670496 original size:19 final size:19
Alignment explanation
Indices: 11670472--11670509 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11670462 ACTTCTAAAC
11670472 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
*
11670491 CTCAAATCATTCTCCAATA
1 CTCAAATCATACTCCAATA
11670510 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:11670594 original size:26 final size:26
Alignment explanation
Indices: 11670546--11670595 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
11670536 TCTAAAAACT
*
11670546 ACCATTTTGTCCCCAAGTGGTGAATG
1 ACCATTTTGTCCCCAAGTAGTGAATG
*
11670572 ACCATTTTG-CCCCTAGATAGTGAA
1 ACCATTTTGTCCCCAAG-TAGTGAA
11670596 AATTTGATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (26 bp):
ACCATTTTGTCCCCAAGTAGTGAATG
Found at i:11676367 original size:18 final size:19
Alignment explanation
Indices: 11676344--11676383 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
11676334 CAAGTGAGAA
*
11676344 ATTTTA-GAATAAAATGAT
1 ATTTTATGAATAAAATAAT
*
11676362 ATTTTATTAATAAAATAAT
1 ATTTTATGAATAAAATAAT
11676381 ATT
1 ATT
11676384 AAAATATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
ATTTTATGAATAAAATAAT
Found at i:11677350 original size:60 final size:56
Alignment explanation
Indices: 11677268--11677408 Score: 160
Period size: 60 Copynumber: 2.5 Consensus size: 56
11677258 GAGAATGAGG
* * *
11677268 GAAAGAAAAAAA-AAAGGAAAGAAAAAGAGAGAAGGGAG-TTCGGCCAAACCAATGAGA
1 GAAAAAAAAAAAGAAAGGGAAGAAAAAGAGAGAAGGAAGCTT-GGCCAAACCAA-G-GA
* * *
11677325 GAAAAGAAAAGGAAGAAAGGGAAGAAAAAGAGAGAAGGAAGCTTGGTCGAACCAAGGA
1 GAAAA-AAAA-AAAGAAAGGGAAGAAAAAGAGAGAAGGAAGCTTGGCCAAACCAAGGA
*
11677383 GAAAAAAAAAAAGAAAGGGAGGAAAA
1 GAAAAAAAAAAAGAAAGGGAAGAAAA
11677409 GAAAGAGAGA
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
56 15 0.21
57 8 0.11
58 11 0.15
59 3 0.04
60 33 0.46
61 2 0.03
ACGTcount: A:0.59, C:0.06, G:0.30, T:0.04
Consensus pattern (56 bp):
GAAAAAAAAAAAGAAAGGGAAGAAAAAGAGAGAAGGAAGCTTGGCCAAACCAAGGA
Found at i:11677423 original size:56 final size:60
Alignment explanation
Indices: 11677261--11677423 Score: 146
Period size: 60 Copynumber: 2.8 Consensus size: 60
11677251 AAGGAATGAG
* * * ** * *
11677261 AATGAG-GGAAAGAAAA-AAA-AAAGGAAAGAAAAAGAGAGAAGGGAG-TTCGGCCAAACC
1 AATGAGAGAAAAGAAAAGAAAGAAAGGGAAGAAAAAAAGAGAAGAAAGCTT-GGTCGAACC
* * *
11677318 AATGAGAGAAAAGAAAAGGAAGAAAGGGAAGAAAAAGAGAGAAGGAAGCTTGGTCGAACC
1 AATGAGAGAAAAGAAAAGAAAGAAAGGGAAGAAAAAAAGAGAAGAAAGCTTGGTCGAACC
*
11677378 AA-G-GAGAAAA-AAAA-AAAGAAAGGGAGGAAAAGAAAGAG-AGAAAGCT
1 AATGAGAGAAAAGAAAAGAAAGAAAGGGAAGAAAA-AAAGAGAAGAAAGCT
11677424 AGACTTTTGG
Statistics
Matches: 91, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
56 22 0.24
57 15 0.16
58 16 0.18
59 3 0.03
60 33 0.36
61 2 0.02
ACGTcount: A:0.58, C:0.06, G:0.31, T:0.05
Consensus pattern (60 bp):
AATGAGAGAAAAGAAAAGAAAGAAAGGGAAGAAAAAAAGAGAAGAAAGCTTGGTCGAACC
Found at i:11678637 original size:2 final size:2
Alignment explanation
Indices: 11678632--11678671 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
11678622 CATGTTTACG
*
11678632 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11678672 CCCATCATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:11678747 original size:43 final size:43
Alignment explanation
Indices: 11678712--11678821 Score: 157
Period size: 43 Copynumber: 2.6 Consensus size: 43
11678702 TCACCAGCTC
** * *
11678712 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCATCGGTTT
1 ATGCGCACTCCCTACTCGCACATAACTAGGTCATCATCGGCTT
*
11678755 ATGCGCACTCCCTACTCGCACATAATTAGGTCATCATCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACTAGGTCATCATCGGCTT
* *
11678798 ATGCGCACTCCTTACTCACACATA
1 ATGCGCACTCCCTACTCGCACATA
11678822 GCCAAGTCCA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.34, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACTAGGTCATCATCGGCTT
Found at i:11681293 original size:149 final size:149
Alignment explanation
Indices: 11681025--11681317 Score: 529
Period size: 149 Copynumber: 2.0 Consensus size: 149
11681015 GTGAAATGTG
*
11681025 AAAAAAAAAGATAGAATCCATGTGCTCCTCCATTTTTTTTGATATATATATATAAGTATATGTTG
1 AAAAAAAAAGATAGAATCCATGTGCTCCTCCATTTTTTGTGATATATATATATAAGTATATGTTG
11681090 TGCCTTGATAAATAATAATTATGTGATAATGATGACCCAGTTATGTGCGAGTAGGGAGTGCACAT
66 TGCCTTGATAAATAATAATTATGTGATAATGATGACCCAGTTATGTGCGAGTAGGGAGTGCACAT
11681155 GAGCCAATGATGACNAAAAA
131 GAGCCAATGATGAC-AAAAA
11681175 AAAAACAAGAAGAT-GAATCCATGTGCTCCT-CATTTTTTGT-ATATATATATATAAGTATATGT
1 AAAAA-AA-AAGATAGAATCCATGTGCTCCTCCATTTTTTGTGATATATATATATAAGTATATGT
11681237 TGTGCCTTGATAAATAATAATTATGTGATAATGATGACCCAGTTATGTGCGAGTAGGGAGTGCAC
64 TGTGCCTTGATAAATAATAATTATGTGATAATGATGACCCAGTTATGTGCGAGTAGGGAGTGCAC
11681302 ATGAGCCAATGATGAC
129 ATGAGCCAATGATGAC
11681318 TCGGCTATGT
Statistics
Matches: 140, Mismatches: 1, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
149 103 0.74
150 14 0.10
151 18 0.13
152 5 0.04
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (149 bp):
AAAAAAAAAGATAGAATCCATGTGCTCCTCCATTTTTTGTGATATATATATATAAGTATATGTTG
TGCCTTGATAAATAATAATTATGTGATAATGATGACCCAGTTATGTGCGAGTAGGGAGTGCACAT
GAGCCAATGATGACAAAAA
Done.