Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 119 of 153
Found at i:37250067 original size:16 final size:16
Alignment explanation
Indices: 37250023--37250067 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 16
37250013 ATAAATTATT
37250023 TAAT-ATTTT-AATAA
1 TAATAATTTTAAATAA
37250037 TAA-AA-TTTAAA-AA
1 TAATAATTTTAAATAA
37250050 TAATAATTTTAAATAA
1 TAATAATTTTAAATAA
37250066 TA
1 TA
37250068 TTCTTCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
13 8 0.31
14 8 0.31
15 6 0.23
16 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATAATTTTAAATAA
Found at i:37250110 original size:14 final size:15
Alignment explanation
Indices: 37250086--37250122 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
37250076 ATATTATTGA
37250086 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
37250099 TAATATTTTAATAAT
1 AAATATTTTAATAAT
37250114 AAATATTTT
1 AAATATTTT
37250123 GTAGTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 4 0.20
14 6 0.30
15 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:37258877 original size:61 final size:63
Alignment explanation
Indices: 37258811--37258935 Score: 157
Period size: 62 Copynumber: 2.0 Consensus size: 63
37258801 AAATTTAATT
* * *
37258811 ATTTTTACAGGG-TTATTTTAGCCTGGCCATATACTTATTACCA-TTCTAATTTTCAA-CAATA
1 ATTTTTACAGGGATTATTTTAGCATGACCATATACTTATTACCATTTC-AAGTTTCAACCAATA
* * * *
37258872 ATTTTTACAGGGATTTTTTTAGCATGATCATATATTTATTTCCATTTCAAGTTTCAACCAATA
1 ATTTTTACAGGGATTATTTTAGCATGACCATATACTTATTACCATTTCAAGTTTCAACCAATA
37258935 A
1 A
37258936 CCATCACCTG
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
61 12 0.22
62 33 0.61
63 9 0.17
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (63 bp):
ATTTTTACAGGGATTATTTTAGCATGACCATATACTTATTACCATTTCAAGTTTCAACCAATA
Found at i:37261884 original size:14 final size:14
Alignment explanation
Indices: 37261865--37261893 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
37261855 ACCACAGACT
37261865 ATCTCAATGCTGAA
1 ATCTCAATGCTGAA
37261879 ATCTCAATGCTGAA
1 ATCTCAATGCTGAA
37261893 A
1 A
37261894 GAACTGAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (14 bp):
ATCTCAATGCTGAA
Found at i:37266803 original size:31 final size:32
Alignment explanation
Indices: 37266739--37266813 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 32
37266729 TCTGAACTCG
**
37266739 AAATTGACCCAAACCTGAATGACCTGGAGTCA
1 AAATTGACCCAAACCTGAATGACCCAGAGTCA
37266771 AAATTGACCCAAA-CTGAAGTGACCCAGA-TCA
1 AAATTGACCCAAACCTGAA-TGACCCAGAGTCA
*
37266802 AAACTTAACCCA
1 AAA-TTGACCCA
37266814 TTCCGCTCGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 11 0.29
32 27 0.71
ACGTcount: A:0.41, C:0.27, G:0.15, T:0.17
Consensus pattern (32 bp):
AAATTGACCCAAACCTGAATGACCCAGAGTCA
Found at i:37279562 original size:22 final size:21
Alignment explanation
Indices: 37279522--37279582 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 21
37279512 GTACTTTAAA
* **
37279522 ATTTAATAATACTTTTAATTT
1 ATTTAATAATATTTTTAATAG
37279543 ATTTAATAATATTTTTTAATAG
1 ATTTAATAATA-TTTTTAATAG
37279565 ATTTAATAATACTTTTTA
1 ATTTAATAATA-TTTTTA
37279583 TACAAGTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
21 11 0.31
22 24 0.69
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTAATAATATTTTTAATAG
Found at i:37287527 original size:15 final size:16
Alignment explanation
Indices: 37287500--37287541 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
37287490 ATTTTCGTAG
*
37287500 ATAAAAAA-GAAATAA
1 ATAAAAAATAAAATAA
*
37287515 A-ATAAAATAAAATAA
1 ATAAAAAATAAAATAA
37287530 ATAAAAAATAAA
1 ATAAAAAATAAA
37287542 TAGAATAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 5 0.23
15 8 0.36
16 9 0.41
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (16 bp):
ATAAAAAATAAAATAA
Found at i:37288526 original size:44 final size:43
Alignment explanation
Indices: 37288477--37288892 Score: 225
Period size: 44 Copynumber: 9.6 Consensus size: 43
37288467 ATCTACTCTG
* * * *
37288477 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTT-CTTCAATCTGCTCCA
* * ** * * *
37288521 CTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCCTTTCTTCAATCTGCTCCA
* **
37288564 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATC-CTTTCTTCAATCTGCTCCA
* ** *
37288608 CTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTCCGGTCTACTCCA
1 CTGTAACCTCAGGGAGATAAGATCCT----TTCTTCAATCTGCTCCA
* * *
37288654 CTGTAACCTCAGGGAGATAAGA--CTTGCATATTCAACCTGCCCCA
1 CTGTAACCTCAGGGAGATAAGATCCTT---TCTTCAATCTGCTCCA
* * * * * * **
37288698 CTGTAACTTCGGGGAGATAAG--GCTTTATGT-GACCTGCTCTG
1 CTGTAACCTCAGGGAGATAAGATCCTTTCT-TCAATCTGCTCCA
* * * * *
37288739 CTGTAACTTCAGAGAGATAGGATCCTTTATTTTAATCTGCTCC-
1 CTGTAACCTCAGGGAGATAAGATCCTTT-CTTCAATCTGCTCCA
* * * * * ** * * * *
37288782 TTATAACTTCAAGGAGATAGGATAGTGTCCTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCCTTTCTTCAATCTGCTCCA
* * ** *
37288825 CTGTAATCTCAAGGAGATAAGATCTCTGGCGTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATC-CTTTCTTCAATCTGCTCCA
37288869 CTGTAACCTCAGGGAGATAAGATC
1 CTGTAACCTCAGGGAGATAAGATC
37288893 TGAAATATTC
Statistics
Matches: 285, Mismatches: 71, Indels: 32
0.73 0.18 0.08
Matches are distributed among these distances:
41 29 0.10
42 13 0.05
43 74 0.26
44 134 0.47
45 2 0.01
46 33 0.12
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (43 bp):
CTGTAACCTCAGGGAGATAAGATCCTTTCTTCAATCTGCTCCA
Found at i:37288688 original size:90 final size:87
Alignment explanation
Indices: 37288465--37288891 Score: 306
Period size: 87 Copynumber: 4.9 Consensus size: 87
37288455 AGACTTGATG
* * * * *
37288465 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATCCTT-TATTTTAATCCGCTCCACTGTAACT
1 CGATCTACTCCGCTGTAACCTCAGGGAGATAAGAT-CTTGCATTTCAATCTGCTCCACTGTAACT
* * *
37288529 TCAGGGAGATAGGATAGTGTCTT
65 TCAGGGAGATAAGATAATGTCTC
* *
37288552 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGC--TTCAATCTGCTCCACTGTAAC
1 CGATCTACTCCGCTGTAACCTCAGGGAGATAAGATCT-T-GCATTTCAATCTGCTCCACTGTAAC
*
37288615 CTCAGGGAGATAAGATCTGAAAT-TCTC
64 TTCAGGGAGATAAGA--T--AATGTCTC
* * * *
37288642 CGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CTTGCATATTCAACCTGCCCCACTGTAACT
1 CGATCTACTCCGCTGTAACCTCAGGGAGATAAGATCTTGCAT-TTCAATCTGCTCCACTGTAACT
* * *
37288706 TCGGGGAGATAAGGCTTTATG--T-
65 TCAGGGAGATAA-G-ATAATGTCTC
* * * * * * * * * *
37288728 -GACCTGCTCTGCTGTAACTTCAGAGAGATAGGATCCTT-TATTTTAATCTGCTCC-TTATAACT
1 CGATCTACTCCGCTGTAACCTCAGGGAGATAAGAT-CTTGCATTTCAATCTGCTCCACTGTAACT
* * *
37288790 TCAAGGAGATAGGATAGTGTC-C
65 TCAGGGAGATAAGATAATGTCTC
* * * *
37288812 TCGATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTCTGGC--GTCAATCTGCTCCACTGTAA
1 -CGATCTACTCCGCTGTAACCTCAGGGAGATAAGATCT-T-GCATTTCAATCTGCTCCACTGTAA
*
37288875 CCTCAGGGAGATAAGAT
63 CTTCAGGGAGATAAGAT
37288892 CTGAAATATT
Statistics
Matches: 260, Mismatches: 56, Indels: 48
0.71 0.15 0.13
Matches are distributed among these distances:
82 3 0.01
83 1 0.00
84 15 0.06
85 37 0.14
86 43 0.17
87 88 0.34
88 3 0.01
89 3 0.01
90 64 0.25
91 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (87 bp):
CGATCTACTCCGCTGTAACCTCAGGGAGATAAGATCTTGCATTTCAATCTGCTCCACTGTAACTT
CAGGGAGATAAGATAATGTCTC
Found at i:37290183 original size:7 final size:7
Alignment explanation
Indices: 37290131--37290183 Score: 56
Period size: 7 Copynumber: 7.9 Consensus size: 7
37290121 TAGCTTCTCA
37290131 ATTTTTC
1 ATTTTTC
*
37290138 AATTTTC
1 ATTTTTC
37290145 A-TTTTC
1 ATTTTTC
*
37290151 TTTTTTC
1 ATTTTTC
*
37290158 AATTTTC
1 ATTTTTC
*
37290165 A-TTCTC
1 ATTTTTC
37290171 ATTTTTC
1 ATTTTTC
37290178 ATTTTT
1 ATTTTT
37290184 TTCAGAGTGC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
6 10 0.26
7 28 0.74
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (7 bp):
ATTTTTC
Found at i:37290183 original size:20 final size:20
Alignment explanation
Indices: 37290125--37290182 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
37290115 TCCCCTTAGC
37290125 TTCTCAATTTTTCAATTTTCA
1 TTCTC-ATTTTTCAATTTTCA
* *
37290146 TTTTCTTTTTTCAATTTTCA
1 TTCTCATTTTTCAATTTTCA
37290166 TTCTCATTTTTC-ATTTT
1 TTCTCATTTTTCAATTTT
37290183 TTTCAGAGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.15
20 24 0.73
21 4 0.12
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (20 bp):
TTCTCATTTTTCAATTTTCA
Found at i:37291126 original size:6 final size:6
Alignment explanation
Indices: 37291117--37291145 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
37291107 TCTCAGTTTC
37291117 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
37291146 TTCCTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
ATTTTG
Found at i:37296425 original size:15 final size:16
Alignment explanation
Indices: 37296398--37296439 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
37296388 ATTTTCGTAG
*
37296398 ATAAAAAA-GAAATAA
1 ATAAAAAATAAAATAA
*
37296413 A-ATAAAATAAAATAA
1 ATAAAAAATAAAATAA
37296428 ATAAAAAATAAA
1 ATAAAAAATAAA
37296440 TAGAATAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 5 0.23
15 8 0.36
16 9 0.41
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (16 bp):
ATAAAAAATAAAATAA
Found at i:37297137 original size:10 final size:10
Alignment explanation
Indices: 37297117--37297178 Score: 54
Period size: 10 Copynumber: 6.0 Consensus size: 10
37297107 TCTCAACAAA
37297117 AATTACAAAAT
1 AATT-CAAAAT
37297128 AATTCAAAAT
1 AATTCAAAAT
*
37297138 AATTTTAAAA-
1 AA-TTCAAAAT
37297148 AATTCAAAAT
1 AATTCAAAAT
* * *
37297158 ATTTATAAAAA
1 AATT-CAAAAT
37297169 AATTCAAAAT
1 AATTCAAAAT
37297179 TTTATAATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
9 6 0.15
10 17 0.43
11 17 0.43
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (10 bp):
AATTCAAAAT
Found at i:37297147 original size:21 final size:20
Alignment explanation
Indices: 37297123--37297185 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 20
37297113 CAAAAATTAC
37297123 AAAATAATTCAAAATAATTT-T
1 AAAA-AATTCAAAAT-ATTTAT
37297144 AAAAAATTCAAAATATTTAT
1 AAAAAATTCAAAATATTTAT
37297164 AAAAAAATTCAAAAT-TTTAT
1 -AAAAAATTCAAAATATTTAT
37297184 AA
1 AA
37297186 TTTTTTACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.15
20 16 0.40
21 18 0.45
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAAATTCAAAATATTTAT
Found at i:37297153 original size:20 final size:21
Alignment explanation
Indices: 37297123--37297185 Score: 87
Period size: 20 Copynumber: 3.1 Consensus size: 21
37297113 CAAAAATTAC
*
37297123 AAAATAATTCAAAATAATTT-T
1 AAAAAAATTCAAAAT-ATTTAT
37297144 -AAAAAATTCAAAATATTTAT
1 AAAAAAATTCAAAATATTTAT
37297164 AAAAAAATTCAAAAT-TTTAT
1 AAAAAAATTCAAAATATTTAT
37297184 AA
1 AA
37297186 TTTTTTACAA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
19 4 0.10
20 21 0.54
21 14 0.36
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAAAATTCAAAATATTTAT
Found at i:37297233 original size:48 final size:48
Alignment explanation
Indices: 37297140--37297233 Score: 111
Period size: 48 Copynumber: 2.0 Consensus size: 48
37297130 TTCAAAATAA
* *
37297140 TTTTAAAAAATTCAAAATATTTATAAAAAAATTCAAAATTTTATAATT
1 TTTTAAAAAATTCAAAATATTTATAAAAAAATTCAAAAATATATAATT
* * *
37297188 TTTTACAAAATT-ATAAATATTTCA-AAAAAATTTTAAAAATATATAA
1 TTTTAAAAAATTCA-AAATATTT-ATAAAAAAATTCAAAAATATATAA
37297234 AGAAAGTTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
47 1 0.03
48 37 0.95
49 1 0.03
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (48 bp):
TTTTAAAAAATTCAAAATATTTATAAAAAAATTCAAAAATATATAATT
Found at i:37298785 original size:4 final size:4
Alignment explanation
Indices: 37298778--37298803 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
37298768 ATATATCTAT
37298778 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
37298804 AATGATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:37307408 original size:16 final size:16
Alignment explanation
Indices: 37307389--37307426 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
37307379 AATATAAAAC
*
37307389 ATATTTAAAGTAAATA
1 ATATTTAAAATAAATA
*
37307405 ATATTAAAAATAAATA
1 ATATTTAAAATAAATA
37307421 ATATTT
1 ATATTT
37307427 TCTGAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
ATATTTAAAATAAATA
Found at i:37308490 original size:29 final size:30
Alignment explanation
Indices: 37308431--37308500 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 30
37308421 CAAGTAAACT
*
37308431 TAAATTTTAAAATATAAAAAGTAGAAAGAC
1 TAAATTTTAAAATATAAAAAGTACAAAGAC
* *
37308461 TAAATTCTTAAAA-AT-ACAAGTACAATGAC
1 TAAATT-TTAAAATATAAAAAGTACAAAGAC
*
37308490 TGAAATATTAA
1 T-AAATTTTAA
37308501 TTTTTGAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
29 16 0.47
30 12 0.35
31 6 0.18
ACGTcount: A:0.56, C:0.07, G:0.09, T:0.29
Consensus pattern (30 bp):
TAAATTTTAAAATATAAAAAGTACAAAGAC
Found at i:37315635 original size:192 final size:192
Alignment explanation
Indices: 37315308--37315689 Score: 701
Period size: 192 Copynumber: 2.0 Consensus size: 192
37315298 TTTACCATAC
37315308 GCTTGTCTATTGATCTTGGCCCACTCCTTGTCATCCATCTTGTCAAGTTTTTCTTCAAGGGCTAT
1 GCTTGTCTATTGATCTTGGCCCACTCCTTGTCATCCATCTTGTCAAGTTTTTCTTCAAGGGCTAT
*
37315373 ATCCAGCTCTTGCTGACATAAGACATCCAGGATCTCACACTGCCACATACCAAAATTATTGGTAC
66 ATCCAGCTCTTGCTGACATAAGACATCCAGGATCTCACACTGCCACATACCAAAATTATTGATAC
*
37315438 CGTCAAATTTCTCTACTTCAAATTTTGCATTTGTCACAGTAGTCCTTGCTGATGACGATGCT
131 CGTCAAATTTCTCTACTTCAAATTTTGCATTTATCACAGTAGTCCTTGCTGATGACGATGCT
37315500 GCTTGTCTATTGATCTTGGCCCACTCCTTGTCATCCATCTTGTCAAGTTTTTCTTCAAGGGCTAT
1 GCTTGTCTATTGATCTTGGCCCACTCCTTGTCATCCATCTTGTCAAGTTTTTCTTCAAGGGCTAT
* * *
37315565 ATCTAGCTCTTGCTGTCATAAGACATCCAGGATCTCACATTGCCACATACCAAAATTATTGATAC
66 ATCCAGCTCTTGCTGACATAAGACATCCAGGATCTCACACTGCCACATACCAAAATTATTGATAC
* *
37315630 CGTCAAATTTTTCTACTTCAAATTTTGCATTTATCACAGTAGTCCTTGCTGATGATGATG
131 CGTCAAATTTCTCTACTTCAAATTTTGCATTTATCACAGTAGTCCTTGCTGATGACGATG
37315690 ATGATGCTGC
Statistics
Matches: 183, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
192 183 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (192 bp):
GCTTGTCTATTGATCTTGGCCCACTCCTTGTCATCCATCTTGTCAAGTTTTTCTTCAAGGGCTAT
ATCCAGCTCTTGCTGACATAAGACATCCAGGATCTCACACTGCCACATACCAAAATTATTGATAC
CGTCAAATTTCTCTACTTCAAATTTTGCATTTATCACAGTAGTCCTTGCTGATGACGATGCT
Found at i:37315777 original size:18 final size:18
Alignment explanation
Indices: 37315725--37315779 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
37315715 CAATCCCAAC
*
37315725 TACTGTATACGTGAACAG
1 TACTGTATACGTGAATAG
*
37315743 TACTGTATACGTAAATAG
1 TACTGTATACGTGAATAG
37315761 TACTGTATACGTGAATAG
1 TACTGTATACGTGAATAG
37315779 T
1 T
37315780 GCCGTAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (18 bp):
TACTGTATACGTGAATAG
Found at i:37321373 original size:2 final size:2
Alignment explanation
Indices: 37321366--37321392 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37321356 AAATCAACAT
37321366 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 T
37321393 CAACAGATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37321991 original size:17 final size:19
Alignment explanation
Indices: 37321957--37321991 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
37321947 TTGAAAGAGT
37321957 TTGAACAAATATATTTAAC
1 TTGAACAAATATATTTAAC
37321976 TTGAA-AAATA-ATTTAA
1 TTGAACAAATATATTTAA
37321992 AAAAATTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (19 bp):
TTGAACAAATATATTTAAC
Found at i:37322132 original size:54 final size:54
Alignment explanation
Indices: 37322050--37322214 Score: 330
Period size: 54 Copynumber: 3.1 Consensus size: 54
37322040 GCGATGAACA
37322050 TTTCCATTGATTTCAAACTAACTAAACAATATTGTTAATGCAAATATTGTAATG
1 TTTCCATTGATTTCAAACTAACTAAACAATATTGTTAATGCAAATATTGTAATG
37322104 TTTCCATTGATTTCAAACTAACTAAACAATATTGTTAATGCAAATATTGTAATG
1 TTTCCATTGATTTCAAACTAACTAAACAATATTGTTAATGCAAATATTGTAATG
37322158 TTTCCATTGATTTCAAACTAACTAAACAATATTGTTAATGCAAATATTGTAATG
1 TTTCCATTGATTTCAAACTAACTAAACAATATTGTTAATGCAAATATTGTAATG
37322212 TTT
1 TTT
37322215 TCTAGGAGAT
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 111 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (54 bp):
TTTCCATTGATTTCAAACTAACTAAACAATATTGTTAATGCAAATATTGTAATG
Found at i:37323420 original size:15 final size:15
Alignment explanation
Indices: 37323400--37323428 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37323390 AAAAGCATGT
37323400 TAGAGAAATTCACAC
1 TAGAGAAATTCACAC
37323415 TAGAGAAATTCACA
1 TAGAGAAATTCACA
37323429 TTGACTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (15 bp):
TAGAGAAATTCACAC
Found at i:37326810 original size:21 final size:21
Alignment explanation
Indices: 37326784--37326824 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37326774 ATCTGCTCAA
* *
37326784 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
37326805 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
37326825 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:37339107 original size:16 final size:17
Alignment explanation
Indices: 37339076--37339109 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
37339066 TATTTATAAA
37339076 TTTTAAATTTTATTATG
1 TTTTAAATTTTATTATG
*
37339093 TTTTTAATTTT-TTATG
1 TTTTAAATTTTATTATG
37339109 T
1 T
37339110 ATAAAAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTTAAATTTTATTATG
Found at i:37346145 original size:15 final size:16
Alignment explanation
Indices: 37346116--37346145 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37346106 TAATTTCTAT
37346116 ATTGTTTTGTATATTG
1 ATTGTTTTGTATATTG
37346132 ATTGTTTT-TATATT
1 ATTGTTTTGTATATT
37346146 ATTCCATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (16 bp):
ATTGTTTTGTATATTG
Found at i:37348626 original size:3 final size:3
Alignment explanation
Indices: 37348606--37348663 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
37348596 ATTTTTATAC
* * * * *
37348606 TAT TAA TAT TAC TAT TAT TAT TAT TAT TAT TAT TAG TAG TAG TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
*
37348655 TTT TAT TAT
1 TAT TAT TAT
37348664 ATGCGCGTAC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:37348782 original size:21 final size:19
Alignment explanation
Indices: 37348741--37348785 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 19
37348731 ATGCTTACTT
*
37348741 TTATATTTTGATATTATTA
1 TTATATTTTGATATCATTA
37348760 TTATATTTATGATTATCATTA
1 TTATATTT-TGA-TATCATTA
37348781 TTATA
1 TTATA
37348786 ATAGTGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.35
20 3 0.13
21 12 0.52
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
TTATATTTTGATATCATTA
Found at i:37348985 original size:11 final size:11
Alignment explanation
Indices: 37348965--37349012 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
37348955 TATGTTTTCT
37348965 TATA-TATGTA
1 TATATTATGTA
37348975 TATATTATGTA
1 TATATTATGTA
37348986 T-T-TTA--TA
1 TATATTATGTA
37348993 TATATTATGTA
1 TATATTATGTA
37349004 TATTATTAT
1 TA-TATTAT
37349013 TTTTATTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
7 3 0.09
8 1 0.03
9 6 0.19
10 5 0.16
11 11 0.34
12 6 0.19
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (11 bp):
TATATTATGTA
Found at i:37349018 original size:18 final size:18
Alignment explanation
Indices: 37348973--37349009 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
37348963 CTTATATATG
*
37348973 TATATATTATGTATTTTA
1 TATATATTATGTATATTA
37348991 TATATATTATGTATATTA
1 TATATATTATGTATATTA
37349009 T
1 T
37349010 TATTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TATATATTATGTATATTA
Found at i:37349022 original size:30 final size:30
Alignment explanation
Indices: 37348965--37349036 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
37348955 TATGTTTTCT
37348965 TATA-TATGTATA-TATTATGTATTTTATA
1 TATATTATGTATATTATTATGTATTTTATA
*
37348993 TATATTATGTATATTATTAT-TTTTATTATA
1 TATATTATGTATATTATTATGTATT-TTATA
* *
37349023 CATATTACGTATAT
1 TATATTATGTATAT
37349037 ATCAAATATC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 4 0.11
29 11 0.29
30 23 0.61
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.57
Consensus pattern (30 bp):
TATATTATGTATATTATTATGTATTTTATA
Found at i:37349198 original size:24 final size:25
Alignment explanation
Indices: 37349171--37349230 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 25
37349161 TTATGTGTAC
*
37349171 ATATTATGTAAATGTTTTA-ATATT
1 ATATCATGTAAATGTTTTATATATT
* **
37349195 ATATCGTGTGTATGTTTTATATATT
1 ATATCATGTAAATGTTTTATATATT
*
37349220 ATGAACATGTA
1 AT-ATCATGTA
37349231 TTTTCAATAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
24 15 0.56
25 7 0.26
26 5 0.19
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (25 bp):
ATATCATGTAAATGTTTTATATATT
Found at i:37351281 original size:18 final size:18
Alignment explanation
Indices: 37351258--37351292 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
37351248 GCTGCAGTAA
37351258 AAACCACAGGCAAACATG
1 AAACCACAGGCAAACATG
37351276 AAACCACAGGCAAACAT
1 AAACCACAGGCAAACAT
37351293 CCCGTTAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.29, G:0.14, T:0.06
Consensus pattern (18 bp):
AAACCACAGGCAAACATG
Found at i:37352021 original size:21 final size:20
Alignment explanation
Indices: 37351981--37352028 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
37351971 AATAAAAGAT
37351981 ATTA-AAAATTAGAAAAAAAA
1 ATTATAAAATTAG-AAAAAAA
* *
37352001 ATTATAAAATTAGTAAGAAA
1 ATTATAAAATTAGAAAAAAA
37352021 A-TATAAAA
1 ATTATAAAA
37352029 AATTGAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.28
20 10 0.40
21 8 0.32
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (20 bp):
ATTATAAAATTAGAAAAAAA
Found at i:37352030 original size:21 final size:20
Alignment explanation
Indices: 37351974--37352037 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 20
37351964 AAATTTTAAT
* *
37351974 AAAAGATATTAAAAATTAGA
1 AAAAAATATAAAAAATTAGA
* *
37351994 AAAAAAAATTATAAAATTAGTA
1 AAAAAATA-TAAAAAATTAG-A
*
37352016 AGAAAATATAAAAAATT-GA
1 AAAAAATATAAAAAATTAGA
37352035 AAA
1 AAA
37352038 TTTTTATAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
19 3 0.09
20 7 0.21
21 17 0.50
22 7 0.21
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (20 bp):
AAAAAATATAAAAAATTAGA
Found at i:37352313 original size:21 final size:22
Alignment explanation
Indices: 37352287--37352330 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
37352277 AAATTACGAA
37352287 TTTTAT-A-TTTCTTTACAATTT
1 TTTTATAATTTTC-TTACAATTT
37352308 TTTTATAATTTTCTTACAATTT
1 TTTTATAATTTTCTTACAATTT
37352330 T
1 T
37352331 ATAATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.29
22 11 0.52
23 4 0.19
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTTATAATTTTCTTACAATTT
Found at i:37352377 original size:9 final size:9
Alignment explanation
Indices: 37352326--37352423 Score: 62
Period size: 9 Copynumber: 10.6 Consensus size: 9
37352316 TTTTCTTACA
37352326 ATTTTATA-
1 ATTTTATAT
37352334 ATTTTATAGTT
1 ATTTTATA--T
*
37352345 TTTTTATAT
1 ATTTTATAT
37352354 ATTTCTATAT
1 ATTT-TATAT
37352364 ATTTTATAGT
1 ATTTTATA-T
*
37352374 -TTTTATAAA
1 ATTTTAT-AT
37352383 ATTTTATA-
1 ATTTTATAT
*
37352391 ATTTTTTTACT
1 A-TTTTATA-T
37352402 ATTTT-TAT
1 ATTTTATAT
37352410 AATTTT-TAT
1 -ATTTTATAT
37352419 ATTTT
1 ATTTT
37352424 GTTAAAATTT
Statistics
Matches: 75, Mismatches: 4, Indels: 22
0.74 0.04 0.22
Matches are distributed among these distances:
8 15 0.20
9 31 0.41
10 21 0.28
11 8 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (9 bp):
ATTTTATAT
Found at i:37352386 original size:19 final size:20
Alignment explanation
Indices: 37352364--37352419 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
37352354 ATTTCTATAT
*
37352364 ATTTTATAGTTTTTATA-AA
1 ATTTTATAATTTTTATACAA
* *
37352383 ATTTTATAATTTTTTTACTA
1 ATTTTATAATTTTTATACAA
*
37352403 TTTTTATAATTTTTATA
1 ATTTTATAATTTTTATA
37352420 TTTTGTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
ATTTTATAATTTTTATACAA
Found at i:37352399 original size:30 final size:30
Alignment explanation
Indices: 37352298--37352423 Score: 90
Period size: 30 Copynumber: 4.4 Consensus size: 30
37352288 TTTATATTTC
* * *
37352298 TTTACAATTTTTTTATAATTTTCT-TACAAT
1 TTTATAATTTTTTTATAGTTTT-TATAAAAT
* *
37352328 TTTATAA---TTTTATAGTTTTTTTATATAT
1 TTTATAATTTTTTTATAGTTTTTATA-AAAT
*
37352356 TTCTAT-A-TATTTTATAGTTTTTATAAAAT
1 TT-TATAATTTTTTTATAGTTTTTATAAAAT
*
37352385 TTTATAATTTTTTTACTA-TTTTTAT-AATT
1 TTTATAATTTTTTTA-TAGTTTTTATAAAAT
37352414 TTTAT-ATTTT
1 TTTATAATTTT
37352424 GTTAAAATTT
Statistics
Matches: 80, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
26 1 0.01
27 13 0.16
28 13 0.16
29 17 0.21
30 34 0.43
31 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (30 bp):
TTTATAATTTTTTTATAGTTTTTATAAAAT
Found at i:37352420 original size:57 final size:57
Alignment explanation
Indices: 37352308--37352423 Score: 141
Period size: 57 Copynumber: 2.1 Consensus size: 57
37352298 TTTACAATTT
* * *
37352308 TTTTATAATTTTCTTACAATTTTATAATTTTATAGTTTTTTTATATATTTCTATATA
1 TTTTATAATTTTCTTAAAATTTTATAATTTTATACTATTTTTATATATTTCTATATA
* *
37352365 TTTTATAGTTTT-TATAAAATTTTATAATTTTTTTACTATTTTTATA-ATTT-T-TATA
1 TTTTATAATTTTCT-TAAAATTTTATAA-TTTTATACTATTTTTATATATTTCTATATA
37352420 TTTT
1 TTTT
37352424 GTTAAAATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
55 8 0.15
56 2 0.04
57 27 0.52
58 15 0.29
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (57 bp):
TTTTATAATTTTCTTAAAATTTTATAATTTTATACTATTTTTATATATTTCTATATA
Found at i:37354269 original size:10 final size:11
Alignment explanation
Indices: 37354254--37354345 Score: 51
Period size: 11 Copynumber: 8.4 Consensus size: 11
37354244 AAAAATATAT
37354254 TATTTT-TTAC
1 TATTTTGTTAC
*
37354264 TATTTTGTTGC
1 TATTTTGTTAC
* **
37354275 TATTTTCTTGT
1 TATTTTGTTAC
* *
37354286 TTTTTTTTTCAC
1 TATTTTGTT-AC
*
37354298 TATTTCGTTAC
1 TATTTTGTTAC
*** *
37354309 TATTTCACTAT
1 TATTTTGTTAC
*
37354320 TATGTTGTTAC
1 TATTTTGTTAC
*
37354331 TATTTTGTTAT
1 TATTTTGTTAC
37354342 TATT
1 TATT
37354346 GTTTGATCAA
Statistics
Matches: 60, Mismatches: 20, Indels: 3
0.72 0.24 0.04
Matches are distributed among these distances:
10 6 0.10
11 48 0.80
12 6 0.10
ACGTcount: A:0.16, C:0.11, G:0.08, T:0.65
Consensus pattern (11 bp):
TATTTTGTTAC
Found at i:37358755 original size:22 final size:22
Alignment explanation
Indices: 37358730--37358774 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
37358720 TTATGCTTTA
37358730 ATTTTTTTATTGTTTGGAAGTT
1 ATTTTTTTATTGTTTGGAAGTT
*
37358752 ATTTTTTTATTGTTTGGATGTT
1 ATTTTTTTATTGTTTGGAAGTT
37358774 A
1 A
37358775 CTTATGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (22 bp):
ATTTTTTTATTGTTTGGAAGTT
Found at i:37362778 original size:51 final size:50
Alignment explanation
Indices: 37362718--37362813 Score: 183
Period size: 51 Copynumber: 1.9 Consensus size: 50
37362708 AGAAAAACTA
37362718 TTTTATATTGTATTGTATGCATAATTGAGTTGAAAATTTATCATTTAATTG
1 TTTTATATTGTATTGTATGCATAATTGAGTTG-AAATTTATCATTTAATTG
37362769 TTTTATATTGTATTGTATGCATAATTGAGTTGAAATTTATCATTT
1 TTTTATATTGTATTGTATGCATAATTGAGTTGAAATTTATCATTT
37362814 GGTAGTATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 13 0.29
51 32 0.71
ACGTcount: A:0.30, C:0.04, G:0.14, T:0.52
Consensus pattern (50 bp):
TTTTATATTGTATTGTATGCATAATTGAGTTGAAATTTATCATTTAATTG
Found at i:37363660 original size:30 final size:30
Alignment explanation
Indices: 37363626--37363690 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
37363616 AAAAATATAC
* *
37363626 AAAAATCATTAA-AAATTGTATAAACA-TTTT
1 AAAAATAATTAAGAAA-T-TATAAAAATTTTT
37363656 AAAAATAATTAAGAAATTATAAAAATTTTT
1 AAAAATAATTAAGAAATTATAAAAATTTTT
37363686 AAAAA
1 AAAAA
37363691 ATGTTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 7 0.23
30 21 0.68
31 3 0.10
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (30 bp):
AAAAATAATTAAGAAATTATAAAAATTTTT
Found at i:37367564 original size:30 final size:31
Alignment explanation
Indices: 37367498--37367566 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 31
37367488 TAACGTTTGG
* * **
37367498 GTGACTAAAATAAAAATACCCTAAAAGTTGA
1 GTGACCAAAATAAAAACACCCTAAAAAATGA
* *
37367529 ATGACCAAAATGAAAACA-CCTAAAAAATGA
1 GTGACCAAAATAAAAACACCCTAAAAAATGA
37367559 GTGACCAA
1 GTGACCAA
37367567 CTAGATAGTT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
30 17 0.55
31 14 0.45
ACGTcount: A:0.54, C:0.16, G:0.13, T:0.17
Consensus pattern (31 bp):
GTGACCAAAATAAAAACACCCTAAAAAATGA
Found at i:37368289 original size:43 final size:43
Alignment explanation
Indices: 37368178--37368290 Score: 217
Period size: 43 Copynumber: 2.6 Consensus size: 43
37368168 TTTTCTTGCG
*
37368178 AAGGAGATCAAAGTGGAGTGTCTTGAGAGCCGACCTCCCCCAA
1 AAGGAGATCAAAGTGGAGTGTCTTGGGAGCCGACCTCCCCCAA
37368221 AAGGAGATCAAAGTGGAGTGTCTTGGGAGCCGACCTCCCCCAA
1 AAGGAGATCAAAGTGGAGTGTCTTGGGAGCCGACCTCCCCCAA
37368264 AAGGAGATCAAAGTGGAGTGTCTTGGG
1 AAGGAGATCAAAGTGGAGTGTCTTGGG
37368291 TCGAACTCTT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.29, C:0.21, G:0.32, T:0.18
Consensus pattern (43 bp):
AAGGAGATCAAAGTGGAGTGTCTTGGGAGCCGACCTCCCCCAA
Found at i:37378424 original size:44 final size:44
Alignment explanation
Indices: 37378358--37378705 Score: 371
Period size: 44 Copynumber: 7.9 Consensus size: 44
37378348 NNNNNNNNNN
* * *
37378358 TCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTA
1 TCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTA
* * * * *
37378402 TCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTA
* * * * *
37378446 TCTTCGATCTAATTCGCCACTAATATGGGAAAACAAGATCTGC-A
1 TCTTCGATCTACTTC-CTACCAATATAGGAAGACAAGATCTGCTA
* * *
37378490 TCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTA
1 TCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTA
* * * *
37378534 CCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTC-CTACCAATATAGGAAGACAAGATCTGCTA
* *
37378578 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-A
1 TCTTCGATCTACTTC-CTACCAATATAGGAAGACAAGATCTGCTA
* * * *
37378622 TCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATA
1 TCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTA
* * *
37378666 TCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCT
1 TCTTCGATCTACTTC-CTACCAATATAGGAAGACAAGATCT
37378706 ACTTTAATGA
Statistics
Matches: 247, Mismatches: 51, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
43 43 0.17
44 162 0.66
45 42 0.17
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (44 bp):
TCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTA
Found at i:37378595 original size:132 final size:132
Alignment explanation
Indices: 37378358--37378705 Score: 633
Period size: 132 Copynumber: 2.6 Consensus size: 132
37378348 NNNNNNNNNN
*
37378358 TCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCATGCCA
1 TCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCA
* *
37378423 ATACATGAAGACAAGATCTGCTTTCTTCGATCTAATTCGCCACTAATATGGGAAAACAAGATCTG
66 ATACATGAAGACAAGATCTGCTATCTTCGATCTAATTCGCCACCAATATGGGAAAACAAGATCTG
37378488 CA
131 CA
*
37378490 TCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCA
1 TCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCA
* *
37378555 ATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
66 ATACATGAAGACAAGATCTGCTATCTTCGATCTAATTCGCCACCAATATGGGAAAACAAGATCTG
37378620 CA
131 CA
*
37378622 TCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
1 TCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCA
37378687 ATACATGAAGACAAGATCT
66 ATACATGAAGACAAGATCT
37378706 ACTTTAATGA
Statistics
Matches: 208, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 208 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (132 bp):
TCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCA
ATACATGAAGACAAGATCTGCTATCTTCGATCTAATTCGCCACCAATATGGGAAAACAAGATCTG
CA
Found at i:37395165 original size:16 final size:18
Alignment explanation
Indices: 37395146--37395180 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
37395136 GTAAATATAC
37395146 AAAAT-AAAGAATA-AAA
1 AAAATGAAAGAATAGAAA
37395162 AAAATGAAAGAATAGAAA
1 AAAATGAAAGAATAGAAA
37395180 A
1 A
37395181 TGGGTGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 8 0.47
18 4 0.24
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (18 bp):
AAAATGAAAGAATAGAAA
Found at i:37406073 original size:53 final size:53
Alignment explanation
Indices: 37405932--37406097 Score: 203
Period size: 53 Copynumber: 3.1 Consensus size: 53
37405922 GACGAAAAAT
* * * **
37405932 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGACTATAGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
37405984 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
37406037 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
37406091 TATGTGA
1 -ATGTGA
37406098 ACCGTGTAAG
Statistics
Matches: 101, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 79 0.78
54 1 0.01
55 6 0.06
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:37407480 original size:6 final size:6
Alignment explanation
Indices: 37407471--37407513 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
37407461 AAAGAAGATG
* * *
37407471 AAGAGA AAGAAA GAAGAAA AAGAAA AAGAAA GATAAA AAGAAA
1 AAGAAA AAGAAA -AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
37407514 GATAATGAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (6 bp):
AAGAAA
Found at i:37407485 original size:19 final size:19
Alignment explanation
Indices: 37407461--37407513 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
37407451 AGAGGTGGTA
** *
37407461 AAAGAAGATGAAGAGAAAG
1 AAAGAAGAAAAAGAAAAAG
37407480 AAAGAAGAAAAAGAAAAAG
1 AAAGAAGAAAAAGAAAAAG
*
37407499 AAAG-ATAAAAAGAAA
1 AAAGAAGAAAAAGAAA
37407514 GATAATGAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 10 0.33
19 20 0.67
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.04
Consensus pattern (19 bp):
AAAGAAGAAAAAGAAAAAG
Found at i:37407524 original size:12 final size:12
Alignment explanation
Indices: 37407460--37407518 Score: 59
Period size: 12 Copynumber: 5.1 Consensus size: 12
37407450 AAGAGGTGGT
*
37407460 AAAAG-AAGATG
1 AAAAGAAAGATA
*
37407471 AAGAGAAAGA-A
1 AAAAGAAAGATA
* * *
37407482 AGAAGAAAAAGA
1 AAAAGAAAGATA
37407494 AAAAGAAAGATA
1 AAAAGAAAGATA
37407506 AAAAGAAAGATA
1 AAAAGAAAGATA
37407518 A
1 A
37407519 TGAGAATAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
11 11 0.29
12 27 0.71
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.05
Consensus pattern (12 bp):
AAAAGAAAGATA
Found at i:37407577 original size:4 final size:4
Alignment explanation
Indices: 37407568--37407595 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
37407558 TTTTACCTTA
37407568 AATC AATC AATC AATC AATC AATC AATC
1 AATC AATC AATC AATC AATC AATC AATC
37407596 CATCTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
AATC
Found at i:37410518 original size:20 final size:20
Alignment explanation
Indices: 37410474--37410539 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
37410464 CATCCAAACA
37410474 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
37410493 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
*
37410513 CTAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
37410533 CCAGAAA
1 CCAGAAA
37410540 TTATTTTTCG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 16 0.36
20 28 0.64
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:37419228 original size:201 final size:201
Alignment explanation
Indices: 37418879--37419280 Score: 768
Period size: 201 Copynumber: 2.0 Consensus size: 201
37418869 TTGAAGATTT
*
37418879 TCCCTCCTTTTTTCACTTCTTGGCTAGTTCATTTATCAGTTACATGTACCTTTATGAAACTCAAT
1 TCCCTCCTTTTTTCACTGCTTGGCTAGTTCATTTATCAGTTACATGTACCTTTATGAAACTCAAT
37418944 TATTCTTATAGGTTGGAAATTATGAGGATAAAGATGTAATGGACTATGACAATGATCCTAAAACA
66 TATTCTTATAGGTTGGAAATTATGAGGATAAAGATGTAATGGACTATGACAATGATCCTAAAACA
* *
37419009 GAGTTTCAACGCTTCATCAGGCTAATAAGAGAGGGTATGTATACTTTTCATATTTTCTAATTATT
131 GAGTTTCAACGATTCATCAGGCTAATAAGAGAGGGTATGTATACTTTTCATATTTGCTAATTATT
37419074 TATATA
196 TATATA
*
37419080 TCCCTCCTTTTTTCACTGCTTGGCTAGTTCATTTATCAGTTACATGTACCTTTATGTAACTCAAT
1 TCCCTCCTTTTTTCACTGCTTGGCTAGTTCATTTATCAGTTACATGTACCTTTATGAAACTCAAT
37419145 TATTCTTATAGGTTGGAAATTATGAGGATAAAGATGTAATGGACTATGACAATGATCCTAAAACA
66 TATTCTTATAGGTTGGAAATTATGAGGATAAAGATGTAATGGACTATGACAATGATCCTAAAACA
37419210 GAGTTTCAACGATTCATCAGGCTAATAAGAGAGGGTATGTATACTTTTCATATTTGCTAATTATT
131 GAGTTTCAACGATTCATCAGGCTAATAAGAGAGGGTATGTATACTTTTCATATTTGCTAATTATT
37419275 TATATA
196 TATATA
37419281 CATTCTCTGA
Statistics
Matches: 197, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
201 197 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (201 bp):
TCCCTCCTTTTTTCACTGCTTGGCTAGTTCATTTATCAGTTACATGTACCTTTATGAAACTCAAT
TATTCTTATAGGTTGGAAATTATGAGGATAAAGATGTAATGGACTATGACAATGATCCTAAAACA
GAGTTTCAACGATTCATCAGGCTAATAAGAGAGGGTATGTATACTTTTCATATTTGCTAATTATT
TATATA
Found at i:37421642 original size:15 final size:15
Alignment explanation
Indices: 37421619--37421651 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
37421609 GACAAACTTA
*
37421619 ATACGTTCATGTAAC
1 ATACATTCATGTAAC
37421634 ATACATTCATGTAAC
1 ATACATTCATGTAAC
37421649 ATA
1 ATA
37421652 TTGTCTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.33
Consensus pattern (15 bp):
ATACATTCATGTAAC
Found at i:37423178 original size:49 final size:49
Alignment explanation
Indices: 37423106--37423200 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
37423096 AAAGCAACAC
* * *
37423106 ATGGAGATGACAACTCATCGGACTCTGACTCCGACCACTTTCCTCCCAT
1 ATGGAGACGACAACTCATCGGACTCCGACTCCGACCACTCTCCTCCCAT
*
37423155 ATGGAGACGACGACTCATCGGACTCCGACTCCGACCACTCTCCTCC
1 ATGGAGACGACAACTCATCGGACTCCGACTCCGACCACTCTCCTCC
37423201 GCTGTCTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.23, C:0.38, G:0.18, T:0.21
Consensus pattern (49 bp):
ATGGAGACGACAACTCATCGGACTCCGACTCCGACCACTCTCCTCCCAT
Found at i:37432439 original size:13 final size:13
Alignment explanation
Indices: 37432421--37432447 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37432411 AAAAGAATGC
37432421 ACGTTTTTATTTA
1 ACGTTTTTATTTA
37432434 ACGTTTTTATTTA
1 ACGTTTTTATTTA
37432447 A
1 A
37432448 TGCATATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.59
Consensus pattern (13 bp):
ACGTTTTTATTTA
Found at i:37438836 original size:18 final size:18
Alignment explanation
Indices: 37438813--37438905 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
37438803 CCCAACTACT
* *
37438813 GTATACATGAACAGTACC
1 GTATACGTGAATAGTACC
37438831 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
37438849 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
37438867 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
37438885 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
37438903 GTA
1 GTA
37438906 AACGGTCGCA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 69 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:37440352 original size:156 final size:155
Alignment explanation
Indices: 37440105--37440908 Score: 883
Period size: 156 Copynumber: 5.1 Consensus size: 155
37440095 ACAAAAGAAA
* *
37440105 TGTTCATAGTTTCATTATCCTTGATTTGACTTTTATA-TCTCTATCTCCATTCCTCAAACACACG
1 TGTTCGTAG-TTCATTATCCTTGATTTGACTTTTATATTC-CTATCT-CA-TCCTCAAACACACA
* * * * *
37440169 ACTCAAAATAAAAATACAAGCACAAGAAAATACCATTTTTTCCTTGGGGAATAATTTCTCAGATG
62 ACTCAAAATATAAATACATGCACAAGAACATACCATTTTCTCCTTGGGGAGTAATTTCTCAGATG
* * *
37440234 GCTTCCTTGATATAGTTTCCTGAAAAGGA
127 GCTTCCTCGATACAGTTTCCTGAAAAGGG
* *
37440263 TGCTCGTAGTTTATTATCCTTGATTTGACTTTTATATTCCTATCTACATCCTCAAACACACAACT
1 TGTTCGTAGTTCATTATCCTTGATTTGACTTTTATATTCCTATCT-CATCCTCAAACACACAACT
* * *
37440328 CAAAATATAAATATATGCACAAGAACATACCATTTTCTCCTTGGGGATTAATTTCTCAGTTGGCT
65 CAAAATATAAATACATGCACAAGAACATACCATTTTCTCCTTGGGGAGTAATTTCTCAGATGG--
37440393 TCTTCCTCGATACAGTTTCCTG-AAAGGG
128 -CTTCCTCGATACAGTTTCCTGAAAAGGG
* * * * * * *
37440421 TGTTTC-TAGCTCATCATCCTTGATTTGAC-CTTATGTACTTATCTCAATCCTAAAACACACAAC
1 TG-TTCGTAGTTCATTATCCTTGATTTGACTTTTATATTCCTATCTC-ATCCTCAAACACACAAC
* * *
37440484 TCCAAATATAAATACAAGCACAAGAACATACCATTTTCTCCTTGGGGAGTAATTTCCCAGATGGT
64 TCAAAATATAAATACATGCACAAGAACATACCATTTTCTCCTTGGGGAGTAATTTCTCAGATGG-
* *
37440549 TTCTTCCTCGATACGGTTTCCTGAAAAGGC
128 --CTTCCTCGATACAGTTTCCTGAAAAGGG
* ** * * * *
37440579 TGTTCCTAGTTCATTATCCTTGATTTGACTTTTACGTTCCTGTCTCCCTCCTCTAACGCACAACT
1 TGTTCGTAGTTCATTATCCTTGATTTGACTTTTATATTCCTATCT-CATCCTCAAACACACAACT
* * *
37440644 -AAAAGTATAAATAAATGCACAAGAACATACCATTTTCTCCTTGTGGAGTAATTTCTCAGATGAC
65 CAAAA-TATAAATACATGCACAAGAACATACCATTTTCTCCTTGGGGAGTAATTTCTCAGATGGC
* * * *
37440708 TTCCTCCATTCAATTTCCTGAAAAAGG
129 TTCCTCGATACAGTTTCCTGAAAAGGG
* *
37440735 TGTTCGTAGTTCGTTATCCTTGATTTGACATTTATATTCCTATCTCTATCCTCAAACACACAACT
1 TGTTCGTAGTTCATTATCCTTGATTTGACTTTTATATTCCTATCTC-ATCCTCAAACACACAACT
* ** * * * **
37440800 CAAGATATAAATATGTACACAATAAGAACACACCATTTTCTCCTTGGAGAGTAATCCCTCAGATG
65 CAAAATATAAATACATGCAC---AAGAACATACCATTTTCTCCTTGGGGAGTAATTTCTCAGATG
*
37440865 GC-T--TCGATACAATTTCCTGAAAAGGG
127 GCTTCCTCGATACAGTTTCCTGAAAAGGG
37440891 TGCTT-GTAGTT-A-TATCCT
1 TG-TTCGTAGTTCATTATCCT
37440909 ATCTCCATCC
Statistics
Matches: 550, Mismatches: 79, Indels: 38
0.82 0.12 0.06
Matches are distributed among these distances:
154 6 0.01
155 1 0.00
156 189 0.34
157 149 0.27
158 68 0.12
159 136 0.25
160 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (155 bp):
TGTTCGTAGTTCATTATCCTTGATTTGACTTTTATATTCCTATCTCATCCTCAAACACACAACTC
AAAATATAAATACATGCACAAGAACATACCATTTTCTCCTTGGGGAGTAATTTCTCAGATGGCTT
CCTCGATACAGTTTCCTGAAAAGGG
Found at i:37441010 original size:133 final size:132
Alignment explanation
Indices: 37440766--37441020 Score: 336
Period size: 133 Copynumber: 1.9 Consensus size: 132
37440756 GATTTGACAT
* * *
37440766 TTATATTCCTATCTCTATCCTCAAACACACAACTCAAGATATAAATATGTACACAATAAGAACAC
1 TTATATTCCTATCTCCATCCTCAAACACACAACTCAAAATATAAATACGTACAC-A-AAGAACAC
*
37440831 ACCATTTTCTCCTTGGAGAGTAATCCCTCAGATGGCTTCGATACAATTTCCTGAAAAGGGTGCTT
64 ACCATTTTCTCCTTGGAGAGTAATCCCTCAGATGGCTTCAATACAATTTCCTGAAAAGGGTGCTT
37440896 GTAG
129 GTAG
* * *
37440900 TTATA-TCCTATCTCCATCCTCAAACACACAACTCAAAATATAAATGCGTGCAC-AAGAACATAC
1 TTATATTCCTATCTCCATCCTCAAACACACAACTCAAAATATAAATACGTACACAAAGAACACAC
* * * *
37440963 CGTTTTCTCCTTGGAGAGTAA-CTTCTTAGATGGTTTGCTCAATACAATTTCCTGAAAA
66 CATTTTCTCCTTGGAGAGTAATC-CCTCAGATGG-CT--TCAATACAATTTCCTGAAAA
37441021 AGATGCAGAG
Statistics
Matches: 106, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
129 1 0.01
130 37 0.35
131 1 0.01
133 62 0.58
134 5 0.05
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.30
Consensus pattern (132 bp):
TTATATTCCTATCTCCATCCTCAAACACACAACTCAAAATATAAATACGTACACAAAGAACACAC
CATTTTCTCCTTGGAGAGTAATCCCTCAGATGGCTTCAATACAATTTCCTGAAAAGGGTGCTTGT
AG
Found at i:37442863 original size:7 final size:6
Alignment explanation
Indices: 37442824--37442860 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
37442814 GCATAAGTAG
37442824 TTTTAT TTTTAT TTTTAT TTTTAAT TTTTAAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTT-AT TTTT-AT TTTTA
37442861 ATTATATTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 17 0.57
7 13 0.43
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:37446221 original size:39 final size:39
Alignment explanation
Indices: 37446112--37446243 Score: 167
Period size: 39 Copynumber: 3.4 Consensus size: 39
37446102 ATCGGTGGAT
37446112 TCTGGTATGGTGTTTGATGATCTATTATGCTACTTTCAG
1 TCTGGTATGGTGTTTGATGATCTATTATGCTACTTTCAG
* * * * *
37446151 TCTGATAAGGTGTTTTATGATATATTTTGCTACTTTCAG
1 TCTGGTATGGTGTTTGATGATCTATTATGCTACTTTCAG
* * * *
37446190 TCTGGTATGAG-GTTTGATCATCTGTTCTGCTAATTTCAG
1 TCTGGTATG-GTGTTTGATGATCTATTATGCTACTTTCAG
37446229 TCTGGTATGGTGTTT
1 TCTGGTATGGTGTTT
37446244 TACTGATGGT
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 76 0.97
40 1 0.01
ACGTcount: A:0.18, C:0.12, G:0.23, T:0.47
Consensus pattern (39 bp):
TCTGGTATGGTGTTTGATGATCTATTATGCTACTTTCAG
Found at i:37448713 original size:20 final size:21
Alignment explanation
Indices: 37448683--37448722 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
37448673 TCTTAATTTA
37448683 TTTATTTATTACTTT-TTTTGT
1 TTTATTTATTA-TTTATTTTGT
37448704 TTTA-TTATTATTTATTTTG
1 TTTATTTATTATTTATTTTG
37448723 AATTTCCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 11 0.61
21 4 0.22
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (21 bp):
TTTATTTATTATTTATTTTGT
Found at i:37449049 original size:18 final size:19
Alignment explanation
Indices: 37449011--37449049 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
37449001 TTTGTTTTTG
* *
37449011 TTATTGTTTTATTATTTAT
1 TTATGGTTTTATTATTCAT
37449030 TTATGGTTTT-TTATTCAT
1 TTATGGTTTTATTATTCAT
37449048 TT
1 TT
37449050 TAAATATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.18, C:0.03, G:0.08, T:0.72
Consensus pattern (19 bp):
TTATGGTTTTATTATTCAT
Found at i:37451096 original size:21 final size:22
Alignment explanation
Indices: 37451072--37451112 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
37451062 TATACAAGCA
37451072 ATATTACTTGAA-AGTTATGAG
1 ATATTACTTGAATAGTTATGAG
*
37451093 ATATTAGTTGAATAGTTATG
1 ATATTACTTGAATAGTTATG
37451113 TTTCTATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (22 bp):
ATATTACTTGAATAGTTATGAG
Found at i:37454136 original size:29 final size:29
Alignment explanation
Indices: 37453198--37454124 Score: 1764
Period size: 29 Copynumber: 32.0 Consensus size: 29
37453188 TTGTGTGTAC
* * * *
37453198 AATGTGAAAAGCGATAGTTTCGGCTGTCG
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
*
37453227 AATGTGAAAAGGGATAGCTTTGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
* *
37453256 AATGTGAAAAGAGATAGCTTCGGCTATCG
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
* * *
37453285 AATGTGAAAATGGATAGCTTTGACTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453314 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453343 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453372 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453401 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453430 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453459 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453488 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453517 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453546 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453575 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453604 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453633 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453662 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453691 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453720 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453749 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453778 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453807 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453836 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453865 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453894 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453923 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453952 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37453981 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37454010 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37454039 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37454068 AATGTGAAAAGGGATAGCTTCGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCA
37454097 AATGTGAAAAGGGATAGCTTCGGCTATC
1 AATGTGAAAAGGGATAGCTTCGGCTATC
37454125 GAATTTGGAA
Statistics
Matches: 882, Mismatches: 16, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 882 1.00
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.25
Consensus pattern (29 bp):
AATGTGAAAAGGGATAGCTTCGGCTATCA
Found at i:37454176 original size:33 final size:33
Alignment explanation
Indices: 37454127--37454258 Score: 176
Period size: 33 Copynumber: 4.0 Consensus size: 33
37454117 CGGCTATCGA
*
37454127 ATTTGGAAA-GAAAGGTATACTTTGTGTATACC
1 ATTTGAAAAGGAAAGGTATACTTTGTGTATACC
**
37454159 ATTTGAAAAGGTTAGGTATACTTTGTGTATACC
1 ATTTGAAAAGGAAAGGTATACTTTGTGTATACC
* *
37454192 ATTTGAAAAGGAAAGGAATACTTTGTGTATATC
1 ATTTGAAAAGGAAAGGTATACTTTGTGTATACC
* ** *
37454225 ATATGAAAATAAAAGGTATACTTTGTGTGTACC
1 ATTTGAAAAGGAAAGGTATACTTTGTGTATACC
37454258 A
1 A
37454259 CTCGGAAAGA
Statistics
Matches: 86, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
32 8 0.09
33 78 0.91
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.35
Consensus pattern (33 bp):
ATTTGAAAAGGAAAGGTATACTTTGTGTATACC
Found at i:37457912 original size:62 final size:62
Alignment explanation
Indices: 37457833--37457959 Score: 254
Period size: 62 Copynumber: 2.0 Consensus size: 62
37457823 ATATAAAAAT
37457833 TATTAATTTAAAGTTATTTAAATTCAAATATATACAAATGATTAATAAAAGTTATATATATA
1 TATTAATTTAAAGTTATTTAAATTCAAATATATACAAATGATTAATAAAAGTTATATATATA
37457895 TATTAATTTAAAGTTATTTAAATTCAAATATATACAAATGATTAATAAAAGTTATATATATA
1 TATTAATTTAAAGTTATTTAAATTCAAATATATACAAATGATTAATAAAAGTTATATATATA
37457957 TAT
1 TAT
37457960 NNNNNNNNNN
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.43
Consensus pattern (62 bp):
TATTAATTTAAAGTTATTTAAATTCAAATATATACAAATGATTAATAAAAGTTATATATATA
Found at i:37472576 original size:20 final size:20
Alignment explanation
Indices: 37472551--37472605 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
37472541 ACGAGTTAAA
* *
37472551 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
37472571 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
37472591 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
37472606 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:37475147 original size:15 final size:14
Alignment explanation
Indices: 37475127--37475160 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
37475117 TGAATACAAA
37475127 TTTTTTTTT-GAAAT
1 TTTTTTTTTCG-AAT
37475141 TTTTTTTTTCGAAT
1 TTTTTTTTTCGAAT
37475155 TTTTTT
1 TTTTTT
37475161 CCTTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 18 0.95
15 1 0.05
ACGTcount: A:0.15, C:0.03, G:0.06, T:0.76
Consensus pattern (14 bp):
TTTTTTTTTCGAAT
Found at i:37475160 original size:13 final size:13
Alignment explanation
Indices: 37475124--37475148 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37475114 AATTGAATAC
37475124 AAATTTTTTTTTG
1 AAATTTTTTTTTG
37475137 AAATTTTTTTTT
1 AAATTTTTTTTT
37475149 TCGAATTTTT
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:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
AAATTTTTTTTTG
Found at i:37475694 original size:20 final size:20
Alignment explanation
Indices: 37475671--37475717 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
37475661 GGGTTAAGAT
*
37475671 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
37475691 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
37475711 TGAGCTG
1 TGAGCTG
37475718 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:37476020 original size:56 final size:55
Alignment explanation
Indices: 37475904--37476021 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 55
37475894 TGTATGCTTT
* * * *
37475904 CATT-AATGCCGTCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
*
37475958 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCA
37476014 CATTAAAT
1 CATTAAAT
37476022 CAGCAAGCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 3 0.05
55 28 0.51
56 24 0.44
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
Found at i:37476678 original size:20 final size:20
Alignment explanation
Indices: 37476653--37476699 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
37476643 AATTGTGCTT
*
37476653 GAATGAGCTGACTTGAGCAC
1 GAATGAGCTAACTTGAGCAC
*
37476673 GAATGAGCTAACTTGAGCTC
1 GAATGAGCTAACTTGAGCAC
37476693 GAATGAG
1 GAATGAG
37476700 TTGAACCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (20 bp):
GAATGAGCTAACTTGAGCAC
Found at i:37490523 original size:20 final size:19
Alignment explanation
Indices: 37490461--37490517 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
37490451 TTATTAACTG
*
37490461 ACTACTAACAAA-TCACTAA
1 ACTACTAACAAATTC-TTAA
*
37490480 CAGCTACTAACAATTTCTTAA
1 -A-CTACTAACAAATTCTTAA
37490501 ACTACTAACAAATTCTT
1 ACTACTAACAAATTCTT
37490518 TGAACTGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 15 0.47
20 2 0.06
21 13 0.41
22 2 0.06
ACGTcount: A:0.44, C:0.25, G:0.02, T:0.30
Consensus pattern (19 bp):
ACTACTAACAAATTCTTAA
Found at i:37490644 original size:27 final size:27
Alignment explanation
Indices: 37490614--37490700 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
37490604 GCAATGATAA
*
37490614 CCTTTGTGGCAAAACATGAAACAAAAG
1 CCTTTGTGGCAAAACATGAAAGAAAAG
* * *
37490641 CCTTTGTGACAAACCATGAAAGAAAAA
1 CCTTTGTGGCAAAACATGAAAGAAAAG
* * *
37490668 CCTTTATGGCAAAATATAAAAGAAAAG
1 CCTTTGTGGCAAAACATGAAAGAAAAG
37490695 CCTTTG
1 CCTTTG
37490701 CGGTGAATTA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.45, C:0.17, G:0.16, T:0.22
Consensus pattern (27 bp):
CCTTTGTGGCAAAACATGAAAGAAAAG
Found at i:37506077 original size:25 final size:25
Alignment explanation
Indices: 37506028--37506078 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
37506018 CTTTCTATTC
* *
37506028 AAAAAATGGATAAATTAATTAATAT
1 AAAAAATAGATAAAATAATTAATAT
* *
37506053 AAAAAATAGATAAAATAGTTCATAT
1 AAAAAATAGATAAAATAATTAATAT
37506078 A
1 A
37506079 GGTTACATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (25 bp):
AAAAAATAGATAAAATAATTAATAT
Found at i:37506139 original size:23 final size:23
Alignment explanation
Indices: 37506110--37506155 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
37506100 TTTTTTTTGC
*
37506110 TAAAAATTTCATTTATTTATGTTG
1 TAAAATTTTCATTT-TTTATGTTG
*
37506134 TAAAATTTTCATTTTTTTTGTT
1 TAAAATTTTCATTTTTTATGTT
37506156 AAAAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (23 bp):
TAAAATTTTCATTTTTTATGTTG
Found at i:37507383 original size:16 final size:17
Alignment explanation
Indices: 37507362--37507417 Score: 69
Period size: 16 Copynumber: 3.3 Consensus size: 17
37507352 TTTAAAAAAC
37507362 ATTTTTAATATTTTAT-
1 ATTTTTAATATTTTATA
* *
37507378 ATTTTTAATAATTCATA
1 ATTTTTAATATTTTATA
*
37507395 ATTTTTATATATTTTAAA
1 ATTTTTA-ATATTTTATA
37507413 ATTTT
1 ATTTT
37507418 AAAAAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 14 0.42
17 7 0.21
18 12 0.36
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTTAATATTTTATA
Found at i:37507402 original size:25 final size:26
Alignment explanation
Indices: 37507367--37507415 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
37507357 AAAACATTTT
37507367 TAATATTTTATAT-TTTTAATAATTCA
1 TAATATTTTATATATTTTAA-AATTCA
37507393 TAAT-TTTTATATATTTTAAAATT
1 TAATATTTTATATATTTTAAAATT
37507416 TTAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (26 bp):
TAATATTTTATATATTTTAAAATTCA
Found at i:37514072 original size:31 final size:32
Alignment explanation
Indices: 37513986--37514065 Score: 144
Period size: 32 Copynumber: 2.5 Consensus size: 32
37513976 CCTGTTAAAA
*
37513986 TTACTCCTAAAATCATACCACAAACACTTAAC
1 TTACTCCTAAAATCATGCCACAAACACTTAAC
37514018 TTACTCCTAAAATCATGCCACAAACACTTAAC
1 TTACTCCTAAAATCATGCCACAAACACTTAAC
37514050 TTACT-CTAAAATCATG
1 TTACTCCTAAAATCATG
37514066 TAACAAAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 11 0.23
32 36 0.77
ACGTcount: A:0.41, C:0.29, G:0.03, T:0.28
Consensus pattern (32 bp):
TTACTCCTAAAATCATGCCACAAACACTTAAC
Found at i:37516800 original size:15 final size:15
Alignment explanation
Indices: 37516780--37516809 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37516770 TTAGTAAAAA
37516780 CACTCATCTCCTTTT
1 CACTCATCTCCTTTT
*
37516795 CACTCATTTCCTTTT
1 CACTCATCTCCTTTT
37516810 TAATTTCTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.37, G:0.00, T:0.50
Consensus pattern (15 bp):
CACTCATCTCCTTTT
Found at i:37520557 original size:27 final size:27
Alignment explanation
Indices: 37520513--37520598 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
37520503 AGCAAATCGG
*
37520513 TACCCTTCAAGGGTATTTCGGTAATTT
1 TACCCTTCAGGGGTATTTCGGTAATTT
* *
37520540 TATCCTTCAGGGGCATTTCGGTAATTT
1 TACCCTTCAGGGGTATTTCGGTAATTT
**
37520567 TACCCTT-AGAGGGTATTTTAGTAATTT
1 TACCCTTCAG-GGGTATTTCGGTAATTT
37520594 TACCC
1 TACCC
37520599 ATCGAGTCGC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.04
27 49 0.96
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (27 bp):
TACCCTTCAGGGGTATTTCGGTAATTT
Found at i:37520905 original size:44 final size:44
Alignment explanation
Indices: 37520840--37520927 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
37520830 CAAATTCAGC
* * *
37520840 ACAAGCATACTCCATATGGCACACAACTCTTCCTTTCCCACAAA
1 ACAAGCATACTCCATACGGCACACAACTCCTCCTCTCCCACAAA
37520884 ACAAGCATACTCCATACGGCACACAACTCCTCCTCTCCCACAAA
1 ACAAGCATACTCCATACGGCACACAACTCCTCCTCTCCCACAAA
37520928 CTCCTTGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.34, C:0.40, G:0.07, T:0.19
Consensus pattern (44 bp):
ACAAGCATACTCCATACGGCACACAACTCCTCCTCTCCCACAAA
Found at i:37523633 original size:50 final size:53
Alignment explanation
Indices: 37523558--37523698 Score: 207
Period size: 56 Copynumber: 2.7 Consensus size: 53
37523548 ACATGTCAAA
*
37523558 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC-GTCTC-GG-TGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAATCTCAGGATGCCAAT
37523608 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAAGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--AATCTC-AGGATGCCAAT
* *
37523664 GTCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
37523699 TTGCCCAAAT
Statistics
Matches: 82, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
50 36 0.44
53 4 0.05
55 2 0.02
56 40 0.49
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (53 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAATCTCAGGATGCCAAT
Found at i:37527061 original size:8 final size:8
Alignment explanation
Indices: 37527048--37527074 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
37527038 AATTAAAAAG
37527048 TATAAGAA
1 TATAAGAA
37527056 TATAAGAA
1 TATAAGAA
37527064 TATAAGAA
1 TATAAGAA
37527072 TAT
1 TAT
37527075 TTTTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (8 bp):
TATAAGAA
Found at i:37529566 original size:3 final size:3
Alignment explanation
Indices: 37529548--37529597 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
37529538 AGGTCAAACC
* * *
37529548 TCA TCA TAA TCT TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA CCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
37529596 TC
1 TC
37529598 TTCAATATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:37530842 original size:15 final size:14
Alignment explanation
Indices: 37530800--37530842 Score: 68
Period size: 14 Copynumber: 3.0 Consensus size: 14
37530790 TTACAAAAAG
*
37530800 AAAAAAAAATCCCA
1 AAAAAAAAATCCCC
37530814 AAAAAAAAATCCCC
1 AAAAAAAAATCCCC
37530828 AAAAAAAAAGTCCCC
1 AAAAAAAAA-TCCCC
37530843 CCTTTTAGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
14 22 0.81
15 5 0.19
ACGTcount: A:0.65, C:0.26, G:0.02, T:0.07
Consensus pattern (14 bp):
AAAAAAAAATCCCC
Found at i:37531933 original size:30 final size:30
Alignment explanation
Indices: 37531890--37531955 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
37531880 TTAAATTTTT
* * *
37531890 TATAAAAATTAAATTTTTAATTTTTTTAAA
1 TATAAAAACTAAATTTTAAATTTTATTAAA
*
37531920 TATAAGAACTAAATTTTAAATTTTATTAAA
1 TATAAAAACTAAATTTTAAATTTTATTAAA
37531950 T-TAAAA
1 TATAAAA
37531956 GGATTAACAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 4 0.13
30 27 0.87
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (30 bp):
TATAAAAACTAAATTTTAAATTTTATTAAA
Found at i:37532231 original size:32 final size:32
Alignment explanation
Indices: 37532188--37532251 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
37532178 GCAAAAAAAA
* * * *
37532188 CTTGTTGTTTTTTATTATTTTGTTGCTATTTT
1 CTTGTTATTTTTTACTATTTTGCTACTATTTT
37532220 CTTGTTATTTTTTACTATTTTGCTACTATTTT
1 CTTGTTATTTTTTACTATTTTGCTACTATTTT
37532252 AATATTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.69
Consensus pattern (32 bp):
CTTGTTATTTTTTACTATTTTGCTACTATTTT
Found at i:37532260 original size:32 final size:32
Alignment explanation
Indices: 37532195--37532262 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
37532185 AAACTTGTTG
* * * ** *
37532195 TTTTTTATTATTTTGTTGCTATTTTCTTGTTA
1 TTTTTTACTATTTTGCTACTATTTTAATATTA
37532227 TTTTTTACTATTTTGCTACTATTTTAATATTA
1 TTTTTTACTATTTTGCTACTATTTTAATATTA
37532259 TTTT
1 TTTT
37532263 GTTGTTATTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.18, C:0.07, G:0.06, T:0.69
Consensus pattern (32 bp):
TTTTTTACTATTTTGCTACTATTTTAATATTA
Found at i:37532270 original size:11 final size:11
Alignment explanation
Indices: 37532195--37532271 Score: 50
Period size: 11 Copynumber: 7.2 Consensus size: 11
37532185 AAACTTGTTG
37532195 TTTT-TTATTA
1 TTTTGTTATTA
**
37532205 TTTTGTTGCTA
1 TTTTGTTATTA
* *
37532216 TTTTCTTGTTA
1 TTTTGTTATTA
*
37532227 TTTT-TTACTA
1 TTTTGTTATTA
* *
37532237 TTTTGCTACTA
1 TTTTGTTATTA
**
37532248 TTTTAATATTA
1 TTTTGTTATTA
*
37532259 TTTTGTTGTTA
1 TTTTGTTATTA
37532270 TT
1 TT
37532272 GTTTGAATAT
Statistics
Matches: 52, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
10 12 0.23
11 40 0.77
ACGTcount: A:0.17, C:0.06, G:0.08, T:0.69
Consensus pattern (11 bp):
TTTTGTTATTA
Found at i:37532271 original size:22 final size:21
Alignment explanation
Indices: 37532213--37532271 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
37532203 TATTTTGTTG
* *
37532213 CTATTTTCTTGTTATTTTTTA
1 CTATTTTGTTGTTATTTTATA
* **
37532234 CTATTTTGCTACTATTTTAATA
1 CTATTTTGTTGTTATTTT-ATA
*
37532256 TTATTTTGTTGTTATT
1 CTATTTTGTTGTTATT
37532272 GTTTGAATAT
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.19, C:0.08, G:0.07, T:0.66
Consensus pattern (21 bp):
CTATTTTGTTGTTATTTTATA
Found at i:37532452 original size:14 final size:14
Alignment explanation
Indices: 37532415--37532453 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
37532405 TATATTTTTT
37532415 AAAAAATT-ATATA
1 AAAAAATTAATATA
37532428 AAAATAA-TAATATA
1 AAAA-AATTAATATA
37532442 AAAAAATTAATA
1 AAAAAATTAATA
37532454 CAGCCAGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 7 0.30
14 16 0.70
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAAATTAATATA
Found at i:37534939 original size:84 final size:84
Alignment explanation
Indices: 37534779--37534941 Score: 208
Period size: 84 Copynumber: 1.9 Consensus size: 84
37534769 TGATAAAAAG
* *
37534779 GCCAAAGGTGTCACTGAGGACAAGGAAACTGAAGAGAATTCGAGTTTAGAGCATGAGGAAGCAGA
1 GCCAAAGGTGTCACTGAGGACAAGGAAACTGAAGAGAATTCGAGTTTAGAGCATGAAGAACCAGA
*
37534844 AGCAAGTTCAAATAAAATT
66 AGCAAGATCAAATAAAATT
* * *
37534863 GCCAAAGGTGTCACTGAGGACAATGAAACTGAATG-G-ATTATGAGTTT-GAAGTATGAAGAACC
1 GCCAAAGGTGTCACTGAGGACAAGGAAACTGAA-GAGAATT-CGAGTTTAG-AGCATGAAGAACC
37534925 AGAAGCACA-ATCAAATA
63 AGAAGCA-AGATCAAATA
37534942 CATTCACTGC
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
83 4 0.06
84 63 0.91
85 2 0.03
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.19
Consensus pattern (84 bp):
GCCAAAGGTGTCACTGAGGACAAGGAAACTGAAGAGAATTCGAGTTTAGAGCATGAAGAACCAGA
AGCAAGATCAAATAAAATT
Found at i:37541006 original size:19 final size:19
Alignment explanation
Indices: 37540970--37541007 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
37540960 TCAAGATCTT
*
37540970 TCAATAAAATACTGTTTAA
1 TCAATAAAATACTATTTAA
*
37540989 TCAATAAAATATTATTTAA
1 TCAATAAAATACTATTTAA
37541008 AATTTAACCA
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:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (19 bp):
TCAATAAAATACTATTTAA
Found at i:37550607 original size:6 final size:6
Alignment explanation
Indices: 37550596--37550646 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
37550586 AGAGATATAT
* * *
37550596 AAAATA AAAATAGA AAAATA GAAA-A ATAATG AAAATA AAAATA AAAATA
1 AAAATA AAAAT--A AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
37550645 AA
1 AA
37550647 TTTAAGAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
5 3 0.08
6 27 0.75
8 6 0.17
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:37551773 original size:25 final size:25
Alignment explanation
Indices: 37551745--37551796 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
37551735 TTAGGGCAGA
*
37551745 GTTGTTTGAGGT-TTGGGCTGTTTGG
1 GTTGTTTG-GGTATTAGGCTGTTTGG
37551770 GTTGTTTGGGTATTAGGCTGTTTGG
1 GTTGTTTGGGTATTAGGCTGTTTGG
37551795 GT
1 GT
37551797 ATTGGGTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.06, C:0.04, G:0.42, T:0.48
Consensus pattern (25 bp):
GTTGTTTGGGTATTAGGCTGTTTGG
Found at i:37551892 original size:22 final size:21
Alignment explanation
Indices: 37551850--37551892 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
37551840 GGACTGAACT
*
37551850 TTTATTTATTTTTTTACTTGG
1 TTTATTTATTTTTTTAATTGG
*
37551871 TTTATTTTTTTTATTTAATTGG
1 TTTATTTATTTT-TTTAATTGG
37551893 GCCTGAGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.72
Consensus pattern (21 bp):
TTTATTTATTTTTTTAATTGG
Found at i:37552273 original size:44 final size:44
Alignment explanation
Indices: 37552204--37552578 Score: 246
Period size: 44 Copynumber: 7.8 Consensus size: 44
37552194 ATAATTTGTA
* * * * *
37552204 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGGTTGGTG
1 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGGTTGGTG
* *
37552248 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCCGCCATAATTTGTA
1 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAG----G------TTGGTG
* * * * *
37552302 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGGTTGGTG
1 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGGTTGGTG
* *
37552346 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCCGCCATAATTTGTA
1 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAG----G------TTGGTG
* * * * *
37552400 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGGTTGGTG
1 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGGTTGGTG
* *
37552444 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCCGCCATAATTTGTA
1 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAG----G------TTGGTG
* * * * *
37552498 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGGTTGGTG
1 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGGTTGGTG
37552542 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAG
1 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAG
37552579 ACCCGCCATA
Statistics
Matches: 254, Mismatches: 47, Indels: 60
0.70 0.13 0.17
Matches are distributed among these distances:
44 140 0.55
48 3 0.01
50 3 0.01
54 108 0.43
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (44 bp):
GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGGTTGGTG
Found at i:37552284 original size:98 final size:98
Alignment explanation
Indices: 37552126--37552651 Score: 890
Period size: 98 Copynumber: 5.4 Consensus size: 98
37552116 GCTCCGTTGT
* ** ** * * * * * *
37552126 AACTTTAGGGAGATAAGCCTGGTGGCTTCAAGGTGCTCCACTGCAACTTTAGAAAAATAAGATCC
1 AACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCC
37552191 GCCATAATTTGTAGCTTTAATCTGTTCCACTGC
66 GCCATAATTTGTAGCTTTAATCTGTTCCACTGC
37552224 AACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCC
1 AACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCC
37552289 GCCATAATTTGTAGCTTTAATCTGTTCCACTGC
66 GCCATAATTTGTAGCTTTAATCTGTTCCACTGC
37552322 AACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCC
1 AACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCC
37552387 GCCATAATTTGTAGCTTTAATCTGTTCCACTGC
66 GCCATAATTTGTAGCTTTAATCTGTTCCACTGC
37552420 AACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCC
1 AACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCC
37552485 GCCATAATTTGTAGCTTTAATCTGTTCCACTGC
66 GCCATAATTTGTAGCTTTAATCTGTTCCACTGC
37552518 AACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCC
1 AACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCC
37552583 GCCATAATTTGTAGCTTTAATCTGTTCCACTGC
66 GCCATAATTTGTAGCTTTAATCTGTTCCACTGC
** * * * *
37552616 AACGCCAGGGAAATAAGATTTGGTGTCTTCAGTCTG
1 AACTTCAGGGAGATAAG-GTTGGTGGCTTCAATCTG
37552652 TTCCGCTGCA
Statistics
Matches: 410, Mismatches: 17, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
98 395 0.96
99 15 0.04
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (98 bp):
AACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCC
GCCATAATTTGTAGCTTTAATCTGTTCCACTGC
Found at i:37552336 original size:54 final size:54
Alignment explanation
Indices: 37552248--37552606 Score: 310
Period size: 54 Copynumber: 7.2 Consensus size: 54
37552238 AAGGTTGGTG
37552248 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCCGCCATAATTTGTA
1 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCCGCCATAATTTGTA
* * * * * * *
37552302 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAG----G------TTGGTG
1 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCCGCCATAATTTGTA
37552346 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCCGCCATAATTTGTA
1 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCCGCCATAATTTGTA
* * * * * * *
37552400 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAG----G------TTGGTG
1 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCCGCCATAATTTGTA
37552444 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCCGCCATAATTTGTA
1 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCCGCCATAATTTGTA
* * * * * * *
37552498 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAG----G------TTGGTG
1 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCCGCCATAATTTGTA
37552542 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCCGCCATAATTTGTA
1 GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCCGCCATAATTTGTA
*
37552596 GCTTTAATCTG
1 GCTTCAATCTG
37552607 TTCCACTGCA
Statistics
Matches: 232, Mismatches: 43, Indels: 60
0.69 0.13 0.18
Matches are distributed among these distances:
44 108 0.47
48 3 0.01
50 3 0.01
54 118 0.51
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (54 bp):
GCTTCAATCTGCTCAACTGAAACTTCAGGAAGATAAGACCCGCCATAATTTGTA
Found at i:37552677 original size:143 final size:143
Alignment explanation
Indices: 37552505--37552876 Score: 609
Period size: 143 Copynumber: 2.6 Consensus size: 143
37552495 GTAGCTTTAA
* * * *
37552505 TCTGTTCCACTGCAACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCAACTGAAACTTCAG
1 TCTGTTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGAAACTTCAG
*
37552570 GAAGATAAGACCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGAT
66 GAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGAT
* * *
37552635 TTGGTGTCTTCAG
131 TCGCTATCTTCAG
* *
37552648 TCTGTTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATGTGCTCCACTGCAACTTCAG
1 TCTGTTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGAAACTTCAG
* *
37552713 AAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCTACTGCAACGCCAGGGAAATAAGAT
66 GAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGAT
37552778 TCGCTATCTTCAG
131 TCGCTATCTTCAG
* * *
37552791 TCTGCTCCGCTGCAACTTTAGGGAGATAAGGCTGGTAGCTTCAATCTGCTCCACTGTAACTTCAG
1 TCTGTTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGAAACTTCAG
37552856 GAAGATAAGATCCGCCATAAT
66 GAAGATAAGATCCGCCATAAT
37552877 GACTTCAATC
Statistics
Matches: 212, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
143 212 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (143 bp):
TCTGTTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGAAACTTCAG
GAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGAT
TCGCTATCTTCAG
Found at i:37562140 original size:322 final size:322
Alignment explanation
Indices: 37561552--37562181 Score: 1014
Period size: 322 Copynumber: 2.0 Consensus size: 322
37561542 CTTCATTAGC
*
37561552 AAGGCCTTAGATGCATACACAAAGGAAAAAGAAAATCAAGATTCACTTTCTTGTTTTTAAGAAAA
1 AAGGCCTTAGATGCATACACAAAGGAAAAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAA
*
37561617 TCAAGAAACCAAATCTTGGCCCAATTTTGTTATTTTGAGCGATTTCAAGAATCAAGAAAATTAAG
66 TCAAGAAACCAAATCTTGGCCCAATTTTGTTATTTTGAGCGATTTCAAGAATCAAGAAAATCAAG
* **
37561682 ATTTCAAATCTTGGAAATCTTGGCCCAAGAAACTGAATCTTGCAGTTAAAGCGCATTGGATCTAA
131 ATTTCAAATCTTAGAAATCTTGGCCCAAGAAACTGAATCTTGCAACTAAAGCGCATTGGATCTAA
* ** * *
37561747 GTTACGAGCATCAAGGAACCAATTTTGGGAGAGAACAGATTACAAGCCCAAGTTCTTGAAGATAC
196 GTTACGAGCATCAAGCAACCAATTTCAGGAGAGAACAGATTACAAGCCCAAGTTCTTGAAGACAA
37561812 GGCCCAATAAGATGTTCCAAGCCCAA-CCAAGAAGTTTAAATTAGACTTTGATACGAGTCACA
261 GGCCCAATAAGATGTTCCAAGCCCAATCC-AGAAGTTTAAATTAGACTTTGATACGAGTCACA
* * *
37561874 AAGGCCTTAGATGCGTATACAAAGGAAAAAGGAAATCAAGATTCACTTTCTTGTTTTCAAGAAAA
1 AAGGCCTTAGATGCATACACAAAGGAAAAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAA
* * * *
37561939 TCAAGAAACCGAATCTTTGTCCAATTTTGTTGTTTTGAGCGATTTCAAGAATCAAGAAAATCAAG
66 TCAAGAAACCAAATCTTGGCCCAATTTTGTTATTTTGAGCGATTTCAAGAATCAAGAAAATCAAG
* * *
37562004 ATTTCAAATCTTAGAAATCTTGGTCCAAGAAA-TCGAATCTTGCAACTAAGGCGCATTGGATCTT
131 ATTTCAAATCTTAGAAATCTTGGCCCAAGAAACT-GAATCTTGCAACTAAAGCGCATTGGATCTA
* *
37562068 AGTTACGAGCATTAA-CAAGCCAATTTCAGGAGAGAACGGATTACAAGCCCAAGTTCTTGAAGAC
195 AGTTACGAGCATCAAGCAA-CCAATTTCAGGAGAGAACAGATTACAAGCCCAAGTTCTTGAAGAC
37562132 AAGGCCCAATAAGATGTTCCAAGCCCAATCCAGAAGTTTAAATTAGACTT
259 AAGGCCCAATAAGATGTTCCAAGCCCAATCCAGAAGTTTAAATTAGACTT
37562182 AGCTGAAAAT
Statistics
Matches: 283, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
321 3 0.01
322 278 0.98
323 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (322 bp):
AAGGCCTTAGATGCATACACAAAGGAAAAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAA
TCAAGAAACCAAATCTTGGCCCAATTTTGTTATTTTGAGCGATTTCAAGAATCAAGAAAATCAAG
ATTTCAAATCTTAGAAATCTTGGCCCAAGAAACTGAATCTTGCAACTAAAGCGCATTGGATCTAA
GTTACGAGCATCAAGCAACCAATTTCAGGAGAGAACAGATTACAAGCCCAAGTTCTTGAAGACAA
GGCCCAATAAGATGTTCCAAGCCCAATCCAGAAGTTTAAATTAGACTTTGATACGAGTCACA
Found at i:37567607 original size:21 final size:21
Alignment explanation
Indices: 37567583--37567626 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
37567573 AAGTTTATAG
37567583 TTATAGATATGAAACACTCAC
1 TTATAGATATGAAACACTCAC
37567604 TTATAGATATGAAACACTCAC
1 TTATAGATATGAAACACTCAC
37567625 TT
1 TT
37567627 TGTGAATGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (21 bp):
TTATAGATATGAAACACTCAC
Found at i:37571177 original size:9 final size:9
Alignment explanation
Indices: 37571163--37571187 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
37571153 TGGTATCAGA
37571163 TTTTGGGCG
1 TTTTGGGCG
37571172 TTTTGGGCG
1 TTTTGGGCG
37571181 TTTTGGG
1 TTTTGGG
37571188 TTGATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.44, T:0.48
Consensus pattern (9 bp):
TTTTGGGCG
Found at i:37572938 original size:47 final size:47
Alignment explanation
Indices: 37572866--37572961 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
37572856 NTTTGTAGCG
37572866 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
1 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
*
37572913 TTAATTATAATTTTTAATCAGACAATATAAGTAATATAAAACATTGT
1 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
37572960 TT
1 TT
37572962 GAAGACCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (47 bp):
TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
Found at i:37574656 original size:40 final size:39
Alignment explanation
Indices: 37574612--37574698 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
37574602 TCCACGTAAG
* *
37574612 CGCGATTTCCTT-CCACGTCAGCAAATCGCGCTTACGTGGA
1 CGCGATTT-CTTGCCACGTAAG-AAATCGCGCTGACGTGGA
* * *
37574652 CGCGATTTGTTGCCACGTAAGTAATCGCGCTGATGTGGA
1 CGCGATTTCTTGCCACGTAAGAAATCGCGCTGACGTGGA
*
37574691 CGTGATTT
1 CGCGATTT
37574699 GCTGACACGT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 24 0.60
40 16 0.40
ACGTcount: A:0.20, C:0.25, G:0.26, T:0.29
Consensus pattern (39 bp):
CGCGATTTCTTGCCACGTAAGAAATCGCGCTGACGTGGA
Found at i:37575406 original size:23 final size:24
Alignment explanation
Indices: 37575374--37575419 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
37575364 CATGTTAAGA
*
37575374 TTAGAACC-TTGACATGTTTCATT
1 TTAGAACCTTTAACATGTTTCATT
*
37575397 TTAGACCCTTTAACATGTTTCAT
1 TTAGAACCTTTAACATGTTTCAT
37575420 CTTCTTGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (24 bp):
TTAGAACCTTTAACATGTTTCATT
Found at i:37576830 original size:135 final size:135
Alignment explanation
Indices: 37576578--37576857 Score: 371
Period size: 146 Copynumber: 2.0 Consensus size: 135
37576568 AAAGTTGACA
37576578 TCCACGTCATCGACACATATTTTAAACATTTTTTAAATTTTTAACCTTTTCAATTTTTATCATTT
1 TCCACGTCATCGACACATATTTTAAACATTTTTTAAATTTTTAACCTTTTCAATTTTTATCATTT
* * *
37576643 TTCCTTTTTTTCTTATTATTTTTCTTGTTTCTCACTACTCTCACTTGTCTCTCTCTTCTTTCTTT
66 TTCCTTTTTTTCTTATTATTATTATTGTTTCTCACTACTCTCACTTGACTCTCTCTTCTTTCTTT
37576708 TTTTC
131 TTTTC
* * *
37576713 TCCACGTCATCGACACATATTTTAAACATTTTTTTTAATTTTTAACCTTTTCAACTTTTTTTCCT
1 TCCACGTCATCGACACATATTTTAAACA-TTTTTTAAATTTTTAACCTTTTCAA-TTTTTAT-CA
* * * *
37576778 TTTTGTCCTTTTTCTTTTTATTATTATTATTTTTCTTATTTCTCACTACTCTCACTTGTCCCTCT
63 TTTT-TCCTTTTT-TTCTTATTATTATTA------TTGTTTCTCACTACTCTCACTTGACTCTCT
37576843 CTTCTTTCTTTTTTT
120 CTTCTTTCTTTTTTT
37576858 TCCTCTCTTC
Statistics
Matches: 126, Mismatches: 8, Indels: 11
0.87 0.06 0.08
Matches are distributed among these distances:
135 28 0.22
136 24 0.19
137 6 0.05
138 5 0.04
139 8 0.06
140 12 0.10
146 43 0.34
ACGTcount: A:0.17, C:0.22, G:0.03, T:0.58
Consensus pattern (135 bp):
TCCACGTCATCGACACATATTTTAAACATTTTTTAAATTTTTAACCTTTTCAATTTTTATCATTT
TTCCTTTTTTTCTTATTATTATTATTGTTTCTCACTACTCTCACTTGACTCTCTCTTCTTTCTTT
TTTTC
Found at i:37580002 original size:45 final size:45
Alignment explanation
Indices: 37579938--37580027 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
37579928 CGATCAGTTG
*
37579938 AAGAATATGTTAACTGAAGCTTCAATTTTGATTCAACCTAAAATC
1 AAGAATATGTTAACTGAAGCTTCAATTTTGATTCAACATAAAATC
37579983 AAGAATATGTTAACTGAAGCTTCAATTTTGATTCAACATAAAATC
1 AAGAATATGTTAACTGAAGCTTCAATTTTGATTCAACATAAAATC
37580028 GGGAAAGAGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.33
Consensus pattern (45 bp):
AAGAATATGTTAACTGAAGCTTCAATTTTGATTCAACATAAAATC
Found at i:37583276 original size:17 final size:18
Alignment explanation
Indices: 37583254--37583294 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
37583244 ATGGAAAATG
37583254 AATATTTGGTAGTGGTA-
1 AATATTTGGTAGTGGTAC
* *
37583271 AATATTTTGTAGTTGTAC
1 AATATTTGGTAGTGGTAC
37583289 AATATT
1 AATATT
37583295 GAAATGAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (18 bp):
AATATTTGGTAGTGGTAC
Found at i:37589274 original size:51 final size:52
Alignment explanation
Indices: 37589190--37589381 Score: 189
Period size: 51 Copynumber: 3.8 Consensus size: 52
37589180 ATGATCAATG
** * * *
37589190 CTATCCGGTTGACATAGTAGCCTACACT-TAGTACTACACATGTGACCAATAA
1 CTATCCGGTACACATAGTAGCCTGCA-TAGAGTACTACACAAGTGACCAATAA
* * * *
37589242 C-ATCCGGTACACGTAGTAGCCTGCATAGAGTACTACACACGTGATCAA-AG
1 CTATCCGGTACACATAGTAGCCTGCATAGAGTACTACACAAGTGACCAATAA
*
37589292 CTATCCGGTACACATAGTAGCCTGCACT-TAGTACTACACAAGTGACC-ATAA
1 CTATCCGGTACACATAGTAGCCTGCA-TAGAGTACTACACAAGTGACCAATAA
*** *
37589343 CTATCTTATA-ATCATAGTAGCCTGCACAGAGTACTACAC
1 CTATCCGGTACA-CATAGTAGCCTGCATAGAGTACTACAC
37589382 CTAAGTTCTC
Statistics
Matches: 116, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
50 5 0.04
51 109 0.94
52 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (52 bp):
CTATCCGGTACACATAGTAGCCTGCATAGAGTACTACACAAGTGACCAATAA
Found at i:37589337 original size:102 final size:102
Alignment explanation
Indices: 37589181--37589381 Score: 280
Period size: 102 Copynumber: 2.0 Consensus size: 102
37589171 ACCACCCTTA
* ** *
37589181 TGATCAATGCTATCCGGTTGACATAGTAGCCTACACTTAGTACTACACATGTGACCAATAAC-AT
1 TGATCAAAGCTATCCGGTACACATAGTAGCCTACACTTAGTACTACACAAGTGACC-ATAACTAT
* * *
37589245 CCGGTACA-CGTAGTAGCCTGCATAGAGTACTACACACG
65 CCGATA-ATCATAGTAGCCTGCACAGAGTACTACACACG
*
37589283 TGATCAAAGCTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACAAGTGACCATAACTATC
1 TGATCAAAGCTATCCGGTACACATAGTAGCCTACACTTAGTACTACACAAGTGACCATAACTATC
**
37589348 TTATAATCATAGTAGCCTGCACAGAGTACTACAC
66 CGATAATCATAGTAGCCTGCACAGAGTACTACAC
37589382 CTAAGTTCTC
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
101 6 0.07
102 81 0.93
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (102 bp):
TGATCAAAGCTATCCGGTACACATAGTAGCCTACACTTAGTACTACACAAGTGACCATAACTATC
CGATAATCATAGTAGCCTGCACAGAGTACTACACACG
Found at i:37593632 original size:48 final size:49
Alignment explanation
Indices: 37593560--37593686 Score: 141
Period size: 50 Copynumber: 2.6 Consensus size: 49
37593550 TCTCATATCG
* * * * * *
37593560 ATGCCATGTCCCAAATATGTTCTTAC-TCGAAAT-TACATATTGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACAT-GAAATACACATATCGACGCCA
**
37593608 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATCGACGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGAAAT-ACACATATCGACGCCA
*
37593658 ATGCCATGTCCTAGACATGGTCTTACATG
1 ATGCCATGTCCCAGACATGGTCTTACATG
37593687 GGATAGCAGA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
48 26 0.39
49 1 0.01
50 40 0.60
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACATGAAATACACATATCGACGCCA
Done.