Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 170 of 214
Found at i:49966105 original size:27 final size:27
Alignment explanation
Indices: 49966072--49966146 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 27
49966062 AGTCCGACAA
*** **
49966072 GACGTTAAACATGGGGTAGTCTGATAG
1 GACGTTAAACACAAGGTAGTCCAATAG
*
49966099 GATGTTAAACACAAGGTAGTCCAATAG
1 GACGTTAAACACAAGGTAGTCCAATAG
* *
49966126 GACGTTAAACACGAGATAGTC
1 GACGTTAAACACAAGGTAGTC
49966147 TGACGAGACA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.23
Consensus pattern (27 bp):
GACGTTAAACACAAGGTAGTCCAATAG
Found at i:49969435 original size:34 final size:33
Alignment explanation
Indices: 49969392--49969511 Score: 131
Period size: 32 Copynumber: 3.7 Consensus size: 33
49969382 GTATGTGTTT
*
49969392 TATAAATTGCCGAATTGATTTGTATATGGAAATA
1 TATACATTGCCGAATTGATTTGTATATGG-AATA
* * * *
49969426 TATACATTGCCAAATTGATTTATATATAG-ATG
1 TATACATTGCCGAATTGATTTGTATATGGAATA
* *
49969458 TATATATAGCCGAATTGATTTGTATATGG---A
1 TATACATTGCCGAATTGATTTGTATATGGAATA
*
49969488 TATACGTTGCCGAATTGATTTGTA
1 TATACATTGCCGAATTGATTTGTA
49969512 CATGTATATA
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
30 21 0.29
32 26 0.36
34 25 0.35
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.40
Consensus pattern (33 bp):
TATACATTGCCGAATTGATTTGTATATGGAATA
Found at i:49969502 original size:30 final size:30
Alignment explanation
Indices: 49969392--49969526 Score: 126
Period size: 30 Copynumber: 4.3 Consensus size: 30
49969382 GTATGTGTTT
*
49969392 TATAAATTGCCGAATTGATTTGTATATGGAAATA
1 TATACATTGCCGAATTGATTTGTATATGG----A
* * *
49969426 TATACATTGCCAAATTGATTTATATATAGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
49969456 TGTATATATAGCCGAATTGATTTGTATATGGA
1 --TATACATTGCCGAATTGATTTGTATATGGA
* * *
49969488 TATACGTTGCCGAATTGATTTGTACATGTA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
49969518 TATATATTG
1 TATACATTG
49969527 TAATGACCAA
Statistics
Matches: 83, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
30 33 0.40
32 25 0.30
34 25 0.30
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATGGA
Found at i:49972169 original size:30 final size:30
Alignment explanation
Indices: 49972095--49972241 Score: 159
Period size: 30 Copynumber: 4.8 Consensus size: 30
49972085 TATTACATAT
* * *
49972095 ATTGCCGAAATGATTTGTATATGTTCACATATAT
1 ATTGCCGAATTGATTTGTATATG----GATATAC
* *
49972129 ATTGCAGAATTGATTTGGATATGGATATAC
1 ATTGCCGAATTGATTTGTATATGGATATAC
* *
49972159 ATTACTGAATTGATTTGTATATGGATATAC
1 ATTGCCGAATTGATTTGTATATGGATATAC
* * *
49972189 ATTGCCGAATTGATTTGTACATGTATATAT
1 ATTGCCGAATTGATTTGTATATGGATATAC
*
49972219 ATTGCCGAAATGATTTGTATATG
1 ATTGCCGAATTGATTTGTATATG
49972242 TTTACATATA
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
30 78 0.80
34 20 0.20
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (30 bp):
ATTGCCGAATTGATTTGTATATGGATATAC
Found at i:49972495 original size:41 final size:41
Alignment explanation
Indices: 49972439--49972555 Score: 198
Period size: 41 Copynumber: 2.8 Consensus size: 41
49972429 TGAGAAAATA
* * *
49972439 TATAAGACCATGTCTGGGACATTGGCATCGTATATGATTCC
1 TATAAGACCCTGTCTGGGACAGTGACATCGTATATGATTCC
49972480 TATAAGACCCTGTCTGGGACAGTGACATCGTATATGATTCC
1 TATAAGACCCTGTCTGGGACAGTGACATCGTATATGATTCC
49972521 TATAAGACCCTGTCTGGGACAGTGACATCGATATA
1 TATAAGACCCTGTCTGGGACAGTGACATCG-TATA
49972556 CGCTAACATG
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
41 68 0.94
42 4 0.06
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (41 bp):
TATAAGACCCTGTCTGGGACAGTGACATCGTATATGATTCC
Found at i:49978931 original size:30 final size:30
Alignment explanation
Indices: 49978818--49979095 Score: 304
Period size: 30 Copynumber: 8.9 Consensus size: 30
49978808 GTATGTGTTT
* *
49978818 TATATATTGTCGAATTGATTTGTATATGGAAA
1 TATACATTGCCGAATTGATTTGTATATGG--A
* * *
49978850 TACATACATTGCCGAATTTATTTATATATAGA
1 T--ATACATTGCCGAATTGATTTGTATATGGA
* *
49978882 TGTATATATAGCCGAATTGATTTGTATATGGA
1 --TATACATTGCCGAATTGATTTGTATATGGA
*
49978914 TATACATTGCTGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* * *
49978944 TAGACATTGCCGAATTGATTTGTACATGTA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
49978974 TATACATTGCCGAATTGATTTGTATATGTTCACA
1 TATACATTGCCGAATTGATTTGTATATG----GA
*
49979008 TATATATTGCCGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
49979038 TATACATTGCCGAATTGATTTGTACATGTA
1 TATACATTGCCGAATTGATTTGTATATGGA
* * *
49979068 TATATATTGCTGAAATGATTTGTATATG
1 TATACATTGCCGAATTGATTTGTATATG
49979096 TTTACATATA
Statistics
Matches: 209, Mismatches: 29, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
30 131 0.63
32 26 0.12
34 52 0.25
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.42
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATGGA
Found at i:49979032 original size:94 final size:93
Alignment explanation
Indices: 49978818--49979123 Score: 384
Period size: 94 Copynumber: 3.2 Consensus size: 93
49978808 GTATGTGTTT
* * * *
49978818 TATATATTGTCGAATTGATTTGTATATGGAAATACATACATTGCCGAATTTATTTATATATAGAT
1 TATATATTGCCGAATTGATTTGTATATGG--AT--ATACATTGCCGAATTGATTTGTACAT-G-T
* * *
49978883 GTATATATAGCCGAATTGATTTGTATATG---GA
60 ATATATATTGCCGAATTGATTTGTATATGTTACA
* * * *
49978914 TATACATTGCTGAATTGATTTGTATATGGATAGACATTGCCGAATTGATTTGTACATGTATATAC
1 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTACATGTATATAT
49978979 ATTGCCGAATTGATTTGTATATGTTCACA
66 ATTGCCGAATTGATTTGTATATGTT-ACA
49979008 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTACATGTATATAT
1 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTACATGTATATAT
* *
49979073 ATTGCTGAAATGATTTGTATATGTTTACA
66 ATTGCCGAATTGATTTGTATATG-TTACA
* *
49979102 TATATTTTGTCGAATTGATTTG
1 TATATATTGCCGAATTGATTTG
49979124 AGCATAGGAT
Statistics
Matches: 186, Mismatches: 19, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
90 27 0.15
91 1 0.01
92 22 0.12
94 108 0.58
95 2 0.01
96 26 0.14
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (93 bp):
TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTACATGTATATAT
ATTGCCGAATTGATTTGTATATGTTACA
Found at i:49979105 original size:64 final size:61
Alignment explanation
Indices: 49978818--49979095 Score: 335
Period size: 60 Copynumber: 4.5 Consensus size: 61
49978808 GTATGTGTTT
* * *
49978818 TATATATTGTCGAATTGATTTGTATATGGAAATACATACATTGCCGAATTTATTTATATATAGAT
1 TATATATTGCCGAATTGATTTGTATATGG--AT--ATACATTGCCGAATTGATTTGTATAT-GAT
*
49978883 G
61 A
* * *
49978884 TATATATAGCCGAATTGATTTGTATATGGATATACATTGCTGAATTGATTTGTATATG-GA
1 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATGATA
* * * * *
49978944 TAGACATTGCCGAATTGATTTGTACATGTATATACATTGCCGAATTGATTTGTATATGTTCACA
1 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATG---ATA
*
49979008 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTACATG-TA
1 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATGATA
* *
49979068 TATATATTGCTGAAATGATTTGTATATG
1 TATATATTGCCGAATTGATTTGTATATG
49979096 TTTACATATA
Statistics
Matches: 186, Mismatches: 22, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
60 79 0.42
61 1 0.01
62 23 0.12
64 56 0.30
66 27 0.15
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.42
Consensus pattern (61 bp):
TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATGATA
Found at i:49982203 original size:11 final size:11
Alignment explanation
Indices: 49982187--49982230 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
49982177 TCATTAATAA
49982187 ATAAACGAGTC
1 ATAAACGAGTC
49982198 ATAAACGAGTC
1 ATAAACGAGTC
* *
49982209 AATAAACAAGCTT
1 -ATAAACGAG-TC
49982222 ATAAACGAG
1 ATAAACGAG
49982231 CTTGTTCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 11 0.39
12 16 0.57
13 1 0.04
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (11 bp):
ATAAACGAGTC
Found at i:49982215 original size:12 final size:12
Alignment explanation
Indices: 49982186--49982215 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
49982176 ATCATTAATA
49982186 AATAAACGAGTC
1 AATAAACGAGTC
49982198 -ATAAACGAGTC
1 AATAAACGAGTC
49982209 AATAAAC
1 AATAAAC
49982216 AAGCTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.17
Consensus pattern (12 bp):
AATAAACGAGTC
Found at i:49982852 original size:20 final size:17
Alignment explanation
Indices: 49982827--49982868 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 17
49982817 TTAGCTTCAA
49982827 TTTAATTTTTATTACTTATT
1 TTTAATTTTT-TTA-TT-TT
49982847 TTTAATTTTTTTATTTT
1 TTTAATTTTTTTATTTT
49982864 TTTAA
1 TTTAA
49982869 AATCAATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 3 0.14
20 10 0.45
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTAATTTTTTTATTTT
Found at i:49984724 original size:16 final size:16
Alignment explanation
Indices: 49984703--49984741 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
49984693 GTTTGGTTCC
*
49984703 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
49984719 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
49984735 CTGTAAT
1 CTGTAAT
49984742 AAGTAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:49984959 original size:58 final size:57
Alignment explanation
Indices: 49984908--49985031 Score: 176
Period size: 58 Copynumber: 2.1 Consensus size: 57
49984898 TTTTAATAAG
49984908 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATTTTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAACCATATTTTAACATA
* * ** * *
49984966 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACCATATT-TTAACATA
49985024 ATTATTAT
1 ATTATTAT
49985032 ATGAATTGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 22 0.37
58 37 0.63
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (57 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACCATATTTTAACATA
Found at i:49989682 original size:12 final size:12
Alignment explanation
Indices: 49989653--49989690 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
49989643 AATTATTATC
49989653 ATATA-ATAATA
1 ATATATATAATA
* *
49989664 ATTTATATAAAA
1 ATATATATAATA
49989676 ATATATATAATA
1 ATATATATAATA
49989688 ATA
1 ATA
49989691 ATGTATGAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATATATATAATA
Found at i:49989908 original size:21 final size:22
Alignment explanation
Indices: 49989860--49989909 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
49989850 TAAATAATGA
*
49989860 TATGATAAGTTTAAATAGTACT
1 TATGATAAGTTTAAATAGTACG
*
49989882 TATGATAATTTTAAATTA-TA-G
1 TATGATAAGTTTAAA-TAGTACG
49989903 TATGATA
1 TATGATA
49989910 TTAAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.28
22 16 0.64
23 2 0.08
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (22 bp):
TATGATAAGTTTAAATAGTACG
Found at i:49989917 original size:41 final size:42
Alignment explanation
Indices: 49989830--49989937 Score: 107
Period size: 41 Copynumber: 2.6 Consensus size: 42
49989820 ACACACTAAA
*
49989830 AAAATAGTAC-ATGATAAATCTAAATAATGATATGATAAGTT
1 AAAATAGTACTATGATAAATTTAAATAATGATATGATAAGTT
* * *
49989871 TAAATAGTACTTATGATAATTTTAAATTAT-AGTATGAT-A-TT
1 AAAATAGTAC-TATGATAAATTTAAATAATGA-TATGATAAGTT
**
49989912 AAAATAAAACTAATGATAAATTTAAA
1 AAAATAGTACT-ATGATAAATTTAAA
49989938 ACAATGTTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
40 1 0.02
41 31 0.56
42 2 0.04
43 21 0.38
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (42 bp):
AAAATAGTACTATGATAAATTTAAATAATGATATGATAAGTT
Found at i:49993774 original size:19 final size:18
Alignment explanation
Indices: 49993746--49993782 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
49993736 AGATAAAGTG
*
49993746 GGCTATGTCTCGAGACAT
1 GGCTATGTCTCGAAACAT
49993764 GGCTCATGTCTCGAAACAT
1 GGCT-ATGTCTCGAAACAT
49993783 TCAAAGTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (18 bp):
GGCTATGTCTCGAAACAT
Found at i:49994170 original size:24 final size:24
Alignment explanation
Indices: 49994135--49994184 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
49994125 TAAACTACAT
*
49994135 AGCATTACTAGACAAGATCCAAAG
1 AGCATTAATAGACAAGATCCAAAG
49994159 AGCATTAATAGACAAGATCCAAAG
1 AGCATTAATAGACAAGATCCAAAG
49994183 AG
1 AG
49994185 AAGCTCAGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.48, C:0.18, G:0.18, T:0.16
Consensus pattern (24 bp):
AGCATTAATAGACAAGATCCAAAG
Found at i:50023907 original size:108 final size:107
Alignment explanation
Indices: 50023649--50024388 Score: 1014
Period size: 109 Copynumber: 7.0 Consensus size: 107
50023639 AAAGAAAAAC
* * *
50023649 AAAAAAAAAATTTGGATGCTGGCCTGTCAATGGCCGGCACCCAATACAATTTAAAAAAAA-----
1 AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTCTT
* * *
50023709 --ATTT-GTGTCAGAGTCAGATATCAATATACGAAAAAAA-T
66 TTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATT
* *
50023747 ---AAAAAAATTT-TGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTCTT
1 AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTCTT
* *
50023808 TTTTTTCGTATTAGAA-CTAGATATCAGTATACGAAAAAAATT
66 TTTTTTCGTGTCAGAATC-AGATATCAGTATACGAAAAAAATT
* * *
50023850 AAAAAAAAAATTTTGGGTGTTGTCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAATTC
1 AAAAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATT-AAAAAAAATTC
* *
50023915 TTTTTTTTCATGTCAGAATCAGATATTAGTATACGAAAAAAATTTT
64 TTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAA--TT
* *
50023961 AAAAAAAAATTTTGGTTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTCTT
1 AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTCTT
*
50024026 TTTTTTCGTGTCAAAATCAGATATCAGTATACGAAAAAAA-T
66 TTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATT
* * *
50024067 -AAAAAAAAATTTGGGTGCTGGCCTATCAATGGCCGGCACCTAGTA-AAATTTAAAAAAAAATCT
1 AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAA-TTAAAAAAAATTCT
*
50024130 TTTTTTTCGTGTCAGAATCAGATATCAGTTTACG-AAAAAATT
65 TTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATT
* *
50024172 AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCACCCAGTATAAATTAAAAAAAATTCTC
1 AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAA-T-TC
*
50024237 TTTTTTTTCATGTCAGAATCAGATATCAGTATACGAAAAAAATT
64 TTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATT
50024281 AAAAAAAAAA-TTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTCTC
1 AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAA-T-TC
*
50024345 TTTTTTTTTCGTGTCAGAATCAAATATCAGTATACGAAAAAAAT
64 -TTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAAT
50024389 AAACATAATT
Statistics
Matches: 575, Mismatches: 40, Indels: 43
0.87 0.06 0.07
Matches are distributed among these distances:
94 43 0.07
95 10 0.02
101 4 0.01
102 27 0.05
103 1 0.00
104 9 0.02
105 87 0.15
106 60 0.10
107 6 0.01
108 122 0.21
109 156 0.27
110 39 0.07
111 11 0.02
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (107 bp):
AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTCTT
TTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATT
Found at i:50024717 original size:107 final size:100
Alignment explanation
Indices: 50024583--50025107 Score: 697
Period size: 100 Copynumber: 5.1 Consensus size: 100
50024573 TATAATTATG
*
50024583 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACAAAAAAAAGACATTTTTTTTAATTTGTA
1 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACAAAAAAAA-A-A----TTTTAAATTGTA
50024648 CTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAAAAAAATT
60 CTGGGTGCCGGCCATTGACAGGCCAGCA-CCCAAAAAAAATT
*
50024690 TTTATTTTTTTCGTATATTGATATCTGATTCTGACACGAAAAAAAAAA-TTT-AATTGTACTGGG
1 TTTATTTTTTTCGTATACTGATATCTGATTCTGACAC-AAAAAAAAAATTTTAAATTGTACTGGG
* *
50024753 TGCCGGCCATTGACAGGCCAGCACTCAAAAAAATTTT
65 TGCCGGCCATTGACAGGCCAGCACCCAAAAAAA-ATT
*
50024790 TTTATTTTTTTCGTATACTGATATCTGATTCTGACAC--AAAAAAAATTTTAATTTGTACT-GGT
1 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACAAAAAAAAAATTTTAAATTGTACTGGGT
50024852 GCCGGCCATTGACAGGCCAGCA-CCAAAAAAAATT
66 GCCGGCCATTGACAGGCCAGCACCCAAAAAAAATT
* * *
50024886 TTAATTTTTTTCGTATACTGATATCTGATTCTAACGCGAAAAAAAAAGAAAAAAATTTTAAATTG
1 TTTATTTTTTTCGTATACTGATATCTGATTCT-----G--ACACAAA-AAAAAAATTTTAAATTG
50024951 TACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAAATTTT
58 TACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAAA--TT
* *
50024996 TTTATTTTTTTCGTATACTGATATCTAACTCTGACAC-AAAAAAAAA-TTTAAATTGTACTGGGT
1 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACAAAAAAAAAATTTTAAATTGTACTGGGT
*
50025059 GCCGGCCATTAACAGGCCAGCACCCAAAAAACAATT
66 GCCGGCCATTGACAGGCCAGCACCCAAAAAA-AATT
*
50025095 TTTTTTGTTTTTC
1 TTTATT-TTTTTC
50025108 TTTTTTTCCC
Statistics
Matches: 379, Mismatches: 19, Indels: 47
0.85 0.04 0.11
Matches are distributed among these distances:
96 33 0.09
97 16 0.04
98 28 0.07
99 24 0.06
100 125 0.33
101 13 0.03
102 2 0.01
103 4 0.01
105 2 0.01
106 21 0.06
107 62 0.16
108 18 0.05
110 31 0.08
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (100 bp):
TTTATTTTTTTCGTATACTGATATCTGATTCTGACACAAAAAAAAAATTTTAAATTGTACTGGGT
GCCGGCCATTGACAGGCCAGCACCCAAAAAAAATT
Found at i:50033082 original size:12 final size:13
Alignment explanation
Indices: 50033065--50033101 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
50033055 ACTATCAAGA
50033065 TAAATTTTAA-AT
1 TAAATTTTAATAT
50033077 TAAA-TTTAATAT
1 TAAATTTTAATAT
50033089 TAAATTTATAATA
1 TAAATTT-TAATA
50033102 ATATTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.23
12 10 0.45
13 2 0.09
14 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TAAATTTTAATAT
Found at i:50033669 original size:20 final size:22
Alignment explanation
Indices: 50033625--50033669 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
50033615 TCTAGTTAAG
* *
50033625 CAATTCTCACGATTGACTAATT
1 CAATTCTCACGATTGAATAAAT
50033647 CAATTC-CAC-ATTGAATAAAT
1 CAATTCTCACGATTGAATAAAT
50033667 CAA
1 CAA
50033670 CTCAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
21 3 0.14
22 6 0.29
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (22 bp):
CAATTCTCACGATTGAATAAAT
Found at i:50036147 original size:23 final size:22
Alignment explanation
Indices: 50036104--50036159 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
50036094 GAAAGGTATC
* *
50036104 TACAAATAAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
50036125 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
50036148 TACATATCATAT
1 TACAAATCATAT
50036160 TTACGATTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.10
22 16 0.53
23 11 0.37
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:50041263 original size:22 final size:21
Alignment explanation
Indices: 50041228--50041285 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
50041218 GAAAGGTATC
* *
50041228 TACAAATCAAATCTCAAAGAT
1 TACAAATTATATCTCAAAGAT
*
50041249 TACAAAATTATATCTTCTAAGAT
1 TAC-AAATTATATC-TCAAAGAT
*
50041272 TACACATTATATCT
1 TACAAATTATATCT
50041286 ACGATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.55
23 10 0.32
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.34
Consensus pattern (21 bp):
TACAAATTATATCTCAAAGAT
Found at i:50049980 original size:16 final size:18
Alignment explanation
Indices: 50049946--50049983 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
50049936 TTTAATATTT
50049946 AAAAATGAATATTACAAA
1 AAAAATGAATATTACAAA
*
50049964 AAAAATGTATA-TA-AAA
1 AAAAATGAATATTACAAA
50049980 AAAA
1 AAAA
50049984 GTCTATGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 2 0.11
18 10 0.53
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAAATGAATATTACAAA
Found at i:50051523 original size:5 final size:5
Alignment explanation
Indices: 50051514--50051548 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
50051504 AAACAACTGT
* *
50051514 ACTCT ACTCT ACTCA ACTCA ACTCA ACTCA ACTCA
1 ACTCA ACTCA ACTCA ACTCA ACTCA ACTCA ACTCA
50051549 GCGCCATCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.34, C:0.40, G:0.00, T:0.26
Consensus pattern (5 bp):
ACTCA
Found at i:50054831 original size:220 final size:218
Alignment explanation
Indices: 50054464--50055052 Score: 905
Period size: 220 Copynumber: 2.7 Consensus size: 218
50054454 CCTTCATTTG
* * * * *
50054464 TTAGCATTTTTTTTATCATCATCGATCCAAGATTGCTGCTCAACCAACCATCTATTTTGCAGGGG
1 TTAGCATTTTTCTTGTCATCATTGATCCAAGATTGCTGCTCAACCAA-CATC-AATTTGCAGGGA
*
50054529 CCTAATGATCTTAGGATTTGAAAGATTCAAATATATTTGTTATTATCTTTTATCCTAGTTTTGAA
64 TCTAATGATCTTAGGATTTGAAAGATTCAAATATATTTGTTATTATCTTTTATCCTAGTTTTGAA
50054594 TTATTGTTTTATCTTATCTTTATTCTAAATGTAATCATTTAGAATTTTTCCCAAGATTGTTGCTC
129 TTATTGTTTTATCTTATCTTTATTCTAAATGTAATCATTTAGAATTTTTCCCAAGATTGTTGCTC
50054659 AAGATTGTTGTTTTCCCATCAATCC
194 AAGATTGTTGTTTTCCCATCAATCC
* *
50054684 TTAGCATTTTTCTTGTCATCATTGATCCAAGATTGCTGCTCAACTAACTATCAAATTTGCAGGGT
1 TTAGCATTTTTCTTGTCATCATTGATCCAAGATTGCTGCTCAACCAAC-ATC-AATTTGCAGGGA
*
50054749 TCTAATGATCTTAGGATTTGAAAGATTCAAATATATTTGTTATTATCTTTTATCCTAGCTTTGAA
64 TCTAATGATCTTAGGATTTGAAAGATTCAAATATATTTGTTATTATCTTTTATCCTAGTTTTGAA
* *
50054814 TTGTTGTTTTATCTTATCTTTATTCTAAATGTAATCATTTAGAATTTTTCCCAAGATTGTTGGTC
129 TTATTGTTTTATCTTATCTTTATTCTAAATGTAATCATTTAGAATTTTTCCCAAGATTGTTGCTC
50054879 AAGATTGTTGTTTTCCCATCAATCC
194 AAGATTGTTGTTTTCCCATCAATCC
* *
50054904 TTAGCATTTTTCTTGTCATCATTGATCCAAGATTGTTGCTCAACCAAC--C-A---GTA---ATC
1 TTAGCATTTTTCTTGTCATCATTGATCCAAGATTGCTGCTCAACCAACATCAATTTGCAGGGATC
** *
50054960 T--TGCGCTTAGGATTTGAAAGATTCAAATATATTTGTTATCATCTTTTATCCTAGTTTTGAATT
66 TAATGATCTTAGGATTTGAAAGATTCAAATATATTTGTTATTATCTTTTATCCTAGTTTTGAATT
*
50055023 ATTGTTTTATC-TATCTTTATTTTAAATGTA
131 ATTGTTTTATCTTATCTTTATTCTAAATGTA
50055053 TTATCTTTAC
Statistics
Matches: 347, Mismatches: 21, Indels: 16
0.90 0.05 0.04
Matches are distributed among these distances:
206 18 0.05
207 68 0.20
209 3 0.01
212 2 0.01
215 1 0.00
217 1 0.00
219 1 0.00
220 253 0.73
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (218 bp):
TTAGCATTTTTCTTGTCATCATTGATCCAAGATTGCTGCTCAACCAACATCAATTTGCAGGGATC
TAATGATCTTAGGATTTGAAAGATTCAAATATATTTGTTATTATCTTTTATCCTAGTTTTGAATT
ATTGTTTTATCTTATCTTTATTCTAAATGTAATCATTTAGAATTTTTCCCAAGATTGTTGCTCAA
GATTGTTGTTTTCCCATCAATCC
Found at i:50064079 original size:29 final size:29
Alignment explanation
Indices: 50064034--50064095 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
50064024 ATATATTTCT
50064034 TTGTTCTCTTTTCTCTCACTGTGAGATCC
1 TTGTTCTCTTTTCTCTCACTGTGAGATCC
*
50064063 TTGTTCTCTTTTTTCTCACTGTGAGATCC
1 TTGTTCTCTTTTCTCTCACTGTGAGATCC
50064092 TTGT
1 TTGT
50064096 CAAAATGTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.10, C:0.24, G:0.15, T:0.52
Consensus pattern (29 bp):
TTGTTCTCTTTTCTCTCACTGTGAGATCC
Found at i:50064538 original size:15 final size:15
Alignment explanation
Indices: 50064520--50064549 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50064510 TGAAAACATT
50064520 TTTTTTTAAAAAGTA
1 TTTTTTTAAAAAGTA
*
50064535 TTTTTTTTAAAAGTA
1 TTTTTTTAAAAAGTA
50064550 CTTGATGTGG
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:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (15 bp):
TTTTTTTAAAAAGTA
Found at i:50074400 original size:28 final size:28
Alignment explanation
Indices: 50074367--50074427 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
50074357 GTTTAAACCA
50074367 AAATTTTTAAATTAAAAAATAAAAAAAT
1 AAATTTTTAAATTAAAAAATAAAAAAAT
* *** *
50074395 AAATTTTTAACTTTTTAAATATAAAAAT
1 AAATTTTTAAATTAAAAAATAAAAAAAT
50074423 AAATT
1 AAATT
50074428 CTCAAATTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (28 bp):
AAATTTTTAAATTAAAAAATAAAAAAAT
Found at i:50076888 original size:31 final size:29
Alignment explanation
Indices: 50076823--50076891 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
50076813 ACGATAACGT
* *
50076823 AAGTGACTAAAATGTAATATTTCAAACAT
1 AAGTGACTAAAATGTAATATTGCAAACAA
*
50076852 TAGTGACTAAAATGTAAT-TTGAAGCAAACAA
1 AAGTGACTAAAATGTAATATT---GCAAACAA
50076883 AAGTGACTA
1 AAGTGACTA
50076892 CTTTTGTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 2 0.06
29 17 0.52
31 14 0.42
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (29 bp):
AAGTGACTAAAATGTAATATTGCAAACAA
Found at i:50078156 original size:26 final size:28
Alignment explanation
Indices: 50078109--50078162 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
50078099 GCCCATTTTT
*
50078109 TAATAAACATTAAAAATTTATTTTAAAAA
1 TAATAAACAATAAAAA-TTATTTTAAAAA
50078138 TAATAAA-AATAAAAA-TATTTTAAAA
1 TAATAAACAATAAAAATTATTTTAAAA
50078163 GTATTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 10 0.42
28 7 0.29
29 7 0.29
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (28 bp):
TAATAAACAATAAAAATTATTTTAAAAA
Found at i:50079093 original size:16 final size:16
Alignment explanation
Indices: 50079059--50079111 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
50079049 ATGGCATCAG
50079059 TCATGCAATACTCAAT
1 TCATGCAATACTCAAT
*
50079075 TCATG-AATACATCATT
1 TCATGCAATAC-TCAAT
* *
50079091 TCATACCATACTCAAT
1 TCATGCAATACTCAAT
50079107 TCATG
1 TCATG
50079112 AGTATATAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 5 0.17
16 21 0.70
17 4 0.13
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
TCATGCAATACTCAAT
Found at i:50080299 original size:17 final size:17
Alignment explanation
Indices: 50080279--50080323 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
50080269 CTTTCTTTCC
50080279 CTTTTTTCTTTTTCTTT
1 CTTTTTTCTTTTTCTTT
* *
50080296 CTTTCTTCTTTTTGTTT
1 CTTTTTTCTTTTTCTTT
* *
50080313 CGTTTTGCTTT
1 CTTTTTTCTTT
50080324 GTTTCTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.07, T:0.76
Consensus pattern (17 bp):
CTTTTTTCTTTTTCTTT
Found at i:50084892 original size:6 final size:6
Alignment explanation
Indices: 50084881--50084906 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
50084871 AAAGAATCAA
50084881 GTATAT GTATAT GTATAT GTATAT GT
1 GTATAT GTATAT GTATAT GTATAT GT
50084907 CTATACTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:50088966 original size:16 final size:17
Alignment explanation
Indices: 50088945--50088986 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
50088935 TTTTATGTGT
50088945 TATAAAATATATA-AT-A
1 TATAAAATATA-ACATAA
50088961 TATAAAA-ATAACATAA
1 TATAAAATATAACATAA
50088977 TATAAAATAT
1 TATAAAATAT
50088987 TAAAAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 5 0.22
16 15 0.65
17 2 0.09
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
TATAAAATATAACATAA
Found at i:50089715 original size:27 final size:26
Alignment explanation
Indices: 50089679--50089730 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
50089669 TTTCTTAAGT
* *
50089679 TGGTATCTAAACTTTTTCTGTCATTAG
1 TGGTACCTAAACTATTTCT-TCATTAG
50089706 TGGTACCTAAACTATTTCTTCATTA
1 TGGTACCTAAACTATTTCTTCATTA
50089731 CCATTTTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (26 bp):
TGGTACCTAAACTATTTCTTCATTAG
Found at i:50095957 original size:23 final size:22
Alignment explanation
Indices: 50095927--50095982 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
50095917 TTTAGTATGG
50095927 AAAATAGAAAGAA-GCAAAGAAA
1 AAAATAGAAA-AATGCAAAGAAA
*
50095949 AATAATAGAGAAAATGCAGAGAAA
1 AA-AATAGA-AAAATGCAAAGAAA
*
50095973 AAAAAAGAAA
1 AAAATAGAAA
50095983 TAAATAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 4 0.14
23 13 0.45
24 12 0.41
ACGTcount: A:0.71, C:0.04, G:0.18, T:0.07
Consensus pattern (22 bp):
AAAATAGAAAAATGCAAAGAAA
Found at i:50096264 original size:15 final size:15
Alignment explanation
Indices: 50096244--50096278 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
50096234 GGAGGAGTGG
50096244 ACGTGGTGGTGGCGC
1 ACGTGGTGGTGGCGC
50096259 ACGTGGTGGTGGCGC
1 ACGTGGTGGTGGCGC
50096274 ACGTG
1 ACGTG
50096279 TGATGGAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.09, C:0.20, G:0.51, T:0.20
Consensus pattern (15 bp):
ACGTGGTGGTGGCGC
Found at i:50100605 original size:35 final size:35
Alignment explanation
Indices: 50100566--50100638 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
50100556 TACGTTTTAA
50100566 TGACTTACATTAACATGTTGTAATATTTTAGTAAC
1 TGACTTACATTAACATGTTGTAATATTTTAGTAAC
50100601 TGACTTACATTAACATGTTGTAATATTTTAGTAAC
1 TGACTTACATTAACATGTTGTAATATTTTAGTAAC
50100636 TGA
1 TGA
50100639 GTCGTTAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.42
Consensus pattern (35 bp):
TGACTTACATTAACATGTTGTAATATTTTAGTAAC
Found at i:50102457 original size:29 final size:30
Alignment explanation
Indices: 50102420--50102478 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
50102410 TATGGTTTAA
*
50102420 TGTGTAATTGTATACATG-AACTTTGATTT
1 TGTGCAATTGTATACATGAAACTTTGATTT
* *
50102449 TGTGCAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATACATGAAACTTTGATTT
50102479 GATCTAACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAACTTTGATTT
Found at i:50103777 original size:21 final size:22
Alignment explanation
Indices: 50103743--50103783 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
50103733 TCATGTCAAC
*
50103743 AAATAATTTAAAATTTATAAAA
1 AAATAATTCAAAATTTATAAAA
50103765 AAAT-ATTCAAAATTTATAA
1 AAATAATTCAAAATTTATAA
50103784 CTATAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
AAATAATTCAAAATTTATAAAA
Found at i:50106542 original size:41 final size:42
Alignment explanation
Indices: 50106426--50106542 Score: 143
Period size: 41 Copynumber: 2.8 Consensus size: 42
50106416 TTGTATAAAA
* *
50106426 CACCGGCATAAAGCCTGCTAGGCACAAAGCCTG-ATACATTT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAATACATTT
* *
50106467 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCTGAATTA-A-TT
1 CACCGGCATC-AAGCCTGCTAGGCATAAAGCCTGAA-TACATTT
*
50106508 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAA
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAA
50106543 AATCTCAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
41 60 0.92
42 3 0.05
43 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (42 bp):
CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAATACATTT
Found at i:50106727 original size:64 final size:66
Alignment explanation
Indices: 50106581--50106739 Score: 189
Period size: 64 Copynumber: 2.4 Consensus size: 66
50106571 ATAATTTACA
* * *
50106581 ACATTAAAATTCAGTTCAAAGAA-TTTGTAACCTATATTCGAACCATACACATATGTATGTAAAA
1 ACATT-AAATTCAGCTC-AAGAACTTTATAACCTATATTCGAACCA-ACACATA-GTATATAAAA
50106645 TTCAT
62 TTCAT
* * * *
50106650 AAATTAAATTCAGCTCAAGAACTTTATAACCTATATTTGAATC-ACACATA-TATATAAAATTCG
1 ACATTAAATTCAGCTCAAGAACTTTATAACCTATATTCGAACCAACACATAGTATATAAAATTCA
50106713 T
66 T
*
50106714 ACATTAATTTCAGCTCAAGAACTTTA
1 ACATTAAATTCAGCTCAAGAACTTTA
50106740 AAATATATAT
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
64 36 0.45
66 7 0.09
67 5 0.06
68 28 0.35
69 4 0.05
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (66 bp):
ACATTAAATTCAGCTCAAGAACTTTATAACCTATATTCGAACCAACACATAGTATATAAAATTCA
T
Found at i:50106885 original size:60 final size:60
Alignment explanation
Indices: 50106766--50106890 Score: 146
Period size: 60 Copynumber: 2.1 Consensus size: 60
50106756 GAACCGTATG
* * * **
50106766 TATATATATATTTCATAATATTAAGTTCAACTCAAAGAACTTGTATCATACATTCAACTA
1 TATATATATAATTCATAATATTAAATTCAACTCAAAGAAATTAAATCATACATTCAACTA
* *
50106826 TATATATATAATTCATAACT-TTAAATTCAACTC-ATGAAATTAAATCTTACATTCGAACTA
1 TATATATATAATTCATAA-TATTAAATTCAACTCAAAGAAATTAAATCATACATTC-AACTA
*
50106886 CATAT
1 TATAT
50106891 CCATGTAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
59 16 0.29
60 38 0.69
61 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.38
Consensus pattern (60 bp):
TATATATATAATTCATAATATTAAATTCAACTCAAAGAAATTAAATCATACATTCAACTA
Found at i:50110878 original size:10 final size:10
Alignment explanation
Indices: 50110863--50110890 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
50110853 TATATGCATA
50110863 ATATATATCT
1 ATATATATCT
50110873 ATATATATCT
1 ATATATATCT
50110883 ATATATAT
1 ATATATAT
50110891 ATTCATCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (10 bp):
ATATATATCT
Found at i:50114519 original size:41 final size:45
Alignment explanation
Indices: 50114461--50114558 Score: 141
Period size: 41 Copynumber: 2.3 Consensus size: 45
50114451 ATGCTATCTC
* *
50114461 ATATCGATGCCACTGTCCTAGACAAGGTCTTATACG-AATCA-A-
1 ATATCGATGCCAATGTCCTAGACAAGGTCTTACACGTAATCACAT
*
50114503 ATA-CGATGCCAATGTCCTAGACATGGTCTTACACGTAATCACAT
1 ATATCGATGCCAATGTCCTAGACAAGGTCTTACACGTAATCACAT
50114547 ATATCGATGCCA
1 ATATCGATGCCA
50114559 TCATCCCAGA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
41 29 0.59
42 8 0.16
43 1 0.02
44 3 0.06
45 8 0.16
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (45 bp):
ATATCGATGCCAATGTCCTAGACAAGGTCTTACACGTAATCACAT
Found at i:50114575 original size:45 final size:44
Alignment explanation
Indices: 50114434--50114582 Score: 132
Period size: 41 Copynumber: 3.5 Consensus size: 44
50114424 ATGCCAATGC
* * *
50114434 CCCAGACGTGGTCTTACATGCT-ATCTC-ATATCGATGCCA-CTGT
1 CCCAGACATGGTCTTACACG-TAATCACAATATCGATGCCATC-GT
* * *
50114477 CCTAGACAAGGTCTTATACG-AATCA-AATA-CGATGCCAAT-GT
1 CCCAGACATGGTCTTACACGTAATCACAATATCGATGCC-ATCGT
* *
50114518 CCTAGACATGGTCTTACACGTAATCACATATATCGATGCCATCAT
1 CCCAGACATGGTCTTACACGTAATCACA-ATATCGATGCCATCGT
*
50114563 CCCAGACGTGGTCTTACACG
1 CCCAGACATGGTCTTACACG
50114583 AGAACACATA
Statistics
Matches: 86, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
41 27 0.31
42 12 0.14
43 16 0.19
44 5 0.06
45 26 0.30
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (44 bp):
CCCAGACATGGTCTTACACGTAATCACAATATCGATGCCATCGT
Found at i:50117345 original size:19 final size:21
Alignment explanation
Indices: 50117302--50117355 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 21
50117292 TGCCTCTTTT
50117302 TGCATT-CATTTCATACATCA
1 TGCATTACATTTCATACATCA
*
50117322 -ACATTACATTTCAT-CAT-A
1 TGCATTACATTTCATACATCA
* *
50117340 TGCATTAAATTCCATA
1 TGCATTACATTTCATA
50117356 AAAAGACCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
18 1 0.04
19 18 0.67
20 8 0.30
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (21 bp):
TGCATTACATTTCATACATCA
Found at i:50118399 original size:110 final size:109
Alignment explanation
Indices: 50118179--50118471 Score: 435
Period size: 110 Copynumber: 2.7 Consensus size: 109
50118169 GTCAATCGAG
* * * * * *
50118179 AAATCGAAACTCAGCACATTAGGGCACG-TTTCTCGGATTTCCAAATGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* * *
50118243 TTGAAATTTTTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
66 TT-AAA--ATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
* *
50118290 AAATTGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTACCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCTTAT
50118355 TTTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
65 TTTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
50118400 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTTCCAAACGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAA-TTTCCAAACGCAAAACATTGCCTTAT
50118465 TTTAAAA
65 TTTAAAA
50118472 AAATTTCCTC
Statistics
Matches: 166, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
110 102 0.61
111 26 0.16
112 14 0.08
113 24 0.14
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (109 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
Found at i:50118623 original size:18 final size:18
Alignment explanation
Indices: 50118600--50118639 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
50118590 CATAACAAAT
50118600 AAATAAA-TAAATAAATAA
1 AAATAAACTAAA-AAATAA
*
50118618 AAATAAACTAAAACATAA
1 AAATAAACTAAAAAATAA
50118636 AAAT
1 AAAT
50118640 GGACATATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (18 bp):
AAATAAACTAAAAAATAA
Found at i:50118982 original size:14 final size:15
Alignment explanation
Indices: 50118958--50118986 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
50118948 AGTAAGATGA
50118958 AAAATATATACATAT
1 AAAATATATACATAT
50118973 AAAA-ATATACATAT
1 AAAATATATACATAT
50118987 TTTAATACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATATATACATAT
Found at i:50119237 original size:15 final size:15
Alignment explanation
Indices: 50119219--50119257 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
50119209 ATAAAACTAC
**
50119219 TAATAATACTTATAA
1 TAATAATAAATATAA
*
50119234 TAATAGTAAATATAA
1 TAATAATAAATATAA
50119249 TAATAATAA
1 TAATAATAA
50119258 TAAAAGATGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (15 bp):
TAATAATAAATATAA
Found at i:50128928 original size:45 final size:45
Alignment explanation
Indices: 50128778--50129361 Score: 557
Period size: 45 Copynumber: 12.8 Consensus size: 45
50128768 CATCGTGGTG
* *
50128778 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-ACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * * *
50128822 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATT-AAAACAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* *
50128866 AATCTTATCTCCCTGAAGTTGCAGTGCAGTAGATTGAAGATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * * * * *
50128911 AATCTTATTTTCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-----A-TAACA
* * * *
50128962 AACCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAAATAGA-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-ACA
* * *
50129007 AATCTTATTTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * ***
50129052 AATCTTATCTCCCTGAAGTTGTAATGGAGCAGATTGAAGATAGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * * * * *
50129097 AATTTTATCTCCTTAAAGTTACAGTGGAACAGATTAAAGCTATAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT-A---ACA
* * ***
50129148 AATCTTATCTCCCTGAAGTT-CTAGTAGAGCAGATTGAAGACAGTG
1 AATCTTATCTCCCTGAAGTTGC-AGTGGAGCAGATTGAAGATAACA
* *
50129193 AATCTTATCTCCCTCAAGTTGCAGTGGAGCAGATTGAAG-TTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * * *
50129237 AATCTCATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * * *
50129282 AATCTTATCACCCTGAAGTTGCAGTGGAGCAGATTGAAGACATCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * *
50129327 AATCTTATTTCCCTAAAGTTGCAGTGGAACAGATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
50129362 AAAGCTACAA
Statistics
Matches: 435, Mismatches: 86, Indels: 37
0.78 0.15 0.07
Matches are distributed among these distances:
43 2 0.00
44 102 0.23
45 256 0.59
46 3 0.01
47 2 0.00
48 2 0.00
49 1 0.00
50 2 0.00
51 65 0.15
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
Found at i:50129054 original size:141 final size:138
Alignment explanation
Indices: 50128778--50129415 Score: 606
Period size: 141 Copynumber: 4.6 Consensus size: 138
50128768 CATCGTGGTG
* *
50128778 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT----AAAGCTACAAATCTTATCTCCCTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGAAAGTTACAAATCTTATCTCCCTAAA
* * * * *
50128839 GTTGTAGTGGAGCAGATT-AAAACAACAAATCTTATCTCCCTGAAGTTGCAGTGCAGTAGATTGA
66 GTTGCAGTGGAGTAGATTGAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGA
* *
50128903 AGATAACA
131 AGACAGCA
* * * *
50128911 AATCTTATTTTCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAACCTTATCTCCCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAG--A-AAGTTACAAATCTTATCTCCCT
* * *
50128976 GAAGTTGTAGTGGAGTAGATTGAAAATAGA-AAATCTTATTTCCCTGAAGTTGCAGTGAAGCAGA
63 AAAGTTGCAGTGGAGTAGATTGAAAATA-ACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGA
*
50129040 TTGAAGATAGCA
127 TTGAAGACAGCA
* * * * * * * *
50129052 AATCTTATCTCCCTGAAGTTGTAATGGAGCAGATTGAAGATAG-T--GAATTTTATCTCCTTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGAAAGTTACAAATCTTATCTCCCTAAA
* **
50129114 GTTACAGTGGAACAGATT-AAAGCTATAAGTTACAAATCTTATCTCCCTGAAGTT-CTAGT-AGA
66 GTTGCAGTGGAGTAGATTGAAA---AT-A---ACAAATCTTATCTCCCTGAAGTTGC-AGTGA-A
**
50129176 GCAGATTGAAGACAGTG
122 GCAGATTGAAGACAGCA
* * * *
50129193 AATCTTATCTCCCTCAAGTTGCAGTGGAGCAGATT---G-AAGTTACAAATCTCATCTCCCTGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGAAAGTTACAAATCTTATCTCCCTAAA
* * * * *
50129254 GTTGCAATGGAGTAGATTGAAGATAACGAATCTTATCACCCTGAAGTTGCAGTGGAGCAGATTGA
66 GTTGCAGTGGAGTAGATTGAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGA
* *
50129319 AGACATCG
131 AGACAGCA
* * * *
50129327 AATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACTAATCTTATCCCCCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAG--A-AAGTTACAAATCTTATCTCCCT
*
50129392 AAAGTTGCAGTGCAGTAGATTGAA
63 AAAGTTGCAGTGGAGTAGATTGAA
50129416 GCAACAAATC
Statistics
Matches: 411, Mismatches: 63, Indels: 54
0.78 0.12 0.10
Matches are distributed among these distances:
133 31 0.08
134 75 0.18
135 28 0.07
137 7 0.02
138 7 0.02
139 2 0.00
140 69 0.17
141 191 0.46
142 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (138 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGAAAGTTACAAATCTTATCTCCCTAAA
GTTGCAGTGGAGTAGATTGAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGA
AGACAGCA
Found at i:50129088 original size:186 final size:185
Alignment explanation
Indices: 50128781--50129316 Score: 691
Period size: 186 Copynumber: 2.9 Consensus size: 185
50128771 CGTGGTGAAT
* * * *
50128781 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTA-CAAATCTTATCTCCCTAAAGTTGT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAA-ATAGAAAATCTTATCTCCCTAAAGTTGC
* * * *
50128844 AGTGGAGCAGATT-AAAACAACAAATCTTATCTCCCTGAAGTTGCAGTGCAGTAGATTGAAGATA
65 AGTGGAGCAGATTGAAGA-TACAAATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATA
* * *
50128908 ACAAATCTTATTTTCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAAC
129 ACGAATCTTATCTCCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAAC
* * *
50128965 CTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAAATAGAAAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAAATAGAAAATCTTATCTCCCTAAAGTTGCA
* * * *
50129030 GTGAAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTTGTAATGGAGCAGATTGAAGATAG
66 GTGGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAA
* * * * * * *
50129095 TGAATTTTATCTCCTTAAAGTTACAGTGGAACAGATTAAAGCTATAAGTTACAAAT
130 CGAATCTTATCTCCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAAC
* * * * ** *
50129151 CTTATCTCCCTGAAGTTCTAGTAGAGCAGATTGAAGACAGTGAATCTTATCTCCCTCAAGTTGCA
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAAATAGAAAATCTTATCTCCCTAAAGTTGCA
* *
50129216 GTGGAGCAGATTGAAGTTACAAATCTCATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAAC
66 GTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAAC
* * *
50129281 GAATCTTATCACCCTGAAGTTGCAGTGGAGCAGATT
131 GAATCTTATCTCCATGAAGTTGCAGTGGAACAGATT
50129317 GAAGACATCG
Statistics
Matches: 301, Mismatches: 47, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
184 32 0.11
185 107 0.36
186 162 0.54
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (185 bp):
CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAAATAGAAAATCTTATCTCCCTAAAGTTGCA
GTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAAC
GAATCTTATCTCCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAAC
Found at i:50129252 original size:230 final size:233
Alignment explanation
Indices: 50128778--50129402 Score: 700
Period size: 230 Copynumber: 2.7 Consensus size: 233
50128768 CATCGTGGTG
* * *
50128778 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTG
* ** * * ** *
50128843 TAGTGGAGCAGATT-AAAACAACAAATCTTATCTCCCTGAAGTTGCAGTGCAGTAGATTGAAG--
66 TAGTGGAGCAGATTGAAGAC-ATGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCT
* * * *
50128905 AT-A---ACAAATCTTATTTTCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAACC
130 ATAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGC-ACAAGTTA-AAACC
* * *
50128966 TTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAAATAGAA
193 TTATCTCCCTCAAGTTGCAGTGGAGCAGATTGAAAATAGAA
* *
50129007 AATCTTATTTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTT
* * * * *
50129072 GTAATGGAGCAGATTGAAGATAGTGAATTTTATCTCCTTAAAGTTACAGTGGAACAGATTAAAGC
65 GTAGTGGAGCAGATTGAAGACA-TGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGC
* * * *
50129137 TATAAGTTACAAATCTTATCTCCCTGAAGTT-CTAGTAGAGCAGATTGAAG-AC-AG-T-GAATC
129 TATAAGTTACAAATCTTATCTCCCTGAAGTTGC-AGTAGAACAGATTAAAGCACAAGTTAAAACC
** *
50129197 TTATCTCCCTCAAGTTGCAGTGGAGCAGATTGAAGTTA-CA
193 TTATCTCCCTCAAGTTGCAGTGGAGCAGATTGAAAATAGAA
* * * * *
50129237 AATCTCATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAACGAATCTTATCACCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACAAATCTTATCTCCCTGAAGTT
* *
50129302 GCAGTGGAGCAGATTGAAGACATCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGC
65 GTAGTGGAGCAGATTGAAGACAT-GAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGC
* * * *
50129367 TACAAGTTACTAATCTTATCCCCCTAAAGTTGCAGT
129 TATAAGTTACAAATCTTATCTCCCTGAAGTTGCAGT
50129403 GCAGTAGATT
Statistics
Matches: 333, Mismatches: 50, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
229 39 0.12
230 179 0.54
231 72 0.22
233 3 0.01
234 3 0.01
235 2 0.01
236 1 0.00
237 34 0.10
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (233 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTG
TAGTGGAGCAGATTGAAGACATGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTA
TAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCACAAGTTAAAACCTTA
TCTCCCTCAAGTTGCAGTGGAGCAGATTGAAAATAGAA
Found at i:50133281 original size:22 final size:22
Alignment explanation
Indices: 50133244--50133298 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 22
50133234 ACTTAATATT
50133244 TAAGTATATATATAAT-ATAAT-AA
1 TAAGTA-A-ATATAATCA-AATAAA
50133267 TAAAGTAAATATAATCAAATAAA
1 T-AAGTAAATATAATCAAATAAA
50133290 TAAGTAAAT
1 TAAGTAAAT
50133299 GAAATAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 18 0.62
23 6 0.21
24 5 0.17
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (22 bp):
TAAGTAAATATAATCAAATAAA
Found at i:50133396 original size:4 final size:4
Alignment explanation
Indices: 50133299--50133385 Score: 54
Period size: 4 Copynumber: 22.0 Consensus size: 4
50133289 ATAAGTAAAT
* * * *
50133299 GAAA TAAA GAAA GAAA GAAA GAAA AAAA GAATT GAAA G-AA CAAA GCAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA-A GAAA GAAA GAAA G-AAA
* * * * *
50133348 -AAC GAAA CAGA GAAG GAAA GAAA GAAA -AAG GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
50133386 AGGAGAAAGA
Statistics
Matches: 60, Mismatches: 18, Indels: 10
0.68 0.20 0.11
Matches are distributed among these distances:
3 6 0.10
4 48 0.80
5 6 0.10
ACGTcount: A:0.70, C:0.05, G:0.22, T:0.03
Consensus pattern (4 bp):
GAAA
Found at i:50133829 original size:41 final size:42
Alignment explanation
Indices: 50133748--50133831 Score: 102
Period size: 41 Copynumber: 2.0 Consensus size: 42
50133738 GAGTTCAGAG
*
50133748 ATTACTTCGACTTCAAGTCGATGAGACACATGGTGTCAATTT
1 ATTACTTCGACTTCAAGTCGATGAGACACATGGTGCCAATTT
* *
50133790 ATTACTTCGGA-TT-AATTCGATGAGGCAC-TAGGTGCCAATTT
1 ATTACTTC-GACTTCAAGTCGATGAGACACAT-GGTGCCAATTT
50133831 A
1 A
50133832 CTTCGGTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
40 1 0.03
41 24 0.65
42 10 0.27
43 2 0.05
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (42 bp):
ATTACTTCGACTTCAAGTCGATGAGACACATGGTGCCAATTT
Found at i:50134109 original size:14 final size:15
Alignment explanation
Indices: 50134090--50134118 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
50134080 GAATTGAATA
50134090 TGTTATGAA-TGATT
1 TGTTATGAACTGATT
50134104 TGTTATGAACTGATT
1 TGTTATGAACTGATT
50134119 AATTGAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.48
Consensus pattern (15 bp):
TGTTATGAACTGATT
Found at i:50148734 original size:24 final size:25
Alignment explanation
Indices: 50148679--50148740 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
50148669 TACAAGCCCT
* *
50148679 TTCA-AGCTTCTCGTTATAGTGTTC
1 TTCAGAGCTTCTCGTTATAATGCTC
50148703 TTGC-GAGCTTCTCGTTA-AATGCTC
1 TT-CAGAGCTTCTCGTTATAATGCTC
*
50148727 TTCAGAGCATCTCG
1 TTCAGAGCTTCTCG
50148741 ATCAGTTGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 1 0.03
24 18 0.56
25 13 0.41
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (25 bp):
TTCAGAGCTTCTCGTTATAATGCTC
Found at i:50148931 original size:24 final size:25
Alignment explanation
Indices: 50148904--50148951 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
50148894 CCGTTAATTG
50148904 CTCTTTG-GAGCTACCCATTATAGA
1 CTCTTTGTGAGCTACCCATTATAGA
* *
50148928 CTCTTTGTGAGCTTCCCGTTATAG
1 CTCTTTGTGAGCTACCCATTATAG
50148952 TGCTTGAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (25 bp):
CTCTTTGTGAGCTACCCATTATAGA
Found at i:50148949 original size:25 final size:24
Alignment explanation
Indices: 50148778--50148951 Score: 72
Period size: 26 Copynumber: 7.1 Consensus size: 24
50148768 GGCACACCGC
* *
50148778 AGCTC-TTATGAGCGTCCCGTTATAT
1 AGCTCTTTGTGAGCTTCCCG-T-TAT
* * *
50148803 AACTCTTCGTGAGCTTCCCGATTAA
1 AGCTCTTTGTGAGCTTCCCG-TTAT
*
50148828 AGGCTCTTTGTGAGCTTCCTGTTAGT
1 A-GCTCTTTGTGAGCTTCCCGTTA-T
** *
50148854 -GCTCGCT-TGAACTTCCCGTTAT
1 AGCTCTTTGTGAGCTTCCCGTTAT
* * **
50148876 ATG-GCTATCCG-GCGTTACCCGTTAAT
1 A-GCTCTTTGTGAGC-TT-CCCGTT-AT
* * *
50148902 TGCTCTTTG-GAGCTACCCATTAT
1 AGCTCTTTGTGAGCTTCCCGTTAT
50148925 AGACTCTTTGTGAGCTTCCCGTTAT
1 AG-CTCTTTGTGAGCTTCCCGTTAT
50148950 AG
1 AG
50148952 TGCTTGAAAG
Statistics
Matches: 108, Mismatches: 28, Indels: 26
0.67 0.17 0.16
Matches are distributed among these distances:
22 1 0.01
23 18 0.17
24 21 0.19
25 33 0.31
26 35 0.32
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (24 bp):
AGCTCTTTGTGAGCTTCCCGTTAT
Found at i:50152770 original size:60 final size:60
Alignment explanation
Indices: 50152677--50152796 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
50152667 GAACTGTGTT
50152677 TAATTATTTGTTTTTTTTAAATAACTCATTTAAATTGACATAAAGAGGAGATTTTATATA
1 TAATTATTTGTTTTTTTTAAATAACTCATTTAAATTGACATAAAGAGGAGATTTTATATA
50152737 TAATTATTTGTTTTTTTTAAATAACTCATTTAAATTGACATAAAGAGGAGATTTTATATA
1 TAATTATTTGTTTTTTTTAAATAACTCATTTAAATTGACATAAAGAGGAGATTTTATATA
50152797 GATGTGTATA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (60 bp):
TAATTATTTGTTTTTTTTAAATAACTCATTTAAATTGACATAAAGAGGAGATTTTATATA
Found at i:50153654 original size:15 final size:15
Alignment explanation
Indices: 50153628--50153661 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
50153618 GATTTCGTAT
50153628 TTTTATATAATTAATA
1 TTTTATATAATTAA-A
50153644 TTTTA-ATAATTAAA
1 TTTTATATAATTAAA
50153658 TTTT
1 TTTT
50153662 TGTTTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 8 0.44
16 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTATATAATTAAA
Found at i:50153662 original size:15 final size:15
Alignment explanation
Indices: 50153626--50153676 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
50153616 GTGATTTCGT
50153626 ATTTTTATATAATT-A
1 ATTTTTA-ATAATTAA
50153641 ATATTTTAATAATTAA
1 AT-TTTTAATAATTAA
** *
50153657 ATTTTTGTTTATTAA
1 ATTTTTAATAATTAA
50153672 ATTTT
1 ATTTT
50153677 CATTCAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 23 0.74
16 8 0.26
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
ATTTTTAATAATTAA
Found at i:50168844 original size:93 final size:93
Alignment explanation
Indices: 50168685--50168868 Score: 341
Period size: 93 Copynumber: 2.0 Consensus size: 93
50168675 TATCACTTGC
* *
50168685 ATCAGTCTGCAAGATTCTTTTGTCACTGAATGGGATTTGTAACGGTGGTAAGTGCGTTATTTTTT
1 ATCAGTCTGCAAGATTCTTTTGTCACTGAATGGGATTTGTAACGGTGGCAAGTGCGCTATTTTTT
50168750 CCTTGATCTGTTGAACAGCCTTTGTCCA
66 CCTTGATCTGTTGAACAGCCTTTGTCCA
*
50168778 ATCAGTCTGCAAGATTCTTTTGTCACTGAATGGGATTTGTAACGGTGGCAAGTGCGCTGTTTTTT
1 ATCAGTCTGCAAGATTCTTTTGTCACTGAATGGGATTTGTAACGGTGGCAAGTGCGCTATTTTTT
50168843 CCTTGATCTGTTGAACAGCCTTTGTC
66 CCTTGATCTGTTGAACAGCCTTTGTC
50168869 TGTTTGGACT
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 88 1.00
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (93 bp):
ATCAGTCTGCAAGATTCTTTTGTCACTGAATGGGATTTGTAACGGTGGCAAGTGCGCTATTTTTT
CCTTGATCTGTTGAACAGCCTTTGTCCA
Found at i:50171061 original size:13 final size:13
Alignment explanation
Indices: 50171043--50171069 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50171033 TCAGATCTTC
50171043 AGGATTACCAATA
1 AGGATTACCAATA
50171056 AGGATTACCAATA
1 AGGATTACCAATA
50171069 A
1 A
50171070 AGTAACTATG
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:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (13 bp):
AGGATTACCAATA
Found at i:50173276 original size:18 final size:18
Alignment explanation
Indices: 50173253--50173290 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
50173243 AGGCATGATC
50173253 TTGGACCCTATACACTAT
1 TTGGACCCTATACACTAT
50173271 TTGGACCCTATACACTAT
1 TTGGACCCTATACACTAT
50173289 TT
1 TT
50173291 TAGTATCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (18 bp):
TTGGACCCTATACACTAT
Found at i:50176455 original size:14 final size:14
Alignment explanation
Indices: 50176425--50176466 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
50176415 ATTACCTTCT
50176425 AAAT-AATCA-TG-
1 AAATAAATCACTGA
50176436 AAATAAATCACTGA
1 AAATAAATCACTGA
*
50176450 AAATAAACCACTGA
1 AAATAAATCACTGA
50176464 AAA
1 AAA
50176467 AGTATCAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 4 0.15
12 5 0.19
13 2 0.07
14 16 0.59
ACGTcount: A:0.60, C:0.14, G:0.07, T:0.19
Consensus pattern (14 bp):
AAATAAATCACTGA
Found at i:50178372 original size:12 final size:12
Alignment explanation
Indices: 50178357--50178384 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
50178347 TTACAATATT
50178357 TTTTAAATATAA
1 TTTTAAATATAA
50178369 TTTTAAATATAA
1 TTTTAAATATAA
50178381 TTTT
1 TTTT
50178385 CAAAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTTAAATATAA
Found at i:50179954 original size:7 final size:7
Alignment explanation
Indices: 50179942--50179972 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
50179932 TTTCTTAAGT
50179942 GATGTGG
1 GATGTGG
50179949 GATGTGG
1 GATGTGG
50179956 GATGTGG
1 GATGTGG
50179963 GATGTGG
1 GATGTGG
50179970 GAT
1 GAT
50179973 ATGAGTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.55, T:0.29
Consensus pattern (7 bp):
GATGTGG
Found at i:50195725 original size:20 final size:21
Alignment explanation
Indices: 50195675--50195731 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 21
50195665 GAAAGAATGC
50195675 TCAAGATTTGCACCTAAAATA
1 TCAAGATTTGCACCTAAAATA
* *
50195696 TCTAATATTTGCACCTAATAT-
1 TC-AAGATTTGCACCTAAAATA
50195717 TCAAGATTT-CACCTA
1 TCAAGATTTGCACCTA
50195732 GTGGACTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 6 0.19
20 6 0.19
21 4 0.12
22 16 0.50
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (21 bp):
TCAAGATTTGCACCTAAAATA
Found at i:50206708 original size:38 final size:38
Alignment explanation
Indices: 50206644--50206811 Score: 221
Period size: 38 Copynumber: 4.4 Consensus size: 38
50206634 GATACAATTA
* *
50206644 CACCAGCACAAAGCCTACTAGGCACAAAGCCCGAATAT
1 CACCTGCACAAAGCCTGCTAGGCACAAAGCCCGAATAT
* *
50206682 CACCTGCATAAAGCCTGCTAGACACAAAGCCCTGAATAT
1 CACCTGCACAAAGCCTGCTAGGCACAAAGCCC-GAATAT
*
50206721 CACCTGCACAAAGCCTGCTAGGCACAAAGCTCGAATAT
1 CACCTGCACAAAGCCTGCTAGGCACAAAGCCCGAATAT
* * * *
50206759 CA-CTGGCACAAAGCCTGCTAGGCATAGAGTCCAAATAT
1 CACCT-GCACAAAGCCTGCTAGGCACAAAGCCCGAATAT
*
50206797 CACCAGCACAAAGCC
1 CACCTGCACAAAGCC
50206812 CGAATTAACG
Statistics
Matches: 114, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
37 2 0.02
38 76 0.67
39 36 0.32
ACGTcount: A:0.36, C:0.32, G:0.17, T:0.14
Consensus pattern (38 bp):
CACCTGCACAAAGCCTGCTAGGCACAAAGCCCGAATAT
Found at i:50206745 original size:77 final size:76
Alignment explanation
Indices: 50206644--50206811 Score: 230
Period size: 77 Copynumber: 2.2 Consensus size: 76
50206634 GATACAATTA
*
50206644 CACCAGCACAAAGCCTACTAGGCACAAAGCCCGAATATCACCT-GCATAAAGCCTGCTAGACACA
1 CACCAGCACAAAGCCTACTAGGCACAAAGCCCGAATATCA-CTGGCACAAAGCCTGCTAGACACA
*
50206708 AAGCCCTGAATAT
65 AAGCCC-AAATAT
* * * * * *
50206721 CACCTGCACAAAGCCTGCTAGGCACAAAGCTCGAATATCACTGGCACAAAGCCTGCTAGGCATAG
1 CACCAGCACAAAGCCTACTAGGCACAAAGCCCGAATATCACTGGCACAAAGCCTGCTAGACACAA
*
50206786 AGTCCAAATAT
66 AGCCCAAATAT
50206797 CACCAGCACAAAGCC
1 CACCAGCACAAAGCC
50206812 CGAATTAACG
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
76 21 0.26
77 59 0.74
ACGTcount: A:0.36, C:0.32, G:0.17, T:0.14
Consensus pattern (76 bp):
CACCAGCACAAAGCCTACTAGGCACAAAGCCCGAATATCACTGGCACAAAGCCTGCTAGACACAA
AGCCCAAATAT
Found at i:50211584 original size:51 final size:51
Alignment explanation
Indices: 50211450--50211627 Score: 234
Period size: 51 Copynumber: 3.5 Consensus size: 51
50211440 GATGGTCAGG
* * *
50211450 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT-ATTGGTCACA
* * * * *
50211500 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTATTGGTCACA
* * *
50211551 TGTGTAGTACTATGTGCAGGCTTCTACGTGTACCGGATGGTAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTATTGGTCACA
50211602 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
50211628 TGTGAACCAA
Statistics
Matches: 109, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
50 34 0.31
51 74 0.68
52 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTATTGGTCACA
Found at i:50211648 original size:102 final size:101
Alignment explanation
Indices: 50211449--50211648 Score: 269
Period size: 102 Copynumber: 2.0 Consensus size: 101
50211439 TGATGGTCAG
*
50211449 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTACTATG
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACTATG
* ** * *
50211514 TGCAGGCTACTATGCGTACCGGATAGTTTTGATCAC
66 TGCAGGCTACTATGCGAACCAAACAGTATTGATCAC
* * *
50211550 GTGTGTAGTACTATGTGCAGGCTTCTACGTGTACC-GGATGGTAATGGTCACATGTGTAGTACTA
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGAT-A-GGTCACATGTGTAGTACTA
*
50211614 TGTGCAGGCTACTATGTGAACCAAACA-TCATTGAT
64 TGTGCAGGCTACTATGCGAACCAAACAGT-ATTGAT
50211649 TAGTAAGGTG
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
100 5 0.06
101 36 0.42
102 45 0.52
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (101 bp):
GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACTATG
TGCAGGCTACTATGCGAACCAAACAGTATTGATCAC
Found at i:50211689 original size:45 final size:45
Alignment explanation
Indices: 50211638--50211726 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
50211628 TGTGAACCAA
* * *
50211638 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCGG
*
50211683 ACATCATTGATTAATAAGGTGGTTGTTATGTGCTAAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCG
50211727 AGTATCTGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCGG
Found at i:50219965 original size:15 final size:16
Alignment explanation
Indices: 50219935--50219969 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
50219925 ATTTATCAAT
*
50219935 TTTAATATTGATAGTA
1 TTTAATATTGAGAGTA
50219951 TTTAA-ATTGAGAGTA
1 TTTAATATTGAGAGTA
50219966 TTTA
1 TTTA
50219970 TAAATTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (16 bp):
TTTAATATTGAGAGTA
Found at i:50223298 original size:13 final size:13
Alignment explanation
Indices: 50223280--50223315 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
50223270 TATTGTTTTA
*
50223280 TTTTCTATATAAG
1 TTTTCTAAATAAG
*
50223293 TTTTCTAAATAAT
1 TTTTCTAAATAAG
50223306 TTTTCTAAAT
1 TTTTCTAAAT
50223316 TTATTAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (13 bp):
TTTTCTAAATAAG
Found at i:50223348 original size:15 final size:16
Alignment explanation
Indices: 50223311--50223349 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
50223301 ATAATTTTTC
*
50223311 TAAATTTATTAGTATA
1 TAAATTTAGTAGTATA
*
50223327 AAAATTTAGTAGTAT-
1 TAAATTTAGTAGTATA
50223342 TAAATTTA
1 TAAATTTA
50223350 TAAGTTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (16 bp):
TAAATTTAGTAGTATA
Found at i:50223360 original size:61 final size:61
Alignment explanation
Indices: 50223287--50223428 Score: 162
Period size: 61 Copynumber: 2.3 Consensus size: 61
50223277 TTATTTTCTA
* *
50223287 TATAAGTTTTCTAAATAATTTTTCTAAATTTATTAGT-ATAAAAATTTAGT-AGTATTAAATT
1 TATAAGTTTTCTAAATAATTGTTCTAAATTTATTAGTGAT-AAAATTTA-TAAGTATCAAATT
* * * * *
50223348 TATAAGTTTTCTAAAAAAGTGTTCTAGATTTATTATTGATAAAATTTATAAGTATCAATTT
1 TATAAGTTTTCTAAATAATTGTTCTAAATTTATTAGTGATAAAATTTATAAGTATCAAATT
* * *
50223409 TACACGTTTTGTAAATAATT
1 TATAAGTTTTCTAAATAATT
50223429 ATATTTTTTT
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
60 1 0.01
61 64 0.96
62 2 0.03
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.47
Consensus pattern (61 bp):
TATAAGTTTTCTAAATAATTGTTCTAAATTTATTAGTGATAAAATTTATAAGTATCAAATT
Found at i:50223665 original size:8 final size:7
Alignment explanation
Indices: 50223652--50223697 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
50223642 TAACTTATAT
50223652 ATAATAAC
1 ATAAT-AC
50223660 ATAATA-
1 ATAATAC
*
50223666 A-ATTAC
1 ATAATAC
50223672 ATAATAC
1 ATAATAC
50223679 ATAATAAC
1 ATAAT-AC
50223687 ATAATAC
1 ATAATAC
50223694 ATAA
1 ATAA
50223698 CTTATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 16 0.48
8 12 0.36
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAATAC
Found at i:50223690 original size:15 final size:15
Alignment explanation
Indices: 50223652--50223697 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
50223642 TAACTTATAT
50223652 ATAATAACATAAT--
1 ATAATAACATAATAC
*
50223665 A-AATTACATAATAC
1 ATAATAACATAATAC
50223679 ATAATAACATAATAC
1 ATAATAACATAATAC
50223694 ATAA
1 ATAA
50223698 CTTATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
14 1 0.04
15 16 0.57
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAATAACATAATAC
Found at i:50223739 original size:9 final size:9
Alignment explanation
Indices: 50223727--50224536 Score: 632
Period size: 9 Copynumber: 90.4 Consensus size: 9
50223717 AACTTACATA
*
50223727 ATAACTTCC
1 ATAACTTAC
50223736 ATAACTTAC
1 ATAACTTAC
50223745 ATAACTT--
1 ATAACTTAC
*
50223752 ATACACGTAC
1 ATA-ACTTAC
50223762 ATAACTTAC
1 ATAACTTAC
50223771 TTAAATAAACTTAC
1 ----AT-AACTTAC
50223785 ATAACTTAC
1 ATAACTTAC
50223794 ATAACTT--
1 ATAACTTAC
*
50223801 ATACACGTAC
1 ATA-ACTTAC
*
50223811 ATAATAGCTTGC
1 AT-A-A-CTTAC
*
50223823 TTAA--TAC
1 ATAACTTAC
50223830 ATAACTTAC
1 ATAACTTAC
50223839 ATAACTT--
1 ATAACTTAC
*
50223846 ATACACGTAC
1 ATA-ACTTAC
50223856 ATAACTTAC
1 ATAACTTAC
*
50223865 ATAA--TAT
1 ATAACTTAC
*
50223872 ATAAACATATAT
1 AT-AAC-T-TAC
* *
50223884 AGAAACTCAC
1 A-TAACTTAC
* *
50223894 ATAAATTAA
1 ATAACTTAC
50223903 ATAACTTAC
1 ATAACTTAC
50223912 ATAACTTAC
1 ATAACTTAC
* *
50223921 ATAAATTAA
1 ATAACTTAC
50223930 ATAACTTAC
1 ATAACTTAC
50223939 ATAACTTAC
1 ATAACTTAC
*
50223948 ATAAATTA-
1 ATAACTTAC
50223956 AGTAACTTAC
1 A-TAACTTAC
*
50223966 ATAACTTAA
1 ATAACTTAC
*
50223975 ATAAACTTGC
1 AT-AACTTAC
* *
50223985 ATAAATTAA
1 ATAACTTAC
50223994 ATAACTTAC
1 ATAACTTAC
*
50224003 ATAACCTAC
1 ATAACTTAC
* *
50224012 ATAAATTAA
1 ATAACTTAC
50224021 ATAACTTAC
1 ATAACTTAC
* *
50224030 ATAAATTAA
1 ATAACTTAC
50224039 ATAACTTAC
1 ATAACTTAC
50224048 ATAACTTAC
1 ATAACTTAC
* *
50224057 ATAAATTAA
1 ATAACTTAC
*
50224066 ATAATTTAC
1 ATAACTTAC
50224075 ATAACTTAC
1 ATAACTTAC
* *
50224084 ATAAATTAA
1 ATAACTTAC
*
50224093 ATAACTTAA
1 ATAACTTAC
50224102 ATAACTTAC
1 ATAACTTAC
50224111 ATAACTTAC
1 ATAACTTAC
*
50224120 ATAAATTA-
1 ATAACTTAC
50224128 ATTAACTTAC
1 A-TAACTTAC
50224138 ATAACTTAC
1 ATAACTTAC
*
50224147 ATAAAC-TAA
1 AT-AACTTAC
50224156 ATAACTTAC
1 ATAACTTAC
50224165 ATAACTTAC
1 ATAACTTAC
*
50224174 ATAAAC-TAA
1 AT-AACTTAC
50224183 ATAACTTAC
1 ATAACTTAC
50224192 ATAACTTAC
1 ATAACTTAC
* *
50224201 ATAAATTAA
1 ATAACTTAC
50224210 ATAACTTAC
1 ATAACTTAC
*
50224219 ATGGACTTAC
1 AT-AACTTAC
* **
50224229 ATAAATTTT
1 ATAACTTAC
50224238 ATAACTTAC
1 ATAACTTAC
50224247 ATAACTTAC
1 ATAACTTAC
* *
50224256 ATAAATTAA
1 ATAACTTAC
50224265 ATAACTTAC
1 ATAACTTAC
* *
50224274 ATAAATTCC
1 ATAACTTAC
* *
50224283 GTGGACTTAC
1 AT-AACTTAC
*
50224293 ATAACCTAC
1 ATAACTTAC
* *
50224302 ATAAATTAA
1 ATAACTTAC
50224311 ATAACTTAC
1 ATAACTTAC
50224320 ATAACTTAC
1 ATAACTTAC
50224329 ATAACTTAC
1 ATAACTTAC
* *
50224338 ATAAATTAA
1 ATAACTTAC
50224347 ATAACTTAC
1 ATAACTTAC
50224356 ATAACTTAC
1 ATAACTTAC
* *
50224365 ATAAATTAA
1 ATAACTTAC
*
50224374 ATTACTTAC
1 ATAACTTAC
50224383 ATAACTTAC
1 ATAACTTAC
*
50224392 ATTA--TAC
1 ATAACTTAC
50224399 ATAACCTT-C
1 ATAA-CTTAC
*
50224408 TTAACTTAC
1 ATAACTTAC
*
50224417 ATTA--TAC
1 ATAACTTAC
* *
50224424 ACAACTCAC
1 ATAACTTAC
50224433 ATAA-TTA-
1 ATAACTTAC
*
50224440 AT-ATTATAC
1 ATAACT-TAC
*
50224449 ACAACTTAC
1 ATAACTTAC
50224458 ATAA--TAC
1 ATAACTTAC
*
50224465 ATTACTTAC
1 ATAACTTAC
50224474 ATAACTTAC
1 ATAACTTAC
*
50224483 ATTACTTAC
1 ATAACTTAC
*
50224492 ATTACTTAC
1 ATAACTTAC
50224501 ATAA--TAC
1 ATAACTTAC
50224508 ATAA--TAC
1 ATAACTTAC
50224515 ATAACTTAC
1 ATAACTTAC
*
50224524 ATAACGTAC
1 ATAACTTAC
50224533 ATAA
1 ATAA
50224537 TACATAAAAA
Statistics
Matches: 633, Mismatches: 119, Indels: 98
0.74 0.14 0.12
Matches are distributed among these distances:
6 1 0.00
7 52 0.08
8 26 0.04
9 486 0.77
10 44 0.07
11 4 0.01
12 11 0.02
13 2 0.00
14 7 0.01
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:50223764 original size:17 final size:16
Alignment explanation
Indices: 50223736--50223814 Score: 56
Period size: 17 Copynumber: 4.8 Consensus size: 16
50223726 AATAACTTCC
*
50223736 ATAACTTACATAACTT
1 ATAACGTACATAACTT
50223752 ATACACGTACATAAC-T
1 ATA-ACGTACATAACTT
* *
50223768 -T-ACTTAAATAAACTT
1 ATAACGTACAT-AACTT
*
50223783 ACATAACTTACATAACTT
1 --ATAACGTACATAACTT
50223801 ATACACGTACATAA
1 ATA-ACGTACATAA
50223815 TAGCTTGCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 15
0.71 0.07 0.21
Matches are distributed among these distances:
13 6 0.12
14 3 0.06
15 2 0.04
16 7 0.14
17 19 0.38
18 6 0.12
19 7 0.14
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.32
Consensus pattern (16 bp):
ATAACGTACATAACTT
Found at i:50224465 original size:66 final size:67
Alignment explanation
Indices: 50224313--50224486 Score: 183
Period size: 66 Copynumber: 2.5 Consensus size: 67
50224303 TAAATTAAAT
* * * * *
50224313 AACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACATAAATTAAATTA
1 AACTTACATAA--TACATAACTTACATAACTTACATTA--TACACAACTCACATAAATTAAATTA
*
50224378 CTTACAT
62 C-TACAC
* *
50224385 AACTTACATTATACATAACCTT-CTTAACTTACATTATACACAACTCACAT-AATTAATATTA-T
1 AACTTACATAATACATAA-CTTACATAACTTACATTATACACAACTCACATAAATTAA-ATTACT
50224447 ACAC
64 ACAC
*
50224451 AACTTACATAATACATTACTTACATAACTTACATTA
1 AACTTACATAATACATAACTTACATAACTTACATTA
50224487 CTTACATTAC
Statistics
Matches: 88, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
65 3 0.03
66 33 0.38
67 6 0.07
68 16 0.18
70 17 0.19
71 3 0.03
72 10 0.11
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (67 bp):
AACTTACATAATACATAACTTACATAACTTACATTATACACAACTCACATAAATTAAATTACTAC
AC
Found at i:50224510 original size:7 final size:7
Alignment explanation
Indices: 50224498--50224543 Score: 56
Period size: 7 Copynumber: 6.0 Consensus size: 7
50224488 TTACATTACT
50224498 TACATAA
1 TACATAA
50224505 TACATAA
1 TACATAA
50224512 TACATAA
1 TACATAA
50224519 CTTACATAA
1 --TACATAA
50224528 CGTACATAA
1 --TACATAA
50224537 TACATAA
1 TACATAA
50224544 AAATATATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
7 21 0.58
9 15 0.42
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.28
Consensus pattern (7 bp):
TACATAA
Found at i:50228220 original size:21 final size:21
Alignment explanation
Indices: 50228194--50228258 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
50228184 AACTTAAAGT
* *
50228194 AGAGGCGGCAGCGAGGGAAGC
1 AGAGGCCGCAGCGAGAGAAGC
**
50228215 AGAGGCTACAGCGAGAGAAGC
1 AGAGGCCGCAGCGAGAGAAGC
*
50228236 AGAGGCCGTAGCGAGAGAAGC
1 AGAGGCCGCAGCGAGAGAAGC
50228257 AG
1 AG
50228259 CGAGAGAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AGAGGCCGCAGCGAGAGAAGC
Found at i:50228821 original size:43 final size:43
Alignment explanation
Indices: 50228708--50228916 Score: 259
Period size: 43 Copynumber: 4.9 Consensus size: 43
50228698 GTTTGTGAAA
* *
50228708 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCATTTTTTACC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTCC
*
50228751 -AAGCGCCGCTAAAGAACATTA-CTTTTAGCGGC-TTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTTT-TTCC
* *
50228793 TAAGCACCGCTAAAGAGCATGATCTTTAGCGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCC
* *
50228836 TAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCGG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-C
*
50228880 T-AGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT
50228917 CCCTATAAGC
Statistics
Matches: 150, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
41 6 0.04
42 33 0.22
43 104 0.69
44 7 0.05
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCC
Found at i:50231031 original size:23 final size:24
Alignment explanation
Indices: 50231003--50231058 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
50230993 TTTTAATTTT
50231003 ATAATTTATTAAA-AGAATATAAA
1 ATAATTTATTAAATAGAATATAAA
* *
50231026 ATAATTT-TAAAATATAATATAAA
1 ATAATTTATTAAATAGAATATAAA
*
50231049 ATAATATATT
1 ATAATTTATT
50231059 TTCATTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 4 0.15
23 22 0.81
24 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (24 bp):
ATAATTTATTAAATAGAATATAAA
Found at i:50236174 original size:13 final size:13
Alignment explanation
Indices: 50236156--50236184 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
50236146 ACTCAAACAC
50236156 CTATAATCTACAT
1 CTATAATCTACAT
50236169 CTATAATCTACAT
1 CTATAATCTACAT
50236182 CTA
1 CTA
50236185 GTCACTTCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (13 bp):
CTATAATCTACAT
Found at i:50236413 original size:29 final size:28
Alignment explanation
Indices: 50236381--50236459 Score: 131
Period size: 28 Copynumber: 2.8 Consensus size: 28
50236371 AAAGTATTTT
50236381 AAAAATATTTTAAAATTAAAAAAAGTAA
1 AAAAATATTTTAAAATTAAAAAAAGTAA
* *
50236409 AAAAATATTTTAAAATTTAAAAAATTAA
1 AAAAATATTTTAAAATTAAAAAAAGTAA
50236437 AAAAAGTATTTTAAAATTAAAAA
1 AAAAA-TATTTTAAAATTAAAAA
50236460 GGAAAAAAAG
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 31 0.66
29 16 0.34
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAAATATTTTAAAATTAAAAAAAGTAA
Found at i:50236442 original size:37 final size:40
Alignment explanation
Indices: 50236367--50236444 Score: 117
Period size: 37 Copynumber: 2.0 Consensus size: 40
50236357 ACAAAAATTA
**
50236367 AAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAGT
1 AAAAAAAGTATTTTAAAAATATTAAAAAATTAAAAAAAGT
50236407 AAAAAAA-TATTTT-AAAAT-TTAAAAAATTAAAAAAAGT
1 AAAAAAAGTATTTTAAAAATATTAAAAAATTAAAAAAAGT
50236444 A
1 A
50236445 TTTTAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
37 18 0.50
38 5 0.14
39 6 0.17
40 7 0.19
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (40 bp):
AAAAAAAGTATTTTAAAAATATTAAAAAATTAAAAAAAGT
Found at i:50236466 original size:28 final size:27
Alignment explanation
Indices: 50236381--50236468 Score: 124
Period size: 28 Copynumber: 3.2 Consensus size: 27
50236371 AAAGTATTTT
50236381 AAAAATATTTTAAAATTAAAAAAAGTAA
1 AAAAATATTTTAAAATT-AAAAAAGTAA
*
50236409 AAAAATATTTTAAAATTTAAAAAATTAA
1 AAAAATATTTTAAAA-TTAAAAAAGTAA
*
50236437 AAAAAGTATTTTAAAATT-AAAAAGGAA
1 AAAAA-TATTTTAAAATTAAAAAAGTAA
50236464 AAAAA
1 AAAAA
50236469 GAAAAATATT
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
27 12 0.22
28 31 0.56
29 12 0.22
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (27 bp):
AAAAATATTTTAAAATTAAAAAAGTAA
Found at i:50236467 original size:29 final size:26
Alignment explanation
Indices: 50236381--50236468 Score: 104
Period size: 29 Copynumber: 3.2 Consensus size: 26
50236371 AAAGTATTTT
50236381 AAAAATATTTTAAAATTAAAAAAAGTAA
1 AAAAATATTTTAAAATTAAAAAAA--AA
50236409 AAAAATATTTTAAAATTTAAAAAATTAAA
1 AAAAATATTTTAAAA-TTAAAAAA--AAA
* **
50236438 AAAAGTATTTTAAAATTAAAAAGGAA
1 AAAAATATTTTAAAATTAAAAAAAAA
50236464 AAAAA
1 AAAAA
50236469 GAAAAATATT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
26 6 0.11
28 22 0.42
29 24 0.45
31 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (26 bp):
AAAAATATTTTAAAATTAAAAAAAAA
Found at i:50237389 original size:23 final size:23
Alignment explanation
Indices: 50237358--50237402 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
50237348 TACAATCAAC
50237358 ATTACACATATC-AACAAGCCATA
1 ATTACACAT-TCAAACAAGCCATA
*
50237381 ATTAGACATTCAAAACAAGCCA
1 ATTACACATTC-AAACAAGCCA
50237403 AAATAAGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 8 0.42
24 9 0.47
ACGTcount: A:0.49, C:0.24, G:0.07, T:0.20
Consensus pattern (23 bp):
ATTACACATTCAAACAAGCCATA
Found at i:50239697 original size:27 final size:26
Alignment explanation
Indices: 50239674--50239751 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 26
50239664 ATAATATATT
* *
50239674 TATATATGCATTTTTTATATATATAG
1 TATATACGCATTTTTTATATATATAA
* *
50239700 CACATACGCATATTTTTATATATATAA
1 TATATACGCAT-TTTTTATATATATAA
*
50239727 TATATAGGCATTTTTT-TAATATATA
1 TATATACGCATTTTTTAT-ATATATA
50239752 CGTTTTTAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
25 1 0.02
26 20 0.47
27 22 0.51
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (26 bp):
TATATACGCATTTTTTATATATATAA
Found at i:50240890 original size:6 final size:6
Alignment explanation
Indices: 50240879--50240905 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
50240869 TTTTGGTAAC
50240879 TTTGCA TTTGCA TTTGCA TTTGCA TTT
1 TTTGCA TTTGCA TTTGCA TTTGCA TTT
50240906 TACCCTTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (6 bp):
TTTGCA
Found at i:50253238 original size:27 final size:26
Alignment explanation
Indices: 50253215--50253292 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 26
50253205 ATAATATATT
*
50253215 TATATATGCATTTTTTATATATATAG
1 TATATATGCATTTTTTATATATATAA
* *
50253241 CACATACT-CATATTTTTATATATATAA
1 TATATA-TGCAT-TTTTTATATATATAA
*
50253268 TATATAGGCATTTTTT-TAATATATA
1 TATATATGCATTTTTTAT-ATATATA
50253293 CGTTTTTAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
25 1 0.02
26 19 0.45
27 22 0.52
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (26 bp):
TATATATGCATTTTTTATATATATAA
Found at i:50254477 original size:101 final size:101
Alignment explanation
Indices: 50254299--50254531 Score: 378
Period size: 101 Copynumber: 2.3 Consensus size: 101
50254289 ACATTCGTAA
* *
50254299 TGCCATAACCCAATTATGGTCTTATCATCAGAATGACATAGTCCAGCTATGGTCTTACATATAAA
1 TGCCATAACCCAGTTATGGTCTTATCATCAGAATGACATACTCCAGCTATGGTCTTACATATAAA
*
50254364 CACTGCCATGGTCCAACCATGGTCTTACGTTCATAG
66 CACTGCCATGGTCCAACCATGGTCTTAAGTTCATAG
* **
50254400 TGTCATAACCCAGTTATGGTCTTATCATCAGAATGTTATAACT-CAGCTATGGTCTTACATATAA
1 TGCCATAACCCAGTTATGGTCTTATCATCAGAATGACAT-ACTCCAGCTATGGTCTTACATATAA
50254464 ACACTGCCATGGTCCAACCATGGTCTTAAGTTCATAG
65 ACACTGCCATGGTCCAACCATGGTCTTAAGTTCATAG
*
50254501 TGCCATAACCTAGTTATGGTCTTATGCATCA
1 TGCCATAACCCAGTTATGGTCTTAT-CATCA
50254532 ATTCATCCTT
Statistics
Matches: 122, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
101 115 0.94
102 7 0.06
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (101 bp):
TGCCATAACCCAGTTATGGTCTTATCATCAGAATGACATACTCCAGCTATGGTCTTACATATAAA
CACTGCCATGGTCCAACCATGGTCTTAAGTTCATAG
Found at i:50258579 original size:29 final size:27
Alignment explanation
Indices: 50258546--50258611 Score: 64
Period size: 29 Copynumber: 2.4 Consensus size: 27
50258536 CTCTTTCTTG
* *
50258546 TTGTTATTTTTGAA-TTCATCCTTTAAAT
1 TTGTTATTTTTCAACTTAATCC-TT-AAT
50258574 TCTGTT-TGTTTTCAACTTAATCCTTAAT
1 T-TGTTAT-TTTTCAACTTAATCCTTAAT
50258602 TTGTTATTTT
1 TTGTTATTTT
50258612 AGGTTTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
27 7 0.22
28 7 0.22
29 12 0.38
30 6 0.19
ACGTcount: A:0.21, C:0.12, G:0.08, T:0.59
Consensus pattern (27 bp):
TTGTTATTTTTCAACTTAATCCTTAAT
Found at i:50258837 original size:24 final size:23
Alignment explanation
Indices: 50258796--50258887 Score: 71
Period size: 24 Copynumber: 3.7 Consensus size: 23
50258786 CATATTATGT
50258796 ATATATTTTATTATTATTTTATTTTC
1 ATAT-TTTTA-TA-TATTTTATTTTC
* *
50258822 ATAATTTTTATATATTTTATATAC
1 AT-ATTTTTATATATTTTATTTTC
50258846 ATTTATATTTTATAATATTTATATTTTC
1 A--TAT-TTTTAT-ATATTT-TATTTTC
50258874 ATA-TTTTATA-ATTT
1 ATATTTTTATATATTT
50258888 ATATATGTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
22 4 0.07
23 1 0.02
24 17 0.30
25 4 0.07
26 16 0.29
27 8 0.14
28 6 0.11
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATTTTTATATATTTTATTTTC
Found at i:50258841 original size:35 final size:35
Alignment explanation
Indices: 50258795--50258877 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 35
50258785 GCATATTATG
* *
50258795 TATATATTTTAT-TATTATTT-TATTTTCATAATTTT
1 TATATATTTTATATA-CATTTATATTTT-ATAATATT
50258830 TATATATTTTATATACATTTATATTTTATAATATT
1 TATATATTTTATATACATTTATATTTTATAATATT
*
50258865 TATAT-TTTCATAT
1 TATATATTTTATAT
50258878 TTTATAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
34 7 0.16
35 28 0.65
36 8 0.19
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (35 bp):
TATATATTTTATATACATTTATATTTTATAATATT
Found at i:50258854 original size:17 final size:17
Alignment explanation
Indices: 50258832--50258877 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
50258822 ATAATTTTTA
50258832 TATATTTTATATACATT
1 TATATTTTATATACATT
*
50258849 TATATTTTATA-ATATT
1 TATATTTTATATACATT
50258865 TATATTTTCATAT
1 TATATTTT-ATAT
50258878 TTTATAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (17 bp):
TATATTTTATATACATT
Found at i:50258871 original size:52 final size:50
Alignment explanation
Indices: 50258797--50258893 Score: 135
Period size: 52 Copynumber: 1.9 Consensus size: 50
50258787 ATATTATGTA
*
50258797 TATATTTTATTATTATTTTATTTTCATAATTTTTATATATTT-TATATACATT
1 TATATTTTATTAATATTTTATTTTCAT-A-TTTTATA-ATTTATATATACATT
50258849 TATATTTTA-TAATATTTATATTTTCATATTTTATAATTTATATAT
1 TATATTTTATTAATATTT-TATTTTCATATTTTATAATTTATATAT
50258894 GTTTATACAT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
49 4 0.10
50 12 0.29
51 8 0.19
52 18 0.43
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (50 bp):
TATATTTTATTAATATTTTATTTTCATATTTTATAATTTATATATACATT
Found at i:50258879 original size:14 final size:16
Alignment explanation
Indices: 50258797--50258900 Score: 79
Period size: 16 Copynumber: 6.2 Consensus size: 16
50258787 ATATTATGTA
*
50258797 TATATTTTATTATTATT
1 TATATTTTA-TAATATT
*
50258814 T-TATTTTCATAATTTTT
1 TATATTTT-ATAA-TATT
*
50258831 ATATATTTTATATACATT
1 -TATATTTTATA-ATATT
50258849 TATATTTTATAATATT
1 TATATTTTATAATATT
50258865 TATATTTTCAT-AT-TT
1 TATATTTT-ATAATATT
* *
50258880 TATAATTTATATATGTT
1 TATATTTTATA-ATATT
50258897 TATA
1 TATA
50258901 CATTCTTTAT
Statistics
Matches: 72, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
14 2 0.03
15 9 0.12
16 24 0.33
17 24 0.33
18 6 0.08
19 7 0.10
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (16 bp):
TATATTTTATAATATT
Found at i:50258900 original size:8 final size:7
Alignment explanation
Indices: 50258832--50258891 Score: 57
Period size: 7 Copynumber: 7.7 Consensus size: 7
50258822 ATAATTTTTA
50258832 TATATTT
1 TATATTT
50258839 TATATACATT
1 TATAT---TT
50258849 TATATTT
1 TATATTT
50258856 TATAATATT
1 TAT-AT-TT
50258865 TATATTT
1 TATATTT
50258872 TCATATTT
1 T-ATATTT
*
50258880 TATAATT
1 TATATTT
50258887 TATAT
1 TATAT
50258892 ATGTTTATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
7 22 0.49
8 11 0.24
9 5 0.11
10 7 0.16
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (7 bp):
TATATTT
Found at i:50258900 original size:17 final size:17
Alignment explanation
Indices: 50258832--50258900 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
50258822 ATAATTTTTA
* *
50258832 TATATTTTATATACATT
1 TATAATTTATATATATT
*
50258849 TATATTTTATA-ATATT
1 TATAATTTATATATATT
50258865 TAT-ATTT-TCATAT-TT
1 TATAATTTAT-ATATATT
*
50258880 TATAATTTATATATGTT
1 TATAATTTATATATATT
50258897 TATA
1 TATA
50258901 CATTCTTTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
14 1 0.02
15 9 0.20
16 17 0.38
17 18 0.40
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (17 bp):
TATAATTTATATATATT
Found at i:50291843 original size:16 final size:18
Alignment explanation
Indices: 50291817--50291849 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
50291807 TTAGAATTGG
50291817 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
50291834 TTGA-AAAATTAATTTA
1 TTGAGAAAATTAATTTA
50291850 TCTAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:50293195 original size:41 final size:41
Alignment explanation
Indices: 50293137--50293286 Score: 264
Period size: 41 Copynumber: 3.6 Consensus size: 41
50293127 CTTAATTTAA
* *
50293137 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
50293179 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
50293220 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
50293261 CAGATCATCGGCACTTAGCCTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
50293287 ACGTATAGTC
Statistics
Matches: 105, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
41 101 0.96
42 4 0.04
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:50295219 original size:19 final size:20
Alignment explanation
Indices: 50295181--50295222 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
50295171 TATGATTTAT
*
50295181 CAACATATTTATTTATATAA
1 CAACATATTTATTTAGATAA
*
50295201 CAACAT-TTTATTTGGATAA
1 CAACATATTTATTTAGATAA
50295220 CAA
1 CAA
50295223 AATCTATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (20 bp):
CAACATATTTATTTAGATAA
Found at i:50300959 original size:24 final size:25
Alignment explanation
Indices: 50300932--50300995 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
50300922 TTAAGCTCAC
**
50300932 ATGAGCTTTCTGTT-TTAAACTCTT
1 ATGAGCTTTCTGTTATTAAACTCGG
*
50300956 ATGAG-TTTCTTGTTATTAAGCTCGG
1 ATGAGCTTTC-TGTTATTAAACTCGG
*
50300981 ATAAGCTTTCTGTTA
1 ATGAGCTTTCTGTTA
50300996 CATGGCTCAC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
23 4 0.12
24 9 0.27
25 16 0.48
26 4 0.12
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (25 bp):
ATGAGCTTTCTGTTATTAAACTCGG
Found at i:50310776 original size:17 final size:17
Alignment explanation
Indices: 50310754--50310797 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
50310744 AATTGATGAC
50310754 ATGTATGATAA-TGCCTT
1 ATGTATGA-AAGTGCCTT
*
50310771 ATGTATGAAAGTGTCTT
1 ATGTATGAAAGTGCCTT
50310788 ATGTATGAAA
1 ATGTATGAAA
50310798 TTGATCACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 2 0.08
17 23 0.92
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (17 bp):
ATGTATGAAAGTGCCTT
Found at i:50314008 original size:42 final size:40
Alignment explanation
Indices: 50313962--50314051 Score: 121
Period size: 38 Copynumber: 2.2 Consensus size: 40
50313952 TAGAAAGTAT
* *
50313962 TTATATTAAAAAAACACTACCATAAAGATAATAAATGTTTTA
1 TTATATTAAAAAAACAC-A-AATAAAGATAATAAATATTTTA
*
50314004 TTATATT--AAAAACACAAATAAATATAATAAATATTTTA
1 TTATATTAAAAAAACACAAATAAAGATAATAAATATTTTA
50314042 TTATATTAAA
1 TTATATTAAA
50314052 TATAAATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
38 26 0.60
39 1 0.02
40 9 0.21
42 7 0.16
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (40 bp):
TTATATTAAAAAAACACAAATAAAGATAATAAATATTTTA
Found at i:50314186 original size:18 final size:18
Alignment explanation
Indices: 50314156--50314200 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
50314146 AACGATTTAA
*
50314156 TATAA-ATATATATTTAT
1 TATAACATATATAATTAT
50314173 TATTTAACATATATAATTAT
1 TA--TAACATATATAATTAT
50314193 TATAACAT
1 TATAACAT
50314201 TTTTTATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 2 0.08
18 6 0.25
19 3 0.12
20 13 0.54
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (18 bp):
TATAACATATATAATTAT
Found at i:50314610 original size:52 final size:52
Alignment explanation
Indices: 50314548--50314651 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
50314538 TCACATACCT
50314548 TATAGTCTACTCAACTCATGTTACATTGTTAATCCAACAAGAAACAGTAGAA
1 TATAGTCTACTCAACTCATGTTACATTGTTAATCCAACAAGAAACAGTAGAA
50314600 TATAGTCTACTCAACTCATGTTACATTGTTAATCCAACAAGAAACAGTAGAA
1 TATAGTCTACTCAACTCATGTTACATTGTTAATCCAACAAGAAACAGTAGAA
50314652 AGAACCTGTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (52 bp):
TATAGTCTACTCAACTCATGTTACATTGTTAATCCAACAAGAAACAGTAGAA
Found at i:50314730 original size:23 final size:23
Alignment explanation
Indices: 50314700--50314744 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
50314690 AAAGCCCCTA
50314700 TAAATACTCCTCTTAACCCGAAG
1 TAAATACTCCTCTTAACCCGAAG
*
50314723 TAAATACTCCTCTTAACGCGAA
1 TAAATACTCCTCTTAACCCGAA
50314745 AGGGCGGGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.29, G:0.09, T:0.27
Consensus pattern (23 bp):
TAAATACTCCTCTTAACCCGAAG
Found at i:50321515 original size:2 final size:2
Alignment explanation
Indices: 50321510--50321534 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
50321500 GAGTGCCCAC
50321510 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
50321535 TAAATATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.