Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 262 of 292
Found at i:75407909 original size:62 final size:62
Alignment explanation
Indices: 75407831--75407970 Score: 230
Period size: 62 Copynumber: 2.3 Consensus size: 62
75407821 CTTGTAGCCA
*
75407831 AAGCTACCACTATTCACTGATCAGGTAGCCAG-AGCTACCACTTTTCACTGATCAGGTAGTCGG
1 AAGCTACCACTTTTCACTGATCAGGTAG-CAGAAGCTACCACTTTTCACTGATCAGGTAG-CGG
*
75407894 AA-CTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAGGTAGCGG
75407955 AAGCTACCACTTTTCA
1 AAGCTACCACTTTTCA
75407971 TTTGTCATTG
Statistics
Matches: 73, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
61 7 0.10
62 64 0.88
63 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (62 bp):
AAGCTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAGGTAGCGG
Found at i:75420273 original size:27 final size:27
Alignment explanation
Indices: 75420243--75420326 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
75420233 AAGCCCACCC
*
75420243 ATATTATTTTTATTTTTGAAAATATTT
1 ATATAATTTTTATTTTTGAAAATATTT
* *
75420270 ATATCA-TATTA-TTTT-AATTTAATATTT
1 ATATAATTTTTATTTTTGAA---AATATTT
*
75420297 A-ATAATTTTTATTTATTGAAAATTTTT
1 ATATAATTTTTATTT-TTGAAAATATTT
75420324 ATA
1 ATA
75420327 GAATCATCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 15
0.69 0.08 0.23
Matches are distributed among these distances:
24 2 0.05
25 4 0.09
26 7 0.16
27 24 0.55
28 3 0.07
29 2 0.05
30 2 0.05
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (27 bp):
ATATAATTTTTATTTTTGAAAATATTT
Found at i:75421094 original size:16 final size:16
Alignment explanation
Indices: 75421073--75421104 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
75421063 TATTTTTTAA
75421073 TAAAATTTTTATATTT
1 TAAAATTTTTATATTT
75421089 TAAAATTTTTATATTT
1 TAAAATTTTTATATTT
75421105 GCTTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TAAAATTTTTATATTT
Found at i:75422405 original size:24 final size:24
Alignment explanation
Indices: 75422377--75422426 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
75422367 TTTTTTCCTC
* *
75422377 TTCCCTTTCCTTCTCT-CCTCTCTT
1 TTCCCTCTCCCTCTCTCCCT-TCTT
75422401 TTCCCTCTCCCTCTCTCCCTTCTT
1 TTCCCTCTCCCTCTCTCCCTTCTT
75422425 TT
1 TT
75422427 TCTTTAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (24 bp):
TTCCCTCTCCCTCTCTCCCTTCTT
Found at i:75422413 original size:17 final size:18
Alignment explanation
Indices: 75422382--75422416 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
75422372 TCCTCTTCCC
*
75422382 TTTCCTTCTCTCCTCTCT
1 TTTCCCTCTCTCCTCTCT
75422400 TTTCCCTCTC-CCTCTCT
1 TTTCCCTCTCTCCTCTCT
75422417 CCCTTCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTCCCTCTCTCCTCTCT
Found at i:75428570 original size:30 final size:30
Alignment explanation
Indices: 75428534--75428597 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
75428524 CAATTTTAAG
75428534 TATGGTTATAGCTTAGCCTAACATTTCTAC
1 TATGGTTATAGCTTAGCCTAACATTTCTAC
75428564 TATGGTTATAGCTTAGCCTAACATTTCTAC
1 TATGGTTATAGCTTAGCCTAACATTTCTAC
75428594 TATG
1 TATG
75428598 TTTTTGCAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (30 bp):
TATGGTTATAGCTTAGCCTAACATTTCTAC
Found at i:75438682 original size:30 final size:29
Alignment explanation
Indices: 75438647--75438712 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
75438637 ATCCTACTAA
* *
75438647 ATCACCCCATTAAATCACCTCACTAACTCC
1 ATCACCCCACTAAACCACC-CACTAACTCC
* * *
75438677 ATCACCCTACTAAACCATCCACTATCTCC
1 ATCACCCCACTAAACCACCCACTAACTCC
75438706 ATCACCC
1 ATCACCC
75438713 TACTTGTCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 16 0.52
30 15 0.48
ACGTcount: A:0.32, C:0.45, G:0.00, T:0.23
Consensus pattern (29 bp):
ATCACCCCACTAAACCACCCACTAACTCC
Found at i:75438843 original size:45 final size:45
Alignment explanation
Indices: 75438794--75438885 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
75438784 AAAGGGGGAG
75438794 TTCTTTTTTGGAGATTAATCAAATATCAAAGCAAAAGAGGTTTTC
1 TTCTTTTTTGGAGATTAATCAAATATCAAAGCAAAAGAGGTTTTC
75438839 TTCTTTTTTGGAGATTAATCAAATATCAAAGCAAAAGAGGTTTTC
1 TTCTTTTTTGGAGATTAATCAAATATCAAAGCAAAAGAGGTTTTC
75438884 TT
1 TT
75438886 TGCCTATTCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (45 bp):
TTCTTTTTTGGAGATTAATCAAATATCAAAGCAAAAGAGGTTTTC
Found at i:75439146 original size:3 final size:3
Alignment explanation
Indices: 75439123--75439240 Score: 80
Period size: 3 Copynumber: 38.0 Consensus size: 3
75439113 GGGGAGAGTG
* * *
75439123 TTA TTT TTA ATA TTG TTA TTA TTA TATA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * *
75439168 TTA -TA CTTA TT- TTA TTA CTG TTA CTA TTA TTT TGTA TATA TTTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA -TTA TTA
*
75439215 TCA TTA TTGA TTTA TTA TTA TTA TTA
1 TTA TTA TT-A -TTA TTA TTA TTA TTA
75439241 GAAACATATT
Statistics
Matches: 89, Mismatches: 17, Indels: 18
0.72 0.14 0.15
Matches are distributed among these distances:
2 6 0.07
3 67 0.75
4 13 0.15
5 3 0.03
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:75439169 original size:17 final size:17
Alignment explanation
Indices: 75439138--75439240 Score: 72
Period size: 17 Copynumber: 5.9 Consensus size: 17
75439128 TTTAATATTG
75439138 TTATTATTATATATTATTA
1 TTATTATTAT-TATTA-TA
75439157 TTATTATTA-TATTATA
1 TTATTATTATTATTATA
75439173 CTTATT-TTATTACTGT-TA
1 -TTATTATTATTA-T-TATA
* *
75439191 CTATTATT-TTGTATATA
1 TTATTATTATTAT-TATA
*
75439208 TTTATTATCATTATTGAT-
1 -TTATTATTATTATT-ATA
75439226 TTATTATTATTATTA
1 TTATTATTATTATTA
75439241 GAAACATATT
Statistics
Matches: 68, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
16 8 0.12
17 33 0.49
18 12 0.18
19 15 0.22
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (17 bp):
TTATTATTATTATTATA
Found at i:75439171 original size:14 final size:14
Alignment explanation
Indices: 75439132--75439238 Score: 65
Period size: 14 Copynumber: 8.1 Consensus size: 14
75439122 GTTATTTTTA
*
75439132 ATATTGTTATTATT
1 ATATTATTATTATT
75439146 ATA-TATTATTA-T
1 ATATTATTATTATT
75439158 -TATTATTA-TATT
1 ATATTATTATTATT
75439170 ATACTTATT-TTATT
1 ATA-TTATTATTATT
* *
75439184 ACTGTTACTATTATT
1 A-TATTATTATTATT
75439199 -T-TGTA-TA-TATT
1 ATAT-TATTATTATT
*
75439210 -TATTATCATTATT
1 ATATTATTATTATT
75439223 GAT-TTATTATTATT
1 -ATATTATTATTATT
75439237 AT
1 AT
75439239 TAGAAACATA
Statistics
Matches: 75, Mismatches: 5, Indels: 27
0.70 0.05 0.25
Matches are distributed among these distances:
11 11 0.15
12 12 0.16
13 18 0.24
14 27 0.36
15 7 0.09
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (14 bp):
ATATTATTATTATT
Found at i:75440050 original size:126 final size:126
Alignment explanation
Indices: 75439820--75440053 Score: 362
Period size: 126 Copynumber: 1.9 Consensus size: 126
75439810 TTCTCAATTG
* * * * * *
75439820 TTTTTAAAATAATGGCAATGTACGGTATTTAAAGACTTCGAAGAATCGTGCCCTAATGTACTGGG
1 TTTTCAAAATAAAGGCAATGTACAGTATTTAAAGAATTCGAAGAATCATGCCCTAACGTACTGGG
*
75439885 TTTCGCTTTCTTTATTTGTCTTGAATATTCGGATATCCTCTTACCAGTTCACTCTAAAAAA
66 TTTCGCTTTCTTTATTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTAAAAAA
75439946 TTTTCAAAATAAAGGCAATGGT-CAGTATTTAAAGAATTCGAAGAATCATGCCCTAACGTACTGG
1 TTTTCAAAATAAAGGCAAT-GTACAGTATTTAAAGAATTCGAAGAATCATGCCCTAACGTACTGG
* * *
75440010 GTTTCGCTTTGTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
65 GTTTCGCTTTCTTTATTTGTCTTGAATATTCGAATATCCTCTTA
75440054 AGGCTACAAC
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
126 95 0.98
127 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (126 bp):
TTTTCAAAATAAAGGCAATGTACAGTATTTAAAGAATTCGAAGAATCATGCCCTAACGTACTGGG
TTTCGCTTTCTTTATTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTAAAAAA
Found at i:75441392 original size:19 final size:19
Alignment explanation
Indices: 75441368--75441414 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
75441358 GACGTCTTCT
*
75441368 TTTGCATT-CATCCCATACA
1 TTTGCATTACATCACAT-CA
75441387 TTTGCATTACATCACATCA
1 TTTGCATTACATCACATCA
*
75441406 TGTGCATTA
1 TTTGCATTA
75441415 ATTCAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.38
Consensus pattern (19 bp):
TTTGCATTACATCACATCA
Found at i:75443707 original size:18 final size:18
Alignment explanation
Indices: 75443674--75443708 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
75443664 CATCAAATTA
* *
75443674 AAAAAAAAAGACAAAAGG
1 AAAAAAAAACAAAAAAGG
75443692 AAAAAAAAACAAAAAAG
1 AAAAAAAAACAAAAAAG
75443709 AAGAAAAGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.83, C:0.06, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAAAAAAACAAAAAAGG
Found at i:75443715 original size:18 final size:18
Alignment explanation
Indices: 75443674--75443715 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
75443664 CATCAAATTA
* *
75443674 AAAAAAAAAGACAAAAGG
1 AAAAAAAAACACAAAAAG
75443692 AAAAAAAAACA-AAAAAG
1 AAAAAAAAACACAAAAAG
*
75443709 AAGAAAA
1 AAAAAAA
75443716 GATGCAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (18 bp):
AAAAAAAAACACAAAAAG
Found at i:75445784 original size:85 final size:85
Alignment explanation
Indices: 75445633--75446358 Score: 1118
Period size: 85 Copynumber: 8.6 Consensus size: 85
75445623 TGAATCCACA
*
75445633 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTATAGATCTGGGCTCGCCGAGCAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGT
*
75445698 GGTGGAGCAGGTTGAAGACT
66 GGTGGAGCAGGTCGAAGACT
* * * * *
75445718 CGCTTTAACCCCCTAAGTAGTAGGGTACCAGGCTAAAATTTACAGATCTGGGCTCACCGAGTAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGT
*
75445783 GGTGGAGCAGGTCGAAGGCT
66 GGTGGAGCAGGTCGAAGACT
* * * *
75445803 CGCCTTAACCCTCTAAGTAGTAGGGTAACAAGCTAAAATTTACAGATCTGGGCTCGCCAAGCAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGT
*
75445868 GGTGGAGCAGGTCAAAGACT
66 GGTGGAGCAGGTCGAAGACT
* * * *
75445888 CGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAAATCTGGGCCCGTCGAGTAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGT
75445952 GGTGGAGCAGGTCGAAGACT
66 GGTGGAGCAGGTCGAAGACT
* * *
75445972 CGCCTTAACCCTCTAAGCAGTAGGGTAACAAGCTAAAATTTACAGATCTGGGCTCCCCGAGCAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGT
*
75446037 GGTGGAGCAGGTCGAAGGCT
66 GGTGGAGCAGGTCGAAGACT
*
75446057 CGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTTGCCGAGCAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGT
75446121 GGTGGAGCAGGTCGAAGACT
66 GGTGGAGCAGGTCGAAGACT
* * * * *
75446141 CGCCTTAACCCCCTAAGCAGTAAGGTAACAGGCTAAAGTTTACAGATTTGGGCTCACCGAGAAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGT
*
75446206 GGTGGAGCAGGTCGAAGATT
66 GGTGGAGCAGGTCGAAGACT
*
75446226 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCCT-GGCTCTCCGAGCAG
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGAT-CTGGGCTCGCCGAGCAG
*
75446290 TGGTGGAGTAGGTCGAAGACT
65 TGGTGGAGCAGGTCGAAGACT
* * *
75446311 CACCTTAATCCCCTAAGCAGTAGGGTAACAGGCTAAAA-TTGCAGATCT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCT
75446359 CATCCCACTA
Statistics
Matches: 582, Mismatches: 56, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
83 2 0.00
84 161 0.28
85 418 0.72
86 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (85 bp):
CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGT
GGTGGAGCAGGTCGAAGACT
Found at i:75445983 original size:169 final size:170
Alignment explanation
Indices: 75445633--75446358 Score: 1118
Period size: 169 Copynumber: 4.3 Consensus size: 170
75445623 TGAATCCACA
*
75445633 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTATAGATCTGGGCTCGCCGAGCAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGT
* * * *
75445698 GGTGGAGCAGGTTGAAGACTCGCTTTAACCCCCTAAGTAGTAGGGTACCAGGCTAAAATTTACAG
66 GGTGGAGCAGGTCGAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAG
* * *
75445763 ATCTGGGCTCACCGAGTAGTGGTGGAGCAGGTCGAAGGCT
131 ATCTGGGCTCGCCGAGCAGTGGTGGAGCAGGTCGAAGACT
* * * *
75445803 CGCCTTAACCCTCTAAGTAGTAGGGTAACAAGCTAAAATTTACAGATCTGGGCTCGCCAAGCAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGT
* *
75445868 GGTGGAGCAGGTCAAAGACTCGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAA
66 GGTGGAGCAGGTCGAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAG
* * *
75445932 ATCTGGGCCCGTCGAGTAGTGGTGGAGCAGGTCGAAGACT
131 ATCTGGGCTCGCCGAGCAGTGGTGGAGCAGGTCGAAGACT
* * *
75445972 CGCCTTAACCCTCTAAGCAGTAGGGTAACAAGCTAAAATTTACAGATCTGGGCTCCCCGAGCAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGT
*
75446037 GGTGGAGCAGGTCGAAGGCTCGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAG
66 GGTGGAGCAGGTCGAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAG
*
75446101 ATCTGGGCTTGCCGAGCAGTGGTGGAGCAGGTCGAAGACT
131 ATCTGGGCTCGCCGAGCAGTGGTGGAGCAGGTCGAAGACT
* * * * *
75446141 CGCCTTAACCCCCTAAGCAGTAAGGTAACAGGCTAAAGTTTACAGATTTGGGCTCACCGAGAAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGT
*
75446206 GGTGGAGCAGGTCGAAGATTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAG
66 GGTGGAGCAGGTCGAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAG
* *
75446271 ATCCT-GGCTCTCCGAGCAGTGGTGGAGTAGGTCGAAGACT
131 AT-CTGGGCTCGCCGAGCAGTGGTGGAGCAGGTCGAAGACT
* * *
75446311 CACCTTAATCCCCTAAGCAGTAGGGTAACAGGCTAAAA-TTGCAGATCT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCT
75446359 CATCCCACTA
Statistics
Matches: 511, Mismatches: 43, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
169 320 0.63
170 189 0.37
171 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (170 bp):
CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGT
GGTGGAGCAGGTCGAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAG
ATCTGGGCTCGCCGAGCAGTGGTGGAGCAGGTCGAAGACT
Found at i:75446156 original size:254 final size:254
Alignment explanation
Indices: 75445633--75446358 Score: 1143
Period size: 254 Copynumber: 2.9 Consensus size: 254
75445623 TGAATCCACA
* *
75445633 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTATAGATCTGGGCTCGCCGAGCAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGAAGT
* * * *
75445698 GGTGGAGCAGGTTGAAGACTCGCTTTAACCCCCTAAGTAGTAGGGTACCAGGCTAAAATTTACAG
66 GGTGGAGCAGGTCGAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAG
* *
75445763 ATCTGGGCTCACCGAGTAGTGGTGGAGCAGGTCGAAGGCTCGCCTTAACCCTCTAAGTAGTAGGG
131 ATCTGGGCTCACCGAGCAGTGGTGGAGCAGGTCGAAGGCTCGCCTTAACCC-CTAAGCAGTAGGG
*
75445828 TAACAAGCTAAAATTTACAGATCTGGGCTCGCCAAGCAGTGGTGGAGCAGGTCAAAGACT
195 TAACAGGCTAAAATTTACAGATCTGGGCTCGCCAAGCAGTGGTGGAGCAGGTCAAAGACT
* * * *
75445888 CGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAAATCTGGGCCCGTCGAGTAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGAAGT
* *
75445952 GGTGGAGCAGGTCGAAGACTCGCCTTAACCCTCTAAGCAGTAGGGTAACAAGCTAAAATTTACAG
66 GGTGGAGCAGGTCGAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAG
*
75446017 ATCTGGGCTCCCCGAGCAGTGGTGGAGCAGGTCGAAGGCTCGCCTTAACCCCTAAGCAGTAGGGT
131 ATCTGGGCTCACCGAGCAGTGGTGGAGCAGGTCGAAGGCTCGCCTTAACCCCTAAGCAGTAGGGT
* * *
75446082 AACAGGCTAAAATTTACAGATCTGGGCTTGCCGAGCAGTGGTGGAGCAGGTCGAAGACT
196 AACAGGCTAAAATTTACAGATCTGGGCTCGCCAAGCAGTGGTGGAGCAGGTCAAAGACT
* * * *
75446141 CGCCTTAACCCCCTAAGCAGTAAGGTAACAGGCTAAAGTTTACAGATTTGGGCTCACCGAGAAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGAAGT
*
75446206 GGTGGAGCAGGTCGAAGATTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAG
66 GGTGGAGCAGGTCGAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAG
* * * *
75446271 ATCCT-GGCTCTCCGAGCAGTGGTGGAGTAGGTCGAAGACTCACCTTAATCCCCTAAGCAGTAGG
131 AT-CTGGGCTCACCGAGCAGTGGTGGAGCAGGTCGAAGGCTCGCCTTAA-CCCCTAAGCAGTAGG
*
75446335 GTAACAGGCTAAAA-TTGCAGATCT
194 GTAACAGGCTAAAATTTACAGATCT
75446359 CATCCCACTA
Statistics
Matches: 434, Mismatches: 34, Indels: 7
0.91 0.07 0.01
Matches are distributed among these distances:
253 76 0.18
254 319 0.74
255 39 0.09
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (254 bp):
CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGAAGT
GGTGGAGCAGGTCGAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAG
ATCTGGGCTCACCGAGCAGTGGTGGAGCAGGTCGAAGGCTCGCCTTAACCCCTAAGCAGTAGGGT
AACAGGCTAAAATTTACAGATCTGGGCTCGCCAAGCAGTGGTGGAGCAGGTCAAAGACT
Found at i:75447025 original size:17 final size:17
Alignment explanation
Indices: 75447003--75447059 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
75446993 ACCCTACTAA
75447003 ATCACCCCACTAACTCC
1 ATCACCCCACTAACTCC
* *
75447020 ATCACCCTACTAA-ACC
1 ATCACCCCACTAACTCC
*
75447036 AT----CCACTATCTCC
1 ATCACCCCACTAACTCC
75447049 ATCACCCCACT
1 ATCACCCCACT
75447060 TGCCTACAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
12 5 0.17
13 4 0.13
16 4 0.13
17 17 0.57
ACGTcount: A:0.30, C:0.49, G:0.00, T:0.21
Consensus pattern (17 bp):
ATCACCCCACTAACTCC
Found at i:75447050 original size:29 final size:30
Alignment explanation
Indices: 75446992--75447055 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
75446982 ATCACCCCCA
*
75446992 CACCCTACTAAATCACCCCACTAACTCCAT
1 CACCCTACTAAACCACCCCACTAACTCCAT
* *
75447022 CACCCTACTAAACCA-TCCACTATCTCCAT
1 CACCCTACTAAACCACCCCACTAACTCCAT
75447051 CACCC
1 CACCC
75447056 CACTTGCCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.31, C:0.48, G:0.00, T:0.20
Consensus pattern (30 bp):
CACCCTACTAAACCACCCCACTAACTCCAT
Found at i:75447494 original size:26 final size:26
Alignment explanation
Indices: 75447458--75447507 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
75447448 TAGGGGATCG
*
75447458 CTTCCAGGATACATCCGTACCTATGT
1 CTTCCAGGATACATCCGTAACTATGT
*
75447484 CTTCCGGGATACATCCGTAACTAT
1 CTTCCAGGATACATCCGTAACTAT
75447508 ACCAAGTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (26 bp):
CTTCCAGGATACATCCGTAACTATGT
Found at i:75448123 original size:126 final size:126
Alignment explanation
Indices: 75447965--75448198 Score: 396
Period size: 126 Copynumber: 1.9 Consensus size: 126
75447955 GTTTTAGCCT
*
75447965 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATCCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
* * * * *
75448030 CTTCGAATTCTTTAAATACTGACCATTGCCTTTATTTTGAAAATTTTTTAGAGTGAACTGG
66 CTTCGAAGTCTTTAAATACCGAACATTGCCATTATTTTAAAAATTTTTTAGAGTGAACTGG
* *
75448091 TAAGAGGATATCCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACTATT
1 TAAGAGGATATCCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
75448156 CTTCGAAGTCTTTAAATACCGAACATTGCCATTATTTTAAAAA
66 CTTCGAAGTCTTTAAATACCGAACATTGCCATTATTTTAAAAA
75448199 CAATTGAGAA
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 100 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (126 bp):
TAAGAGGATATCCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAAGTCTTTAAATACCGAACATTGCCATTATTTTAAAAATTTTTTAGAGTGAACTGG
Found at i:75448749 original size:18 final size:18
Alignment explanation
Indices: 75448726--75448767 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
75448716 ATAATGCTAC
*
75448726 AATAACCA-TAAACATAGT
1 AATAACCATTAAA-ATAAT
*
75448744 AATAACGATTAAAATAAT
1 AATAACCATTAAAATAAT
75448762 AATAAC
1 AATAAC
75448768 AACAACAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.24
Consensus pattern (18 bp):
AATAACCATTAAAATAAT
Found at i:75448792 original size:3 final size:3
Alignment explanation
Indices: 75448786--75449001 Score: 174
Period size: 3 Copynumber: 72.7 Consensus size: 3
75448776 AATAGAAGAC
* * * *
75448786 AAT AAT AAT AAT -AT ATT AAT AAA AAT AAT AAT -AT AAA AAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** ** *
75448832 AAT AAA AAT -AT GTT TCT AAT AAT AAT AAAT CAAT AAT GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT AAT
* * * * * *
75448878 TAT -AT ACAA AAT AAT AGT AAC AGT AAT AA- AAT AAGT -AT AAT AAC
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
75448922 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
75448970 AAT AAC AAT AAT AAT AAC AAT ATT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
75449002 CACTCTCCCC
Statistics
Matches: 167, Mismatches: 37, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
2 11 0.07
3 147 0.88
4 9 0.05
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:75449405 original size:13 final size:13
Alignment explanation
Indices: 75449387--75449423 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
75449377 GGTGATGGAG
75449387 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
*
75449400 TTAGTGGGTTGAT
1 TTAGTGGGGTGAT
*
75449413 TTAGTAGGGTG
1 TTAGTGGGGTG
75449424 TGGCGGTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.43, T:0.41
Consensus pattern (13 bp):
TTAGTGGGGTGAT
Found at i:75449748 original size:13 final size:14
Alignment explanation
Indices: 75449723--75449764 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
75449713 TTATAATATG
75449723 TAAATTATATAAAA
1 TAAATTATATAAAA
75449737 TAAATT-TATAAAA
1 TAAATTATATAAAA
* *
75449750 -ACATTATACAAAA
1 TAAATTATATAAAA
75449763 TA
1 TA
75449765 TAAAATGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 4 0.17
13 13 0.54
14 7 0.29
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAATTATATAAAA
Found at i:75451518 original size:26 final size:27
Alignment explanation
Indices: 75451489--75451542 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
75451479 TTCCAGTCCC
*
75451489 TAAT-TTTAATGAGAACTTTTAAAAAT
1 TAATGTTTAATGAAAACTTTTAAAAAT
* *
75451515 TAATGTTTAATTAAAATTTTTAAAAAT
1 TAATGTTTAATGAAAACTTTTAAAAAT
75451542 T
1 T
75451543 TTGTGTAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (27 bp):
TAATGTTTAATGAAAACTTTTAAAAAT
Found at i:75468258 original size:64 final size:65
Alignment explanation
Indices: 75468177--75468298 Score: 169
Period size: 64 Copynumber: 1.9 Consensus size: 65
75468167 ATATTTTTTA
* *
75468177 TAATTATAATAAGTCATATTATTCTAAGA-TATTTTAATCTTTTCA-TTTTAATGAAAATCTTCT
1 TAATTATAATAAATCATATTATTCTAA-ATTATTTTAATCTTTTCATTTTTAATAAAAATCTTCT
75468240 G
65 G
* *
75468241 TAATTA-AATTAAATCATATTATTTTAAATTATTTTAGTCTTTTCATTTTTAATAAAAA
1 TAATTATAA-TAAATCATATTATTCTAAATTATTTTAATCTTTTCATTTTTAATAAAAA
75468299 AAACAATAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
63 3 0.06
64 37 0.73
65 11 0.22
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (65 bp):
TAATTATAATAAATCATATTATTCTAAATTATTTTAATCTTTTCATTTTTAATAAAAATCTTCTG
Found at i:75468769 original size:3 final size:3
Alignment explanation
Indices: 75468761--75468799 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
75468751 TGTGAATTAA
*
75468761 ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
75468800 TTGGTATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:75477079 original size:29 final size:29
Alignment explanation
Indices: 75477016--75477080 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 29
75477006 AAATTATATT
*
75477016 TAAATTTAATTTAATGTACAATTTTATAGA
1 TAAATTTAATTTAATGTA-AATTTTATACA
*
75477046 T-AATTTAAATTTTATGT-AATTTTATACA
1 TAAATTT-AATTTAATGTAAATTTTATACA
75477074 TAAATTT
1 TAAATTT
75477081 TTTATTTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 11 0.35
29 10 0.32
30 10 0.32
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.51
Consensus pattern (29 bp):
TAAATTTAATTTAATGTAAATTTTATACA
Found at i:75477496 original size:15 final size:15
Alignment explanation
Indices: 75477456--75477516 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
75477446 ACCGATTGAT
75477456 AATATAGAAAAAGAA
1 AATATAGAAAAAGAA
* * * *
75477471 AAGAAAAAAAAAGGA
1 AATATAGAAAAAGAA
*
75477486 AATATAGAAAATG-A
1 AATATAGAAAAAGAA
75477500 AATA-AGTAAAAAGAA
1 AATATAG-AAAAAGAA
75477515 AA
1 AA
75477517 AAAATAAAGA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
13 2 0.06
14 10 0.29
15 23 0.66
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (15 bp):
AATATAGAAAAAGAA
Found at i:75477865 original size:21 final size:23
Alignment explanation
Indices: 75477824--75477866 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
75477814 GTAATAAGAG
75477824 TAAATTATGCTAAATTAAATATC
1 TAAATTATGCTAAATTAAATATC
*
75477847 TAAATT-TGC-AAATTGAATAT
1 TAAATTATGCTAAATTAAATAT
75477867 AATATACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 3 0.16
23 6 0.32
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (23 bp):
TAAATTATGCTAAATTAAATATC
Found at i:75484190 original size:22 final size:19
Alignment explanation
Indices: 75484164--75484203 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 19
75484154 TGTATTCTAT
75484164 ATTTTATCTTTAATTTCTAAAC
1 ATTTTA-CTTT-A-TTCTAAAC
75484186 ATTTTACTTTATTCTAAA
1 ATTTTACTTTATTCTAAA
75484204 TAAAAGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 4 0.22
22 6 0.33
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTACTTTATTCTAAAC
Found at i:75484273 original size:28 final size:28
Alignment explanation
Indices: 75484239--75484296 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
75484229 TTTTATAGGA
75484239 TAGTATAATATTAAAATGAAAAAAAGCT
1 TAGTATAATATTAAAATGAAAAAAAGCT
75484267 TAGTATAATATTAAAATGAAAAAAAGCT
1 TAGTATAATATTAAAATGAAAAAAAGCT
75484295 TA
1 TA
75484297 CTGTTTTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.29
Consensus pattern (28 bp):
TAGTATAATATTAAAATGAAAAAAAGCT
Found at i:75493421 original size:21 final size:22
Alignment explanation
Indices: 75493386--75493426 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
75493376 AATATTTTTT
75493386 TATAAAATTACAA-TTAAATCA
1 TATAAAATTACAATTTAAATCA
75493407 TATAAAATTTA-AATTTAAAT
1 TATAAAA-TTACAATTTAAAT
75493427 TGATATATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
TATAAAATTACAATTTAAATCA
Found at i:75496703 original size:9 final size:9
Alignment explanation
Indices: 75496689--75496713 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
75496679 TATAACAATC
75496689 TCAAAATTA
1 TCAAAATTA
75496698 TCAAAATTA
1 TCAAAATTA
75496707 TCAAAAT
1 TCAAAAT
75496714 GGGACAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (9 bp):
TCAAAATTA
Found at i:75499518 original size:15 final size:16
Alignment explanation
Indices: 75499493--75499523 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
75499483 AAATTGTGAG
75499493 AATTATTATTTTAAAT
1 AATTATTATTTTAAAT
75499509 AATT-TTATTTTAAAT
1 AATTATTATTTTAAAT
75499524 TTTGATGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTATTATTTTAAAT
Found at i:75502865 original size:20 final size:20
Alignment explanation
Indices: 75502837--75502878 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
75502827 TAATGCATTC
* *
75502837 AAAAGAAAAGGAAAAGGAAGA
1 AAAAAAAAAAGAAAA-GAAGA
75502858 AAAAAAAAAAGAAAAGAAGA
1 AAAAAAAAAAGAAAAGAAGA
75502878 A
1 A
75502879 GAAGCTGCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAGAAAAGAAGA
Found at i:75515441 original size:17 final size:16
Alignment explanation
Indices: 75515408--75515479 Score: 58
Period size: 17 Copynumber: 4.3 Consensus size: 16
75515398 ATAAGAAAGC
*
75515408 ATATAAAATTATGAAAA
1 ATATAAAATTA-AAAAA
75515425 ATATAAAATTGAAAAAA
1 ATATAAAATT-AAAAAA
*
75515442 A-AT-ACATTAAAAATTA
1 ATATAAAATTAAAAA--A
*
75515458 ATAGAAAATTAAAAAA
1 ATATAAAATTAAAAAA
75515474 TATATA
1 -ATATA
75515480 TATTTTAAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
14 5 0.11
15 4 0.09
16 5 0.11
17 20 0.45
18 10 0.23
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (16 bp):
ATATAAAATTAAAAAA
Found at i:75517127 original size:19 final size:19
Alignment explanation
Indices: 75517088--75517124 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
75517078 ATTTTTCAAA
75517088 ATCATATAACTTAAATTTT
1 ATCATATAACTTAAATTTT
*
75517107 ATCATA-AACTTTAATTTT
1 ATCATATAACTTAAATTTT
75517125 TATGTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.49
Consensus pattern (19 bp):
ATCATATAACTTAAATTTT
Found at i:75517754 original size:31 final size:31
Alignment explanation
Indices: 75517719--75517777 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
75517709 TAACCTATTG
* *
75517719 ACTTAAATAAAAAATTTTGAGTAGTTTAACA
1 ACTTAAATAAAAAATTTCGAATAGTTTAACA
* *
75517750 ACTTAAATGAAAACTTTCGAATAGTTTA
1 ACTTAAATAAAAAATTTCGAATAGTTTA
75517778 GTGACCAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (31 bp):
ACTTAAATAAAAAATTTCGAATAGTTTAACA
Found at i:75532270 original size:48 final size:48
Alignment explanation
Indices: 75532215--75532306 Score: 184
Period size: 48 Copynumber: 1.9 Consensus size: 48
75532205 ACATCTATTT
75532215 ATTCAAACATATTCCATAATTTTTATGGTCAGATGTAATTATTAATAA
1 ATTCAAACATATTCCATAATTTTTATGGTCAGATGTAATTATTAATAA
75532263 ATTCAAACATATTCCATAATTTTTATGGTCAGATGTAATTATTA
1 ATTCAAACATATTCCATAATTTTTATGGTCAGATGTAATTATTA
75532307 CAACCTTAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (48 bp):
ATTCAAACATATTCCATAATTTTTATGGTCAGATGTAATTATTAATAA
Found at i:75533575 original size:21 final size:21
Alignment explanation
Indices: 75533549--75533593 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
75533539 ATGAATGGTT
*
75533549 CTTTCATTGATGCTAATTTTC
1 CTTTCATTGATACTAATTTTC
75533570 CTTTCATTGATACTAATTTTC
1 CTTTCATTGATACTAATTTTC
75533591 CTT
1 CTT
75533594 ACGGATCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (21 bp):
CTTTCATTGATACTAATTTTC
Found at i:75540862 original size:14 final size:14
Alignment explanation
Indices: 75540843--75540872 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
75540833 TATTTTCAAG
75540843 ATAGATTAACGCAT
1 ATAGATTAACGCAT
*
75540857 ATAGATTTACGCAT
1 ATAGATTAACGCAT
75540871 AT
1 AT
75540873 TTATAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (14 bp):
ATAGATTAACGCAT
Found at i:75544666 original size:18 final size:18
Alignment explanation
Indices: 75544643--75544678 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
75544633 TTATTATTTT
75544643 TAAAATTATAAAAATATA
1 TAAAATTATAAAAATATA
* *
75544661 TAAAATTGTTAAAATATA
1 TAAAATTATAAAAATATA
75544679 CACTTTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
TAAAATTATAAAAATATA
Found at i:75545480 original size:27 final size:25
Alignment explanation
Indices: 75545430--75545487 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
75545420 TAAATTTTAT
*
75545430 AAAAATATAAAAAAATTAAATTCAA
1 AAAAATATAAAAAAATAAAATTCAA
*
75545455 AAAAATCATAAAAAAA-AAGAAGTTCAT
1 AAAAAT-ATAAAAAAATAA-AA-TTCAA
75545482 AAAAAT
1 AAAAAT
75545488 TCAAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 7 0.25
26 11 0.39
27 10 0.36
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (25 bp):
AAAAATATAAAAAAATAAAATTCAA
Found at i:75550969 original size:13 final size:13
Alignment explanation
Indices: 75550951--75550976 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
75550941 AATAACACAA
75550951 CATAGTGAAATGT
1 CATAGTGAAATGT
75550964 CATAGTGAAATGT
1 CATAGTGAAATGT
75550977 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
CATAGTGAAATGT
Found at i:75552970 original size:18 final size:20
Alignment explanation
Indices: 75552944--75552980 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
75552934 ACAAAGGAAA
*
75552944 AGAATGAAACAGAG-ATTAG
1 AGAATGAAAAAGAGCATTAG
75552963 AGAA-GAAAAAGAGCATTA
1 AGAATGAAAAAGAGCATTA
75552981 CAGGCCAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.57, C:0.05, G:0.24, T:0.14
Consensus pattern (20 bp):
AGAATGAAAAAGAGCATTAG
Found at i:75553760 original size:21 final size:21
Alignment explanation
Indices: 75553731--75553770 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
75553721 AAAATATTAA
*
75553731 ATTTGTTAAACAATAAATGAT
1 ATTTGTTAAACAAGAAATGAT
*
75553752 ATTTTTTAAACAAGAAATG
1 ATTTGTTAAACAAGAAATG
75553771 TTAGCTTGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (21 bp):
ATTTGTTAAACAAGAAATGAT
Found at i:75554798 original size:26 final size:26
Alignment explanation
Indices: 75554769--75554820 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
75554759 AGAAGTAGGG
*
75554769 TTCTCTGTTAGAAAATGTTCGTAAAA
1 TTCTCTATTAGAAAATGTTCGTAAAA
75554795 TTCTCTATTAGAAAATGTTCGTAAAA
1 TTCTCTATTAGAAAATGTTCGTAAAA
75554821 ATGTAATCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (26 bp):
TTCTCTATTAGAAAATGTTCGTAAAA
Found at i:75558448 original size:14 final size:14
Alignment explanation
Indices: 75558426--75558467 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
75558416 TATGGCTTAG
75558426 ATTATATTTTGATT
1 ATTATATTTTGATT
* *
75558440 ATTAAATTTTAATTT
1 ATTATATTTTGA-TT
75558455 ATTATATTTTGAT
1 ATTATATTTTGAT
75558468 CACTAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (14 bp):
ATTATATTTTGATT
Found at i:75559574 original size:38 final size:38
Alignment explanation
Indices: 75559473--75559556 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
75559463 TTTAAACTTA
* * * *
75559473 GATATAATACCAGCACTAGGCCTGCGGAATTTAACCTG
1 GATATAATACCAACACGAAGCCTGCGGAATTTAACCCG
*
75559511 GATATAATACCAACACGAAGCCTGCGGGATTTAACCCG
1 GATATAATACCAACACGAAGCCTGCGGAATTTAACCCG
75559549 GATATAAT
1 GATATAAT
75559557 TCTAGCATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (38 bp):
GATATAATACCAACACGAAGCCTGCGGAATTTAACCCG
Found at i:75562624 original size:23 final size:23
Alignment explanation
Indices: 75562590--75562637 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
75562580 GGGCTGTCAC
*
75562590 ATTAATAGTGTTATGAAAATTTG
1 ATTAATAGTGTTAAGAAAATTTG
75562613 ATTAAT-GATGTTAAGAAAATTTG
1 ATTAATAG-TGTTAAGAAAATTTG
75562636 AT
1 AT
75562638 GTGTCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (23 bp):
ATTAATAGTGTTAAGAAAATTTG
Found at i:75564181 original size:3 final size:3
Alignment explanation
Indices: 75564173--75564211 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
75564163 ACTCTATCTT
75564173 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
75564212 CTCCTCTCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:75565415 original size:3 final size:3
Alignment explanation
Indices: 75565407--75565436 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
75565397 CTAGTACAAA
75565407 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
75565437 AAAAGGGCGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:75567584 original size:28 final size:30
Alignment explanation
Indices: 75567553--75567617 Score: 89
Period size: 28 Copynumber: 2.2 Consensus size: 30
75567543 TTAATATAAT
*
75567553 ATTTGGTATTTAAATTTGA-TTTTTT-TTA
1 ATTTGGTATTTAAATTTAACTTTTTTCTTA
*
75567581 ATTTGGTGTTTAAATTTAACTTTTTTTCTTA
1 ATTTGGTATTTAAATTTAAC-TTTTTTCTTA
75567612 ATTTGG
1 ATTTGG
75567618 CACTTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 17 0.53
30 6 0.19
31 9 0.28
ACGTcount: A:0.23, C:0.03, G:0.12, T:0.62
Consensus pattern (30 bp):
ATTTGGTATTTAAATTTAACTTTTTTCTTA
Found at i:75569058 original size:23 final size:22
Alignment explanation
Indices: 75569013--75569058 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
75569003 ATGTACGATA
*
75569013 AAAAAAAAATTAAATTATAAAT
1 AAAAAAAAATTAAATCATAAAT
* *
75569035 AAAAAAAATTTAAATACATGAAT
1 AAAAAAAAATTAAAT-CATAAAT
75569058 A
1 A
75569059 TATCAGATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (22 bp):
AAAAAAAAATTAAATCATAAAT
Found at i:75573666 original size:10 final size:9
Alignment explanation
Indices: 75573653--75573770 Score: 87
Period size: 10 Copynumber: 12.4 Consensus size: 9
75573643 GACATGTGGC
75573653 AAAAGATTAT
1 AAAA-ATTAT
75573663 AAAAA-T-T
1 AAAAATTAT
*
75573670 AAAAATCAAT
1 AAAAAT-TAT
75573680 AAAAATTAT
1 AAAAATTAT
*
75573689 AAAAAATATT
1 AAAAATTA-T
*
75573699 AAATATTAAT
1 AAAAATT-AT
*
75573709 AAAAATATTT
1 AAAAAT-TAT
75573719 AAAAATTAT
1 AAAAATTAT
* *
75573728 TAAAATTAGAA
1 AAAAATT--AT
75573739 AAAAATTAT
1 AAAAATTAT
*
75573748 AAAAATTGT
1 AAAAATTAT
75573757 AAAAAATTAT
1 -AAAAATTAT
75573767 AAAA
1 AAAA
75573771 TATATAGAAA
Statistics
Matches: 85, Mismatches: 14, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
7 6 0.07
8 1 0.01
9 31 0.36
10 38 0.45
11 9 0.11
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:75573753 original size:29 final size:28
Alignment explanation
Indices: 75573653--75573754 Score: 111
Period size: 29 Copynumber: 3.6 Consensus size: 28
75573643 GACATGTGGC
* *
75573653 AAAAGATTATAAAAATTA--AAAATCAA
1 AAAAAATTATAAAAATTATTAAAATTAA
* *
75573679 TAAAAATTATAAAAAATATTAAATATTAA
1 AAAAAATTATAAAAATTATTAAA-ATTAA
75573708 TAAAAATATT-TAAAAATTATTAAAATTAGA
1 -AAAAA-ATTATAAAAATTATTAAAATTA-A
75573738 AAAAAATTATAAAAATT
1 AAAAAATTATAAAAATT
75573755 GTAAAAAATT
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
26 15 0.24
28 6 0.10
29 21 0.33
30 18 0.29
31 3 0.05
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (28 bp):
AAAAAATTATAAAAATTATTAAAATTAA
Found at i:75573800 original size:10 final size:10
Alignment explanation
Indices: 75573680--75573830 Score: 77
Period size: 10 Copynumber: 15.4 Consensus size: 10
75573670 AAAAATCAAT
75573680 AAAAATTATA
1 AAAAATTATA
*
75573690 AAAAA-TATT
1 AAAAATTATA
*
75573699 AAATATTAATA
1 AAAAATT-ATA
75573710 AAAATATT-T-
1 AAAA-ATTATA
75573719 AAAAATTAT-
1 AAAAATTATA
* *
75573728 TAAAATTAGAA
1 AAAAATTA-TA
75573739 AAAAATTAT-
1 AAAAATTATA
*
75573748 AAAAATTGTA
1 AAAAATTATA
75573758 AAAAATTATA
1 AAAAATTATA
*
75573768 AAATA-TAT-
1 AAAAATTATA
* *
75573776 AGAAATATAGAA
1 AAAAAT-TA-TA
75573788 AAAAATTAT-
1 AAAAATTATA
*
75573797 -AAAATTTTA
1 AAAAATTATA
* * *
75573806 TAAAGTCATA
1 AAAAATTATA
75573816 AGAAAATTATA
1 A-AAAATTATA
75573827 AAAA
1 AAAA
75573831 TGTAAAGAAA
Statistics
Matches: 104, Mismatches: 23, Indels: 28
0.67 0.15 0.18
Matches are distributed among these distances:
8 13 0.12
9 30 0.29
10 31 0.30
11 22 0.21
12 8 0.08
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (10 bp):
AAAAATTATA
Found at i:75573841 original size:19 final size:19
Alignment explanation
Indices: 75573741--75573841 Score: 50
Period size: 21 Copynumber: 5.2 Consensus size: 19
75573731 AATTAGAAAA
75573741 AAATTATAAAAATTGTAAA-
1 AAATTATAAAAA-TGTAAAG
* *
75573760 AAATTAT-AAAATATATAG
1 AAATTATAAAAATGTAAAG
* *
75573778 AAATATAGAAAAAAAT-TATA-
1 AAAT-T--ATAAAAATGTAAAG
* *
75573798 AAATTTTATAAA-GTCATAAG
1 AAATTATAAAAATGT-A-AAG
75573818 AAAATTATAAAAATGTAAAG
1 -AAATTATAAAAATGTAAAG
75573838 AAAT
1 AAAT
75573842 GTAAAATTCA
Statistics
Matches: 62, Mismatches: 9, Indels: 22
0.67 0.10 0.24
Matches are distributed among these distances:
17 9 0.15
18 9 0.15
19 14 0.23
20 7 0.11
21 16 0.26
22 7 0.11
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (19 bp):
AAATTATAAAAATGTAAAG
Found at i:75574079 original size:9 final size:9
Alignment explanation
Indices: 75574065--75574140 Score: 50
Period size: 9 Copynumber: 8.1 Consensus size: 9
75574055 TTCATAATTT
75574065 TTTTTATAA
1 TTTTTATAA
75574074 TTTTTATAAA
1 TTTTTAT-AA
* *
75574084 ATTTTACAA
1 TTTTTATAA
75574093 TTTTTTTATATA
1 --TTTTTATA-A
75574105 TTTTT-TAA
1 TTTTTATAA
*
75574113 TTTTAAT-A
1 TTTTTATAA
75574121 TTTTTA-ATA
1 TTTTTATA-A
75574130 TTTTTACTAA
1 TTTTTA-TAA
75574140 T
1 T
75574141 ATTCAATTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 17
0.69 0.08 0.23
Matches are distributed among these distances:
8 11 0.21
9 19 0.37
10 14 0.27
11 7 0.13
12 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:75574132 original size:17 final size:17
Alignment explanation
Indices: 75574096--75574133 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
75574086 TTTACAATTT
*
75574096 TTTTATATATTTTTTAA
1 TTTTATATATTTTTAAA
75574113 TTTTA-ATATTTTTAATA
1 TTTTATATATTTTTAA-A
75574130 TTTT
1 TTTT
75574134 TACTAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATATATTTTTAAA
Found at i:75574140 original size:27 final size:27
Alignment explanation
Indices: 75574090--75574156 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 27
75574080 TAAAATTTTA
75574090 CAATT-TTTTTATATATTTTTTAAT-TT
1 CAATTATTTTTA-ATATTTTTTAATATT
*
75574116 TAA-TATTTTTAATATTTTTACTAATATT
1 CAATTATTTTTAATATTTTT--TAATATT
75574144 CAATTATTTTTAA
1 CAATTATTTTTAA
75574157 ACTTTTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
25 9 0.26
26 8 0.24
27 4 0.12
28 4 0.12
29 9 0.26
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (27 bp):
CAATTATTTTTAATATTTTTTAATATT
Found at i:75574152 original size:29 final size:26
Alignment explanation
Indices: 75574090--75574186 Score: 75
Period size: 29 Copynumber: 3.8 Consensus size: 26
75574080 TAAAATTTTA
75574090 CAATT-TTTTTATATATTTTTTAATTT
1 CAATTATTTTTA-ATATTTTTTAATTT
*
75574116 TAA-TATTTTTAATATTTTTACTAATATT
1 CAATTATTTTTAATATTTTT--TAAT-TT
75574144 CAATTATTTTTAA-ACTTTTATT-ATTT
1 CAATTATTTTTAATA-TTTT-TTAATTT
75574170 --ATTATTTTT-AT-TTTTTT
1 CAATTATTTTTAATATTTTTT
75574187 GCCATATATT
Statistics
Matches: 61, Mismatches: 2, Indels: 21
0.73 0.02 0.25
Matches are distributed among these distances:
21 2 0.03
22 4 0.07
23 1 0.02
24 9 0.15
25 9 0.15
26 10 0.16
27 6 0.10
28 6 0.10
29 13 0.21
30 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (26 bp):
CAATTATTTTTAATATTTTTTAATTT
Found at i:75575039 original size:6 final size:6
Alignment explanation
Indices: 75575025--75575143 Score: 130
Period size: 6 Copynumber: 19.8 Consensus size: 6
75575015 CCGGCTTCGA
* * * * *
75575025 CTCCGG CTCCTG CTCGTG CTCGTG CTCCTG CTCCTG CACCTG CACCTG
1 CTCCTG CTCCTG CTCCTG CTCCTG CTCCTG CTCCTG CTCCTG CTCCTG
* * * *
75575073 CTCCTG CTCCTG CTCCTG CTCCTG CTCCTA CTCGTG CTCCTA CTCCTA
1 CTCCTG CTCCTG CTCCTG CTCCTG CTCCTG CTCCTG CTCCTG CTCCTG
* * *
75575121 CTCCTA CTCCTA CTCCTA CTCCT
1 CTCCTG CTCCTG CTCCTG CTCCT
75575144 ACTACCACTT
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 103 1.00
ACGTcount: A:0.07, C:0.48, G:0.14, T:0.31
Consensus pattern (6 bp):
CTCCTG
Found at i:75578722 original size:27 final size:27
Alignment explanation
Indices: 75578665--75578739 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 27
75578655 ACTCATTAAT
*
75578665 ATTATAAATATTATTAACAAGATGTAAAA
1 ATTATAAATATTATT-A-AAGATATAAAA
*
75578694 ATTATAAATGATTATTAAA-ATATACAA
1 ATTATAAAT-ATTATTAAAGATATAAAA
75578721 ATTATAGAATAATTATTAA
1 ATTATA-AAT-ATTATTAA
75578740 TTATTAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 12 0.29
28 13 0.32
29 10 0.24
30 6 0.15
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (27 bp):
ATTATAAATATTATTAAAGATATAAAA
Found at i:75593608 original size:20 final size:20
Alignment explanation
Indices: 75593571--75593607 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
75593561 TTAATATTTC
75593571 AAAATTAAAGTATAAAAACT
1 AAAATTAAAGTATAAAAACT
*
75593591 AAAATTGAAGT-TAAAAA
1 AAAATTAAAGTATAAAAA
75593608 AAATCTGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.24
Consensus pattern (20 bp):
AAAATTAAAGTATAAAAACT
Found at i:75595773 original size:2 final size:2
Alignment explanation
Indices: 75595766--75595790 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
75595756 AGGTGGGGTC
75595766 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
75595791 GCGCCTGGGG
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:75599266 original size:57 final size:57
Alignment explanation
Indices: 75599178--75599295 Score: 209
Period size: 57 Copynumber: 2.1 Consensus size: 57
75599168 TATTATCATT
* *
75599178 ATTACCAATATATACATACACCCCAAAATGCATGTGGATCGAGTAATAAATAATTTA
1 ATTACCAATATATACATACACACCAAAATGCATGTGGATCGAGCAATAAATAATTTA
*
75599235 ATTACCAATATATACATACACACCAAAATGCATGTGGGTCGAGCAATAAATAATTTA
1 ATTACCAATATATACATACACACCAAAATGCATGTGGATCGAGCAATAAATAATTTA
75599292 ATTA
1 ATTA
75599296 TTTTTAAATA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (57 bp):
ATTACCAATATATACATACACACCAAAATGCATGTGGATCGAGCAATAAATAATTTA
Found at i:75607725 original size:29 final size:31
Alignment explanation
Indices: 75607688--75607757 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 31
75607678 AAAGATAACG
* *
75607688 TAAGTGACTAAAACGTAA-C-ATTTCAAACA
1 TAAGTGACTAAAACGTAATCAAATGCAAACA
*
75607717 TAAGTGACTAAAATGTAATCAAATGCAAACA
1 TAAGTGACTAAAACGTAATCAAATGCAAACA
*
75607748 AAAGTGACTA
1 TAAGTGACTA
75607758 TTTTTGCACT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 17 0.49
30 1 0.03
31 17 0.49
ACGTcount: A:0.50, C:0.14, G:0.13, T:0.23
Consensus pattern (31 bp):
TAAGTGACTAAAACGTAATCAAATGCAAACA
Found at i:75607753 original size:31 final size:29
Alignment explanation
Indices: 75607689--75607757 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 29
75607679 AAGATAACGT
* * *
75607689 AAGTGACTAAAACGTAACATTTCAAACAT
1 AAGTGACTAAAACGTAACAATGCAAACAA
*
75607718 AAGTGACTAAAATGTAATCAAATGCAAACAA
1 AAGTGACTAAAACGTAA-C-AATGCAAACAA
75607749 AAGTGACTA
1 AAGTGACTA
75607758 TTTTTGCACT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.47
30 1 0.03
31 17 0.50
ACGTcount: A:0.51, C:0.14, G:0.13, T:0.22
Consensus pattern (29 bp):
AAGTGACTAAAACGTAACAATGCAAACAA
Found at i:75608365 original size:16 final size:16
Alignment explanation
Indices: 75608340--75608373 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
75608330 TTGAATTTGA
* *
75608340 ATTATTTCAAGTTTAG
1 ATTATGTCAAGCTTAG
75608356 ATTATGTCAAGCTTAG
1 ATTATGTCAAGCTTAG
75608372 AT
1 AT
75608374 CAACTTGTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (16 bp):
ATTATGTCAAGCTTAG
Found at i:75613379 original size:18 final size:19
Alignment explanation
Indices: 75613358--75613395 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
75613348 TCTTTTTTAC
75613358 TATTTT-TTGCTTTT-TTTT
1 TATTTTCTTG-TTTTCTTTT
75613376 TATTTTCTTGTTTTCTTTT
1 TATTTTCTTGTTTTCTTTT
75613395 T
1 T
75613396 CAATATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.05, C:0.08, G:0.05, T:0.82
Consensus pattern (19 bp):
TATTTTCTTGTTTTCTTTT
Found at i:75615371 original size:18 final size:19
Alignment explanation
Indices: 75615348--75615384 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
75615338 CAAATTTAAA
*
75615348 AAAAATTA-ATATATTTAT
1 AAAAATTATATAAATTTAT
75615366 AAAAATTATATAAATTTAT
1 AAAAATTATATAAATTTAT
75615385 GTACAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAAATTATATAAATTTAT
Found at i:75615925 original size:1 final size:1
Alignment explanation
Indices: 75615919--75615945 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
75615909 CTTCTTCTTC
75615919 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
75615946 GTATTATAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:75626087 original size:2 final size:2
Alignment explanation
Indices: 75626080--75626104 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
75626070 GGCTCTTGTT
75626080 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
75626105 GCTTATGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:75628969 original size:23 final size:23
Alignment explanation
Indices: 75628939--75628985 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
75628929 CTTTTGTTCA
75628939 TACATAACACTTCTAAAGGAATT
1 TACATAACACTTCTAAAGGAATT
75628962 TACATAACACTTCTAAAGGAATT
1 TACATAACACTTCTAAAGGAATT
75628985 T
1 T
75628986 CAGTAAGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.32
Consensus pattern (23 bp):
TACATAACACTTCTAAAGGAATT
Found at i:75640491 original size:18 final size:18
Alignment explanation
Indices: 75640451--75640483 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
75640441 GTTAATAAAG
75640451 TAAATTTAGTGTTAATTA
1 TAAATTTAGTGTTAATTA
75640469 TAAATTT-GT-TTAATT
1 TAAATTTAGTGTTAATT
75640484 TATCAAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (18 bp):
TAAATTTAGTGTTAATTA
Found at i:75645013 original size:14 final size:14
Alignment explanation
Indices: 75644994--75645034 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
75644984 TCCTTAGATT
75644994 AAATTATTAAATTA
1 AAATTATTAAATTA
75645008 AAATTATTAAA-T-
1 AAATTATTAAATTA
75645020 AAATTA--AAATTA
1 AAATTATTAAATTA
75645032 AAA
1 AAA
75645035 AATTTAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 3 0.12
11 1 0.04
12 9 0.36
13 1 0.04
14 11 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATTATTAAATTA
Found at i:75645033 original size:15 final size:16
Alignment explanation
Indices: 75645013--75645049 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
75645003 AATTAAAATT
75645013 ATTAAATAAA-TTAA-A
1 ATTAAA-AAATTTAAGA
75645028 ATTAAAAAATTTAAGA
1 ATTAAAAAATTTAAGA
75645044 ATTAAA
1 ATTAAA
75645050 GGGGTCAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 3 0.15
15 10 0.50
16 7 0.35
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
ATTAAAAAATTTAAGA
Found at i:75645037 original size:18 final size:18
Alignment explanation
Indices: 75645001--75645037 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
75644991 ATTAAATTAT
**
75645001 TAAATTAAAATTATTAAA
1 TAAATTAAAATTAAAAAA
75645019 TAAATTAAAATTAAAAAA
1 TAAATTAAAATTAAAAAA
75645037 T
1 T
75645038 TTAAGAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAATTAAAATTAAAAAA
Found at i:75648901 original size:15 final size:15
Alignment explanation
Indices: 75648881--75648910 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
75648871 TATTTAAAGG
*
75648881 ATAAAATTAAAAGAA
1 ATAAAATAAAAAGAA
75648896 ATAAAATAAAAAGAA
1 ATAAAATAAAAAGAA
75648911 GTAGAAAAAA
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:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (15 bp):
ATAAAATAAAAAGAA
Found at i:75650539 original size:4 final size:4
Alignment explanation
Indices: 75650530--75650558 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
75650520 ATGGCTAAAA
75650530 GAGG GAGG GAGG GAGG GAGG GAGG GAGG G
1 GAGG GAGG GAGG GAGG GAGG GAGG GAGG G
75650559 GACCTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.76, T:0.00
Consensus pattern (4 bp):
GAGG
Found at i:75655646 original size:21 final size:19
Alignment explanation
Indices: 75655616--75655668 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
75655606 TTGGTATTTT
75655616 TATTTAAAAATATTAAAAA
1 TATTTAAAAATATTAAAAA
75655635 TATTATAGAAAATCA-TAAAAA
1 TATT-TA-AAAAT-ATTAAAAA
*
75655656 TGTTTAAAAATAT
1 TATTTAAAAATAT
75655669 AATGCGTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
18 1 0.03
19 9 0.31
20 4 0.14
21 14 0.48
22 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (19 bp):
TATTTAAAAATATTAAAAA
Found at i:75655706 original size:18 final size:17
Alignment explanation
Indices: 75655684--75655771 Score: 54
Period size: 19 Copynumber: 4.9 Consensus size: 17
75655674 GTAAAAATTA
75655684 AAAAATTATTATAAATG
1 AAAAATTATTATAAATG
* *
75655701 ACAAAAAATT-CTATAAATT
1 ---AAAAATTATTATAAATG
*
75655720 ATAAAATTTATTAAAAATTG
1 A-AAAA-TTATTATAAA-TG
* * *
75655740 AAAAAATATTAAAAATT
1 AAAAATTATTATAAATG
75655757 AAAAATT-TTATAAAT
1 AAAAATTATTATAAAT
75655772 TATAAAAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
16 8 0.15
17 11 0.20
18 11 0.20
19 16 0.29
20 9 0.16
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAAATTATTATAAATG
Found at i:75655720 original size:37 final size:36
Alignment explanation
Indices: 75655675--75655808 Score: 116
Period size: 37 Copynumber: 3.7 Consensus size: 36
75655665 ATATAATGCG
75655675 TAAAAATTAAAAAATTATTATAAATGACAAAAAAT-T
1 TAAAAATTAAAAAATTATTATAAATGA-AAAAAATAT
* * *
75655711 CTATAAATTATAAAATTTATTAAAAATTG-AAAAAATAT
1 -TAAAAATTA-AAAAATTATTATAAA-TGAAAAAAATAT
*
75655749 TAAAAATT-AAAAATT-TTATAAATTATAAAAAATA-
1 TAAAAATTAAAAAATTATTATAAATGA-AAAAAATAT
* * *
75655783 TGAAAATTGTAAAAATTATTAAAAAT
1 TAAAAATT-AAAAAATTATTATAAAT
75655809 ATTAATGAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
33 1 0.01
34 13 0.16
35 14 0.17
36 7 0.09
37 29 0.36
38 14 0.17
39 2 0.03
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (36 bp):
TAAAAATTAAAAAATTATTATAAATGAAAAAAATAT
Found at i:75655761 original size:53 final size:53
Alignment explanation
Indices: 75655704--75655808 Score: 149
Period size: 53 Copynumber: 2.0 Consensus size: 53
75655694 ATAAATGACA
**
75655704 AAAAATTCTATAAATTATAAAATTTATTAAAAATTG-AAAAAATATTAAAAATT
1 AAAAATTCTATAAATTATAAAAAATA-TAAAAATTGTAAAAAATATTAAAAATT
* * *
75655757 AAAAATTTTATAAATTATAAAAAATATGAAAATTGTAAAAATTATTAAAAAT
1 AAAAATTCTATAAATTATAAAAAATATAAAAATTGTAAAAAATATTAAAAAT
75655809 ATTAATGAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 8 0.17
53 38 0.83
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (53 bp):
AAAAATTCTATAAATTATAAAAAATATAAAAATTGTAAAAAATATTAAAAATT
Found at i:75655807 original size:27 final size:27
Alignment explanation
Indices: 75655675--75655810 Score: 109
Period size: 27 Copynumber: 5.0 Consensus size: 27
75655665 ATATAATGCG
* *
75655675 TAAAAATT-AAAAAATTATTATAAATGA
1 TAAAAATTGTAAAAATTATTAAAAAT-A
* * * *
75655702 CAAAAAATTCTATAAATTA-TAAAATTTA
1 -TAAAAATTGTAAAAATTATTAAAA-ATA
*
75655730 TTAAAAATTG-AAAAAATATTAAAAAT-
1 -TAAAAATTGTAAAAATTATTAAAAATA
* * *
75655756 TAAAAATTTTATAAATTATAAAAAATA
1 TAAAAATTGTAAAAATTATTAAAAATA
*
75655783 TGAAAATTGTAAAAATTATTAAAAATA
1 TAAAAATTGTAAAAATTATTAAAAATA
75655810 T
1 T
75655811 TAATGAAATT
Statistics
Matches: 84, Mismatches: 19, Indels: 11
0.74 0.17 0.10
Matches are distributed among these distances:
25 8 0.10
26 13 0.15
27 31 0.37
28 24 0.29
29 8 0.10
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (27 bp):
TAAAAATTGTAAAAATTATTAAAAATA
Found at i:75655853 original size:9 final size:9
Alignment explanation
Indices: 75655675--75655868 Score: 91
Period size: 9 Copynumber: 21.2 Consensus size: 9
75655665 ATATAATGCG
75655675 TAAAAATTA
1 TAAAAATTA
75655684 -AAAAATTA
1 TAAAAATTA
* *
75655692 TTATAAATGA
1 -TAAAAATTA
* *
75655702 CAAAAAATTC
1 -TAAAAATTA
*
75655712 TATAAATTA
1 TAAAAATTA
*
75655721 TAAAATTTA
1 TAAAAATTA
75655730 TTAAAAATTGA
1 -TAAAAATT-A
75655741 -AAAAA-TA
1 TAAAAATTA
75655748 TTAAAAA-T-
1 -TAAAAATTA
*
75655756 TAAAAATTT
1 TAAAAATTA
*
75655765 TATAAATTA
1 TAAAAATTA
*
75655774 TAAAAAATA
1 TAAAAATTA
* *
75655783 TGAAAATTG
1 TAAAAATTA
75655792 TAAAAATTA
1 TAAAAATTA
75655801 TTAAAAA-TA
1 -TAAAAATTA
75655810 TTAATGAAATTAA
1 -TAA--AAATT-A
*
75655823 CAAAATATTA
1 TAAAA-ATTA
*
75655833 TAAAACA-CA
1 TAAAA-ATTA
75655842 TAAAAATTA
1 TAAAAATTA
*
75655851 TAAAAA-AA
1 TAAAAATTA
75655859 T-AAAATTA
1 TAAAAATTA
75655867 TA
1 TA
75655869 TGAAAAAAAT
Statistics
Matches: 139, Mismatches: 29, Indels: 34
0.69 0.14 0.17
Matches are distributed among these distances:
7 11 0.08
8 15 0.11
9 70 0.50
10 32 0.23
11 7 0.05
12 3 0.02
13 1 0.01
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:75655865 original size:16 final size:18
Alignment explanation
Indices: 75655824--75655868 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
75655814 TGAAATTAAC
*
75655824 AAAATATTATAAAACACAT
1 AAAA-ATTATAAAACAAAT
75655843 AAAAATTATAAAA-AAAT
1 AAAAATTATAAAACAAAT
75655860 -AAAATTATA
1 AAAAATTATA
75655869 TGAAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 9 0.36
17 3 0.12
18 9 0.36
19 4 0.16
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAAATTATAAAACAAAT
Found at i:75656161 original size:9 final size:9
Alignment explanation
Indices: 75656147--75656289 Score: 59
Period size: 9 Copynumber: 15.4 Consensus size: 9
75656137 GTAATTTTCC
75656147 ATTTTTATA
1 ATTTTTATA
*
75656156 ATTTTTTTCA
1 ATTTTTAT-A
*
75656166 CATTTCTAT-
1 -ATTTTTATA
75656175 ATTTTTATAA
1 ATTTTTAT-A
75656185 TATTTTTAATA
1 -ATTTTT-ATA
*
75656196 ATATTCTAT-
1 AT-TTTTATA
75656205 ATTTTTA-A
1 ATTTTTATA
75656213 ATATATTCT-TA
1 AT-T-TT-TATA
75656224 A--TTTATA
1 ATTTTTATA
*
75656231 ATTTTTATT
1 ATTTTTATA
* *
75656240 ATGTTCATA
1 ATTTTTATA
*
75656249 ATTTATATA
1 ATTTTTATA
75656258 ATTTTTA-A
1 ATTTTTATA
75656266 ACTTTTT-TA
1 A-TTTTTATA
75656275 ATATTTTAATA
1 AT-TTTT-ATA
75656286 ATTT
1 ATTT
75656290 CTGATTTTTA
Statistics
Matches: 100, Mismatches: 14, Indels: 39
0.65 0.09 0.25
Matches are distributed among these distances:
6 1 0.01
7 5 0.05
8 16 0.16
9 44 0.44
10 9 0.09
11 23 0.23
12 2 0.02
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.61
Consensus pattern (9 bp):
ATTTTTATA
Found at i:75656178 original size:19 final size:19
Alignment explanation
Indices: 75656141--75656180 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
75656131 ACTTTTGTAA
*
75656141 TTTTCCATTTTTATAATTT
1 TTTTCCATTTCTATAATTT
75656160 TTTTCACATTTCTAT-ATTT
1 TTTTC-CATTTCTATAATTT
75656179 TT
1 TT
75656181 ATAATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTCCATTTCTATAATTT
Found at i:75656190 original size:28 final size:30
Alignment explanation
Indices: 75656147--75656225 Score: 92
Period size: 28 Copynumber: 2.7 Consensus size: 30
75656137 GTAATTTTCC
* * *
75656147 ATTTTTATAATTTTTTTCA-CAT-TTCTAT
1 ATTTTTATAATATTTTTAATAATATTCTAT
75656175 ATTTTTATAATATTTTTAATAATATTCTAT
1 ATTTTTATAATATTTTTAATAATATTCTAT
75656205 ATTTTTA-AATATATTCTTAAT
1 ATTTTTATAATAT-TT-TTAAT
75656226 TTATAATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
28 17 0.39
29 7 0.16
30 15 0.34
31 5 0.11
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (30 bp):
ATTTTTATAATATTTTTAATAATATTCTAT
Found at i:75656227 original size:19 final size:19
Alignment explanation
Indices: 75656184--75656221 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
75656174 TATTTTTATA
75656184 ATATTTTTAATAATATTCT
1 ATATTTTTAATAATATTCT
75656203 ATATTTTTAA-ATATATTCT
1 ATATTTTTAATA-ATATTCT
75656222 TAATTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (19 bp):
ATATTTTTAATAATATTCT
Found at i:75656235 original size:25 final size:25
Alignment explanation
Indices: 75656202--75656255 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
75656192 AATAATATTC
* *
75656202 TATATTTTTAAATATATTCTTAATT
1 TATAATTTTAAATATATTCATAATT
* * *
75656227 TATAATTTTTATTATGTTCATAATT
1 TATAATTTTAAATATATTCATAATT
75656252 TATA
1 TATA
75656256 TAATTTTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (25 bp):
TATAATTTTAAATATATTCATAATT
Found at i:75656300 original size:17 final size:16
Alignment explanation
Indices: 75656278--75656323 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
75656268 TTTTTTAATA
75656278 TTTTAA-TAATTTCTGAT
1 TTTTAATTAATTT-T-AT
75656295 TTTTAATTAATTTTAT
1 TTTTAATTAATTTTAT
75656311 TTTT-ATT-ATTTTA
1 TTTTAATTAATTTTA
75656324 ATATTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.21
15 3 0.11
16 6 0.21
17 7 0.25
18 6 0.21
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTAATTAATTTTAT
Found at i:75656341 original size:12 final size:12
Alignment explanation
Indices: 75656324--75656349 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
75656314 TATTATTTTA
75656324 ATATTTTTTAAT
1 ATATTTTTTAAT
75656336 ATATTTTTTAAT
1 ATATTTTTTAAT
75656348 AT
1 AT
75656350 TTTAATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATATTTTTTAAT
Found at i:75656359 original size:12 final size:10
Alignment explanation
Indices: 75656314--75656352 Score: 51
Period size: 10 Copynumber: 3.6 Consensus size: 10
75656304 ATTTTATTTT
75656314 TATTATTTTAA
1 TATT-TTTTAA
75656325 TATTTTTTAATA
1 TATTTTTT-A-A
75656337 TATTTTTTAA
1 TATTTTTTAA
75656347 TATTTT
1 TATTTT
75656353 AATTAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 11 0.42
11 6 0.23
12 9 0.35
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TATTTTTTAA
Found at i:75657196 original size:15 final size:16
Alignment explanation
Indices: 75657166--75657198 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
75657156 TATTAATTAA
75657166 TTAATTCAAATAATTT
1 TTAATTCAAATAATTT
*
75657182 TTAATT-AAATTATTT
1 TTAATTCAAATAATTT
75657197 TT
1 TT
75657199 CTCAACTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TTAATTCAAATAATTT
Found at i:75659708 original size:17 final size:18
Alignment explanation
Indices: 75659683--75659716 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
75659673 AAACATGCCA
75659683 AAAAAAAT-ATATTTTAT
1 AAAAAAATAATATTTTAT
*
75659700 AAAACAATAATATTTTA
1 AAAAAAATAATATTTTA
75659717 ATCTTTACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAAAAATAATATTTTAT
Found at i:75677498 original size:13 final size:14
Alignment explanation
Indices: 75677482--75677510 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
75677472 TTTTGAACAA
75677482 TTTATTT-TTTATT
1 TTTATTTCTTTATT
75677495 TTTATTTCTTTATT
1 TTTATTTCTTTATT
75677509 TT
1 TT
75677511 CCTTTTCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTATTTCTTTATT
Found at i:75682902 original size:19 final size:18
Alignment explanation
Indices: 75682861--75682904 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
75682851 CGGTTAATTA
* *
75682861 ATTAA-TTTTAATTGATT
1 ATTAATTTTTAATTAATG
75682878 ATTAATTTTTAATTTAATG
1 ATTAATTTTTAA-TTAATG
75682897 ATTAATTT
1 ATTAATTT
75682905 ATATTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTAATTTTTAATTAATG
Found at i:75683298 original size:29 final size:31
Alignment explanation
Indices: 75683266--75683350 Score: 75
Period size: 31 Copynumber: 2.8 Consensus size: 31
75683256 ATTTAATGTA
* *
75683266 CAATTGTATATAT-AAACTTTAATT-TGGTG
1 CAATTGTATACATGAAACTCTAATTGTGGTG
* * *
75683295 CAATTATACACATGAAACTCTAATTGTGGTT
1 CAATTGTATACATGAAACTCTAATTGTGGTG
* * * *
75683326 CAAATGTATACTTGCAACTTTAATT
1 CAATTGTATACATGAAACTCTAATT
75683351 TTGATTTAAT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
29 10 0.23
30 10 0.23
31 23 0.53
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (31 bp):
CAATTGTATACATGAAACTCTAATTGTGGTG
Found at i:75683541 original size:29 final size:30
Alignment explanation
Indices: 75683509--75683573 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 30
75683499 AAAATTTATG
75683509 TATAAAATTGCACA-AAATCAAAGTTCATA
1 TATAAAATTGCACATAAATCAAAGTTCATA
* * *
75683538 TATATAATTGCACATTAAATCATAGTTCATG
1 TATAAAATTGCACA-TAAATCAAAGTTCATA
75683569 TATAA
1 TATAA
75683574 TCTTGGGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 13 0.43
31 17 0.57
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (30 bp):
TATAAAATTGCACATAAATCAAAGTTCATA
Found at i:75683574 original size:29 final size:28
Alignment explanation
Indices: 75683509--75683574 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
75683499 AAAATTTATG
*
75683509 TATAAAATTGCACAAAATCAAAGTTCATA
1 TATATAATTGCACAAAATCAAAGTTCA-A
*
75683538 TATATAATTGCACATTAAATCATAGTTC-A
1 TATATAATTGCACA--AAATCAAAGTTCAA
*
75683567 TGTATAAT
1 TATATAAT
75683575 CTTGGGATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 21 0.66
31 11 0.34
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (28 bp):
TATATAATTGCACAAAATCAAAGTTCAA
Found at i:75684131 original size:20 final size:20
Alignment explanation
Indices: 75684106--75684145 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
75684096 ACATCAAACA
75684106 GTAAATAAAAGTGAGTGGGC
1 GTAAATAAAAGTGAGTGGGC
75684126 GTAAATAAAAGTGAGTGGGC
1 GTAAATAAAAGTGAGTGGGC
75684146 ATCATACAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.35, T:0.20
Consensus pattern (20 bp):
GTAAATAAAAGTGAGTGGGC
Found at i:75688035 original size:28 final size:30
Alignment explanation
Indices: 75687970--75688041 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 30
75687960 CATTATTTAG
*
75687970 TAATTTTTTATAATTTTTGAAAGATTAAATTA
1 TAATTTTTT-T-ATTTTTGAAAGATTAAAATA
*
75688002 T-TTTTTTTTATTTTTG-AA-ATTAAAATA
1 TAATTTTTTTATTTTTGAAAGATTAAAATA
*
75688029 TAATTTTATTATT
1 TAATTTTTTTATT
75688042 ATTAATCTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
27 9 0.26
28 11 0.31
29 7 0.20
30 1 0.03
31 6 0.17
32 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (30 bp):
TAATTTTTTTATTTTTGAAAGATTAAAATA
Found at i:75688035 original size:30 final size:30
Alignment explanation
Indices: 75687970--75688044 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 30
75687960 CATTATTTAG
*
75687970 TAATTTTTTATAATTTTTGAAAGATTAAAT
1 TAATTTTTTATTATTTTTGAAAGATTAAAT
*
75688000 T-ATTTTTTTTTATTTTTG-AA-ATTAAAAT
1 TAATTTTTTATTATTTTTGAAAGATT-AAAT
75688028 ATAATTTTATTATTATT
1 -TAATTTT-TTATTATT
75688045 AATCTAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
27 3 0.08
28 6 0.16
29 16 0.42
30 6 0.16
31 7 0.18
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (30 bp):
TAATTTTTTATTATTTTTGAAAGATTAAAT
Found at i:75691209 original size:31 final size:30
Alignment explanation
Indices: 75691162--75691224 Score: 99
Period size: 31 Copynumber: 2.1 Consensus size: 30
75691152 TATTTTCTTA
*
75691162 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
*
75691192 TTAATTTTTATTATTATTTTAGAGGCATTTG
1 TTAA-TTTTATTATTATTTTAAAGGCATTTG
75691223 TT
1 TT
75691225 TGTTAAGTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.25, C:0.03, G:0.13, T:0.59
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:75699795 original size:19 final size:19
Alignment explanation
Indices: 75699757--75699796 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
75699747 TTATTATAAT
* * *
75699757 ATCTTATTCGAGATAGCAA
1 ATCTTATTCCACATAACAA
75699776 ATCTTATTCCACATAACAA
1 ATCTTATTCCACATAACAA
75699795 AT
1 AT
75699797 TTTTCATGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (19 bp):
ATCTTATTCCACATAACAA
Found at i:75700628 original size:39 final size:39
Alignment explanation
Indices: 75700574--75700656 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 39
75700564 GAGATTGACG
* *
75700574 GGTGGACCGATGGTGACTACCTGACTGGTGAACAATGAT
1 GGTGGACCGATGGTGACTACCTGACTGATGAACAACGAT
* *
75700613 GGTGGACCGGTGGTGACTGCCTGACTGATGAACAACGAT
1 GGTGGACCGATGGTGACTACCTGACTGATGAACAACGAT
75700652 GGTGG
1 GGTGG
75700657 TGGCTGGTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.22
Consensus pattern (39 bp):
GGTGGACCGATGGTGACTACCTGACTGATGAACAACGAT
Found at i:75701797 original size:2 final size:2
Alignment explanation
Indices: 75701792--75701820 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
75701782 TTTTTCAAAT
75701792 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
75701821 TTCTCATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:75701972 original size:18 final size:19
Alignment explanation
Indices: 75701945--75701983 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
75701935 TTTTGTTCTT
75701945 ATTTTCAAGCATGAA-CCA
1 ATTTTCAAGCATGAATCCA
*
75701963 ATTTTTAAGCATGAATCCA
1 ATTTTCAAGCATGAATCCA
75701982 AT
1 AT
75701984 GACCGATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (19 bp):
ATTTTCAAGCATGAATCCA
Found at i:75705979 original size:19 final size:19
Alignment explanation
Indices: 75705957--75705993 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
75705947 GAGGATAGAT
* *
75705957 TTGAGAGAAAATAATAATA
1 TTGAAAGAAAAAAATAATA
75705976 TTGAAAGAAAAAAATAAT
1 TTGAAAGAAAAAAATAAT
75705994 TTTAATAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (19 bp):
TTGAAAGAAAAAAATAATA
Found at i:75708228 original size:21 final size:20
Alignment explanation
Indices: 75708192--75708230 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
75708182 AAAAAACTAC
75708192 TATGAATTTATATTACAAGA
1 TATGAATTTATATTACAAGA
75708212 TATGATATTT-TACTTACAA
1 TATGA-ATTTATA-TTACAA
75708231 TATAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (20 bp):
TATGAATTTATATTACAAGA
Found at i:75709795 original size:12 final size:12
Alignment explanation
Indices: 75709778--75709802 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
75709768 TCGACAAGTA
75709778 TATTCTTCTTCT
1 TATTCTTCTTCT
75709790 TATTCTTCTTCT
1 TATTCTTCTTCT
75709802 T
1 T
75709803 TCTCTCTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTCTTCTTCT
Found at i:75713308 original size:13 final size:14
Alignment explanation
Indices: 75713290--75713326 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
75713280 TTTCAATTTT
75713290 AAGAAAATA-GAAA
1 AAGAAAATATGAAA
75713303 AAGAAAA-ATGAAA
1 AAGAAAATATGAAA
75713316 ACAGAAAATAT
1 A-AGAAAATAT
75713327 TCTCTAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 1 0.05
13 12 0.57
14 6 0.29
15 2 0.10
ACGTcount: A:0.73, C:0.03, G:0.14, T:0.11
Consensus pattern (14 bp):
AAGAAAATATGAAA
Found at i:75723407 original size:15 final size:16
Alignment explanation
Indices: 75723383--75723419 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
75723373 TTTAATAATT
75723383 TAAT-AATTATAAAAA
1 TAATAAATTATAAAAA
*
75723398 T-ATAAATTATTAAAA
1 TAATAAATTATAAAAA
75723413 TAATAAA
1 TAATAAA
75723420 ATCATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 2 0.11
15 12 0.63
16 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAATAAATTATAAAAA
Found at i:75724449 original size:13 final size:13
Alignment explanation
Indices: 75724433--75724457 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75724423 TGAGTTTTAC
75724433 TTCTTTTTTTTTT
1 TTCTTTTTTTTTT
75724446 TTCTTTTTTTTT
1 TTCTTTTTTTTT
75724458 AAAATTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTCTTTTTTTTTT
Done.