Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 162 of 199
Found at i:47498272 original size:189 final size:189
Alignment explanation
Indices: 47497949--47498327 Score: 704
Period size: 189 Copynumber: 2.0 Consensus size: 189
47497939 TGATTCTGGG
*
47497949 TATAGACTGGTTAACTTTACATGATGCTGTTGTAAACTGTAGACGAAAGCATATTGTATTGAAAT
1 TATAGACTGGTTAACTTTACATGATGCTATTGTAAACTGTAGACGAAAGCATATTGTATTGAAAT
47498014 GTCAAAATGGTGAAAGGATTCGAATTGAATAAGACATATTGGATGGTACATCTAATGTTATCCCA
66 GTCAAAATGGTGAAAGGATTCGAATTGAATAAGACATATTGGATGGTACATCTAATGTTATCCCA
*
47498079 GCTATGATGACACAATAATATATTCGAAAGGGTTATGAAGCATATCTAGCTTACATATT
131 GCTATGATGACACAACAATATATTCGAAAGGGTTATGAAGCATATCTAGCTTACATATT
* *
47498138 TATAGACTGGTTAACTTTGCATGATGTTATTGTAAACTGTAGACGAAAGCATATTGTATTGAAAT
1 TATAGACTGGTTAACTTTACATGATGCTATTGTAAACTGTAGACGAAAGCATATTGTATTGAAAT
*
47498203 GTCAAAATGGTGAAAGGATTCGAATTGAATAAGACATATTGGATGGTACATCTAATGTTATCTCA
66 GTCAAAATGGTGAAAGGATTCGAATTGAATAAGACATATTGGATGGTACATCTAATGTTATCCCA
*
47498268 GCTATGATGACACAACAATATATTCGAAAGGGTTATGAAGCGTATCTAGCTTACATATT
131 GCTATGATGACACAACAATATATTCGAAAGGGTTATGAAGCATATCTAGCTTACATATT
47498327 T
1 T
47498328 GATTCCAGAG
Statistics
Matches: 184, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
189 184 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33
Consensus pattern (189 bp):
TATAGACTGGTTAACTTTACATGATGCTATTGTAAACTGTAGACGAAAGCATATTGTATTGAAAT
GTCAAAATGGTGAAAGGATTCGAATTGAATAAGACATATTGGATGGTACATCTAATGTTATCCCA
GCTATGATGACACAACAATATATTCGAAAGGGTTATGAAGCATATCTAGCTTACATATT
Found at i:47500871 original size:40 final size:40
Alignment explanation
Indices: 47500679--47500864 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
47500669 TTGAATGATG
* * * * *
47500679 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* ** *
47500719 TCCAGACTAAGAT-CCGAAGACATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
47500759 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
47500799 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
47500840 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
47500865 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.91
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47500871 original size:80 final size:79
Alignment explanation
Indices: 47500732--47500897 Score: 219
Period size: 80 Copynumber: 2.1 Consensus size: 79
47500722 AGACTAAGAT
* * **
47500732 CCGAAGACATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
47500796 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
47500812 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
47500876 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
47500891 CCGAAGG
1 CCGAAGG
47500898 TACGTGATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
79 16 0.21
80 58 0.76
81 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:47506358 original size:40 final size:40
Alignment explanation
Indices: 47506166--47506351 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
47506156 TTGAATGATG
* * * * *
47506166 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* ** *
47506206 TCCAGACTAAGAT-CCGAAGACATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
47506246 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
47506286 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
47506327 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
47506352 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.91
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47506358 original size:80 final size:79
Alignment explanation
Indices: 47506219--47506384 Score: 219
Period size: 80 Copynumber: 2.1 Consensus size: 79
47506209 AGACTAAGAT
* * **
47506219 CCGAAGACATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
47506283 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
47506299 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
47506363 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
47506378 CCGAAGG
1 CCGAAGG
47506385 TACGTGATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
79 16 0.21
80 58 0.76
81 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:47508572 original size:40 final size:40
Alignment explanation
Indices: 47508514--47508598 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
47508504 GGATCAACTG
*
47508514 AACACGCCAAACAGAAGCTCACAAGAGCTAATCCAACCGA
1 AACACGCCAAACAAAAGCTCACAAGAGCTAATCCAACCGA
* * *
47508554 AACACGCCAAACAAAAGCTTATAAGAGGTAATCCAACCGA
1 AACACGCCAAACAAAAGCTCACAAGAGCTAATCCAACCGA
47508594 AACAC
1 AACAC
47508599 ACCAGACAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.47, C:0.29, G:0.14, T:0.09
Consensus pattern (40 bp):
AACACGCCAAACAAAAGCTCACAAGAGCTAATCCAACCGA
Found at i:47521973 original size:9 final size:9
Alignment explanation
Indices: 47521959--47521990 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
47521949 TAGAAACCTT
47521959 ATATTTTAC
1 ATATTTTAC
47521968 ATATTTTAC
1 ATATTTTAC
47521977 ATATTTTAC
1 ATATTTTAC
47521986 A-ATTT
1 ATATTT
47521991 AATCCATTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.56
Consensus pattern (9 bp):
ATATTTTAC
Found at i:47524619 original size:26 final size:26
Alignment explanation
Indices: 47524589--47524664 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
47524579 ACACCAATAT
*
47524589 CGCAGCAAAGCTGCCAATAATAGTAA
1 CGCAGCAAAGCTGCCAATAACAGTAA
* *
47524615 CGCAGCAAGGCTGCCAGTAACAGTAA
1 CGCAGCAAAGCTGCCAATAACAGTAA
* * * *
47524641 CGTAGCAAAACCGCCAGTAACAGT
1 CGCAGCAAAGCTGCCAATAACAGT
47524665 GTATGTGGCA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.38, C:0.26, G:0.22, T:0.13
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAATAACAGTAA
Found at i:47524872 original size:27 final size:26
Alignment explanation
Indices: 47524840--47525168 Score: 385
Period size: 27 Copynumber: 12.2 Consensus size: 26
47524830 GGTATAATAG
* * *
47524840 TCATTTTACCTTTCAGGGGTATTTTGG
1 TCATTTTACCCTTC-GGGGTATTTCGA
*
47524867 TTATTTTACCCATT-GAGGGTATTTCGA
1 TCATTTTACCC-TTCG-GGGTATTTCGA
*
47524894 TCATTTTACCCTTCGAGGGTATTTTGA
1 TCATTTTACCCTTCG-GGGTATTTCGA
47524921 TCATTTTACCCTTCGGGGGTATTTCGA
1 TCATTTTACCCTTC-GGGGTATTTCGA
* *
47524948 TCATTTTACCATTCAGGGTATTTCGA
1 TCATTTTACCCTTCGGGGTATTTCGA
*
47524974 TCATTTTACCCTTCGAGGCTATTTC-A
1 TCATTTTACCCTTCG-GGGTATTTCGA
47525000 GTCATTTTACCCTTCAGGGGTATTTCGA
1 -TCATTTTACCCTTC-GGGGTATTTCGA
*
47525028 TCATTTTACCCTTCTGGGGTATTTTGA
1 TCATTTTACCCTTC-GGGGTATTTCGA
47525055 TCATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTCG-GGGTATTTCGA
*
47525082 TCATTTTACCATTCGTGGGTATTTCGA
1 TCATTTTACCCTTCG-GGGTATTTCGA
* * *
47525109 TTATTTTACCCTTCGGGGGTATTTTGG
1 TCATTTTACCCTTC-GGGGTATTTCGA
*
47525136 TCATTTTAACCTTCGAGGGTATTTC-A
1 TCATTTTACCCTTCG-GGGTATTTCGA
47525162 GTCATTT
1 -TCATTT
47525169 GCGAACGAAT
Statistics
Matches: 264, Mismatches: 26, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
26 30 0.11
27 228 0.86
28 6 0.02
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (26 bp):
TCATTTTACCCTTCGGGGTATTTCGA
Found at i:47525160 original size:81 final size:81
Alignment explanation
Indices: 47524838--47525168 Score: 440
Period size: 81 Copynumber: 4.1 Consensus size: 81
47524828 GGGGTATAAT
* * * *
47524838 AGTCATTTTACCTTTCAGGGGTATTTTGGTTATTTTACCCATT-GAGGGTATTTCGATCATTTTA
1 AGTCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCC-TTCGAGGGTATTTCGATCATTTTA
47524902 CCCTTCGAGGGTATTT-
65 CCCTTCGAGGGTATTTC
* * *
47524918 TGATCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCATTC-AGGGTATTTCGATCATTTTA
1 AG-TCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTTTA
*
47524982 CCCTTCGAGGCTATTTC
65 CCCTTCGAGGGTATTTC
*
47524999 AGTCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTTCTG-GGGTATTTTGATCATTTTA
1 AGTCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTTC-GAGGGTATTTCGATCATTTTA
47525063 CCCTTCGAGGGTATTTC
65 CCCTTCGAGGGTATTTC
* * * * *
47525080 -GATCATTTTACCATTC-GTGGGTATTTCGATTATTTTACCCTTCGGGGGTATTTTGGTCATTTT
1 AG-TCATTTTACCCTTCAG-GGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTTT
*
47525143 AACCTTCGAGGGTATTTC
64 ACCCTTCGAGGGTATTTC
47525161 AGTCATTT
1 AGTCATTT
47525169 GCGAACGAAT
Statistics
Matches: 225, Mismatches: 17, Indels: 17
0.87 0.07 0.07
Matches are distributed among these distances:
80 80 0.36
81 144 0.64
82 1 0.00
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (81 bp):
AGTCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTTTAC
CCTTCGAGGGTATTTC
Found at i:47528413 original size:79 final size:80
Alignment explanation
Indices: 47528208--47528423 Score: 260
Period size: 79 Copynumber: 2.7 Consensus size: 80
47528198 TTGAATGATG
* * * * * *
47528208 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACAAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
*
47528272 TGTGCGAGATACTAAT
65 TGTGCGAGATACTAAA
*
47528288 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCATT
*
47528350 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * * *
47528366 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAA
47528424 TGCGTTTGAA
Statistics
Matches: 117, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 36 0.31
79 56 0.48
80 25 0.21
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:47528438 original size:40 final size:40
Alignment explanation
Indices: 47528208--47528423 Score: 253
Period size: 39 Copynumber: 5.5 Consensus size: 40
47528198 TTGAATGATG
* * * *
47528208 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
47528248 TCCGGACAAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
47528288 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
47528327 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
47528366 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
47528407 -CCGGGCTATGTCCCGAA
1 TCCGGGCTAAGTCCCGAA
47528424 TGCGTTTGAA
Statistics
Matches: 155, Mismatches: 16, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
39 74 0.48
40 71 0.46
41 10 0.06
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47528453 original size:79 final size:79
Alignment explanation
Indices: 47528261--47528464 Score: 209
Period size: 79 Copynumber: 2.6 Consensus size: 79
47528251 GGACAAAGAT
** * * * *
47528261 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
*
47528325 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** *
47528339 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
*
47528403 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* * * * *
47528419 CCGAATGCGTTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGG
47528465 TACGTGATTT
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 37 0.34
79 48 0.44
80 23 0.21
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:47536387 original size:78 final size:79
Alignment explanation
Indices: 47536202--47536424 Score: 242
Period size: 78 Copynumber: 2.8 Consensus size: 79
47536192 TTGAATGATG
* * * * *
47536202 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGA-T-ACTATAACCGGGCTAAG-TCCCGAAGGCA
*
47536264 TTTGTGCGAGATACTAAT
62 TTTGTGCGAGATACTAAA
* *
47536282 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGG-ATTT
1 TCCGGGCTAAGCCCGAAGGCAATTGTGCGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCATTT
*
47536344 GTGCGAGTTACTAAA
65 GTGCGAGATACTAAA
* * *
47536359 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
47536424 G
65 G
47536425 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 16
0.83 0.07 0.11
Matches are distributed among these distances:
77 27 0.22
78 41 0.33
79 31 0.25
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCAATTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:47536404 original size:40 final size:39
Alignment explanation
Indices: 47536202--47536424 Score: 258
Period size: 40 Copynumber: 5.7 Consensus size: 39
47536192 TTGAATGATG
* * *
47536202 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
* *
47536242 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
47536281 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
47536320 TTCCGGGCTAAG-CCCGAAGG-ATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
* *
47536359 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
47536399 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
47536425 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
38 25 0.15
39 58 0.36
40 71 0.44
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:47542985 original size:47 final size:47
Alignment explanation
Indices: 47542916--47543009 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
47542906 GCTACTATAG
47542916 CCATACGGATATCATTATTCAACCCATCTTCAAATCTAATACACATT
1 CCATACGGATATCATTATTCAACCCATCTTCAAATCTAATACACATT
*
47542963 CCATACGGATATCATTATTCAACCTATCTTCAAATCTAATACACATT
1 CCATACGGATATCATTATTCAACCCATCTTCAAATCTAATACACATT
47543010 TTTGCCTCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (47 bp):
CCATACGGATATCATTATTCAACCCATCTTCAAATCTAATACACATT
Found at i:47551339 original size:20 final size:20
Alignment explanation
Indices: 47551316--47551355 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
47551306 CCGTAGTGTG
47551316 AACAGAGACA-TCGAAGTGCA
1 AACAGAGACACT-GAAGTGCA
*
47551336 AACAGAGGCACTGAAGTGCA
1 AACAGAGACACTGAAGTGCA
47551356 GTCCCATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.20, G:0.28, T:0.10
Consensus pattern (20 bp):
AACAGAGACACTGAAGTGCA
Found at i:47556339 original size:19 final size:19
Alignment explanation
Indices: 47556310--47556354 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
47556300 AGAGAAATAG
*
47556310 AAAGTAAAAAAAAGAGCGAA
1 AAAG-AAAAAAAAGAACGAA
*
47556330 AAAGAAAAAAAAGAATGAA
1 AAAGAAAAAAAAGAACGAA
47556349 AAAGAA
1 AAAGAA
47556355 TATGAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (19 bp):
AAAGAAAAAAAAGAACGAA
Found at i:47597801 original size:39 final size:40
Alignment explanation
Indices: 47597700--47597923 Score: 246
Period size: 40 Copynumber: 5.7 Consensus size: 40
47597690 TTGAATGATG
* *
47597700 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
47597739 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
47597780 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
47597819 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
47597858 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
47597897 AACCGGGCTATGTCCCGAAGGCGTTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
47597924 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
39 73 0.45
40 75 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:47597849 original size:78 final size:80
Alignment explanation
Indices: 47597700--47597923 Score: 235
Period size: 79 Copynumber: 2.8 Consensus size: 80
47597690 TTGAATGATG
* * * * * *
47597700 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCAATTGTACGAGA-T-ACTATAACCGGGCTAAG-TCCCGAAGGCA
*
47597762 TTTGTGCGAGATACTAAT
63 TTTGTGCGAGATACTAAA
* *
47597780 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCAATTGTACGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCATT
*
47597842 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * * *
47597858 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCGTTT
1 TCCGGGCTAAGTCCCGAAGGCAATTGTACGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
47597923 G
66 G
47597924 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
78 36 0.29
79 54 0.44
80 33 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCAATTGTACGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:47597937 original size:40 final size:38
Alignment explanation
Indices: 47597753--47597930 Score: 194
Period size: 39 Copynumber: 4.5 Consensus size: 38
47597743 GGACTAAGAT
* * *
47597753 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTACGAGTTACTAA-ACCGGGCTAAGC
* *
47597792 CCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTACGAGTTACTAA-ACCGGGCTAAGC
* *
47597831 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTACGAGTTACTAAA-CCGGGCTAAG-C
* * *
47597871 CCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGTACGAGTTACTA-AACCGGGCTAAG-C
* *
47597911 CCGAAGGCGTTTGAACGAGT
1 CCGAAGGCATTTGTACGAGT
47597931 AGCTATATCC
Statistics
Matches: 124, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
39 71 0.57
40 51 0.41
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (38 bp):
CCGAAGGCATTTGTACGAGTTACTAAACCGGGCTAAGC
Found at i:47597945 original size:79 final size:79
Alignment explanation
Indices: 47597753--47597956 Score: 209
Period size: 79 Copynumber: 2.6 Consensus size: 79
47597743 GGACTAAGAT
** * * * *
47597753 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTACGAGATACTA
*
47597817 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** * *
47597831 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTACGAGATACTA
*
47597895 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* * * *
47597911 CCGAAGGCGTTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGG
47597957 TACGTGATTT
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 37 0.34
79 47 0.44
80 24 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTACGAGATACTA
ATACCGGGCTAAGC
Found at i:47603871 original size:23 final size:22
Alignment explanation
Indices: 47603844--47603886 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
47603834 TTTAAAATTT
*
47603844 TTTAAGTTATTTCATGTCTTTTG
1 TTTAAATTATTT-ATGTCTTTTG
*
47603867 TTTAAATTATTTATTTCTTT
1 TTTAAATTATTTATGTCTTT
47603887 ATTTTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.65
Consensus pattern (22 bp):
TTTAAATTATTTATGTCTTTTG
Found at i:47603892 original size:22 final size:22
Alignment explanation
Indices: 47603841--47603893 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
47603831 TCTTTTAAAA
*
47603841 TTTTTTAAGTTATTTCATGTCT
1 TTTTTTAAATTATTTCATGTCT
*
47603863 TTTGTTTAAATTATTT-ATTTCT
1 TTT-TTTAAATTATTTCATGTCT
47603885 TTATTTTAA
1 TT-TTTTAA
47603894 TATCTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 15 0.56
23 12 0.44
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.66
Consensus pattern (22 bp):
TTTTTTAAATTATTTCATGTCT
Found at i:47606914 original size:29 final size:29
Alignment explanation
Indices: 47606854--47606919 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
47606844 GTGAATGTCA
** * *
47606854 CAACATTGAGATCGGAATGCTCAATGCCG
1 CAACATTGAGATCAAAATGCCCAAGGCCG
**
47606883 CAACATTGAGATCAAAATGCCCAAGGTTG
1 CAACATTGAGATCAAAATGCCCAAGGCCG
47606912 CAACATTG
1 CAACATTG
47606920 GCTAGAGAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (29 bp):
CAACATTGAGATCAAAATGCCCAAGGCCG
Found at i:47616175 original size:29 final size:29
Alignment explanation
Indices: 47616138--47616197 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
47616128 TACCTATGTT
*
47616138 AAATTAATATATGTATATTATTTGCTTCA
1 AAATTAATATATCTATATTATTTGCTTCA
47616167 AAATTAATATATCTATATTATTTGCTTCA
1 AAATTAATATATCTATATTATTTGCTTCA
47616196 AA
1 AA
47616198 TTTATTTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (29 bp):
AAATTAATATATCTATATTATTTGCTTCA
Found at i:47619043 original size:29 final size:30
Alignment explanation
Indices: 47618988--47619047 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
47618978 AAAGCTTAGT
47618988 AAGTCAAAAACATATATATATATTTTTCTCA
1 AAGTCAAAAACA-ATATATATATTTTTCTCA
47619019 AAGTCAAAAAC-ATATATATATTTTTCTCA
1 AAGTCAAAAACAATATATATATTTTTCTCA
47619048 CTATCATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 18 0.62
31 11 0.38
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.38
Consensus pattern (30 bp):
AAGTCAAAAACAATATATATATTTTTCTCA
Found at i:47621099 original size:160 final size:160
Alignment explanation
Indices: 47620830--47621142 Score: 536
Period size: 160 Copynumber: 2.0 Consensus size: 160
47620820 TTTTACGAAC
* *
47620830 GACCTATCTTTTTGCAATTTGATCATGGTGGATACTTTTTCTTTCCTCCATCTCTTTTTTGCCTT
1 GACCCATCTTTTTGCAATTTGATCATGGTGGATACTTTTTCTTTCCACCATCTCTTTTTTGCCTT
*
47620895 TCTCTTGCTTGATTCCATTTCTTCTTGCCTTTGTTTCTTGAAGAGCATGGAGCTTCCTTGTTTCT
66 TCTCTTGCTTGATTCCATTTCTCCTTGCCTTTGTTTCTTGAAGAGCATGGAGCTTCCTTGTTTCT
* * *
47620960 CATTTGGTAGGCACCTTTTACGTTATGAAT
131 CACTTGGTAAGCACCTTCTACGTTATGAAT
* * *
47620990 GACCCATCTTTTTGCAATTTGATCATTGTGGATACTTTTTCTTTCCAGCATCTCTTTTTTTCCTT
1 GACCCATCTTTTTGCAATTTGATCATGGTGGATACTTTTTCTTTCCACCATCTCTTTTTTGCCTT
*
47621055 TCTCTTGCTTGATTCCATTTCTCCTTGCCTTTGTTTCTTGAAGAGCATGGAGTTTCCTTGTTTCT
66 TCTCTTGCTTGATTCCATTTCTCCTTGCCTTTGTTTCTTGAAGAGCATGGAGCTTCCTTGTTTCT
47621120 CACTTGGTAAGCACCTTCTACGT
131 CACTTGGTAAGCACCTTCTACGT
47621143 GAAGGACATC
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
160 143 1.00
ACGTcount: A:0.14, C:0.23, G:0.15, T:0.48
Consensus pattern (160 bp):
GACCCATCTTTTTGCAATTTGATCATGGTGGATACTTTTTCTTTCCACCATCTCTTTTTTGCCTT
TCTCTTGCTTGATTCCATTTCTCCTTGCCTTTGTTTCTTGAAGAGCATGGAGCTTCCTTGTTTCT
CACTTGGTAAGCACCTTCTACGTTATGAAT
Found at i:47627078 original size:33 final size:33
Alignment explanation
Indices: 47627036--47627103 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
47627026 ATCATTTGCA
47627036 TTCATTCAAAAATTAAATTATATATATTATGAT
1 TTCATTCAAAAATTAAATTATATATATTATGAT
47627069 TTCATTCAAAAATTAAATTATATATATTATGAT
1 TTCATTCAAAAATTAAATTATATATATTATGAT
47627102 TT
1 TT
47627104 TAGTAAATTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (33 bp):
TTCATTCAAAAATTAAATTATATATATTATGAT
Found at i:47627324 original size:21 final size:22
Alignment explanation
Indices: 47627299--47627339 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
47627289 TTTAATAAAA
*
47627299 ATTATTTTAAATTAT-ATTTAT
1 ATTATTATAAATTATGATTTAT
*
47627320 ATTATTATATATTATGATTT
1 ATTATTATAAATTATGATTT
47627340 TAGTAAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTATTATAAATTATGATTTAT
Found at i:47627369 original size:119 final size:120
Alignment explanation
Indices: 47627089--47627548 Score: 768
Period size: 120 Copynumber: 3.9 Consensus size: 120
47627079 AATTAAATTA
*
47627089 TATATATTATGATTTTAGTAAATTCATATAAGAATATGTAATATTAAGAATTTTATTAAATTATA
1 TATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATA
*
47627154 TATTTTTATCT-AATTATA-TT--TAATAATAATTTTAAATTATATTTTGTAGTAT
66 TATTTTTAT-TAAATTATATTTAATAATAATAATTTTAAATTATATTTTATAGTAT
* *
47627206 TATATATTATGATTTTAGTAAATTCATATAATAATATTTTATATTAAGAATTTTATTAAATTATA
1 TATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATA
* * *
47627271 TATTTTTATTAAATTATATTTAATAAAAATTATTTTAAATTATA-TTTATATTAT
66 TATTTTTATTAAATTATATTTAATAATAATAATTTTAAATTATATTTTATAGTAT
47627325 TATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATA
1 TATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATA
*
47627390 TATTTTTATTAAATTATATTTAATAATAATAACTTTAAATTATATTTTATAGTAT
66 TATTTTTATTAAATTATATTTAATAATAATAATTTTAAATTATATTTTATAGTAT
47627445 TATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATA
1 TATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATA
* * * *
47627510 TATTTTGATTAAAATATATTTAATAATAATTATGTTAAA
66 TATTTTTATTAAATTATATTTAATAATAATAATTTTAAA
47627549 ATATGATTAA
Statistics
Matches: 320, Mismatches: 18, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
116 1 0.00
117 78 0.24
118 2 0.01
119 112 0.35
120 127 0.40
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (120 bp):
TATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATA
TATTTTTATTAAATTATATTTAATAATAATAATTTTAAATTATATTTTATAGTAT
Found at i:47627508 original size:239 final size:235
Alignment explanation
Indices: 47627085--47627548 Score: 804
Period size: 239 Copynumber: 2.0 Consensus size: 235
47627075 CAAAAATTAA
47627085 ATTATATATATTATGATTTTAGTAAATTCATATAAGAATATGTAATATTAAGAATTTTATTAAAT
1 ATTATATATATTATGATTTTAGTAAATTCATATAAGAATATGTAATATTAAGAATTTTATTAAAT
*
47627150 TATATATTTTTATCTAATTATATTTAATAATAATTTTAAATTATATTTTGTAGTATTATATATTA
66 TATATATTTTTATCTAATTATATTTAATAATAATTTTAAATTATATTTTATAGTATTATATATTA
* * *
47627215 TGATTTTAGTAAATTCATATAATAATATTTTATATTAAGAATTTTATTAAATTATATATTTTTAT
131 TGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTGAT
* *
47627280 TAAATTATATTTAATAAAAATTATTTTAAATTATATTTAT
196 TAAAATATATTTAATAAAAATTATGTTAAATTATATTTAT
*
47627320 ATTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAA
1 ATTA-TATATATTATGATTTTAGTAAATTCATATAAGAATATGTAATATTAAGAATTTTATTAAA
47627385 TTATATATTTTTAT-TAAATTATATTTAATAATAATAACTTTAAATTATATTTTATAGTATTATA
65 TTATATATTTTTATCT-AATTATATTTAATAATAAT---TTTAAATTATATTTTATAGTATTATA
47627449 TATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATT
126 TATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATT
*
47627514 TTGATTAAAATATATTTAATAATAATTATGTTAAA
191 TTGATTAAAATATATTTAATAAAAATTATGTTAAA
47627549 ATATGATTAA
Statistics
Matches: 216, Mismatches: 8, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
235 5 0.02
236 92 0.43
239 119 0.55
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (235 bp):
ATTATATATATTATGATTTTAGTAAATTCATATAAGAATATGTAATATTAAGAATTTTATTAAAT
TATATATTTTTATCTAATTATATTTAATAATAATTTTAAATTATATTTTATAGTATTATATATTA
TGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTGAT
TAAAATATATTTAATAAAAATTATGTTAAATTATATTTAT
Found at i:47627520 original size:18 final size:17
Alignment explanation
Indices: 47627494--47627528 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47627484 AATATTAAGA
*
47627494 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
47627511 ATTTTGATTAAAATATAT
1 ATTTT-ATTAAAATATAT
47627529 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:47627748 original size:44 final size:46
Alignment explanation
Indices: 47627685--47627867 Score: 235
Period size: 44 Copynumber: 4.2 Consensus size: 46
47627675 CTATTTCACC
*
47627685 TCCATTTCATTCAACCAAACACA-AG-AA-TACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGAAATTACTATTACGCCTCTAT
*
47627729 TCCATTACATTCAACCAAACAATAGAAATTCCTATTACG-C-C---
1 TCCATTACATTCAACCAAACAATAGAAATTACTATTACGCCTCTAT
*
47627770 TCCATTTCATTCAACCAAACACA-AG-AA-TACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGAAATTACTATTACGCCTCTAT
*
47627814 TCCATTACATTCAACCAAACAATAGAAATTCCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGAAATTACTATTACGCCTCTAT
47627860 TCCATTAC
1 TCCATTAC
47627868 GTCTCTATTC
Statistics
Matches: 121, Mismatches: 6, Indels: 22
0.81 0.04 0.15
Matches are distributed among these distances:
39 9 0.07
40 3 0.02
41 23 0.19
42 1 0.01
43 2 0.02
44 45 0.37
45 5 0.04
46 33 0.27
ACGTcount: A:0.37, C:0.30, G:0.04, T:0.30
Consensus pattern (46 bp):
TCCATTACATTCAACCAAACAATAGAAATTACTATTACGCCTCTAT
Found at i:47627818 original size:85 final size:85
Alignment explanation
Indices: 47627683--47627865 Score: 348
Period size: 85 Copynumber: 2.2 Consensus size: 85
47627673 TGCTATTTCA
47627683 CCTCCATTTCATTCAACCAAACACAAGAATACTATTACGCCTCTATTCCATTACATTCAACCAAA
1 CCTCCATTTCATTCAACCAAACACAAGAATACTATTACGCCTCTATTCCATTACATTCAACCAAA
47627748 CAATAGAAATTCCTATTACG
66 CAATAGAAATTCCTATTACG
47627768 CCTCCATTTCATTCAACCAAACACAAGAATACTATTACGCCTCTATTCCATTACATTCAACCAAA
1 CCTCCATTTCATTCAACCAAACACAAGAATACTATTACGCCTCTATTCCATTACATTCAACCAAA
47627833 CAATAGAAATTCCTATTACG
66 CAATAGAAATTCCTATTACG
* *
47627853 CCTCTATTCCATT
1 CCTCCATTTCATT
47627866 ACGTCTCTAT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 96 1.00
ACGTcount: A:0.36, C:0.30, G:0.04, T:0.30
Consensus pattern (85 bp):
CCTCCATTTCATTCAACCAAACACAAGAATACTATTACGCCTCTATTCCATTACATTCAACCAAA
CAATAGAAATTCCTATTACG
Found at i:47627868 original size:16 final size:16
Alignment explanation
Indices: 47627841--47627879 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
47627831 AACAATAGAA
47627841 ATTCCTATTACGCCTCT
1 ATTCC-ATTACGCCTCT
*
47627858 ATTCCATTACGTCTCT
1 ATTCCATTACGCCTCT
47627874 ATTCCA
1 ATTCCA
47627880 ATACAGCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.21, C:0.33, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTCCATTACGCCTCT
Found at i:47628644 original size:3 final size:3
Alignment explanation
Indices: 47628638--47628662 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
47628628 AATAATAATA
47628638 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
47628663 AAGTGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:47633776 original size:48 final size:48
Alignment explanation
Indices: 47633705--47633799 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
47633695 TTCTTTGCTT
*
47633705 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
1 AAAAACGCCTAAGTCAGCCTAACTCGCAAAGATAAAGGATTCAACAGC
** * *
47633753 AAAAACGCCTAAGTTGGCCTAACTTGCAAAGATAAATGATTCAACAG
1 AAAAACGCCTAAGTCAGCCTAACTCGCAAAGATAAAGGATTCAACAG
47633800 AATTCCCTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCGCAAAGATAAAGGATTCAACAGC
Found at i:47634045 original size:19 final size:19
Alignment explanation
Indices: 47634021--47634074 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
47634011 AAAGTTGTAT
47634021 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
47634040 ACAATTAGAA-GCT--GCAT
1 ACAATTAGAACTCTAAG-AC
47634057 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
47634075 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:47634059 original size:36 final size:36
Alignment explanation
Indices: 47634004--47634074 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
47633994 ATCAAAGGCT
* *
47634004 ACAATTAAAAGTTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGCATACAATTAGAACTCTAAGAC
*
47634040 ACAATTAGAAGCTGCATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGCATACAATTAGAACTCTAAGA
47634075 TTACATAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (36 bp):
ACAATTAAAAGCTGCATACAATTAGAACTCTAAGAC
Found at i:47637016 original size:76 final size:80
Alignment explanation
Indices: 47636851--47637020 Score: 183
Period size: 76 Copynumber: 2.2 Consensus size: 80
47636841 TGAGTATAAG
* * *
47636851 TATGAAATTATACTTATATATATATGTTAAATTCGAATATGTATATGTATACATGTATAAGTTCT
1 TATGAAATTATA--TATATATATATGTTAAATTCAAATATGTATATATATACATGTATAAGATCT
* *
47636916 TGTTTCTAATATAAGTA
64 GGTTTCGAATATAAGTA
* * *
47636933 TA-G-AATTATATATATA-AT-TTTTAGATTCAAATATGTATATATGTACATGTATAAGATCTGG
1 TATGAAATTATATATATATATATGTTAAATTCAAATATGTATATATATACATGTATAAGATCTGG
*
47636994 TATT-GAA-AT-GGTA
66 T-TTCGAATATAAGTA
47637007 TATGAAATTATATA
1 TATGAAATTATATA
47637021 GGTATATGTG
Statistics
Matches: 76, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
74 5 0.07
75 3 0.04
76 48 0.63
77 4 0.05
78 6 0.08
80 7 0.09
81 1 0.01
82 2 0.03
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (80 bp):
TATGAAATTATATATATATATATGTTAAATTCAAATATGTATATATATACATGTATAAGATCTGG
TTTCGAATATAAGTA
Found at i:47637329 original size:41 final size:41
Alignment explanation
Indices: 47637268--47637368 Score: 159
Period size: 41 Copynumber: 2.5 Consensus size: 41
47637258 AAGTAAGATG
* *
47637268 ATTT-AGACTTTACATCTAGCAGGCTTGATGCCTGTGAAAT
1 ATTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAAT
* *
47637308 ATTTCAGACTTTATGTCTAGCAGGTTTGATGCCGGTGAAAT
1 ATTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAAT
47637349 ATTTCAGACTTTACGTCTAG
1 ATTTCAGACTTTACGTCTAG
47637369 TAGACTAATT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 4 0.07
41 51 0.93
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.37
Consensus pattern (41 bp):
ATTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAAT
Found at i:47645287 original size:41 final size:41
Alignment explanation
Indices: 47645236--47645381 Score: 188
Period size: 41 Copynumber: 3.6 Consensus size: 41
47645226 AGTAAAATGA
47645236 TTCAGACTTTACGTCTAGCAGGCTTGATGCCTGTTAAATGA-
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCTGTTAAAT-AT
* * * *
47645277 TTCAGACTTTACGTCAAGCAGGCTTGAT-ACTGATGAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCTGTTAAATAT
* * *
47645317 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCTGTTAAATAT
* *
47645358 TTCATACTTTACATCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
47645382 ATTTGTCGGT
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 33 0.37
41 55 0.62
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCTGTTAAATAT
Found at i:47647699 original size:19 final size:20
Alignment explanation
Indices: 47647656--47647709 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 20
47647646 CACTAGTATT
47647656 CTCTTTTCCTCTCTTTTCTTTC
1 CTCTTTT-CT-TCTTTTCTTTC
47647678 CTCTTTTCTTCTTTTC-TTC
1 CTCTTTTCTTCTTTTCTTTC
47647697 CTCTCTTT-TTCTT
1 CTCT-TTTCTTCTT
47647710 AGCCGTCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.39
20 10 0.32
21 2 0.06
22 7 0.23
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (20 bp):
CTCTTTTCTTCTTTTCTTTC
Found at i:47653249 original size:28 final size:28
Alignment explanation
Indices: 47653217--47653296 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
47653207 CCATTTTTAA
47653217 TGAAAGGATAACCATTGTGGTGAACCTC
1 TGAAAGGATAACCATTGTGGTGAACCTC
* *
47653245 TGAAAGGAT-AGCATTTGTGGCGAACCTC
1 TGAAAGGATAACCA-TTGTGGTGAACCTC
* * *
47653273 TAAAAAGGA-AGCCATTGTGTTGAA
1 T-GAAAGGATAACCATTGTGGTGAA
47653297 ATCTGAAGGA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
27 3 0.07
28 31 0.74
29 8 0.19
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (28 bp):
TGAAAGGATAACCATTGTGGTGAACCTC
Found at i:47653328 original size:23 final size:23
Alignment explanation
Indices: 47653295--47653338 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
47653285 CATTGTGTTG
*
47653295 AAATCTGAAGGAAAGAAATGGAA
1 AAATCTAAAGGAAAGAAATGGAA
47653318 AAATCTAAAGGAAAGAAATGG
1 AAATCTAAAGGAAAGAAATGG
47653339 CAGACACTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.25, T:0.14
Consensus pattern (23 bp):
AAATCTAAAGGAAAGAAATGGAA
Found at i:47655129 original size:14 final size:14
Alignment explanation
Indices: 47655110--47655139 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
47655100 AGAGTCTTCC
47655110 AATTTCCAAGTTCA
1 AATTTCCAAGTTCA
47655124 AATTTCCAAGTTCA
1 AATTTCCAAGTTCA
47655138 AA
1 AA
47655140 CATTGTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (14 bp):
AATTTCCAAGTTCA
Found at i:47656817 original size:23 final size:23
Alignment explanation
Indices: 47656782--47656835 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
47656772 ACAAGATAAA
*
47656782 AAAATATTAATA-TTTATATTATT
1 AAAATATTAATATTTTATACTA-T
* *
47656805 AAAATGTTCATATTTTATACTAT
1 AAAATATTAATATTTTATACTAT
47656828 AAAATATT
1 AAAATATT
47656836 TCTTACTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (23 bp):
AAAATATTAATATTTTATACTAT
Found at i:47665513 original size:86 final size:86
Alignment explanation
Indices: 47665423--47665603 Score: 355
Period size: 86 Copynumber: 2.1 Consensus size: 86
47665413 AATATAATTG
47665423 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
1 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
47665488 TGTTAAGTATTAATGTTGATA
66 TGTTAAGTATTAATGTTGATA
47665509 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
1 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
47665574 TGTTAAGTATTAATGTTGATA
66 TGTTAAGTATTAATGTTGATA
47665595 TAATT-TTAT
1 TAATTATTAT
47665604 GTGGAGAGAA
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 4 0.04
86 91 0.96
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (86 bp):
TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
TGTTAAGTATTAATGTTGATA
Found at i:47665745 original size:51 final size:51
Alignment explanation
Indices: 47665670--47665886 Score: 303
Period size: 51 Copynumber: 4.0 Consensus size: 51
47665660 TATACGTAAA
47665670 AATTAT-CATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
47665720 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGG----TAA-A-T-----AAC-ATTAAACCAAC
47665783 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
47665834 AATTATACATACACCAACAATGTTTTTTAGGG-ACAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTA-AATAACATTAAACCAAC
47665885 AA
1 AA
47665887 GTAATTTTAG
Statistics
Matches: 153, Mismatches: 0, Indels: 27
0.85 0.00 0.15
Matches are distributed among these distances:
50 7 0.05
51 87 0.57
52 3 0.02
55 3 0.02
56 1 0.01
57 2 0.01
58 1 0.01
59 3 0.02
62 3 0.02
63 43 0.28
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.28
Consensus pattern (51 bp):
AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
Found at i:47665777 original size:12 final size:12
Alignment explanation
Indices: 47665760--47665787 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
47665750 GGTAAATAAC
47665760 ATTAAACCAACA
1 ATTAAACCAACA
47665772 ATTAAACCAACA
1 ATTAAACCAACA
47665784 ATTA
1 ATTA
47665788 TACATACACC
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:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (12 bp):
ATTAAACCAACA
Found at i:47665787 original size:63 final size:63
Alignment explanation
Indices: 47665709--47665838 Score: 260
Period size: 63 Copynumber: 2.1 Consensus size: 63
47665699 GGTAAATAAC
47665709 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
47665772 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
47665835 ATTA
1 ATTA
47665839 TACATACACC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.28
Consensus pattern (63 bp):
ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
Found at i:47665811 original size:114 final size:113
Alignment explanation
Indices: 47665670--47665886 Score: 409
Period size: 114 Copynumber: 1.9 Consensus size: 113
47665660 TATACGTAAA
47665670 AATTATCATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACACC
1 AATTATCATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACACC
47665735 AACAATGTTTTTTAGGGTA-AATAACATTAAACCAACAATTAAACCAAC
66 AACAATGTTTTTTAGGG-ACAATAACATTAAACCAACAATTAAACCAAC
47665783 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
1 AATTAT-CATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
47665848 CAACAATGTTTTTTAGGGACAATAACATTAAACCAACAA
65 CAACAATGTTTTTTAGGGACAATAACATTAAACCAACAA
47665887 GTAATTTTAG
Statistics
Matches: 102, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
113 7 0.07
114 95 0.93
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.28
Consensus pattern (113 bp):
AATTATCATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACACC
AACAATGTTTTTTAGGGACAATAACATTAAACCAACAATTAAACCAAC
Found at i:47665895 original size:33 final size:34
Alignment explanation
Indices: 47665832--47665942 Score: 115
Period size: 33 Copynumber: 3.4 Consensus size: 34
47665822 CATTAAACCA
* *
47665832 ACAATTATACATACACCAACAATGT-TTTTTAGGG
1 ACAATTATACATAAACCAACAA-GTAATTTTAGGG
47665866 ACAA-TA-ACATTAAACCAACAAGTAATTTTA-GG
1 ACAATTATACA-TAAACCAACAAGTAATTTTAGGG
* * *
47665898 TCAATTATACATACACCAACAATTAATTTTA-GG
1 ACAATTATACATAAACCAACAAGTAATTTTAGGG
*
47665931 TCAATTATACAT
1 ACAATTATACAT
47665943 GCTTTATAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
32 10 0.15
33 51 0.75
34 7 0.10
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (34 bp):
ACAATTATACATAAACCAACAAGTAATTTTAGGG
Found at i:47669162 original size:120 final size:120
Alignment explanation
Indices: 47668965--47669827 Score: 1595
Period size: 120 Copynumber: 7.2 Consensus size: 120
47668955 TTTTCAAGTT
47668965 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
47669030 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
47669085 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
47669150 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
47669205 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
47669270 TAATATAAGAATATTAATTATTAAGAA-TTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
47669324 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
47669389 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
47669444 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
47669509 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
*
47669564 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* ** *
47669629 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
*
47669685 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * *
47669750 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
47669805 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
47669828 TAAATATGAT
Statistics
Matches: 731, Mismatches: 8, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
119 121 0.17
120 493 0.67
121 115 0.16
122 2 0.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
Found at i:47669394 original size:239 final size:240
Alignment explanation
Indices: 47668965--47669827 Score: 1604
Period size: 239 Copynumber: 3.6 Consensus size: 240
47668955 TTTTCAAGTT
47668965 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
47669030 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAA
47669095 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
47669160 ATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
196 ATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
47669205 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
47669270 TAATATAAGAATATTAATTATTAAGAATTTT-TTAAATTATATAGTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAA
47669334 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
47669399 ATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
196 ATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
47669444 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
47669509 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAA
*
47669574 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
* ** *
47669639 ATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
196 ATATTAAT--TATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
*
47669685 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
47669750 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAA
47669815 TAATAATTATGTT
131 TAATAATTATGTT
47669828 TAAATATGAT
Statistics
Matches: 612, Mismatches: 8, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
239 241 0.39
240 197 0.32
241 174 0.28
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (240 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAA
TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
ATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
Found at i:47669563 original size:18 final size:17
Alignment explanation
Indices: 47669535--47669569 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47669525 ATTATTAAGA
*
47669535 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
47669552 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
47669570 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:47669628 original size:359 final size:360
Alignment explanation
Indices: 47668965--47669827 Score: 1604
Period size: 359 Copynumber: 2.4 Consensus size: 360
47668955 TTTTCAAGTT
47668965 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
47669030 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAA
47669095 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
*
47669160 ATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAATAATAATTAT
196 ATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAATAATAATTAT
* *
47669225 GTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAAT-T
261 GTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATT-ATCA
*
47669289 ATTAAGAATTT-TTTAAATTATATAGTTTAATTAAA
325 ATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
47669324 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
47669389 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAA
47669454 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
*
47669519 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
196 ATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAATAATAATTAT
47669584 GTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTATCCA
261 GTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAT-CA
*
47669649 ATTAAGAATTTCATTAAATTATATATTTTAATTAAA
325 ATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
*
47669685 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * *
47669750 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAA
47669815 TAATAATTATGTT
131 TAATAATTATGTT
47669828 TAAATATGAT
Statistics
Matches: 491, Mismatches: 10, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
358 2 0.00
359 317 0.65
360 11 0.02
361 161 0.33
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (360 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAA
TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
ATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAATAATAATTAT
GTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTATCAA
TTAAGAATTTCATTAAATTATATAGTTTAATTAAA
Found at i:47670024 original size:44 final size:45
Alignment explanation
Indices: 47669975--47670065 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
47669965 ACCTCTATTC
* * *
47669975 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
47670019 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
47670064 CA
1 CA
47670066 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:47670067 original size:16 final size:16
Alignment explanation
Indices: 47670046--47670114 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
47670036 GATTAGCTAT
47670046 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47670062 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
47670079 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
47670095 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
47670111 TACA
1 TACA
47670115 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:47670088 original size:33 final size:32
Alignment explanation
Indices: 47670046--47670114 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
47670036 GATTAGCTAT
47670046 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
47670079 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
47670111 TACA
1 TACA
47670115 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:47671844 original size:15 final size:15
Alignment explanation
Indices: 47671824--47671857 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
47671814 AAAAAAGTTT
47671824 CGGTTAAGTTAAATC
1 CGGTTAAGTTAAATC
47671839 CGGTTAAGTTAAATC
1 CGGTTAAGTTAAATC
47671854 CGGT
1 CGGT
47671858 CTATTTGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (15 bp):
CGGTTAAGTTAAATC
Found at i:47678187 original size:32 final size:32
Alignment explanation
Indices: 47678148--47678209 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
47678138 ATTAAAGAAA
47678148 GGGGATATTTGGTCAAGCTAACATTGAGTGAG
1 GGGGATATTTGGTCAAGCTAACATTGAGTGAG
47678180 GGGGATATTTGGTCAAGCTAACATTGAGTG
1 GGGGATATTTGGTCAAGCTAACATTGAGTG
47678210 CATGGTATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.34, T:0.29
Consensus pattern (32 bp):
GGGGATATTTGGTCAAGCTAACATTGAGTGAG
Found at i:47688194 original size:14 final size:15
Alignment explanation
Indices: 47688175--47688207 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
47688165 TTTAATTTTC
47688175 AAAATTTCAAAAAA-
1 AAAATTTCAAAAAAT
*
47688189 AAAATTTTAAAAAAT
1 AAAATTTCAAAAAAT
47688204 AAAA
1 AAAA
47688208 ATTGCATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAATTTCAAAAAAT
Found at i:47688240 original size:30 final size:31
Alignment explanation
Indices: 47688206--47688307 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
47688196 TAAAAAATAA
*
47688206 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
47688236 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
47688266 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
47688296 AAATTTCATTTT
1 AAATTTCATTTT
47688308 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:47688846 original size:13 final size:13
Alignment explanation
Indices: 47688826--47688887 Score: 51
Period size: 14 Copynumber: 4.9 Consensus size: 13
47688816 CAGGCCAGCC
*
47688826 CAAAAAAAACAAAG
1 CAAAAAAAA-GAAG
*
47688840 CAAAAAAAAGCAG
1 CAAAAAAAAGAAG
47688853 C-AAAAAAAGAAG
1 CAAAAAAAAGAAG
*
47688865 ---AAGAAAGAAG
1 CAAAAAAAAGAAG
47688875 CAGAAAAAAAGAA
1 CA-AAAAAAAGAA
47688888 TAAGAAAGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
10 9 0.23
12 10 0.26
13 3 0.08
14 17 0.44
ACGTcount: A:0.74, C:0.10, G:0.16, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAGAAG
Found at i:47688849 original size:10 final size:11
Alignment explanation
Indices: 47688831--47688885 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 11
47688821 CAGCCCAAAA
47688831 AAAACAAAGCA-
1 AAAA-AAAGCAG
47688842 AAAAAAAGCAG
1 AAAAAAAGCAG
*
47688853 CAAAAAAAGAAG
1 -AAAAAAAGCAG
47688865 AAGAAAGAAGCAG
1 AA-AAA-AAGCAG
47688878 AAAAAAAG
1 AAAAAAAG
47688886 AATAAGAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 6 0.16
11 9 0.24
12 16 0.42
13 7 0.18
ACGTcount: A:0.73, C:0.09, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAAAAGCAG
Found at i:47688881 original size:24 final size:25
Alignment explanation
Indices: 47688847--47688902 Score: 96
Period size: 24 Copynumber: 2.3 Consensus size: 25
47688837 AAGCAAAAAA
47688847 AAGCAGCAAAAAAAGAAGAAGAAAG
1 AAGCAGCAAAAAAAGAAGAAGAAAG
*
47688872 AAGCAG-AAAAAAAGAATAAGAAAG
1 AAGCAGCAAAAAAAGAAGAAGAAAG
47688896 AAGCAGC
1 AAGCAGC
47688903 CCACTTTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 23 0.79
25 6 0.21
ACGTcount: A:0.66, C:0.09, G:0.23, T:0.02
Consensus pattern (25 bp):
AAGCAGCAAAAAAAGAAGAAGAAAG
Found at i:47689531 original size:17 final size:17
Alignment explanation
Indices: 47689488--47689535 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
47689478 AGAAAAAAAT
47689488 CGTGTTTCAAAAATTTTCA
1 CGTGTTTC-AAAA-TTTCA
47689507 --TGTCTTCAAAATTTCA
1 CGTGT-TTCAAAATTTCA
47689523 CGTGTTTCAAAAT
1 CGTGTTTCAAAAT
47689536 AATAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 5 0.19
17 15 0.58
18 6 0.23
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (17 bp):
CGTGTTTCAAAATTTCA
Found at i:47689638 original size:16 final size:16
Alignment explanation
Indices: 47689590--47689638 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
47689580 TTTCTTTCTA
*
47689590 AAAAAATCGTGTTTTC
1 AAAAATTCGTGTTTTC
47689606 AAAAATTTCCGTG-TTTC
1 AAAAA-TT-CGTGTTTTC
47689623 AAAAATTCGTGTTTTC
1 AAAAATTCGTGTTTTC
47689639 GTGTTTTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 4 0.14
16 11 0.38
17 10 0.34
18 4 0.14
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (16 bp):
AAAAATTCGTGTTTTC
Found at i:47689682 original size:9 final size:9
Alignment explanation
Indices: 47689668--47689703 Score: 72
Period size: 9 Copynumber: 4.0 Consensus size: 9
47689658 CTCGTGTTTC
47689668 AAAAAAAAT
1 AAAAAAAAT
47689677 AAAAAAAAT
1 AAAAAAAAT
47689686 AAAAAAAAT
1 AAAAAAAAT
47689695 AAAAAAAAT
1 AAAAAAAAT
47689704 TCTCGTGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:47689847 original size:17 final size:17
Alignment explanation
Indices: 47689766--47690191 Score: 209
Period size: 17 Copynumber: 25.0 Consensus size: 17
47689756 AAATTTAGTG
47689766 TTTTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
47689784 TTTTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
*
47689802 TCTGT-GTGTTTTCAAAAA
1 T-TTTCGTG-TTTCAAAAA
* * *
47689820 TTCTAGCGTTTCAAAAA
1 TTTTCGTGTTTCAAAAA
*
47689837 TTTTCGTGTTTAAAAAAAA
1 TTTTCGTGTTT--CAAAAA
* *
47689856 TTTACGTGTTTTCACAAA
1 TTTTCGTG-TTTCAAAAA
*
47689874 TTTTCGTGTTTCACAAA
1 TTTTCGTGTTTCAAAAA
*
47689891 TTCTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
* * *
47689909 -CTCCAGTGTTTC-AAAG
1 TTTTC-GTGTTTCAAAAA
* *
47689925 TTTCCATGTTTTC-AAAA
1 TTTTCGTG-TTTCAAAAA
* * *
47689942 TTCTCGCGTTTAAAAAA
1 TTTTCGTGTTTCAAAAA
**
47689959 AATTCGTGTTTCAAAATA
1 TTTTCGTGTTTCAAAA-A
* *
47689977 TTCTCGTATTTC---AA
1 TTTTCGTGTTTCAAAAA
**
47689991 TTTT--TGTTT-TTAAA
1 TTTTCGTGTTTCAAAAA
47690005 ---TCGTGTTTCAAAAA
1 TTTTCGTGTTTCAAAAA
* * *
47690019 ATATCGTGTTTTAAAAA
1 TTTTCGTGTTTCAAAAA
*
47690036 TTTTCGTGTTTCTAAAA
1 TTTTCGTGTTTCAAAAA
* * *
47690053 TTTCCCTGTTT-TAAAA
1 TTTTCGTGTTTCAAAAA
**
47690069 TTCCCGTGTTTCAAAAAAAA
1 TTTTCGTGTTTC---AAAAA
* * *
47690089 ATGTCGTGTTTTAAGAAA
1 TTTTCGTGTTTCAA-AAA
* *
47690107 ATTTCGTTTTTCTAAAAA
1 TTTTCGTGTTTC-AAAAA
*
47690125 TTTTCGTGTTTCTAAAA
1 TTTTCGTGTTTCAAAAA
*
47690142 TTTTCGTGTTT-ACAAA
1 TTTTCGTGTTTCAAAAA
*
47690158 TTCTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
* *
47690176 TTCTCGTATTT-AAAAA
1 TTTTCGTGTTTCAAAAA
47690192 AAAACTTTCG
Statistics
Matches: 317, Mismatches: 63, Indels: 58
0.72 0.14 0.13
Matches are distributed among these distances:
11 1 0.00
12 4 0.01
13 5 0.02
14 9 0.03
15 1 0.00
16 37 0.12
17 127 0.40
18 102 0.32
19 16 0.05
20 15 0.05
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.45
Consensus pattern (17 bp):
TTTTCGTGTTTCAAAAA
Found at i:47689856 original size:19 final size:18
Alignment explanation
Indices: 47689766--47689884 Score: 71
Period size: 18 Copynumber: 6.6 Consensus size: 18
47689756 AAATTTAGTG
**
47689766 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTAAAAAAA
**
47689784 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTAAAAAAA
* **
47689802 TCTGT-GTGTTTTCAAAAA
1 T-TTTCGTGTTTAAAAAAA
* * * *
47689820 TTCTAGCGTTT-CAAAAA
1 TTTTCGTGTTTAAAAAAA
47689837 TTTTCGTGTTTAAAAAAAA
1 TTTTCGTGTTT-AAAAAAA
* ** *
47689856 TTTACGTGTTTTCACAAA
1 TTTTCGTGTTTAAAAAAA
47689874 TTTTCGTGTTT
1 TTTTCGTGTTT
47689885 CACAAATTCT
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
17 16 0.19
18 52 0.61
19 17 0.20
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.47
Consensus pattern (18 bp):
TTTTCGTGTTTAAAAAAA
Found at i:47690131 original size:89 final size:88
Alignment explanation
Indices: 47690005--47690175 Score: 247
Period size: 89 Copynumber: 1.9 Consensus size: 88
47689995 TGTTTTTAAA
47690005 TCGTGTTTCAAAAAATATCGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTTA-AAA
1 TCGTGTTTCAAAAAATATCGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTCCCTG-TTTACAAA
47690069 TTCCCGTG-TTTCAAAAAAAAATG
65 TTCCCGTGTTTTCAAAAAAAAATG
* * * * *
47690092 TCGTGTTTTAAGAAAATTTCGTTTTTCTAAAAATTTTCGTGTTTCTAAAATTTTCGTGTTTACAA
1 TCGTGTTTCAA-AAAATATCGTGTTT-TAAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTACAA
*
47690157 ATTCTCGTGTTTTCAAAAA
64 ATTCCCGTGTTTTCAAAAA
47690176 TTCTCGTATT
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
87 10 0.14
88 16 0.22
89 39 0.53
90 9 0.12
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (88 bp):
TCGTGTTTCAAAAAATATCGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTACAAAT
TCCCGTGTTTTCAAAAAAAAATG
Found at i:47690192 original size:18 final size:18
Alignment explanation
Indices: 47690155--47690193 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
47690145 TCGTGTTTAC
* **
47690155 AAATTCTCGTGTTTTCAA
1 AAATTCTCGTATTTAAAA
47690173 AAATTCTCGTATTTAAAA
1 AAATTCTCGTATTTAAAA
47690191 AAA
1 AAA
47690194 AACTTTCGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (18 bp):
AAATTCTCGTATTTAAAA
Found at i:47690201 original size:89 final size:86
Alignment explanation
Indices: 47690014--47690205 Score: 217
Period size: 89 Copynumber: 2.2 Consensus size: 86
47690004 ATCGTGTTTC
* *
47690014 AAAAAATATCGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTTAAAATTCCCGTGTT
1 AAAAAATTTCGTTTTTTAAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTTAAAATTCCCGTGTT
* * *
47690079 TCAAAAAAAAATGTCGTGTTTTA
66 TC--AAAAAAATCTCGTATTTAA
* * * *
47690102 AGAAAATTTCGTTTTTCTAAAAATTTTCGTGTTTCTAAAATTTTCGTG-TTTACAAATTCTCGTG
1 AAAAAATTTCGTTTTT-TAAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTTA-AAATTCCCGTG
*
47690166 TTTTC-AAAAATTCTCGTATTTAAA
64 -TTTCAAAAAAATCTCGTATTT-AA
47690190 AAAAAACTTTCGTTTT
1 AAAAAA-TTTCGTTTT
47690206 AAAAAAGAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
87 13 0.15
88 23 0.26
89 48 0.55
90 4 0.05
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (86 bp):
AAAAAATTTCGTTTTTTAAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTTAAAATTCCCGTGTT
TCAAAAAAATCTCGTATTTAA
Found at i:47707866 original size:72 final size:72
Alignment explanation
Indices: 47707760--47708949 Score: 2095
Period size: 72 Copynumber: 16.6 Consensus size: 72
47707750 AATTTCAATG
47707760 TTTC-AAATTCAACTCATA-TGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
47707823 TTTCTGT
66 TTTCTGT
* * * *
47707830 TTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
47707895 TTTCTGCT
66 TTTCTG-T
47707903 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
47707968 TTTCTGT
66 TTTCTGT
47707975 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
47708040 TTTCTGT
66 TTTCTGT
*
47708047 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
47708112 TTTCTGT
66 TTTCTGT
47708119 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
47708184 TTTCTGCT
66 TTTCTG-T
47708192 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
47708257 TTTCTGT
66 TTTCTGT
47708264 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
47708329 TTTCTGT
66 TTTCTGT
*
47708336 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
47708401 TTTCTGT
66 TTTCTGT
* *
47708408 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
47708473 TTTCTGT
66 TTTCTGT
* * * *
47708480 TTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
47708545 TTTCTGCT
66 TTTCTG-T
47708553 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
47708618 TTTCTGT
66 TTTCTGT
*
47708625 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
47708690 TTTCTGT
66 TTTCTGT
47708697 TTTC-AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
*
47708761 TTTCCGT
66 TTTCTGT
47708768 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
47708833 TTTCTGT
66 TTTCTGT
* * * * *
47708840 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGATACATTGAGGTATTTTTAG
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
*
47708905 TTTATGT
66 TTTCTGT
* ** *
47708912 TTT--AAATT-GACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
47708950 TTTAATTTTT
Statistics
Matches: 1080, Mismatches: 34, Indels: 13
0.96 0.03 0.01
Matches are distributed among these distances:
69 26 0.02
70 9 0.01
71 82 0.08
72 755 0.70
73 208 0.19
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (72 bp):
TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
TTTCTGT
Found at i:47708297 original size:289 final size:288
Alignment explanation
Indices: 47707760--47709217 Score: 2434
Period size: 289 Copynumber: 5.1 Consensus size: 288
47707750 AATTTCAATG
*
47707760 TTTC-AAATTCAACTCATA-TGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
* * *
47707823 TTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTA
66 TTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
*
47707888 TTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
131 ATTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
47707953 TTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
195 TTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
47708018 AGACACGTTGAGGTAATTTCAATTTCTGT
260 AGACACGTTGAGGTAATTTCAATTTCTGT
47708047 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
47708112 TTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
66 TTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
47708177 ATTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
131 ATTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
47708242 TTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
195 TTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
47708307 AGACACGTTGAGGTAATTTCAATTTCTGT
260 AGACACGTTGAGGTAATTTCAATTTCTGT
47708336 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
* *
47708401 TTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTA
66 TTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
* * *
47708466 ATTTCAATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
131 ATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
*
47708531 TGAGGTATTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
196 TGAGGTAATTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
47708596 AGACACGTTGAGGTAATTTCAATTTCTGT
260 AGACACGTTGAGGTAATTTCAATTTCTGT
47708625 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
47708690 TTTCTGTTTTC-AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
66 TTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
*
47708754 ATTTCAATTTCCGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
131 ATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
47708819 TGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
196 TGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
* * * * * *
47708884 GATACATTGAGGTATTTTTAGTTTATGT
261 GACACGTTGAGGTAATTTCAATTTCTGT
* *
47708912 TTT--AAATT-GACTCATATTGCGAG--A-G-G-TGAG--TTAAG-C-C---------TTTT-AA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
*
47708955 TTTTTGTTTTTC-AAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
66 TTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
47709018 AATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
130 AATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
* *
47709083 TTGAGGTATTTTCAATTTCTGCTTCTC-AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
195 TTGAGGTAATTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
47709147 AAGACACGTTGAGGTAATTTCAATCTT-TGT
259 AAGACACGTTGAGGTAATTTCAAT-TTCTGT
**
47709177 TTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
47709218 TTTAATTTCT
Statistics
Matches: 1118, Mismatches: 37, Indels: 44
0.93 0.03 0.04
Matches are distributed among these distances:
265 201 0.18
266 18 0.02
267 5 0.00
268 14 0.01
271 1 0.00
272 1 0.00
273 4 0.00
275 2 0.00
276 1 0.00
277 4 0.00
279 4 0.00
280 1 0.00
281 1 0.00
282 1 0.00
284 14 0.01
285 5 0.00
287 74 0.07
288 213 0.19
289 554 0.50
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (288 bp):
TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
TTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
ATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
TGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
GACACGTTGAGGTAATTTCAATTTCTGT
Found at i:47709069 original size:72 final size:72
Alignment explanation
Indices: 47708953--47709217 Score: 421
Period size: 72 Copynumber: 3.7 Consensus size: 72
47708943 TAAGCCTTTT
* *
47708953 AATTTTTGTTTTTCAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGCTTTTCAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
47709017 TAATTTC
66 TAATTTC
47709024 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTGCTTTTC-AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
*
47709088 GTATTTTC
65 GTAATTTC
*
47709096 AATTTCTGCTTCTCAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGCTTTTCAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
47709161 TAATTTC
66 TAATTTC
**
47709168 AATCTT-TG-TTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AAT-TTCTGCTTTTC-AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
47709218 TTTAATTTCT
Statistics
Matches: 182, Mismatches: 7, Indels: 9
0.92 0.04 0.05
Matches are distributed among these distances:
70 5 0.03
71 14 0.08
72 157 0.86
73 6 0.03
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (72 bp):
AATTTCTGCTTTTCAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
TAATTTC
Found at i:47709245 original size:55 final size:54
Alignment explanation
Indices: 47709174--47709328 Score: 240
Period size: 55 Copynumber: 2.8 Consensus size: 54
47709164 TTTCAATCTT
* *
47709174 TGTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT-AATTTC
1 TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTCAAATTC
*
47709227 TGTTTTTCAAAAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAAATTC
1 TG-TTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT-CAAATTC
*
47709284 TGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
1 TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
47709329 GGCTCACGTG
Statistics
Matches: 93, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
53 2 0.02
54 5 0.05
55 74 0.80
56 5 0.05
57 7 0.08
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (54 bp):
TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTCAAATTC
Found at i:47709634 original size:30 final size:31
Alignment explanation
Indices: 47709600--47709701 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
47709590 TTAAAAATAA
*
47709600 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
47709630 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
47709660 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
47709690 AAATTTCATTTT
1 AAATTTCATTTT
47709702 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:47710657 original size:17 final size:17
Alignment explanation
Indices: 47710614--47710661 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
47710604 AGAAAAAAAT
47710614 CGTGTTTCAAAAATTTTCA
1 CGTGTTTC-AAAA-TTTCA
47710633 --TGTCTTCAAAATTTCA
1 CGTGT-TTCAAAATTTCA
47710649 CGTGTTTCAAAAT
1 CGTGTTTCAAAAT
47710662 AATAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 5 0.19
17 15 0.58
18 6 0.23
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (17 bp):
CGTGTTTCAAAATTTCA
Found at i:47710737 original size:15 final size:16
Alignment explanation
Indices: 47710716--47710764 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
47710706 TTTCTTTCTA
*
47710716 AAAAAATCGTGTTTTC
1 AAAAATTCGTGTTTTC
47710732 AAAAATTTTCGTG-TTTC
1 AAAAA--TTCGTGTTTTC
47710749 AAAAATTCGTGTTTTC
1 AAAAATTCGTGTTTTC
47710765 GTGTTTTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 6 0.21
16 9 0.31
17 9 0.31
18 5 0.17
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (16 bp):
AAAAATTCGTGTTTTC
Found at i:47710748 original size:17 final size:18
Alignment explanation
Indices: 47710722--47710764 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
47710712 TCTAAAAAAA
47710722 TCGTGTTTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
47710740 TCGTG-TTTCAAAAA--T
1 TCGTGTTTTCAAAAATTT
47710755 TCGTGTTTTC
1 TCGTGTTTTC
47710765 GTGTTTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.25
16 4 0.17
17 9 0.38
18 5 0.21
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.49
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTT
Found at i:47710816 original size:19 final size:18
Alignment explanation
Indices: 47710794--47710838 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 18
47710784 CTCGTGTTTC
47710794 AAAAAAAAATAAAAATAAT
1 AAAAAAAAATAAAAA-AAT
*
47710813 AAAAAATAATAAAAAAAT
1 AAAAAAAAATAAAAAAAT
47710831 AAAAAAAA
1 AAAAAAAA
47710839 TTCTCGTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (18 bp):
AAAAAAAAATAAAAAAAT
Found at i:47710836 original size:9 final size:9
Alignment explanation
Indices: 47710795--47710839 Score: 65
Period size: 9 Copynumber: 5.0 Consensus size: 9
47710785 TCGTGTTTCA
47710795 AAAAAAAAT
1 AAAAAAAAT
*
47710804 AAAAATAAT
1 AAAAAAAAT
47710813 AAAAAATAAT
1 AAAAAA-AAT
47710823 -AAAAAAAT
1 AAAAAAAAT
47710831 AAAAAAAAT
1 AAAAAAAAT
47710840 TCTCGTGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 3 0.09
9 26 0.81
10 3 0.09
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:47710955 original size:19 final size:18
Alignment explanation
Indices: 47710902--47711332 Score: 216
Period size: 18 Copynumber: 25.0 Consensus size: 18
47710892 AAATTTAGTG
*
47710902 TTTTCGTATTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
47710920 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
47710938 TCTTT-GTGTTTTCAAAAA
1 T-TTTCGTGTTTTCAAAAA
* * *
47710956 TTCTGGCG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
**
47710973 TTTTCGTGTTTAAAAAAAA
1 TTTTCGTGTTT-TCAAAAA
* *
47710992 TTTACGTGTTTTCACAAA
1 TTTTCGTGTTTTCAAAAA
*
47711010 TTTTCGTG-TTTCACAAA
1 TTTTCGTGTTTTCAAAAA
*
47711027 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
47711045 -CTCCAGTG-TTTC-AAAG
1 TTTTC-GTGTTTTCAAAAA
* *
47711061 TTTCCATGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* *
47711079 TTCTCGCG-TTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
**
47711095 AATTCGTG-TTTCAAAATA
1 TTTTCGTGTTTTCAAAA-A
* **
47711113 TTCTCG-CATTTC---AA
1 TTTTCGTGTTTTCAAAAA
**
47711127 TTTT--TGTTTT-TTAAA
1 TTTTCGTGTTTTCAAAAA
47711142 ---TCGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* *
47711156 ATGTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
*
47711173 TTTTCGTG-TTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
* *
47711190 TTTCCCTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
**
47711207 TTCCCGTG-TTTCAAAAAAAA
1 TTTTCGTGTTTTC---AAAAA
* *
47711227 ATGTCGTGTTTT-AAGAAA
1 TTTTCGTGTTTTCAA-AAA
* *
47711245 ATTTCGTTTTTTCTAAAAA
1 TTTTCGTGTTTTC-AAAAA
*
47711264 TTTTCGTG-TTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
*
47711281 TTTTCGTG-TTT-ACAAA
1 TTTTCGTGTTTTCAAAAA
*
47711297 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
47711315 TTCTCGTATTTTTAAAAA
1 TTTTCGTGTTTTCAAAAA
47711333 AACTTTCGTT
Statistics
Matches: 317, Mismatches: 61, Indels: 70
0.71 0.14 0.16
Matches are distributed among these distances:
12 1 0.00
13 6 0.02
14 9 0.03
15 3 0.01
16 33 0.10
17 107 0.34
18 116 0.37
19 27 0.09
20 12 0.04
21 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:47710983 original size:17 final size:17
Alignment explanation
Indices: 47710911--47711321 Score: 209
Period size: 17 Copynumber: 23.9 Consensus size: 17
47710901 GTTTTCGTAT
47710911 TTTCAAAAATTTTCGTG
1 TTTCAAAAATTTTCGTG
47710928 TTTTCAAAAATCTTT-GTG
1 -TTTCAAAAAT-TTTCGTG
* * *
47710946 TTTTCAAAAATTCTGGCG
1 -TTTCAAAAATTTTCGTG
47710964 TTTCAAAAATTTTCGTG
1 TTTCAAAAATTTTCGTG
* *
47710981 TTTAAAAAAAATTTACGTG
1 TTT--CAAAAATTTTCGTG
*
47711000 TTTTCACAAATTTTCGTG
1 -TTTCAAAAATTTTCGTG
* *
47711018 TTTCACAAATTCTCGTG
1 TTTCAAAAATTTTCGTG
* *
47711035 TTTTCAAAAA-CTCCAGTG
1 -TTTCAAAAATTTTC-GTG
* * *
47711053 TTTC-AAAGTTTCCATG
1 TTTCAAAAATTTTCGTG
* *
47711069 TTTTCAAAAATTCTCGCG
1 -TTTCAAAAATTTTCGTG
**
47711087 TTT-AAAAAAATTCGTG
1 TTTCAAAAATTTTCGTG
* **
47711103 TTTCAAAATATTCTCGCA
1 TTTCAAAA-ATTTTCGTG
47711121 TTTC---AATTTT--TG
1 TTTCAAAAATTTTCGTG
***
47711133 TTTTTTAAA---TCGTG
1 TTTCAAAAATTTTCGTG
* *
47711147 TTTCAAAAAATGTCGTG
1 TTTCAAAAATTTTCGTG
*
47711164 TTTTAAAAATTTTCGTG
1 TTTCAAAAATTTTCGTG
* * *
47711181 TTTCTAAAATTTCCCTG
1 TTTCAAAAATTTTCGTG
* **
47711198 TTTTAAAAATTCCCGTG
1 TTTCAAAAATTTTCGTG
* *
47711215 TTTCAAAAAAAAATGTCGTG
1 TTTC---AAAAATTTTCGTG
* * *
47711235 TTTTAAGAAAATTTCGTTT
1 TTTCAA-AAATTTTCG-TG
47711254 TTTCTAAAAATTTTCGTG
1 TTTC-AAAAATTTTCGTG
*
47711272 TTTCTAAAATTTTCGTG
1 TTTCAAAAATTTTCGTG
* *
47711289 TTT-ACAAATTCTCGTG
1 TTTCAAAAATTTTCGTG
*
47711305 TTTTCAAAAATTCTCGT
1 -TTTCAAAAATTTTCGT
47711322 ATTTTTAAAA
Statistics
Matches: 300, Mismatches: 65, Indels: 56
0.71 0.15 0.13
Matches are distributed among these distances:
12 4 0.01
14 12 0.04
15 3 0.01
16 27 0.09
17 122 0.41
18 87 0.29
19 27 0.09
20 18 0.06
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (17 bp):
TTTCAAAAATTTTCGTG
Found at i:47713628 original size:24 final size:24
Alignment explanation
Indices: 47713594--47713639 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
47713584 TATATGAAAT
* *
47713594 ATAAATTTTAAATATTTTTAAACA
1 ATAAATATTAAATATTTATAAACA
*
47713618 ATAAATATTAATTATTTATAAA
1 ATAAATATTAAATATTTATAAA
47713640 ATTTAATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAACA
Found at i:47713876 original size:13 final size:13
Alignment explanation
Indices: 47713858--47713891 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
47713848 CTTCCCCTCT
47713858 TGAAAAGCACTTC
1 TGAAAAGCACTTC
* *
47713871 TGAAAAGTACTTT
1 TGAAAAGCACTTC
47713884 TGAAAAGC
1 TGAAAAGC
47713892 TAAAAATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (13 bp):
TGAAAAGCACTTC
Found at i:47725044 original size:23 final size:23
Alignment explanation
Indices: 47724999--47725044 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
47724989 ATGTCTTTTC
*
47724999 TAATTTTAATCTAAAAATGTAAA
1 TAATTTTAATCTAAAAATATAAA
*
47725022 TAATTTTAAATTTAAAAA-ATAAA
1 TAATTTT-AATCTAAAAATATAAA
47725045 AACTTCCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
TAATTTTAATCTAAAAATATAAA
Found at i:47726561 original size:7 final size:7
Alignment explanation
Indices: 47726551--47726577 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
47726541 AGTTTTTAGT
47726551 TTCTAGA
1 TTCTAGA
47726558 TTCTAGA
1 TTCTAGA
47726565 TTCTAGA
1 TTCTAGA
47726572 TTCTAG
1 TTCTAG
47726578 TTGTATTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (7 bp):
TTCTAGA
Found at i:47735571 original size:16 final size:16
Alignment explanation
Indices: 47735542--47735574 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47735532 GTTTTTGAAG
47735542 TATTTTAAATAAATAT
1 TATTTTAAATAAATAT
47735558 TATTGTTAAA-AAATAT
1 TATT-TTAAATAAATAT
47735574 T
1 T
47735575 TTTGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TATTTTAAATAAATAT
Found at i:47736269 original size:14 final size:15
Alignment explanation
Indices: 47736244--47736272 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47736234 AAATTGTAAA
47736244 ATAAATATAAAATAT
1 ATAAATATAAAATAT
47736259 ATAAA-ATAAAATAT
1 ATAAATATAAAATAT
47736273 TTTTACTATT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAATATAAAATAT
Found at i:47739100 original size:24 final size:24
Alignment explanation
Indices: 47739072--47739117 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
47739062 CTTTTTCCCA
*
47739072 GAAAATATAAGGCTTTTATGGTGG
1 GAAAATATAAGGCTTCTATGGTGG
47739096 GAAAATATAAGGCTTCTATGGT
1 GAAAATATAAGGCTTCTATGGT
47739118 TATTTTTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.33
Consensus pattern (24 bp):
GAAAATATAAGGCTTCTATGGTGG
Found at i:47747337 original size:18 final size:18
Alignment explanation
Indices: 47747314--47747348 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47747304 GGGCTGAGAA
* *
47747314 ATTAATTTAGTTAATTTG
1 ATTAATTAAATTAATTTG
47747332 ATTAATTAAATTAATTT
1 ATTAATTAAATTAATTT
47747349 TTATTTATTT
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:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (18 bp):
ATTAATTAAATTAATTTG
Found at i:47749283 original size:18 final size:18
Alignment explanation
Indices: 47749260--47749295 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
47749250 AAGAAATAGC
*
47749260 AGCAAAATAATACATAAA
1 AGCAAAACAATACATAAA
47749278 AGCAAAACAATACATAAA
1 AGCAAAACAATACATAAA
47749296 TGCTGAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.67, C:0.14, G:0.06, T:0.14
Consensus pattern (18 bp):
AGCAAAACAATACATAAA
Found at i:47749658 original size:20 final size:20
Alignment explanation
Indices: 47749633--47749687 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
47749623 TGTGGTTCAA
*
47749633 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
47749653 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
47749673 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
47749688 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:47753752 original size:26 final size:27
Alignment explanation
Indices: 47753716--47753787 Score: 112
Period size: 26 Copynumber: 2.7 Consensus size: 27
47753706 AAAAATAAAA
47753716 ATTTACCAAAATATTATAA-CTTTTTT
1 ATTTACCAAAATATTATAATCTTTTTT
*
47753742 ATTTACCAAAATATATATAATTTTTTTT
1 ATTTACCAAAATAT-TATAATCTTTTTT
47753770 ATTTACCAAAATA-TATAA
1 ATTTACCAAAATATTATAA
47753788 AAAACAAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
26 19 0.44
27 5 0.12
28 19 0.44
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (27 bp):
ATTTACCAAAATATTATAATCTTTTTT
Found at i:47753786 original size:28 final size:27
Alignment explanation
Indices: 47753716--47753786 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 27
47753706 AAAAATAAAA
47753716 ATTTACCAAAATAT-TATAACTTTTTT
1 ATTTACCAAAATATATATAACTTTTTT
*
47753742 ATTTACCAAAATATATATAATTTTTTTT
1 ATTTACCAAAATATATATAA-CTTTTTT
47753770 ATTTACCAAAATATATA
1 ATTTACCAAAATATATA
47753787 AAAAACAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
26 14 0.33
27 5 0.12
28 23 0.55
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTTACCAAAATATATATAACTTTTTT
Found at i:47753881 original size:27 final size:27
Alignment explanation
Indices: 47753843--47753918 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
47753833 CACTGGTCAC
47753843 GCCAAAACCATTGGCGGCACCAAAGGT
1 GCCAAAACCATTGGCGGCACCAAAGGT
*
47753870 GCCAAAACCATTGGCGGCACCAATGGT
1 GCCAAAACCATTGGCGGCACCAAAGGT
* *
47753897 GCTAATACCATTGGCGGCACCA
1 GCCAAAACCATTGGCGGCACCA
47753919 GTTAATAAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.14
Consensus pattern (27 bp):
GCCAAAACCATTGGCGGCACCAAAGGT
Found at i:47753971 original size:4 final size:4
Alignment explanation
Indices: 47753962--47754085 Score: 98
Period size: 4 Copynumber: 31.0 Consensus size: 4
47753952 GAAGGAGAGG
* *
47753962 GAAA GAAA GAAA GAAA GAAA GAAA G-AA -AAA GAAG GAAA GAAAA GGAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA GAAA
** *
47754009 GGGA GAAGA GAAA AAAA GAAA GAAA G-AA G-AA G-AA GAAAA GGAAAA
1 GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -G-AAA
*
47754054 GAGAA GAAA -AAA GAAA GAAA GAAG GAAA GAAA
1 GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
47754086 AGGAAAGGAG
Statistics
Matches: 101, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
3 16 0.16
4 65 0.64
5 15 0.15
6 5 0.05
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:47754027 original size:48 final size:48
Alignment explanation
Indices: 47753965--47754092 Score: 144
Period size: 43 Copynumber: 2.8 Consensus size: 48
47753955 GGAGAGGGAA
* **
47753965 AGAA-AGAAAGAAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAGGG
1 AGAAGAGAAAAAAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAAG
47754012 AGAAGAGAAAAAAAGAAAGAAAG---AAGAA-G-AAGAAAAGGAAAAG
1 AGAAGAGAAAAAAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAAG
* *
47754055 AGAAGAAAAAAGAAAGAAAGAAGGAAAGAA-AAGGAAAG
1 AGAAGAGAAAA-AAAGAAAGAAAGAAA-AAGAAGGAAAG
47754093 GAGATGAGAT
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
43 22 0.32
44 12 0.18
45 5 0.07
47 6 0.09
48 20 0.29
49 3 0.04
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (48 bp):
AGAAGAGAAAAAAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAAG
Found at i:47760500 original size:15 final size:12
Alignment explanation
Indices: 47760463--47760493 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
47760453 AAAGAAATTT
*
47760463 ATACTCAAAATA
1 ATACACAAAATA
47760475 ATACACAAAATA
1 ATACACAAAATA
47760487 ATACACA
1 ATACACA
47760494 CTAAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.61, C:0.19, G:0.00, T:0.19
Consensus pattern (12 bp):
ATACACAAAATA
Found at i:47760520 original size:36 final size:36
Alignment explanation
Indices: 47760475--47760585 Score: 111
Period size: 26 Copynumber: 3.4 Consensus size: 36
47760465 ACTCAAAATA
*
47760475 ATACACAAAATAATACACACTAAAATTATTAATTTT
1 ATACTCAAAATAATACACACTAAAATTATTAATTTT
*
47760511 ATACTC--AA-AAT--A-A-T---ATTAATAATTTT
1 ATACTCAAAATAATACACACTAAAATTATTAATTTT
47760537 ATACTCAAAATAATACACACTAAAATTATTAA-TTT
1 ATACTCAAAATAATACACACTAAAATTATTAATTTT
*
47760572 -TACTAAAAATAATA
1 ATACTCAAAATAATA
47760586 ACTAACTAAC
Statistics
Matches: 61, Mismatches: 4, Indels: 22
0.70 0.05 0.25
Matches are distributed among these distances:
26 17 0.28
28 2 0.03
29 4 0.07
30 1 0.02
31 2 0.03
32 1 0.02
33 4 0.07
34 15 0.25
35 3 0.05
36 12 0.20
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (36 bp):
ATACTCAAAATAATACACACTAAAATTATTAATTTT
Found at i:47760746 original size:3 final size:3
Alignment explanation
Indices: 47760738--47760778 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
47760728 TCTTAATACT
*
47760738 AAC AAC AAC ACC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
47760779 TAATAATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:47760859 original size:19 final size:21
Alignment explanation
Indices: 47760835--47760873 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
47760825 ACTAAAACAA
*
47760835 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
47760854 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
47760874 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:47760914 original size:10 final size:11
Alignment explanation
Indices: 47760897--47760925 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
47760887 AAAAAAATAC
47760897 CTTCTTTTTCT
1 CTTCTTTTTCT
47760908 C-TCTTTTTCT
1 CTTCTTTTTCT
47760918 CTTCTTTT
1 CTTCTTTT
47760926 CCGCAACAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:47761054 original size:27 final size:27
Alignment explanation
Indices: 47761008--47761070 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
47760998 ACGAATAGTA
**
47761008 CCGCCAATGGTTTTGACACCATTGGTG
1 CCGCCAATGGCATTGACACCATTGGTG
*
47761035 CCGCCAATGGCATTGGCACCATTGGTG
1 CCGCCAATGGCATTGACACCATTGGTG
47761062 CCGCCAATG
1 CCGCCAATG
47761071 ATTTTGACAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (27 bp):
CCGCCAATGGCATTGACACCATTGGTG
Found at i:47763594 original size:31 final size:31
Alignment explanation
Indices: 47763553--47763623 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 31
47763543 TTAAAATTAA
47763553 AAAAATATTTTTATA-ATTTTAAT-AATTTTT
1 AAAAATATTTTTATATATTTT-ATGAATTTTT
*
47763583 AAAAATAATTTTTATATATTTTTTGAATTTTT
1 AAAAAT-ATTTTTATATATTTTATGAATTTTT
47763615 AAAAA-ATTT
1 AAAAATATTT
47763624 AAAAATTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
30 10 0.27
31 10 0.27
32 17 0.46
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (31 bp):
AAAAATATTTTTATATATTTTATGAATTTTT
Found at i:47765826 original size:20 final size:20
Alignment explanation
Indices: 47765800--47765848 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
47765790 TAAAATTTTT
47765800 AATTATTAAAAATTT-TAAA
1 AATTATTAAAAATTTATAAA
47765819 ATATTATT-AAAATTTATAAA
1 A-ATTATTAAAAATTTATAAA
47765839 AA-TATTAAAA
1 AATTATTAAAA
47765849 TTAATATTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.15
19 12 0.44
20 11 0.41
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTATTAAAAATTTATAAA
Found at i:47765844 original size:18 final size:19
Alignment explanation
Indices: 47765789--47765850 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 19
47765779 GGACAAATAG
* *
47765789 TTAAAATTTTTAATTATTA
1 TTAAAATTTTAAAATATTA
47765808 --AAAATTTTAAAATATTA
1 TTAAAATTTTAAAATATTA
47765825 TTAAAATTTATAAAA-A-TA
1 TTAAAATTT-TAAAATATTA
47765843 TTAAAATT
1 TTAAAATT
47765851 AATATTCTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
17 15 0.39
18 10 0.26
19 8 0.21
20 5 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAAAATTTTAAAATATTA
Found at i:47766657 original size:27 final size:28
Alignment explanation
Indices: 47766627--47766685 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
47766617 AAAATTAAAA
47766627 TTAAAA-ACAATTTTTTATTT-TTTATTT
1 TTAAAATACAATTTTTTATTTATTT-TTT
*
47766654 TTAAAATATAATTTTTTATTTATTTTTT
1 TTAAAATACAATTTTTTATTTATTTTTT
47766682 TTAA
1 TTAA
47766686 CGATCTCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 6 0.21
28 20 0.69
29 3 0.10
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (28 bp):
TTAAAATACAATTTTTTATTTATTTTTT
Found at i:47770306 original size:27 final size:25
Alignment explanation
Indices: 47770276--47770462 Score: 87
Period size: 27 Copynumber: 7.7 Consensus size: 25
47770266 ATATTTGAAA
*
47770276 CAAGTTCATGCAAATATACATGCCCAT
1 CAAGTTCATGCAAATATACAT--CTAT
* *
47770303 CAAGTTCATTCAAA-AT---TTTA-
1 CAAGTTCATGCAAATATACATCTAT
*
47770323 CAAGTTCATGCAAATATACATACCCAT
1 CAAGTTCATGCAAATATACAT--CTAT
* * *
47770350 CAAGTTTATTCAAATAT---TTTA-
1 CAAGTTCATGCAAATATACATCTAT
*
47770371 CAAGTTCATGCAAATATACATGACAAT
1 CAAGTTCATGCAAATATACAT--CTAT
* *
47770398 CAAGTTCGTTCAAATAT---T-TA-
1 CAAGTTCATGCAAATATACATCTAT
*
47770418 CAAGTTCATGCAAATATACATGACAAT
1 CAAGTTCATGCAAATATACAT--CTAT
* *
47770445 AAAGTTCATACAAATATA
1 CAAGTTCATGCAAATATA
47770463 TGTAAATAAA
Statistics
Matches: 118, Mismatches: 22, Indels: 40
0.66 0.12 0.22
Matches are distributed among these distances:
20 28 0.24
21 19 0.16
22 1 0.01
23 2 0.02
24 4 0.03
26 5 0.04
27 59 0.50
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.32
Consensus pattern (25 bp):
CAAGTTCATGCAAATATACATCTAT
Found at i:47770439 original size:47 final size:48
Alignment explanation
Indices: 47770275--47770461 Score: 281
Period size: 47 Copynumber: 3.9 Consensus size: 48
47770265 AATATTTGAA
* *
47770275 ACAAGTTCATGCAAATATACATGCCCATCAAGTTCATTCAAA-ATTTT
1 ACAAGTTCATGCAAATATACATGACAATCAAGTTCATTCAAATATTTT
* *
47770322 ACAAGTTCATGCAAATATACAT-ACCCATCAAGTTTATTCAAATATTTT
1 ACAAGTTCATGCAAATATACATGA-CAATCAAGTTCATTCAAATATTTT
*
47770370 ACAAGTTCATGCAAATATACATGACAATCAAGTTCGTTCAAATA-TTT
1 ACAAGTTCATGCAAATATACATGACAATCAAGTTCATTCAAATATTTT
* *
47770417 ACAAGTTCATGCAAATATACATGACAATAAAGTTCATACAAATAT
1 ACAAGTTCATGCAAATATACATGACAATCAAGTTCATTCAAATAT
47770462 ATGTAAATAA
Statistics
Matches: 128, Mismatches: 8, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
47 83 0.65
48 44 0.34
49 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.32
Consensus pattern (48 bp):
ACAAGTTCATGCAAATATACATGACAATCAAGTTCATTCAAATATTTT
Found at i:47770450 original size:95 final size:95
Alignment explanation
Indices: 47770275--47770461 Score: 279
Period size: 95 Copynumber: 2.0 Consensus size: 95
47770265 AATATTTGAA
* *
47770275 ACAAGTTCATGCAAATATACATGCCCATCAAGTTCATTCAAAATTTTACAAGTTCATGCAAATAT
1 ACAAGTTCATGCAAATATACATGACAATCAAGTTCATTCAAAATTTTACAAGTTCATGCAAATAT
* * * *
47770340 ACATACCCATCAAGTTTATTCAAATATTTT
66 ACATACCAATAAAGTTCATACAAATATTTT
*
47770370 ACAAGTTCATGCAAATATACATGACAATCAAGTTCGTTC-AAATATTTACAAGTTCATGCAAATA
1 ACAAGTTCATGCAAATATACATGACAATCAAGTTCATTCAAAAT-TTTACAAGTTCATGCAAATA
47770434 TACATGA-CAATAAAGTTCATACAAATAT
65 TACAT-ACCAATAAAGTTCATACAAATAT
47770462 ATGTAAATAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
94 4 0.05
95 78 0.94
96 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.32
Consensus pattern (95 bp):
ACAAGTTCATGCAAATATACATGACAATCAAGTTCATTCAAAATTTTACAAGTTCATGCAAATAT
ACATACCAATAAAGTTCATACAAATATTTT
Found at i:47773827 original size:21 final size:21
Alignment explanation
Indices: 47773798--47773870 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
47773788 AGTTATCTCA
47773798 TATGAGTTTCAGTTTAACCTT
1 TATGAGTTTCAGTTTAACCTT
* * *
47773819 TATGGGTTTCAGTTCAGCTCTT
1 TATGAGTTTCAGTTTAAC-CTT
* *
47773841 T-TGAGCTTCAGTTTAACCCT
1 TATGAGTTTCAGTTTAACCTT
*
47773861 TATGGGTTTC
1 TATGAGTTTC
47773871 CATTCAACTC
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
20 3 0.08
21 33 0.82
22 4 0.10
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.45
Consensus pattern (21 bp):
TATGAGTTTCAGTTTAACCTT
Found at i:47773853 original size:42 final size:42
Alignment explanation
Indices: 47773798--47773890 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
47773788 AGTTATCTCA
* * *
47773798 TATGAGTTTCAGTTTAACCTTTATGGGTTT-CAGTTCAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCCA-TTCAACTCT
*
47773840 TTTGAGCTTCAGTTTAACCCTTATGGGTTTCCATTCAACTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCCATTCAACTCT
47773882 TATGAGCTT
1 TATGAGCTT
47773891 TCGTTCAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
42 43 0.96
43 2 0.04
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.44
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTTATGGGTTTCCATTCAACTCT
Found at i:47773885 original size:21 final size:20
Alignment explanation
Indices: 47773818--47773911 Score: 62
Period size: 21 Copynumber: 4.5 Consensus size: 20
47773808 AGTTTAACCT
*
47773818 TTATGGGTTTCAGTTCAGCTC
1 TTATGGGTTTCA-TTCAACTC
* * * * *
47773839 TTTTGAGCTTCAGTTTAACCC
1 TTATGGGTTTCA-TTCAACTC
47773860 TTATGGGTTTCCATTCAACTC
1 TTATGGGTTT-CATTCAACTC
* * *
47773881 TTATGAGCTTTCGTTCAATTC
1 TTATG-GGTTTCATTCAACTC
*
47773902 TTACGGGTTT
1 TTATGGGTTT
47773912 TCTTTAGCAC
Statistics
Matches: 55, Mismatches: 16, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
20 4 0.07
21 45 0.82
22 6 0.11
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.45
Consensus pattern (20 bp):
TTATGGGTTTCATTCAACTC
Found at i:47778754 original size:14 final size:14
Alignment explanation
Indices: 47778735--47778764 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
47778725 ATATTGGGGT
47778735 CACTAAAATTTTCA
1 CACTAAAATTTTCA
47778749 CACTAAAATTTTCA
1 CACTAAAATTTTCA
47778763 CA
1 CA
47778765 TTCGTGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.33
Consensus pattern (14 bp):
CACTAAAATTTTCA
Done.