Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 211 of 325
Found at i:65450264 original size:40 final size:40
Alignment explanation
Indices: 65450177--65450353 Score: 182
Period size: 40 Copynumber: 4.4 Consensus size: 40
65450167 GCACTAAGAT
* * * * **
65450177 CCGAAGGCATTTGTGCTAGTCACTATATCCGGACTAAGAT-
1 CCGAAGGCATTCGTGCTAGTTATTATAACCGGGTTAAG-TC
*
65450217 CCGAAGGCAATT-GTGCTAGCTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCTAGTTATTATAACCGGGTTAAGTC
* *
65450257 CCAAAGGCATTCGTG-TGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCT-AGTTATTATAACCGGGTTAAGTC
* **
65450297 CCGAAGGCATTCGTGC-AGGTTATTATAACCAGGCAAAGTC
1 CCGAAGGCATTCGTGCTA-GTTATTATAACCGGGTTAAGTC
65450337 CCGAAGGCATTCGTGCT
1 CCGAAGGCATTCGTGCT
65450354 GGTTGTTACA
Statistics
Matches: 116, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
39 5 0.04
40 108 0.93
41 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCTAGTTATTATAACCGGGTTAAGTC
Found at i:65456989 original size:13 final size:13
Alignment explanation
Indices: 65456971--65456996 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65456961 ATATTATAAT
65456971 TATTTTATGTTAA
1 TATTTTATGTTAA
65456984 TATTTTATGTTAA
1 TATTTTATGTTAA
65456997 AAATAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:65459209 original size:24 final size:24
Alignment explanation
Indices: 65459182--65459344 Score: 299
Period size: 24 Copynumber: 6.8 Consensus size: 24
65459172 GCTGGAAATA
65459182 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
65459206 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
65459230 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
65459254 TATGGCACTATGAGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
65459278 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
65459302 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
65459326 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
65459345 ACATAATAAG
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 135 1.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:65461714 original size:40 final size:40
Alignment explanation
Indices: 65461630--65461806 Score: 207
Period size: 40 Copynumber: 4.4 Consensus size: 40
65461620 GGACTAAGAT
* * * * *
65461630 CCGAAGGCATTTGTGCTAGTCACTATATCCGGACTAAGAT-
1 CCGAAGGCATTCGTGCTAGTTATTATAACCGGGCTAAG-TC
* *
65461670 CCGAAGGCAATT-GTGCTAGCTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCTAGTTATTATAACCGGGCTAAGTC
* *
65461710 CCGAAGGCATTCGTAC-AGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCTA-GTTATTATAACCGGGCTAAGTC
**
65461750 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGCTAAGTC
1 CCGAAGGCATTCGTGCTAGTTATTATAACCGGGCTAAGTC
65461790 CCGAAGGCATTCGTGCT
1 CCGAAGGCATTCGTGCT
65461807 GGTTGTTACA
Statistics
Matches: 120, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
39 5 0.04
40 112 0.93
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCTAGTTATTATAACCGGGCTAAGTC
Found at i:65466180 original size:13 final size:13
Alignment explanation
Indices: 65466158--65466190 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
65466148 AAGGGTCTGT
65466158 TTAT-TAAACTAA
1 TTATCTAAACTAA
65466170 TTATCTAAACTAA
1 TTATCTAAACTAA
*
65466183 TTAACTAA
1 TTATCTAA
65466191 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:65470657 original size:20 final size:21
Alignment explanation
Indices: 65470622--65470661 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
65470612 GCTGTTGTAA
65470622 GGCGATGCACGGGCGTGTGAT
1 GGCGATGCACGGGCGTGTGAT
*
65470643 GGCGA-GCATGGGCGTGTGA
1 GGCGATGCACGGGCGTGTGA
65470662 CGCGGAGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.15, C:0.17, G:0.50, T:0.17
Consensus pattern (21 bp):
GGCGATGCACGGGCGTGTGAT
Found at i:65471035 original size:21 final size:21
Alignment explanation
Indices: 65470995--65471035 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
65470985 CGCTTCTCCT
* *
65470995 ACGCCCGTGTGTTCTGGTACC
1 ACGCCCGTGTATTATGGTACC
*
65471016 ACGCCCGTGTATTATTGTAC
1 ACGCCCGTGTATTATGGTAC
65471036 ACGGCTGAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.29, G:0.24, T:0.32
Consensus pattern (21 bp):
ACGCCCGTGTATTATGGTACC
Found at i:65477793 original size:48 final size:51
Alignment explanation
Indices: 65477679--65477805 Score: 158
Period size: 48 Copynumber: 2.6 Consensus size: 51
65477669 CGAGGCTAAC
* * * *
65477679 GCCATGTCCCAGACATGGTCTTACACT--AGCTCTCACATATCTGTGCCGAT
1 GCCATGTCCAAGACATGGTCTTACACTGAAACTCT-ACATATATGTGCCAAT
65477729 GCCATGTCCTAA-ACATGGTCTTACACTGAAAC-CT-C-TATATGTGCCAAT
1 GCCATGTCC-AAGACATGGTCTTACACTGAAACTCTACATATATGTGCCAAT
65477777 GCCATGTCCAAGACATGGTCTTACACTGA
1 GCCATGTCCAAGACATGGTCTTACACTGA
65477806 CACATCTCGT
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
47 2 0.03
48 37 0.54
49 1 0.01
50 24 0.35
51 3 0.04
52 2 0.03
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (51 bp):
GCCATGTCCAAGACATGGTCTTACACTGAAACTCTACATATATGTGCCAAT
Found at i:65477874 original size:46 final size:44
Alignment explanation
Indices: 65477779--65477893 Score: 142
Period size: 46 Copynumber: 2.5 Consensus size: 44
65477769 GTGCCAATGC
* *
65477779 CATGTCCAAGACATGGTCTTACACTGACACATCTCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGACACATCACGTAGCCGATG
* * *
65477824 CATGTCCCAGACATGTTTTACACTGGCTTACATCACG-AGGCCGATT
1 CATGTCCCAGACATGTCTTACACTGAC--ACATCACGTA-GCCGATG
65477870 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
65477894 AGCTCTCATC
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
44 11 0.18
45 14 0.23
46 36 0.59
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGACACATCACGTAGCCGATG
Found at i:65479788 original size:16 final size:16
Alignment explanation
Indices: 65479767--65479802 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
65479757 CATTTAGGAA
65479767 AAACTTAGAAAAATTC
1 AAACTTAGAAAAATTC
*
65479783 AAACTTAGAAAAATTT
1 AAACTTAGAAAAATTC
65479799 AAAC
1 AAAC
65479803 AGACAGATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.58, C:0.11, G:0.06, T:0.25
Consensus pattern (16 bp):
AAACTTAGAAAAATTC
Found at i:65482734 original size:17 final size:18
Alignment explanation
Indices: 65482692--65482740 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
65482682 AGTTGAAAAG
65482692 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
65482711 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
65482728 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
65482741 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:65483645 original size:40 final size:40
Alignment explanation
Indices: 65483563--65483728 Score: 144
Period size: 40 Copynumber: 4.2 Consensus size: 40
65483553 AAATTGAATG
* * ** *
65483563 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGACT
* * *
65483602 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* * *
65483642 ATAT-CGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
65483681 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
65483721 ATATCCGG
1 ATATCCGG
65483729 TTATATTCCG
Statistics
Matches: 102, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
38 3 0.03
39 42 0.41
40 55 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:65487837 original size:40 final size:40
Alignment explanation
Indices: 65487774--65487941 Score: 156
Period size: 40 Copynumber: 4.2 Consensus size: 40
65487764 CGGGATTTAA
* *
65487774 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCGACTCGCACGATTGCCTTCGGGACCTAGC
* * * * *
65487814 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAGC
1 CCGGATATAGCGACTCGCACGATTGCCTTCGGGACCTAGC
* * * * *
65487854 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCGACTCGCACGATTGCCTTCGGGACCTAGC
*** * ** * *
65487894 CCGGATATAATTACTAGCATAATTGCCTTTGGGACTTAGC
1 CCGGATATAGCGACTCGCACGATTGCCTTCGGGACCTAGC
65487934 CCGGATAT
1 CCGGATAT
65487942 CATTCCAATG
Statistics
Matches: 107, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 107 1.00
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCGACTCGCACGATTGCCTTCGGGACCTAGC
Found at i:65491595 original size:11 final size:12
Alignment explanation
Indices: 65491563--65491594 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
65491553 GTTGTTCGTA
65491563 TTTTTTTTTACT
1 TTTTTTTTTACT
65491575 TTTTTTTTTACT
1 TTTTTTTTTACT
65491587 TTTTTTTT
1 TTTTTTTT
65491595 AAAGAACGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTACT
Found at i:65491892 original size:378 final size:379
Alignment explanation
Indices: 65491197--65492324 Score: 2233
Period size: 379 Copynumber: 3.0 Consensus size: 379
65491187 ATTTTGAATA
65491197 TTTTTTTTTTAC-TTTTTTTTAAAGAACGTTCCTTTAGGTAAATACTAAAGACAGTCAGGGATAC
1 TTTTTTTTTTACTTTTTTTTTAAAGAACGTTCCTTTAGGTAAATACTAAAGACAGTCAGGGATAC
65491261 GATTTAACTTCTATAAGTACACATTCAAAAGATGCCATTTTCGCATGGCCTATATACATTAACCA
66 GATTTAACTTCTATAAGTACACATTCAAAAGATGCCATTTTCGCATGGCCTATATACATTAACCA
65491326 AAATATTCTTCGGCCACTGGTCTATTCTTTACATGCCATAAAATAATTCAAAACATAACAGTAAC
131 AAATATTCTTCGGCCACTGGTCTATTCTTTACATGCCATAAAATAATTCAAAACATAACAGTAAC
65491391 AAGCAGTGGATAGTGATAGTGTGACTAGTTGCTGACGATCCCCGAGCCTGTAGCTTCCAAATGAG
196 AAGCAGTGGATAGTGATAGTGTGACTAGTTGCTGACGATCCCCGAGCCTGTAGCTTCCAAATGAG
65491456 ATCTATAAAACAGAGGAAACAAAGTAAACGGAGTAAGCATTACAATGCTTAGTAAGTTTTAAGCA
261 ATCTATAAAACAGAGGAAACAAAGTAAACGGAGTAAGCATTACAATGCTTAGTAAGTTTTAAGCA
65491521 ATGTCAACAGATAACAATCAAATTATAACATAGTTGTTCGTATTTTTTTTTAC-
326 ATGTCAACAGATAACAATCAAATTATAACATAGTTGTTCGTATTTTTTTTTACT
65491574 TTTTTTTTTTACTTTTTTTTTAAAGAACGTTCCTTTAGGTAAATACTAAAGACAGTCAGGGATAC
1 TTTTTTTTTTACTTTTTTTTTAAAGAACGTTCCTTTAGGTAAATACTAAAGACAGTCAGGGATAC
65491639 GATTTAACTTCTATAAGTACACATTCAAAAGATGCCATTTTCGCATGGCCTATATACATTAACCA
66 GATTTAACTTCTATAAGTACACATTCAAAAGATGCCATTTTCGCATGGCCTATATACATTAACCA
*
65491704 AAATATTCTTCGGCCACTGGTCTATTCTTTACTTGCCATAAAATAATTCAAAACATAACAGTAAC
131 AAATATTCTTCGGCCACTGGTCTATTCTTTACATGCCATAAAATAATTCAAAACATAACAGTAAC
65491769 AAGCAGTGGATAGTGATAGTGTGACTAGTTGCTGACGATCCCCGAGCCTGTAGCTTCCAAATGAG
196 AAGCAGTGGATAGTGATAGTGTGACTAGTTGCTGACGATCCCCGAGCCTGTAGCTTCCAAATGAG
65491834 ATCTATAAAACAGAGGAAACAAAGTAAACGGAGTAAGCATTACAATGCTTAGTAAGTTTTAAGCA
261 ATCTATAAAACAGAGGAAACAAAGTAAACGGAGTAAGCATTACAATGCTTAGTAAGTTTTAAGCA
65491899 ATGTCAACAGATAACAATCAAATTATAACATAGTTGTTCGTATTTTTTTTTACT
326 ATGTCAACAGATAACAATCAAATTATAACATAGTTGTTCGTATTTTTTTTTACT
65491953 TTTTTTTTTTACTTTTTTTTTAAAGAACGTTCCTTTAGGTAAATACTAAAGACAGTCAGGGATAC
1 TTTTTTTTTTACTTTTTTTTTAAAGAACGTTCCTTTAGGTAAATACTAAAGACAGTCAGGGATAC
65492018 GATTTAACTTCTATAAGTACACATTCAAAAGATGCCATTTTCGCATGGCCTATATACATTAACCA
66 GATTTAACTTCTATAAGTACACATTCAAAAGATGCCATTTTCGCATGGCCTATATACATTAACCA
65492083 AAATATTCTTCGGCCACTGGTCTATTCTTTACATGCCATAAAATAATTCAAAACATAACAGTAAC
131 AAATATTCTTCGGCCACTGGTCTATTCTTTACATGCCATAAAATAATTCAAAACATAACAGTAAC
65492148 AAGCAGTGGATAGTGATAGTGTGACTAGTTGCTGACGATCCCCGAGCCTGTAGCTTCCAAATGAG
196 AAGCAGTGGATAGTGATAGTGTGACTAGTTGCTGACGATCCCCGAGCCTGTAGCTTCCAAATGAG
65492213 ATCTATAAAACAGAGGAAACAAAGTAAACGGAGTAAGCATTACAATGCTTAGTAAGTTTTAAGCA
261 ATCTATAAAACAGAGGAAACAAAGTAAACGGAGTAAGCATTACAATGCTTAGTAAGTTTTAAGCA
65492278 ATGTCAACAGATAACAATCAAATTATAACATAGTTGTTCGTATTTTT
326 ATGTCAACAGATAACAATCAAATTATAACATAGTTGTTCGTATTTTT
65492325 ATTTCACTCT
Statistics
Matches: 747, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
377 12 0.02
378 364 0.49
379 371 0.50
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.32
Consensus pattern (379 bp):
TTTTTTTTTTACTTTTTTTTTAAAGAACGTTCCTTTAGGTAAATACTAAAGACAGTCAGGGATAC
GATTTAACTTCTATAAGTACACATTCAAAAGATGCCATTTTCGCATGGCCTATATACATTAACCA
AAATATTCTTCGGCCACTGGTCTATTCTTTACATGCCATAAAATAATTCAAAACATAACAGTAAC
AAGCAGTGGATAGTGATAGTGTGACTAGTTGCTGACGATCCCCGAGCCTGTAGCTTCCAAATGAG
ATCTATAAAACAGAGGAAACAAAGTAAACGGAGTAAGCATTACAATGCTTAGTAAGTTTTAAGCA
ATGTCAACAGATAACAATCAAATTATAACATAGTTGTTCGTATTTTTTTTTACT
Found at i:65491959 original size:13 final size:13
Alignment explanation
Indices: 65491941--65491973 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
65491931 GTTGTTCGTA
65491941 TTTTTTTTTACTT
1 TTTTTTTTTACTT
65491954 TTTTTTTTTACTT
1 TTTTTTTTTACTT
65491967 TTTTTTT
1 TTTTTTT
65491974 AAAGAACGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTACTT
Found at i:65492952 original size:48 final size:48
Alignment explanation
Indices: 65492894--65493150 Score: 460
Period size: 48 Copynumber: 5.4 Consensus size: 48
65492884 ATATACACAC
*
65492894 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
65492942 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
65492990 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
65493038 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
65493086 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
65493134 ATCTCATATATATTTCA
1 ATCTCATACATATTTCA
65493151 GCAATAGCTT
Statistics
Matches: 204, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 204 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:65496062 original size:27 final size:27
Alignment explanation
Indices: 65496031--65496084 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
65496021 GCTCAAACAA
65496031 TTTATTTTTAAAATTTTCAGTCAAGCT
1 TTTATTTTTAAAATTTTCAGTCAAGCT
65496058 TTTATTTTTAAAATTTTCAGTCAAGCT
1 TTTATTTTTAAAATTTTCAGTCAAGCT
65496085 AGCAATCTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (27 bp):
TTTATTTTTAAAATTTTCAGTCAAGCT
Found at i:65497439 original size:46 final size:46
Alignment explanation
Indices: 65497278--65497450 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
65497268 AACCCGCCCC
* * * * *
65497278 TAAGTGAACTCGGACTCAACTCAACCAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
65497324 TAAATGAACTCGGACTCAACTCCACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
65497372 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
65497417 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65497451 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.56
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:65497444 original size:93 final size:93
Alignment explanation
Indices: 65497283--65497453 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
65497273 GCCCCTAAGT
* * *
65497283 GAACTCGGACTCAACTCAACCAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCCA
1 GAACTCGGACTCAACTCAACCAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
65497348 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
65497376 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACCAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
65497441 CGAGTTCGGATGC
66 CGAGTTCGGATGC
65497454 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACCAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:65502672 original size:2 final size:2
Alignment explanation
Indices: 65502667--65502692 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
65502657 ACACACACAC
65502667 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
65502693 CTGTTCTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65502741 original size:27 final size:26
Alignment explanation
Indices: 65502689--65502748 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
65502679 ATATATATAT
*
65502689 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
65502715 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
65502742 ATATCTG
1 ATATCTG
65502749 GCAGCTTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:65505960 original size:29 final size:28
Alignment explanation
Indices: 65505926--65506028 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
65505916 TACTCAATCA
*
65505926 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
65505955 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
65505984 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
65506013 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
65506029 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:65510253 original size:29 final size:29
Alignment explanation
Indices: 65510220--65510284 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
65510210 GTGACGAGAT
65510220 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
65510249 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
65510278 CGGCACT
1 TGGCACT
65510285 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:65510390 original size:2 final size:2
Alignment explanation
Indices: 65510385--65510417 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
65510375 GTGCGTACTC
*
65510385 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
65510418 CTCCGATCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:65510711 original size:23 final size:23
Alignment explanation
Indices: 65510681--65510725 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
65510671 AAAGGTCCGA
65510681 GGAATTATGGTATAGTTTCGATC
1 GGAATTATGGTATAGTTTCGATC
65510704 GGAATTATGGTATAGTTTCGAT
1 GGAATTATGGTATAGTTTCGAT
65510726 ATGGATGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.40
Consensus pattern (23 bp):
GGAATTATGGTATAGTTTCGATC
Found at i:65517207 original size:29 final size:28
Alignment explanation
Indices: 65517173--65517275 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
65517163 TACTCAATCA
*
65517173 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
65517202 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
65517231 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
65517260 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
65517276 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:65523997 original size:10 final size:10
Alignment explanation
Indices: 65523982--65524008 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
65523972 TGAGATATCA
65523982 TCATCAATCG
1 TCATCAATCG
65523992 TCATCAATCG
1 TCATCAATCG
65524002 TCATCAA
1 TCATCAA
65524009 CCAGGTGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (10 bp):
TCATCAATCG
Found at i:65524627 original size:27 final size:26
Alignment explanation
Indices: 65524575--65524634 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
65524565 ATATATATAT
*
65524575 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
65524601 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
65524628 ATATCTG
1 ATATCTG
65524635 GCAGTTTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:65528729 original size:27 final size:27
Alignment explanation
Indices: 65528698--65528753 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
65528688 TAATTAGTGT
65528698 ATTATGATGAAATAAAATAAAACAAAC
1 ATTATGATGAAATAAAATAAAACAAAC
*
65528725 ATTATGATGAAATGAAATAAAACAAAC
1 ATTATGATGAAATAAAATAAAACAAAC
65528752 AT
1 AT
65528754 ATTTCATCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.61, C:0.07, G:0.09, T:0.23
Consensus pattern (27 bp):
ATTATGATGAAATAAAATAAAACAAAC
Found at i:65540107 original size:20 final size:19
Alignment explanation
Indices: 65540053--65540107 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
65540043 TTATACTTAA
*
65540053 TTTGAA-TTATTGTTCTAT
1 TTTGAAGTTAATGTTCTAT
*
65540071 TTTGAAGTTTAAGGTTCTAT
1 TTTGAAG-TTAATGTTCTAT
65540091 TTTGTACAG-TAATGTTC
1 TTTG-A-AGTTAATGTTC
65540108 CATAACCCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.20
20 21 0.70
21 1 0.03
22 2 0.07
ACGTcount: A:0.24, C:0.07, G:0.16, T:0.53
Consensus pattern (19 bp):
TTTGAAGTTAATGTTCTAT
Found at i:65540856 original size:35 final size:35
Alignment explanation
Indices: 65540810--65540879 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
65540800 ATAAGAAGAA
*
65540810 AAAAAAAGTTCTTGAATTGTAGTTGGGACATAGAT
1 AAAAAAAGTTCTTGAATTGTAGCTGGGACATAGAT
65540845 AAAAAAAGTTCTTGAATTGTAGCTGGGACATAGAT
1 AAAAAAAGTTCTTGAATTGTAGCTGGGACATAGAT
65540880 CAATTGTAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (35 bp):
AAAAAAAGTTCTTGAATTGTAGCTGGGACATAGAT
Found at i:65543313 original size:19 final size:20
Alignment explanation
Indices: 65543286--65543338 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
65543276 ACGGGATTGT
* *
65543286 ACTTGGGTGCCTTTG-TTAC
1 ACTTTGGTGCCTCTGATTAC
* *
65543305 ACTTTGGTGTCTCTGATTGC
1 ACTTTGGTGCCTCTGATTAC
65543325 ACTTTGGTGCCTCT
1 ACTTTGGTGCCTCT
65543339 AATTGCACCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.43
Consensus pattern (20 bp):
ACTTTGGTGCCTCTGATTAC
Found at i:65543327 original size:20 final size:20
Alignment explanation
Indices: 65543304--65543346 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
65543294 GCCTTTGTTA
* *
65543304 CACTTTGGTGTCTCTGATTG
1 CACTTTGGTGCCTCTAATTG
65543324 CACTTTGGTGCCTCTAATTG
1 CACTTTGGTGCCTCTAATTG
65543344 CAC
1 CAC
65543347 CATCGTGCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.26, G:0.21, T:0.40
Consensus pattern (20 bp):
CACTTTGGTGCCTCTAATTG
Found at i:65544633 original size:24 final size:24
Alignment explanation
Indices: 65544586--65544703 Score: 172
Period size: 23 Copynumber: 5.0 Consensus size: 24
65544576 GCTTTATCAT
*
65544586 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
65544611 ATAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
65544635 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
65544658 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
65544681 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
65544704 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
23 47 0.53
24 27 0.31
25 14 0.16
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:65544775 original size:9 final size:9
Alignment explanation
Indices: 65544759--65544838 Score: 61
Period size: 9 Copynumber: 8.2 Consensus size: 9
65544749 ACATCTCGTG
65544759 TGCATATCA
1 TGCATATCA
*
65544768 TACATATCA
1 TGCATATCA
65544777 TGTGCATATCA
1 --TGCATATCA
* * *
65544788 TACGTGTCA
1 TGCATATCA
65544797 TGTGCATATCA
1 --TGCATATCA
*
65544808 TACATATCA
1 TGCATATCA
65544817 TGTGCATATCA
1 --TGCATATCA
65544828 TGCATATCA
1 TGCATATCA
65544837 TG
1 TG
65544839 TTTATCAAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
9 33 0.60
11 22 0.40
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (9 bp):
TGCATATCA
Found at i:65544780 original size:20 final size:20
Alignment explanation
Indices: 65544757--65544839 Score: 139
Period size: 20 Copynumber: 4.2 Consensus size: 20
65544747 GAACATCTCG
65544757 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
* *
65544777 TGTGCATATCATACGTGTCA
1 TGTGCATATCATACATATCA
65544797 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
65544817 TGTGCATATCATGCATATCA
1 TGTGCATATCATACATATCA
65544837 TGT
1 TGT
65544840 TTATCAAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:65546115 original size:27 final size:27
Alignment explanation
Indices: 65546081--65546146 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 27
65546071 GGGCATATTC
65546081 GTCATTTTACCATACAGGGG-TATTACG
1 GTCATTTTACCATACAGGGGCT-TTACG
*
65546108 GTCATTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAGGGGCTTTACG
65546135 GTCACTTTTACC
1 GTCA-TTTTACC
65546147 CTAATAGGGG
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 28 0.78
28 8 0.22
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCTTTACG
Found at i:65546231 original size:27 final size:27
Alignment explanation
Indices: 65546201--65546252 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
65546191 GTAAATCAAC
65546201 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
65546228 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
65546253 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:65546340 original size:27 final size:27
Alignment explanation
Indices: 65546291--65546443 Score: 209
Period size: 27 Copynumber: 5.7 Consensus size: 27
65546281 TGTAAATCAG
* *
65546291 GGGTATTTTTGGTAATTTTACAAATTGA
1 GGGTA-TTTTGGTAATTTTACAAACTAA
* * *
65546319 GGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAA
*
65546346 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAA
*
65546373 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACTAA
*
65546400 GGGTATTTTAGTAATTTTA-AAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAA
*
65546426 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
65546444 GTAAATCGAG
Statistics
Matches: 112, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 24 0.21
27 83 0.74
28 5 0.04
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAA
Found at i:65546395 original size:81 final size:79
Alignment explanation
Indices: 65546261--65546443 Score: 242
Period size: 81 Copynumber: 2.3 Consensus size: 79
65546251 TTTAGAAAGT
* * *
65546261 CAAGGGTATTTTTGTAACTTTGTAAATCAGGGGTATTTTTGGTAATTTTACAAATTGAGGGTATT
1 CAAGGGTATTTTAGTAA-TTT-TAAAACAGGGGTATTTTTGGTAATTTTACAAATTAAGGGTATT
*
65546326 TCGGTAATTTCACAAAC
64 TCAGTAATTTCA-AAAC
*
65546343 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTA-TTTTGGTAATTTTACAAATTAAGGGTATT
1 CAAGGGTATTTTAGTAATTTTA-AAAC-AGGGGTATTTTTGGTAATTTTACAAATTAAGGGTATT
* *
65546407 TTAGTAATTTTAAAAC
64 TCAGTAATTTCAAAAC
*
65546423 TAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTAGTAATTTT
65546444 GTAAATCGAG
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
80 25 0.27
81 43 0.47
82 23 0.25
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (79 bp):
CAAGGGTATTTTAGTAATTTTAAAACAGGGGTATTTTTGGTAATTTTACAAATTAAGGGTATTTC
AGTAATTTCAAAAC
Found at i:65546465 original size:53 final size:52
Alignment explanation
Indices: 65546356--65546514 Score: 140
Period size: 53 Copynumber: 3.0 Consensus size: 52
65546346 GGGTATTTTG
* ** ** ***
65546356 GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTA
1 GTAATTTTA-AAACTAAGGGTATTTT-GTAATTTTGTAAATCGAGGGTAAAATA
65546410 GTAATTTTAAAACTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTTTAAAACTAAGGGTATTTT-GTAATTTTGTAAATCGAGGGTAAAATA
* *** *
65546463 GTAATTCTGTAAATC-AAGGGTAAAACTGTAATTCTGTAAATCGAGGGTAAAA
1 GTAATT-T-TAAAACTAAGGGT-ATTTTGTAATTTTGTAAATCGAGGGTAAAA
65546515 CGGTAATTCT
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
53 41 0.47
54 40 0.45
55 7 0.08
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.36
Consensus pattern (52 bp):
GTAATTTTAAAACTAAGGGTATTTTGTAATTTTGTAAATCGAGGGTAAAATA
Found at i:65546540 original size:38 final size:38
Alignment explanation
Indices: 65546498--65546580 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 38
65546488 CTGTAATTCT
* *
65546498 GTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGG
1 GTAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGG
* * * *
65546536 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCGGGG
1 GTAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGG
65546574 GTTAAAT
1 G-TAAAT
65546581 GGTAATTCTG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
38 33 0.89
39 4 0.11
ACGTcount: A:0.36, C:0.07, G:0.31, T:0.25
Consensus pattern (38 bp):
GTAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGG
Found at i:65546540 original size:65 final size:64
Alignment explanation
Indices: 65546471--65546602 Score: 167
Period size: 65 Copynumber: 2.0 Consensus size: 64
65546461 TAGTAATTCT
* * *
65546471 GTAAATCAAGGGTAAAACT-GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAG
1 GTAAAACAAGGGTAAAA-TGGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCG-G
65546535 G
64 G
** * * *
65546536 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCGGGGGTTAAATGGTAATTCTGTAAATCGGG
1 GTAAAACAAGGGTAAAATGGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGGG
65546600 GTA
1 GTA
65546603 CTTTGGTAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
64 6 0.10
65 52 0.90
ACGTcount: A:0.36, C:0.08, G:0.29, T:0.27
Consensus pattern (64 bp):
GTAAAACAAGGGTAAAATGGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGGG
Found at i:65546542 original size:27 final size:27
Alignment explanation
Indices: 65546436--65546544 Score: 164
Period size: 27 Copynumber: 4.0 Consensus size: 27
65546426 GGGTATTTTA
* **
65546436 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
65546463 GTAATTCTGTAAATCAAGGGTAAAACT
1 GTAATTCTGTAAATCGAGGGTAAAACG
65546490 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
65546517 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
65546544 G
1 G
65546545 GGGTAAAATG
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:65546613 original size:26 final size:27
Alignment explanation
Indices: 65546536--65546600 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
65546526 TAAGTCGAGG
* *
65546536 GTAAAACGGGGGTAAAATGGTAATTAT
1 GTAAATCGGGGGTTAAATGGTAATTAT
*
65546563 GTAAATCGGGGGTTAAATGGTAATTCT
1 GTAAATCGGGGGTTAAATGGTAATTAT
65546590 GTAAATCGGGG
1 GTAAATCGGGG
65546601 TACTTTGGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.34, C:0.06, G:0.32, T:0.28
Consensus pattern (27 bp):
GTAAATCGGGGGTTAAATGGTAATTAT
Found at i:65546638 original size:27 final size:26
Alignment explanation
Indices: 65546608--65546697 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 26
65546598 GGGTACTTTG
*
65546608 GTAATTTTGCAAGTCGAAGGTATTTCA
1 GTAATTTTACAA-TCGAAGGTATTTCA
*
65546635 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTAC-AATCGAAGGTATTTCA
* * * *
65546662 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAATCGAA-GGTATTTCA
65546689 GTAATTTTA
1 GTAATTTTA
65546698 GTAAACTAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.08
27 47 0.89
28 2 0.04
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (26 bp):
GTAATTTTACAATCGAAGGTATTTCA
Found at i:65546704 original size:28 final size:27
Alignment explanation
Indices: 65546626--65546706 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
65546616 GCAAGTCGAA
*
65546626 GGTATTTCAGTAATTTTACAAA-TCGAG
1 GGTATTTCAGTAATTTTACAAACT-AAG
*
65546653 GGTATTTCAGTATTTTTACAAACTAAG
1 GGTATTTCAGTAATTTTACAAACTAAG
* *
65546680 GGTATTTCGGTAATTTTAGTAAACTAA
1 GGTATTTCAGTAATTTTA-CAAACTAA
65546707 AGTATTCTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
27 39 0.83
28 8 0.17
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAACTAAG
Found at i:65549198 original size:93 final size:93
Alignment explanation
Indices: 65549086--65549257 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
65549076 GCCCATAAGT
* *
65549086 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65549151 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
65549179 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65549244 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
65549258 CAAATATCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:65549253 original size:46 final size:46
Alignment explanation
Indices: 65549078--65549253 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
65549068 TGTAACCCGC
* * *
65549078 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
65549124 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
65549174 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
65549217 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65549254 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:65551663 original size:29 final size:29
Alignment explanation
Indices: 65551624--65551711 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
65551614 CAAAGATAAC
*
65551624 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
65551653 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
65551682 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
65551712 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:65551682 original size:15 final size:15
Alignment explanation
Indices: 65551624--65551702 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
65551614 CAAAGATAAC
*
65551624 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
65551638 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
65551653 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
65551667 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
65551682 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
65551697 AAGAAA
1 AAGAAA
65551703 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:65551711 original size:15 final size:15
Alignment explanation
Indices: 65551635--65551711 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
65551625 AGAAAACCGA
65551635 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
65551650 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
65551664 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
65551678 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
65551694 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
65551709 ATA
1 ATA
65551712 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:65554682 original size:46 final size:45
Alignment explanation
Indices: 65554615--65554788 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 45
65554605 TGTAACCCGC
*
65554615 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCAT
*
65554661 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCAT
* * * *
65554711 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
65554753 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
65554789 ATGCCCAAAT
Statistics
Matches: 111, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
42 5 0.05
43 1 0.01
44 3 0.03
45 28 0.25
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
Found at i:65554781 original size:92 final size:93
Alignment explanation
Indices: 65554623--65554793 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
65554613 GCCCATAAGT
* *
65554623 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65554688 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
65554716 GAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65554780 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
65554794 CAAATATCCA
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 45 0.60
93 30 0.40
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:65554807 original size:45 final size:44
Alignment explanation
Indices: 65554666--65554807 Score: 132
Period size: 45 Copynumber: 3.1 Consensus size: 44
65554656 CGCATCCATA
* *
65554666 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ATATC-C
*
65554714 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCC-ATA---
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--A-TGC--CCAATATCC
65554758 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AATATCC
65554803 AGTGA
1 AGTGA
65554808 CATGTCACTT
Statistics
Matches: 79, Mismatches: 4, Indels: 25
0.73 0.04 0.23
Matches are distributed among these distances:
40 2 0.03
42 6 0.08
43 1 0.01
44 1 0.01
45 33 0.42
47 28 0.35
48 3 0.04
49 1 0.01
50 3 0.04
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATATCC
Found at i:65556365 original size:26 final size:26
Alignment explanation
Indices: 65556336--65556386 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
65556326 CAATTGGTAA
65556336 GTTTAAGTTCCTTTATACGAGCATAT
1 GTTTAAGTTCCTTTATACGAGCATAT
65556362 GTTTAAGTTCCTTTATACGAGCATA
1 GTTTAAGTTCCTTTATACGAGCATA
65556387 CTAAGCACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (26 bp):
GTTTAAGTTCCTTTATACGAGCATAT
Found at i:65564495 original size:40 final size:40
Alignment explanation
Indices: 65564412--65564619 Score: 168
Period size: 40 Copynumber: 5.2 Consensus size: 40
65564402 CGGGATTTAA
* * * * * * *
65564412 CCGGATATAGTGACTCGCTCGATTGTCTTCAGGACCTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
65564452 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
65564492 CCGGATTTGGTAACTTGCACAAAGGCCTTCGAGTCTTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
65564532 CCGGATATA-TCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGT-AACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
65564572 CCGGATGTAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACGAA-TGCCTTCGGGTCTTAGC
65564612 CCGGATAT
1 CCGGATAT
65564620 CATTCCAATG
Statistics
Matches: 134, Mismatches: 31, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
39 3 0.02
40 130 0.97
41 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:65564600 original size:80 final size:80
Alignment explanation
Indices: 65564466--65564619 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
65564456 TTATAGTGAT
* * ** * *
65564466 TCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAAGGCCTTCGAGTCTTAG
1 TCGCACGAATGCCTTCGGGTCTTAACCCGGATGTAATAACTAGCACAAAGGCCTTCGAGACTTAG
65564531 CCCGGATATATCAAC
66 CCCGGATATATCAAC
* * * ** *
65564546 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAATTACTAGCATAATTGCCTTCGGGACTTAG
1 TCGCACGAATGCCTTCGGGTCTTAACCCGGATGTAATAACTAGCACAAAGGCCTTCGAGACTTAG
65564611 CCCGGATAT
66 CCCGGATAT
65564620 CATTCCAATG
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
80 62 1.00
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (80 bp):
TCGCACGAATGCCTTCGGGTCTTAACCCGGATGTAATAACTAGCACAAAGGCCTTCGAGACTTAG
CCCGGATATATCAAC
Found at i:65568434 original size:45 final size:44
Alignment explanation
Indices: 65568370--65568497 Score: 184
Period size: 45 Copynumber: 2.8 Consensus size: 44
65568360 ATTATTGTAC
*
65568370 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 GACACTATTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCAGTGA
*
65568415 GACACTATTCGGGACTTTGAGCCTAGCAGGCTACAATGCCAGTGA
1 GACACTATTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCAGTGA
* **
65568460 GATACTATTCTTGCTTTCGAGCCTAGCAGGCTATAATG
1 GACACTATTCGGGCTTT-GAGCCTAGCAGGCTATAATG
65568498 TTGATGAAAG
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
44 4 0.05
45 71 0.95
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (44 bp):
GACACTATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCAGTGA
Found at i:65576354 original size:40 final size:39
Alignment explanation
Indices: 65576295--65576461 Score: 194
Period size: 40 Copynumber: 4.2 Consensus size: 39
65576285 CATTTGAATG
* * *
65576295 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG-TT
*
65576335 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGTT
* *
65576375 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGT-TACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGT--T
* * *
65576415 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTT
65576454 ATATCCGG
1 ATATCCGG
65576462 TTAAATCCCG
Statistics
Matches: 109, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
38 1 0.01
39 10 0.09
40 92 0.84
41 6 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTT
Found at i:65578665 original size:2 final size:2
Alignment explanation
Indices: 65578660--65578692 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
65578650 TGAAATTCGA
65578660 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65578693 TTTGAAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:65579271 original size:45 final size:45
Alignment explanation
Indices: 65579207--65579382 Score: 273
Period size: 45 Copynumber: 3.9 Consensus size: 45
65579197 ATTATCGTAC
65579207 GACACTATTCGGGCCTTTGA-CTCTAGCAGGCTATAATGCCGATGA
1 GACACTATTCGGGCCTTTGAGC-CTAGCAGGCTATAATGCCGATGA
*
65579252 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGA
* * *
65579297 GATACTATTCGGGTCTTTGAGCCTAGCAGGCTACAATGCCGATGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGA
* * *
65579342 GATACTATTCAGGCCTTTGAGCCTAGCAAGCTATAATGCCG
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCG
65579383 GTGAAAGGAT
Statistics
Matches: 121, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
45 120 0.99
46 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (45 bp):
GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGA
Found at i:65583489 original size:56 final size:56
Alignment explanation
Indices: 65583427--65583534 Score: 216
Period size: 56 Copynumber: 1.9 Consensus size: 56
65583417 TCTCAGACAC
65583427 AGTGCATGCTATATAAGAATGCGTAGATCCAACATCAATCAATGAAGTATAAACAT
1 AGTGCATGCTATATAAGAATGCGTAGATCCAACATCAATCAATGAAGTATAAACAT
65583483 AGTGCATGCTATATAAGAATGCGTAGATCCAACATCAATCAATGAAGTATAA
1 AGTGCATGCTATATAAGAATGCGTAGATCCAACATCAATCAATGAAGTATAA
65583535 GGTACATTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.25
Consensus pattern (56 bp):
AGTGCATGCTATATAAGAATGCGTAGATCCAACATCAATCAATGAAGTATAAACAT
Found at i:65587276 original size:27 final size:26
Alignment explanation
Indices: 65587248--65587921 Score: 447
Period size: 27 Copynumber: 25.0 Consensus size: 26
65587238 ATTTTACCCT
*
65587248 ACAGGGGTATTTCGGTAATTTTACACT
1 ACAGGGGTATTTCGGTAATTTTACA-A
* * *
65587275 ACAAGAGTATTTCAGTAATTTTACAA
1 ACAGGGGTATTTCGGTAATTTTACAA
* * *
65587301 ACTGGGGCTAATTCGATAATTTTACAA
1 ACAGGGG-TATTTCGGTAATTTTACAA
*
65587328 A-ATGGGGTATTTTGGTAATTTTACAA
1 ACA-GGGGTATTTCGGTAATTTTACAA
* *
65587354 ACTGGGGGTATTTCGATAATTTTACAA
1 AC-AGGGGTATTTCGGTAATTTTACAA
* **
65587381 ATC-GGGAGTACTTCTATAATTTTACAA
1 A-CAGGG-GTATTTCGGTAATTTTACAA
** *
65587408 ATTGAGGGTATTTTGGTAATTTTACAA
1 ACAG-GGGTATTTCGGTAATTTTACAA
* * *
65587435 TCTGAGGGTATTTTGGTAATTTTACAA
1 ACAG-GGGTATTTCGGTAATTTTACAA
* *
65587462 ACTGGGGGTATTTCGGTAATTTCACAA
1 AC-AGGGGTATTTCGGTAATTTTACAA
* * * *
65587489 TCCAAGGGTATTTTGGTAATATTACAA
1 -ACAGGGGTATTTCGGTAATTTTACAA
* *
65587516 ATCAAGGGTATTTTGGGTAATTTTACAA
1 A-CAGGGGTA-TTTCGGTAATTTTACAA
** *
65587544 ATTTGGGGTATCTCGGTAATTTTACAA
1 A-CAGGGGTATTTCGGTAATTTTACAA
* * *
65587571 TCTAAGGGTATTTCAGTAATTTTACAA
1 AC-AGGGGTATTTCGGTAATTTTACAA
** * *
65587598 ATTGGGGTTATTTCGATAATTTTATAA
1 ACAGGGG-TATTTCGGTAATTTTACAA
* * *
65587625 TCTAAGGGTATTTGGGTAATTTTACAA
1 AC-AGGGGTATTTCGGTAATTTTACAA
** * *
65587652 ACTAAAGGTATTTTGATAATTTTA-AA
1 AC-AGGGGTATTTCGGTAATTTTACAA
* *
65587678 ATCTGAGGGTATTTCGATAATTTTACAA
1 A-CAG-GGGTATTTCGGTAATTTTACAA
***
65587706 TTTGAGGGTATTTCGGTAATTTTACAA
1 ACAG-GGGTATTTCGGTAATTTTACAA
* *
65587733 ATTAGGGGTATTTTGGTAATTTTACAA
1 A-CAGGGGTATTTCGGTAATTTTACAA
** *
65587760 ATTGGGGGTATTTCGATAATTTTACAA
1 A-CAGGGGTATTTCGGTAATTTTACAA
** * *
65587787 ATTGGGGGTATTTCAGTAATTTTAAAA
1 A-CAGGGGTATTTCGGTAATTTTACAA
* **
65587814 ACTTGGGGTATTTCAATAATTTTACAA
1 AC-AGGGGTATTTCGGTAATTTTACAA
* **
65587841 ACTGGGGGTATTTTAGTAATTTTACAA
1 AC-AGGGGTATTTCGGTAATTTTACAA
* * *
65587868 ATTAGGGGTATTTTGATAATTTTACAA
1 A-CAGGGGTATTTCGGTAATTTTACAA
* *
65587895 TTC-GAGAGTATTTCGGTAATTTTACAA
1 -ACAG-GGGTATTTCGGTAATTTTACAA
65587922 CCTGGGATCT
Statistics
Matches: 524, Mismatches: 100, Indels: 46
0.78 0.15 0.07
Matches are distributed among these distances:
26 31 0.06
27 459 0.88
28 34 0.06
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (26 bp):
ACAGGGGTATTTCGGTAATTTTACAA
Found at i:65587921 original size:54 final size:53
Alignment explanation
Indices: 65587290--65587921 Score: 555
Period size: 54 Copynumber: 11.7 Consensus size: 53
65587280 AGTATTTCAG
* * * * *
65587290 TAATTTTACAAACTG-GGGCTAATTCGATAATTTTACAAAATGGGGTATTTTGG
1 TAATTTTACAATCTGAGGG-TATTTCGGTAATTTTACAAATTGGGGTATTTTGA
* * * * *
65587343 TAATTTTACAAACTGGGGGTATTTCGATAATTTTACAAATCGGGAGTACTTCT-A
1 TAATTTTACAATCTGAGGGTATTTCGGTAATTTTACAAATTGGG-GTA-TTTTGA
* *
65587397 TAATTTTACAAAT-TGAGGGTATTTTGGTAATTTTAC-AATCTGAGGGTATTTTGG
1 TAATTTTAC-AATCTGAGGGTATTTCGGTAATTTTACAAAT-TG-GGGTATTTTGA
* * * ** *
65587451 TAATTTTACAAACTGGGGGTATTTCGGTAATTTCAC-AATCCAAGGGTATTTTGG
1 TAATTTTACAATCTGAGGGTATTTCGGTAATTTTACAAAT--TGGGGTATTTTGA
* * * * * *
65587505 TAATATTACAAATC-AAGGGTATTTTGGGTAATTTTACAAATTTGGGGTATCTCGG
1 TAATTTTAC-AATCTGAGGGTA-TTTCGGTAATTTTACAAA-TTGGGGTATTTTGA
* * *
65587560 TAATTTTACAATCTAAGGGTATTTCAGTAATTTTACAAATTGGGGTTATTTCGA
1 TAATTTTACAATCTGAGGGTATTTCGGTAATTTTACAAATTGGGG-TATTTTGA
* * * ***
65587614 TAATTTTATAATCTAAGGGTATTTGGGTAATTTTACAAACTAAAGGTATTTTGA
1 TAATTTTACAATCTGAGGGTATTTCGGTAATTTTACAAA-TTGGGGTATTTTGA
* * * * *
65587668 TAATTTTAAAATCTGAGGGTATTTCGATAATTTTACAATTTGAGGGTATTTCGG
1 TAATTTTACAATCTGAGGGTATTTCGGTAATTTTACAAATTG-GGGTATTTTGA
* *
65587722 TAATTTTACAAAT-T-AGGGGTATTTTGGTAATTTTACAAATTGGGGGTATTTCGA
1 TAATTTTAC-AATCTGA-GGGTATTTCGGTAATTTTACAAATT-GGGGTATTTTGA
* * * **
65587776 TAATTTTACAAAT-TGGGGGTATTTCAGTAATTTTAAAAACTTGGGGTATTTCAA
1 TAATTTTAC-AATCTGAGGGTATTTCGGTAATTTTACAAA-TTGGGGTATTTTGA
* * **
65587830 TAATTTTACAAACTGGGGGTATTTTAGTAATTTTACAAATTAGGGGTATTTTGA
1 TAATTTTACAATCTGAGGGTATTTCGGTAATTTTACAAATT-GGGGTATTTTGA
*
65587884 TAATTTTACAAT-TCGAGAGTATTTCGGTAATTTTACAA
1 TAATTTTACAATCT-GAGGGTATTTCGGTAATTTTACAA
65587922 CCTGGGATCT
Statistics
Matches: 484, Mismatches: 70, Indels: 49
0.80 0.12 0.08
Matches are distributed among these distances:
53 58 0.12
54 366 0.76
55 57 0.12
56 2 0.00
57 1 0.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (53 bp):
TAATTTTACAATCTGAGGGTATTTCGGTAATTTTACAAATTGGGGTATTTTGA
Found at i:65587927 original size:81 final size:81
Alignment explanation
Indices: 65587281--65587927 Score: 554
Period size: 81 Copynumber: 8.0 Consensus size: 81
65587271 CACTACAAGA
* * *
65587281 GTATTTC-AGTAATTTTACAAACT-GGGGCTAATTCGATAATTTTACAAAAT-G-GGGTATTTTG
1 GTATTTCGA-TAATTTTACAAATTAGGGG-TATTTCGATAATTTTAC-AATTCGAGGGTATTTTG
65587342 GTAATTTTACAAACTGGGG
63 GTAATTTTACAAACTGGGG
* * *
65587361 GTATTTCGATAATTTTACAAA-TCGGGAGTACTTCTATAATTTTACAAATT-GAGGGTATTTTGG
1 GTATTTCGATAATTTTACAAATTAGGG-GTATTTCGATAATTTTAC-AATTCGAGGGTATTTTGG
* *
65587424 TAATTTTACAATCTGAGG
64 TAATTTTACAAACTGGGG
* * * * * * * *
65587442 GTATTTTGGTAATTTTACAAACTGGGGGTATTTCGGTAATTTCACAATCCAAGGGTATTTTGGTA
1 GTATTTCGATAATTTTACAAATTAGGGGTATTTCGATAATTTTACAATTCGAGGGTATTTTGGTA
* **
65587507 ATATTACAAA-TCAAGG
66 ATTTTACAAACT-GGGG
* * * * * * **
65587523 GTATTTTGGGTAATTTTACAAATTTGGGGTATCTCGGTAATTTTACAA-TCTAAGGGTATTTCAG
1 GTA-TTTCGATAATTTTACAAATTAGGGGTATTTCGATAATTTTACAATTC-GAGGGTATTTTGG
*
65587587 TAATTTTACAAATTGGGG
64 TAATTTTACAAACTGGGG
* * * * * * * * *
65587605 TTATTTCGATAATTTTA-TAATCTAAGGGTATTTGGGTAATTTTACAA-ACTAAAGGTATTTTGA
1 GTATTTCGATAATTTTACAAAT-TAGGGGTATTTCGATAATTTTACAATTC-GAGGGTATTTTGG
*
65587668 TAATTTTA-AAATCTGAGG
64 TAATTTTACAAA-CTGGGG
* * *
65587686 GTATTTCGATAATTTTAC-AATTTGAGGGTATTTCGGTAATTTTACAAATTAG-GGGTATTTTGG
1 GTATTTCGATAATTTTACAAATTAG-GGGTATTTCGATAATTTTAC-AATTCGAGGGTATTTTGG
*
65587749 TAATTTTACAAATTGGGG
64 TAATTTTACAAACTGGGG
* * **
65587767 GTATTTCGATAATTTTACAAATTGGGGGTATTTC-AGTAATTTTAAAAACTT-G-GGGTATTTCA
1 GTATTTCGATAATTTTACAAATTAGGGGTATTTCGA-TAATTTT-ACAA-TTCGAGGGTATTTTG
*
65587829 ATAATTTTACAAACTGGGG
63 GTAATTTTACAAACTGGGG
* * * *
65587848 GTATTT-TAGTAATTTTACAAATTAGGGGTATTTTGATAATTTTACAATTCGAGAGTATTTCGGT
1 GTATTTCGA-TAATTTTACAAATTAGGGGTATTTCGATAATTTTACAATTCGAGGGTATTTTGGT
*
65587912 AATTTTACAACCTGGG
65 AATTTTACAAACTGGG
65587928 ATCTTAATGA
Statistics
Matches: 473, Mismatches: 69, Indels: 49
0.80 0.12 0.08
Matches are distributed among these distances:
79 3 0.01
80 58 0.12
81 328 0.69
82 83 0.18
83 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
GTATTTCGATAATTTTACAAATTAGGGGTATTTCGATAATTTTACAATTCGAGGGTATTTTGGTA
ATTTTACAAACTGGGG
Found at i:65594499 original size:6 final size:6
Alignment explanation
Indices: 65594470--65594647 Score: 123
Period size: 6 Copynumber: 28.8 Consensus size: 6
65594460 TATTAGAACT
* * * *
65594470 AGAATC AAAATG AGAATC AAAATC AGAATC AGAATC AGAATT AGGTAA-C
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC
* * * *
65594519 AAAATC AAAATC AGTATC AGGTAA-C AGAATC AGAATC AGTATC AGGTAA-C
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC
* *
65594569 AGAATC AGAATC AGAACC AGAATC AGAATT AGGTAA-C AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
* *
65594618 AGTATC AGGTAA-C AGAATT AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
65594648 GTGAATGCAA
Statistics
Matches: 135, Mismatches: 22, Indels: 30
0.72 0.12 0.16
Matches are distributed among these distances:
5 10 0.07
6 105 0.78
7 13 0.10
8 7 0.05
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:65594524 original size:31 final size:31
Alignment explanation
Indices: 65594490--65594647 Score: 121
Period size: 25 Copynumber: 5.5 Consensus size: 31
65594480 TGAGAATCAA
*
65594490 AATCAGAATCAGAATCAGAATTAGGTAAC--
1 AATCAGAATCAGAATCAGAATCAGGTAACAG
* *
65594519 -A--A-AATCAAAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGAATCAGGTAACAG
65594546 AATCAGAATCAG--T----ATCAGGTAACAG
1 AATCAGAATCAGAATCAGAATCAGGTAACAG
* *
65594571 AATCAGAATCAGAACCAGAATCA-G-AATTAGG
1 AATCAGAATCAGAATCAGAATCAGGTAA-CA-G
*
65594602 TAA-CAGAATCAGAATCAGTATCAGGTAACAG
1 -AATCAGAATCAGAATCAGAATCAGGTAACAG
*
65594633 AATTAGAATCAGAAT
1 AATCAGAATCAGAAT
65594648 GTGAATGCAA
Statistics
Matches: 101, Mismatches: 10, Indels: 34
0.70 0.07 0.23
Matches are distributed among these distances:
25 44 0.44
26 1 0.01
28 2 0.02
29 3 0.03
30 5 0.05
31 40 0.40
32 4 0.04
33 2 0.02
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.20
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGAATCAGGTAACAG
Found at i:65594525 original size:25 final size:25
Alignment explanation
Indices: 65594493--65594584 Score: 139
Period size: 25 Copynumber: 3.7 Consensus size: 25
65594483 GAATCAAAAT
*
65594493 CAGAATCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
* * *
65594518 CAAAATCAAAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
65594543 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
65594568 CAGAATCAGAATCAGAA
1 CAGAATCAGAATCAGAA
65594585 CCAGAATCAG
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:65594628 original size:87 final size:87
Alignment explanation
Indices: 65594482--65594644 Score: 281
Period size: 87 Copynumber: 1.9 Consensus size: 87
65594472 AATCAAAATG
*
65594482 AGAATCAAAATCAGAATCAGAATCAGAATTAGGTAACAAAATCAAAATCAGTATCAGGTAACAGA
1 AGAATCAAAATCAGAACCAGAATCAGAATTAGGTAACAAAATCAAAATCAGTATCAGGTAACAGA
65594547 ATCAGAATCAGTATCAGGTAAC
66 ATCAGAATCAGTATCAGGTAAC
* * *
65594569 AGAATCAGAATCAGAACCAGAATCAGAATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAGA
1 AGAATCAAAATCAGAACCAGAATCAGAATTAGGTAACAAAATCAAAATCAGTATCAGGTAACAGA
*
65594634 ATTAGAATCAG
66 ATCAGAATCAG
65594645 AATGTGAATG
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (87 bp):
AGAATCAAAATCAGAACCAGAATCAGAATTAGGTAACAAAATCAAAATCAGTATCAGGTAACAGA
ATCAGAATCAGTATCAGGTAAC
Found at i:65594641 original size:62 final size:62
Alignment explanation
Indices: 65594527--65594646 Score: 213
Period size: 62 Copynumber: 1.9 Consensus size: 62
65594517 ACAAAATCAA
*
65594527 AATCAGTATCAGGTAACAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAG
1 AATCAGAATCAGGTAACAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAG
* *
65594589 AATCAGAATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAGAATTAGAATCAGAA
1 AATCAGAATCAGGTAACAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAA
65594647 TGTGAATGCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (62 bp):
AATCAGAATCAGGTAACAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAG
Found at i:65594644 original size:19 final size:19
Alignment explanation
Indices: 65594549--65594619 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
65594539 GTAACAGAAT
*
65594549 CAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGGTAA
65594568 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
*
65594585 CCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGGTAA
65594605 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
65594620 TATCAGGTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
17 2 0.04
18 14 0.30
19 28 0.61
20 2 0.04
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTAA
Found at i:65594821 original size:2 final size:2
Alignment explanation
Indices: 65594814--65594865 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
65594804 CTAGGCCACA
*
65594814 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65594856 AT AT AT AT AT
1 AT AT AT AT AT
65594866 GTGGCGAAGC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65595224 original size:27 final size:27
Alignment explanation
Indices: 65595194--65595446 Score: 230
Period size: 27 Copynumber: 9.4 Consensus size: 27
65595184 GGGGTAAAAT
*
65595194 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
65595221 GGTAATTCTACCTTAC-AGGAGTATTTC
1 GGTAATTTTACCCTACAAGG-GTATTTC
** * * *
65595248 AATAATTCTACCGTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
65595275 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
65595302 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
65595329 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
65595356 GGT-ATTTCTACCCTACAGGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
65595383 GGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
65595410 GG-CATTTCTACCCTA-AGAGGATATTTC
1 GGTAATTT-TACCCTACA-AGGGTATTTC
65595437 GGTAATTTTA
1 GGTAATTTTA
65595447 TAAATTGAGG
Statistics
Matches: 192, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
26 10 0.05
27 173 0.90
28 9 0.05
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:65595278 original size:54 final size:54
Alignment explanation
Indices: 65595194--65595443 Score: 297
Period size: 54 Copynumber: 4.6 Consensus size: 54
65595184 GGGGTAAAAT
* * * *
65595194 GGTAATTTTACCCTACAAGGGTATCTCGGTAATTCTACCTTAC-AGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGG-GTATTTC
** * *
65595248 AATAATTCTACCGTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* ** *
65595302 GGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* * * *
65595356 GGTATTTCTACCCTACAGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* * *
65595410 GGCATTTCTACCCTA-AGAGGATATTTCGGTAATT
1 GGTAATTCTACCCTACAG-GGGTATTTCGGTAATT
65595444 TTATAAATTG
Statistics
Matches: 168, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
53 2 0.01
54 163 0.97
55 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (54 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
Found at i:65595409 original size:81 final size:81
Alignment explanation
Indices: 65595198--65595440 Score: 321
Period size: 81 Copynumber: 3.0 Consensus size: 81
65595188 TAAAATGGTA
* * * * *
65595198 ATTT-TACCCTACAAGGGTATCTCGGTAATTCTACCTTAC-AGGAGTATTTCAATAATTCTACCG
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGG-GTATTTTAGTAATTCTACCC
65595261 TACAGGGGTATTTCGGT
65 TACAGGGGTATTTCGGT
* *
65595278 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCT
65595343 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
* * * * * *
65595359 ATTTCTACCCTACAGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTTGGCATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCT
*
65595424 A-AGAGGATATTTCGGT
66 ACAG-GGGTATTTCGGT
65595440 A
1 A
65595441 ATTTTATAAA
Statistics
Matches: 144, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
80 6 0.04
81 136 0.94
82 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCT
ACAGGGGTATTTCGGT
Found at i:65595456 original size:27 final size:27
Alignment explanation
Indices: 65595426--65595905 Score: 150
Period size: 27 Copynumber: 17.8 Consensus size: 27
65595416 TCTACCCTAA
*
65595426 GAGGATATTTCGGTAATTTTATAAATT
1 GAGGGTATTTCGGTAATTTTATAAATT
*** * *
65595453 GAGGGTAAAACGGTAATTCTGTAAATT
1 GAGGGTATTTCGGTAATTTTATAAATT
* * * *
65595480 AAGGGTACTTT-GGTAATTTTACAAGTC
1 GAGGGTA-TTTCGGTAATTTTATAAATT
** * ** *
65595507 GAGGGTATTTCAATAATTTTACAGGTC
1 GAGGGTATTTCGGTAATTTTATAAATT
* * *
65595534 GAGGGTATTTCAGTAATTTCACAAA-T
1 GAGGGTATTTCGGTAATTTTATAAATT
* * * *
65595560 CAGGGGTATTTTGGTAATTTTACAAACT
1 GA-GGGTATTTCGGTAATTTTATAAATT
* * * *
65595588 -AGAGGTATTTTGATAATTTTACAAA-C
1 GAG-GGTATTTCGGTAATTTTATAAATT
* * * *
65595614 CAGGGGTATTTTGGTAATTTTACAAACT
1 GA-GGGTATTTCGGTAATTTTATAAATT
* * **
65595642 -AGGGGTATTTTGGTATTTTTATAAACC
1 GA-GGGTATTTCGGTAATTTTATAAATT
* * * *
65595669 AAGGGTATTTTGGTAATTTTACAAA-C
1 GAGGGTATTTCGGTAATTTTATAAATT
* * * **
65595695 CAGGGGTATTTTGGTAATTTTGTAAACC
1 GA-GGGTATTTCGGTAATTTTATAAATT
* * * *
65595723 AAGGGTATTTTGGTAATTTTACAAACT
1 GAGGGTATTTCGGTAATTTTATAAATT
* * **
65595750 -AGGGGTATTTTGGTGATTTTATAAACC
1 GA-GGGTATTTCGGTAATTTTATAAATT
* ** * *
65595777 AAGGGTATTTTAGTAATTTTACAAA-C
1 GAGGGTATTTCGGTAATTTTATAAATT
* * * **
65595803 CAGGGGTATTTTGGTAATTTTGTAAACC
1 GA-GGGTATTTCGGTAATTTTATAAATT
* * * *
65595831 AAGGGTATTTTGGTAATTTTACAAA-C
1 GAGGGTATTTCGGTAATTTTATAAATT
* * * **
65595857 CAGAGGTATTTTGGTGATTTTATAAACC
1 GAG-GGTATTTCGGTAATTTTATAAATT
* **
65595885 AAGGGTATTTTAGTAATTTTA
1 GAGGGTATTTCGGTAATTTTA
65595906 CAAACCAGGG
Statistics
Matches: 373, Mismatches: 63, Indels: 34
0.79 0.13 0.07
Matches are distributed among these distances:
26 13 0.03
27 349 0.94
28 11 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GAGGGTATTTCGGTAATTTTATAAATT
Found at i:65595605 original size:108 final size:108
Alignment explanation
Indices: 65595482--65595930 Score: 603
Period size: 108 Copynumber: 4.2 Consensus size: 108
65595472 TGTAAATTAA
* ** * *** ** * **
65595482 GGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTAC-AGGTCGAGGGTATTTCA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTG
* * * * * *
65595546 GTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAG
65 GTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * *
65595590 AGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
* *
65595655 TATTTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
66 TAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
**
65595698 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
*
65595763 TGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
66 TAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
** * *
65595806 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
*
65595871 TGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
66 TAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
65595914 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
65595931 GGTAAACTAA
Statistics
Matches: 309, Mismatches: 31, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
108 306 0.99
109 3 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (108 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
TAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:65595910 original size:27 final size:27
Alignment explanation
Indices: 65595480--65595930 Score: 528
Period size: 27 Copynumber: 16.7 Consensus size: 27
65595470 TCTGTAAATT
* **
65595480 AAGGGTACTTTGGTAATTTTACAAGTC
1 AAGGGTATTTTGGTAATTTTACAAACC
* *** ***
65595507 GAGGGTATTTCAATAATTTTACAGGTC
1 AAGGGTATTTTGGTAATTTTACAAACC
* ** * *
65595534 GAGGGTATTTCAGTAATTTCACAAATC
1 AAGGGTATTTTGGTAATTTTACAAACC
*
65595561 AGGGGTATTTTGGTAATTTTACAAA-C
1 AAGGGTATTTTGGTAATTTTACAAACC
* *
65595587 TAGAGGTATTTTGATAATTTTACAAACC
1 AAG-GGTATTTTGGTAATTTTACAAACC
* *
65595615 AGGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACC
* * *
65595642 AGGGGTATTTTGGTATTTTTATAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
65595669 AAGGGTATTTTGGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
* **
65595696 AGGGGTATTTTGGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
*
65595723 AAGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACC
* * *
65595750 AGGGGTATTTTGGTGATTTTATAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
*
65595777 AAGGGTATTTTAGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
* **
65595804 AGGGGTATTTTGGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
65595831 AAGGGTATTTTGGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
* *
65595858 -AGAGGTATTTTGGTGATTTTATAAACC
1 AAG-GGTATTTTGGTAATTTTACAAACC
*
65595885 AAGGGTATTTTAGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
*
65595912 AGGGGTATTTTGGTAATTT
1 AAGGGTATTTTGGTAATTT
65595931 GGTAAACTAA
Statistics
Matches: 363, Mismatches: 57, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
26 4 0.01
27 355 0.98
28 4 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACC
Found at i:65595936 original size:108 final size:108
Alignment explanation
Indices: 65595563--65595937 Score: 635
Period size: 108 Copynumber: 3.5 Consensus size: 108
65595553 CACAAATCAG
* * * * ** *
65595563 GGGTATTTTGGTAATTTTACAAACTAGAGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
65595628 TAATTTTACAAACTAGGGGTATTTTGGT-ATTTTTATAAACCAA
66 TAATTTTACAAACTAGGGGTATTTTGGTGA-TTTTATAAACCAA
*
65595671 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
65595736 TAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAA
66 TAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAA
65595779 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
* *
65595844 TAATTTTACAAACCAGAGGTATTTTGGTGATTTTATAAACCAA
66 TAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAA
*
65595887 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAAC
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAC
65595938 TAAAGTATTC
Statistics
Matches: 256, Mismatches: 10, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
108 255 1.00
109 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (108 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
TAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAA
Found at i:65595937 original size:27 final size:27
Alignment explanation
Indices: 65595536--65595930 Score: 547
Period size: 27 Copynumber: 14.6 Consensus size: 27
65595526 TACAGGTCGA
** * *
65595536 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
65595563 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
65595590 AGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
65595617 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
65595644 GGGTATTTTGGTATTTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
65595671 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
65595698 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
65595725 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
65595752 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
65595779 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
65595806 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
65595833 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
65595860 AGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
65595887 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
65595914 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
65595931 GGTAAACTAA
Statistics
Matches: 318, Mismatches: 50, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 318 1.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:65601566 original size:27 final size:27
Alignment explanation
Indices: 65601522--65601713 Score: 165
Period size: 27 Copynumber: 7.2 Consensus size: 27
65601512 GGTCGTAATG
* * * *
65601522 ACCCCCGATTTATGAAATTATTGAAAT
1 ACCCTCGATTTGTAAAATTACTGAAAT
*
65601549 ACCCTCGATTTCTAAAATTACTGAAAT
1 ACCCTCGATTTGTAAAATTACTGAAAT
* *
65601576 ACCCCCGATTTGTAAAATTA-TCAAAAT
1 ACCCTCGATTTGTAAAATTACT-GAAAT
** * **
65601603 ACCCTTAATTTGTGAAATTACCAAAAT
1 ACCCTCGATTTGTAAAATTACTGAAAT
* * **
65601630 ACCCTTGATTTGTGAAATTACCAAAAT
1 ACCCTCGATTTGTAAAATTACTGAAAT
* * *
65601657 ACCCT-AACTTGTAAATTTACTGAAAT
1 ACCCTCGATTTGTAAAATTACTGAAAT
* *
65601683 ACCC-CAATTTGTAAACTTACTGAAAT
1 ACCCTCGATTTGTAAAATTACTGAAAT
65601709 ACCCT
1 ACCCT
65601714 TGTAGGGTAA
Statistics
Matches: 140, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 43 0.31
27 97 0.69
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
ACCCTCGATTTGTAAAATTACTGAAAT
Found at i:65601604 original size:54 final size:53
Alignment explanation
Indices: 65601522--65601697 Score: 183
Period size: 54 Copynumber: 3.3 Consensus size: 53
65601512 GGTCGTAATG
* * ** * *
65601522 ACCCCCGATTTATGAAATTATTGAAATACCCTCGATTTCTAAAATTACTGAAAT
1 ACCCCCGATTTGTAAAATTATCAAAATACCCT-AATTTGTAAAATTACTGAAAT
* **
65601576 ACCCCCGATTTGTAAAATTATCAAAATACCCTTAATTTGTGAAATTACCAAAAT
1 ACCCCCGATTTGTAAAATTATCAAAATACCC-TAATTTGTAAAATTACTGAAAT
** * * * *
65601630 ACCCTTGATTTGTGAAATTACCAAAATACCCTAACTTGTAAATTTACTGAAAT
1 ACCCCCGATTTGTAAAATTATCAAAATACCCTAATTTGTAAAATTACTGAAAT
*
65601683 A-CCCCAATTTGTAAA
1 ACCCCCGATTTGTAAA
65601698 CTTACTGAAA
Statistics
Matches: 99, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
52 10 0.10
53 18 0.18
54 70 0.71
55 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (53 bp):
ACCCCCGATTTGTAAAATTATCAAAATACCCTAATTTGTAAAATTACTGAAAT
Found at i:65601775 original size:26 final size:26
Alignment explanation
Indices: 65601710--65601782 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
65601700 TACTGAAATA
65601710 CCCTTGTAGGGTAAAATGACTGTTTTC
1 CCCTTGT-GGGTAAAATGACTGTTTTC
*** * * *
65601737 CCCTAAAGAGTAAAATGATTGTTTTG
1 CCCTTGTGGGTAAAATGACTGTTTTC
65601763 CCCTTGTGGGT-AAATGACTG
1 CCCTTGTGGGTAAAATGACTG
65601783 ACTTAGGCTA
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
25 8 0.23
26 23 0.66
27 4 0.11
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.34
Consensus pattern (26 bp):
CCCTTGTGGGTAAAATGACTGTTTTC
Found at i:65605654 original size:40 final size:40
Alignment explanation
Indices: 65605514--65605657 Score: 157
Period size: 40 Copynumber: 3.6 Consensus size: 40
65605504 TCTCGATATC
* * * **
65605514 TCGCACACTAAGTTCCGTACATAGCT-GAAGCTATCTTAAA
1 TCGCACACTAAGTGCCATATATAG-TAGAAGCTATCTCGAA
* * * *
65605554 TCGCACATTAAGTGCCACACATAGTAGAAGCTATCTCGATC
1 TCGCACACTAAGTGCCATATATAGTAGAAGCTATCTCGA-A
*
65605595 TCGCACACTAAGTGCCATATATAGTCGAAGCTATGC-CGAA
1 TCGCACACTAAGTGCCATATATAGTAGAAGCTAT-CTCGAA
65605635 TCGCACACTAAGTGCCATATATA
1 TCGCACACTAAGTGCCATATATA
65605658 TATAGCTGAA
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 54 0.61
41 33 0.37
42 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.25
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGTAGAAGCTATCTCGAA
Found at i:65610526 original size:45 final size:45
Alignment explanation
Indices: 65610462--65610551 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
65610452 GCACATAACA
65610462 AAACATTTATTAATAACATAATATTATGAACTTTTATTCACACCT
1 AAACATTTATTAATAACATAATATTATGAACTTTTATTCACACCT
65610507 AAACATTTATTAATAACATAATATTATGAACTTTTATTCACACCT
1 AAACATTTATTAATAACATAATATTATGAACTTTTATTCACACCT
65610552 TTATAAATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.40
Consensus pattern (45 bp):
AAACATTTATTAATAACATAATATTATGAACTTTTATTCACACCT
Found at i:65613622 original size:30 final size:30
Alignment explanation
Indices: 65613567--65613726 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
65613557 ATAGTGAATC
65613567 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
65613596 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
65613626 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
65613655 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
65613683 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
65613713 CGCACACTTAGTGC
1 CGCACACTTAGTGC
65613727 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:65613659 original size:59 final size:57
Alignment explanation
Indices: 65613567--65613726 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
65613557 ATAGTGAATC
*
65613567 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
65613626 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
65613683 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
65613727 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:65620661 original size:16 final size:18
Alignment explanation
Indices: 65620642--65620676 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
65620632 TTCAATTTCA
65620642 TAATTTA-TTC-ACTATT
1 TAATTTACTTCTACTATT
65620658 TAATTTACTTCTACTATT
1 TAATTTACTTCTACTATT
65620676 T
1 T
65620677 TTAGTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 3 0.18
18 7 0.41
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (18 bp):
TAATTTACTTCTACTATT
Found at i:65621501 original size:29 final size:29
Alignment explanation
Indices: 65621469--65621572 Score: 178
Period size: 29 Copynumber: 3.7 Consensus size: 29
65621459 ATAGTGAATC
65621469 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
65621498 CGCACACTTAGTGCTATATAATTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
65621527 CGC-CACTTAGTGC--TATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
65621553 CGCACACTTAGTGCTATATA
1 CGCACACTTAGTGCTATATA
65621573 ATCAAACTCG
Statistics
Matches: 70, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
26 15 0.21
27 10 0.14
28 10 0.14
29 35 0.50
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:65621591 original size:57 final size:55
Alignment explanation
Indices: 65621469--65621597 Score: 181
Period size: 55 Copynumber: 2.3 Consensus size: 55
65621459 ATAGTGAATC
*
65621469 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTCAGCT
1 CGCACACTTAGTGC--TATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTCAACT
65621527 CGC-CACTTAGTGCTATATTTTCAGCTCGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATTTTCAGCTCGCACACTTAGTGCTATATAATTC-AACT
65621581 CGCGCACACTTAGTGCT
1 --CGCACACTTAGTGCT
65621598 GTACAATTTA
Statistics
Matches: 66, Mismatches: 1, Indels: 9
0.87 0.01 0.12
Matches are distributed among these distances:
53 2 0.03
54 3 0.05
55 34 0.52
56 3 0.05
57 21 0.32
58 3 0.05
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (55 bp):
CGCACACTTAGTGCTATATTTTCAGCTCGCACACTTAGTGCTATATAATTCAACT
Found at i:65621625 original size:29 final size:29
Alignment explanation
Indices: 65621468--65621625 Score: 173
Period size: 29 Copynumber: 5.5 Consensus size: 29
65621458 TATAGTGAAT
*
65621468 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATATAATTTCAGC
*
65621497 TCGCACACTTAGTGCTATATAATTTCAGC
1 CCGCACACTTAGTGCTATATAATTTCAGC
*
65621526 TCGC-CACTTAGTGCTATAT--TTTCAGC
1 CCGCACACTTAGTGCTATATAATTTCAGC
* *
65621552 TCGCACACTTAGTGCTATATAA--TCAAAC
1 CCGCACACTTAGTGCTATATAATTTC-AGC
* * * *
65621580 TCGCGCACACTTAGTGCTGTACAATTTAAAC
1 -C-CGCACACTTAGTGCTATATAATTTCAGC
65621611 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
65621626 CAATCTTGTC
Statistics
Matches: 114, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
26 11 0.10
27 17 0.15
28 17 0.15
29 45 0.39
30 20 0.18
31 3 0.03
32 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATATAATTTCAGC
Found at i:65623945 original size:41 final size:40
Alignment explanation
Indices: 65623796--65623946 Score: 153
Period size: 39 Copynumber: 3.8 Consensus size: 40
65623786 TTATAGTGAT
** * *
65623796 TCGCACAGTTGCCTTCGGGAATTAGCCTGAATTTAGTAAC
1 TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAAC
* * * * *
65623836 TCGCACGAATGCCTTC-GGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAAC
*
65623875 TCGCACAAATGCCTTCGGGAATT-GACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATTAG-CCCGGATTTAGTAAC
* * *
65623915 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGAATTAGCCCGGA
65623947 CACCATTCGA
Statistics
Matches: 89, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 32 0.36
40 30 0.34
41 26 0.29
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAAC
Found at i:65626575 original size:80 final size:80
Alignment explanation
Indices: 65626491--65626639 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
65626481 TATGGTAACC
* * * *
65626491 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
65626555 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
65626571 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
65626636 CCGG
66 CCGG
65626640 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:65626581 original size:40 final size:38
Alignment explanation
Indices: 65626532--65626639 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
65626522 ATCACGATTT
*
65626532 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
65626572 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
65626612 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
65626640 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:65629555 original size:80 final size:80
Alignment explanation
Indices: 65629471--65629619 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
65629461 TATGGTAACC
* * * *
65629471 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
65629535 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
65629551 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
65629616 CCGG
66 CCGG
65629620 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:65629561 original size:40 final size:38
Alignment explanation
Indices: 65629512--65629619 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
65629502 ATCACGATTT
*
65629512 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
65629552 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
65629592 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
65629620 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:65636216 original size:40 final size:39
Alignment explanation
Indices: 65636172--65636353 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
65636162 GTTCAAAACA
* * ** * *
65636172 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
65636212 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
65636252 CCTTCGGGCTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
65636291 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
65636330 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
65636354 CTCGAACATT
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 89 0.69
40 40 0.31
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:65636283 original size:39 final size:39
Alignment explanation
Indices: 65636202--65636353 Score: 250
Period size: 39 Copynumber: 3.9 Consensus size: 39
65636192 TATGGTAACC
* * * *
65636202 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
65636242 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
65636281 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
65636320 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
65636354 CTCGAACATT
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:65646032 original size:21 final size:18
Alignment explanation
Indices: 65645994--65646033 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
65645984 GGAAGAATAA
65645994 AGAAATGAAAAAAAAAAG
1 AGAAATGAAAAAAAAAAG
65646012 AGAATATGAAGAAAAACAAAG
1 AGAA-ATGAA-AAAAA-AAAG
65646033 A
1 A
65646034 AAAAAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 5 0.26
20 5 0.26
21 5 0.26
ACGTcount: A:0.72, C:0.03, G:0.17, T:0.07
Consensus pattern (18 bp):
AGAAATGAAAAAAAAAAG
Found at i:65647306 original size:29 final size:29
Alignment explanation
Indices: 65647201--65647306 Score: 106
Period size: 29 Copynumber: 3.7 Consensus size: 29
65647191 TGACGAGATT
* *
65647201 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
*
65647230 GGCACTAAGTGTGC-ATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGA-GCTGGAAAAATAA
* * * * *
65647259 GACACTATGTGCGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
**
65647288 GGCACTGGGTGTGCGAGCT
1 GGCACTAAGTGTGCGAGCT
65647307 CGGAGGGTAT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
29 62 0.98
30 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.22
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAAAATAA
Found at i:65656794 original size:32 final size:32
Alignment explanation
Indices: 65656756--65656819 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
65656746 TATACTTAGG
*
65656756 TTATTTTGTAAGTATCTCAAAGTTCTTAATTA
1 TTATTTTGTAACTATCTCAAAGTTCTTAATTA
65656788 TTATTTTGTAACTATCTCAAAGTTCTTAATTA
1 TTATTTTGTAACTATCTCAAAGTTCTTAATTA
65656820 AACATTAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (32 bp):
TTATTTTGTAACTATCTCAAAGTTCTTAATTA
Found at i:65659266 original size:48 final size:47
Alignment explanation
Indices: 65659203--65659414 Score: 284
Period size: 48 Copynumber: 4.5 Consensus size: 47
65659193 TATGTGTAAT
* * *
65659203 GTGGTGTTAAATGGATATACCAC-GATTACACATATTTATACATGTAAC
1 GTGGTGCTAAGTGGATATACCACAG-TTACACATATTGATACAT-TAAC
* * *
65659251 GTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACAGTTACACATATTGATACATTAAC
*
65659298 ATGGTGCTAAGTGGATATACCAC-GATTACACATATTGATACATATAAC
1 GTGGTGCTAAGTGGATATACCACAG-TTACACATATTGATACAT-TAAC
* * *
65659346 GTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACAGTTACACATATTGATACATTAAC
65659393 GTGGTGCTAAGTGGATATACCA
1 GTGGTGCTAAGTGGATATACCA
65659415 TGGTTAAACA
Statistics
Matches: 145, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
46 1 0.01
47 66 0.46
48 76 0.52
49 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (47 bp):
GTGGTGCTAAGTGGATATACCACAGTTACACATATTGATACATTAAC
Found at i:65659367 original size:95 final size:95
Alignment explanation
Indices: 65659204--65659414 Score: 377
Period size: 95 Copynumber: 2.2 Consensus size: 95
65659194 ATGTGTAATG
* * * *
65659204 TGGTGTTAAATGGATATACCACGATTACACATATTTATACATGTAACGTGGTGCTAAGTGGATAT
1 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACATATAACGTGGTGCTAAGTGGATAT
65659269 GCCACAGTTACATATATTGATTCATTAACA
66 GCCACAGTTACATATATTGATTCATTAACA
65659299 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACATATAACGTGGTGCTAAGTGGATAT
1 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACATATAACGTGGTGCTAAGTGGATAT
*
65659364 GCCACAGTTACATATATTGATTCATTAACG
66 GCCACAGTTACATATATTGATTCATTAACA
65659394 TGGTGCTAAGTGGATATACCA
1 TGGTGCTAAGTGGATATACCA
65659415 TGGTTAAACA
Statistics
Matches: 111, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 111 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (95 bp):
TGGTGCTAAGTGGATATACCACGATTACACATATTGATACATATAACGTGGTGCTAAGTGGATAT
GCCACAGTTACATATATTGATTCATTAACA
Found at i:65659445 original size:38 final size:38
Alignment explanation
Indices: 65659389--65659465 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
65659379 ATTGATTCAT
* *
65659389 TAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
1 TAACATGGTGCTAAGTGGATATACCACGGTTAAACATG
*
65659427 TAACATGGTGCTAAGTGGATATACCACGGTTATACATG
1 TAACATGGTGCTAAGTGGATATACCACGGTTAAACATG
65659465 T
1 T
65659466 TAATTTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (38 bp):
TAACATGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:65662603 original size:46 final size:44
Alignment explanation
Indices: 65662454--65662615 Score: 191
Period size: 46 Copynumber: 3.5 Consensus size: 44
65662444 ATCCGAACTC
*
65662454 GTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGA
1 GTTGAGTCCGAGTTCACTTATGGATG-GAATG-CCGAGCTCGTTGA
*** * *
65662500 GTTGAGTCCGAGTTCGAGAGATGTAACTAGGCAT-CCGAGCTCGTTGA
1 GTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAATGCCGAGCTCGTTGA
65662547 GTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAGCTCGTTGA
1 GTTGAGTCCGAGTTCACTTATGGATG-GAATGCC-GAGCTCGTTGA
65662593 GTTGAGTCCGAGTTCACTTATGG
1 GTTGAGTCCGAGTTCACTTATGG
65662616 GCGGGTTACA
Statistics
Matches: 98, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 3 0.03
46 53 0.54
47 31 0.32
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (44 bp):
GTTGAGTCCGAGTTCACTTATGGATGGAATGCCGAGCTCGTTGA
Found at i:65668346 original size:24 final size:24
Alignment explanation
Indices: 65668319--65668385 Score: 134
Period size: 24 Copynumber: 2.8 Consensus size: 24
65668309 CTTATTATGT
65668319 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
65668343 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
65668367 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
65668386 TATTTCCAGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:65671929 original size:12 final size:12
Alignment explanation
Indices: 65671909--65671939 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
65671899 GGAGCTTTCG
*
65671909 TCAAATGAGTTT
1 TCAATTGAGTTT
65671921 TCAATTGAGTTT
1 TCAATTGAGTTT
65671933 TCAATTG
1 TCAATTG
65671940 GTCGAAACTT
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:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (12 bp):
TCAATTGAGTTT
Found at i:65676185 original size:24 final size:24
Alignment explanation
Indices: 65676158--65676248 Score: 164
Period size: 24 Copynumber: 3.8 Consensus size: 24
65676148 CTTATTATGT
**
65676158 TCGCACACATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
65676182 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
65676206 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
65676230 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
65676249 TATTTCCAGC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:65677893 original size:29 final size:29
Alignment explanation
Indices: 65677861--65677937 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 29
65677851 GCTGGAAATA
* *
65677861 TATGGCACTAAGTGTGCGAGCTCGAAGGG
1 TATGGCACTAAGTGTGCGAGCTCAAAGCG
** * * *
65677890 TATGGCACTGTGTGTGCGGGCTTAAATCG
1 TATGGCACTAAGTGTGCGAGCTCAAAGCG
*
65677919 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
65677938 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.18, G:0.35, T:0.25
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAGCTCAAAGCG
Found at i:65691419 original size:46 final size:48
Alignment explanation
Indices: 65691347--65691449 Score: 138
Period size: 46 Copynumber: 2.2 Consensus size: 48
65691337 GATAGGACAG
* * *
65691347 GACAGAAATGAGCCATGTAAGTCCATA-T-CAGATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGGCATTGGA
* *
65691393 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGGCATTGGA
*
65691441 GATAGGAAT
1 GACAGGAAT
65691450 AATTCATGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 25 0.51
47 1 0.02
48 23 0.47
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGGCATTGGA
Found at i:65697796 original size:47 final size:47
Alignment explanation
Indices: 65697684--65697948 Score: 386
Period size: 47 Copynumber: 5.6 Consensus size: 47
65697674 TACGTGTAAT
* ** * * *
65697684 GTGGTGTTAAGTGGATATACCACAATTACACATATTTATACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT-TAAC
*
65697732 GTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
* *
65697779 GTGGTACTAAGTGGATATGCCACGGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
* * * *
65697826 GTGGTGCTAAGTGGATATACCATGATTACACATATTGATACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT-TAAC
*
65697874 GTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
65697921 GTGGTGCTAAGTGGATATACCACGGTTA
1 GTGGTGCTAAGTGGATATACCACGGTTA
65697949 AACATGTAGC
Statistics
Matches: 196, Mismatches: 20, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
47 118 0.60
48 78 0.40
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (47 bp):
GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
Found at i:65697884 original size:95 final size:95
Alignment explanation
Indices: 65697673--65697953 Score: 393
Period size: 95 Copynumber: 3.0 Consensus size: 95
65697663 TACCACGGTT
* * * * ** * * *
65697673 ATACGTGTAATGTGGTGTTAAGTGGATATACCACAATTACACATATTTATACATGTAACGTGGTG
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT-TAACGTGGTG
* * *
65697738 CTAAGTGGATATGCCACGGTTACATATATTG
65 CTAAGTGGATATACCACGATTACACATATTG
* *
65697769 ATTCAT-TAACGTGGTACTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGC
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGC
*
65697833 TAAGTGGATATACCATGATTACACATATTG
66 TAAGTGGATATACCACGATTACACATATTG
65697863 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGC
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGC
* *
65697928 TAAGTGGATATACCACGGTTAAACAT
66 TAAGTGGATATACCACGATTACACAT
65697954 GTAGCATGGT
Statistics
Matches: 164, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
94 42 0.26
95 118 0.72
96 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (95 bp):
ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGC
TAAGTGGATATACCACGATTACACATATTG
Found at i:65697944 original size:142 final size:142
Alignment explanation
Indices: 65697684--65697948 Score: 476
Period size: 142 Copynumber: 1.9 Consensus size: 142
65697674 TACGTGTAAT
* *
65697684 GTGGTGTTAAGTGGATATACCACAATTACACATATTTATACATGTAACGTGGTGCTAAGTGGATA
1 GTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGTAACGTGGTGCTAAGTGGATA
*
65697749 TGCCACGGTTACATATATTGATTCATTAACGTGGTACTAAGTGGATATGCCACGGTTACATATAT
66 TGCCACGGTTACATATATTGATTCATTAACGTGGTACTAAGTGGATATACCACGGTTACATATAT
65697814 TGATTCATTAAC
131 TGATTCATTAAC
**
65697826 GTGGTGCTAAGTGGATATACCATGATTACACATATTGATACATGTAACGTGGTGCTAAGTGGATA
1 GTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGTAACGTGGTGCTAAGTGGATA
*
65697891 TGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATACCACGGTTA
66 TGCCACGGTTACATATATTGATTCATTAACGTGGTACTAAGTGGATATACCACGGTTA
65697949 AACATGTAGC
Statistics
Matches: 117, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
142 117 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (142 bp):
GTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGTAACGTGGTGCTAAGTGGATA
TGCCACGGTTACATATATTGATTCATTAACGTGGTACTAAGTGGATATACCACGGTTACATATAT
TGATTCATTAAC
Found at i:65702261 original size:40 final size:39
Alignment explanation
Indices: 65702096--65702279 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
65702086 AAATTGAATG
* * *
65702096 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
65702136 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
65702176 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
65702216 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
65702255 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
65702280 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:65702304 original size:80 final size:81
Alignment explanation
Indices: 65702136--65702324 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
65702126 GCTGGAAATT
* * * *
65702136 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
65702201 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
65702217 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
65702280 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
65702296 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
65702325 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:65707456 original size:39 final size:39
Alignment explanation
Indices: 65707408--65707566 Score: 237
Period size: 39 Copynumber: 4.1 Consensus size: 39
65707398 TATGAATGTA
*
65707408 CGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAATGTG
1 CGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
*
65707447 CCAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
* *
65707486 CGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
* * * *
65707525 CGAGTTGTGATACCCGGGTTAAGTCCCGAAGGCATTTGTG
1 CGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTG
65707565 CG
1 CG
65707567 GTTACCACAA
Statistics
Matches: 110, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 93 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (39 bp):
CGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
Found at i:65707581 original size:78 final size:78
Alignment explanation
Indices: 65707421--65707596 Score: 228
Period size: 78 Copynumber: 2.2 Consensus size: 78
65707411 ATTGTGATAT
*
65707421 CCGGGCTAAGCCCGAAGGCAAATGTGCCAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CCGGGCTAAGCCCGAAGGCAAATGTGCCAATTGTGATACCCGGGCTAAGCCCGAAGGCAATTGTG
** * *
65707486 CGAGTTATGATAT
66 CGAGTTACCACAA
* * * * *
65707499 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATACCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAAATGTGCCAATTGTGATACCCGGGCTAAG-CCCGAAGGCAATTGT
65707564 GCG-GTTACCACAA
65 GCGAGTTACCACAA
*
65707577 CCGGGCTATGTCCCGAAGGC
1 CCGGGCTAAG-CCCGAAGGC
65707597 GTTTGAACGA
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
78 59 0.69
79 26 0.31
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.21
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCAAATGTGCCAATTGTGATACCCGGGCTAAGCCCGAAGGCAATTGTG
CGAGTTACCACAA
Found at i:65707592 original size:39 final size:39
Alignment explanation
Indices: 65707415--65707596 Score: 204
Period size: 39 Copynumber: 4.6 Consensus size: 39
65707405 GTACGAATTG
* * * * *
65707415 TGATATCCGGGCTAAGCCCGAAGGCAAATGTGCCAATTG
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
65707454 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
65707493 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
65707532 TGATACCCGGGTTAAGTCCCGAAGGCATTTGTGCG-GTTA
1 TGATAACCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
65707571 CCACAACCGGGCTATGTCCCGAAGGC
1 TGATAACCGGGCTAAG-CCCGAAGGC
65707597 GTTTGAACGA
Statistics
Matches: 127, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
39 110 0.87
40 17 0.13
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (39 bp):
TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Done.