Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 191 of 222
Found at i:61057579 original size:22 final size:22
Alignment explanation
Indices: 61057554--61057596 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
61057544 TATCCAAACA
61057554 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
61057576 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
61057597 AACAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:61059300 original size:16 final size:16
Alignment explanation
Indices: 61059269--61059315 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
61059259 ATATGAAGAA
61059269 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
61059285 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
*
61059301 TATTAAATTAAAATT
1 TATT-ATTTAAAATT
61059316 GAAATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 7 0.26
16 12 0.44
17 2 0.07
18 6 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:61071636 original size:145 final size:145
Alignment explanation
Indices: 61071371--61071665 Score: 563
Period size: 145 Copynumber: 2.0 Consensus size: 145
61071361 AAAAGGGCAT
61071371 TTCCAATTTAAAACAGGAGTAGGTAAACAATTAACTAAAAAACAAGCAGTAAGAATGCATTCACC
1 TTCCAATTTAAAACAGGAGTAGGTAAACAATTAACTAAAAAACAAGCAGTAAGAATGCATTCACC
61071436 CCAAAATTTGCTAGGCATGTGGGACTGGAATTTTAATGACAGGGCTACTTCCAGCAAATGTCGAT
66 CCAAAATTTGCTAGGCATGTGGGACTGGAATTTTAATGACAGGGCTACTTCCAGCAAATGTCGAT
*
61071501 GTTTTCGTTCCGTAA
131 GTTTTCGTTCCGCAA
61071516 TTCCAATTTAAAACAGGAGTAGGTAAACAATTAACTAAAAAACAAGCAGTAAGAATGCATTCACC
1 TTCCAATTTAAAACAGGAGTAGGTAAACAATTAACTAAAAAACAAGCAGTAAGAATGCATTCACC
*
61071581 CCAAAATTTGCTAGGCATGTGGGACTGGAATTTTAATGACAGGGCTACTTTCAGCAAATGTCGAT
66 CCAAAATTTGCTAGGCATGTGGGACTGGAATTTTAATGACAGGGCTACTTCCAGCAAATGTCGAT
*
61071646 GTTTTCGTTTCGCAA
131 GTTTTCGTTCCGCAA
61071661 TTCCA
1 TTCCA
61071666 TTCTGTTGAG
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
145 147 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (145 bp):
TTCCAATTTAAAACAGGAGTAGGTAAACAATTAACTAAAAAACAAGCAGTAAGAATGCATTCACC
CCAAAATTTGCTAGGCATGTGGGACTGGAATTTTAATGACAGGGCTACTTCCAGCAAATGTCGAT
GTTTTCGTTCCGCAA
Found at i:61087007 original size:73 final size:73
Alignment explanation
Indices: 61086921--61087059 Score: 260
Period size: 73 Copynumber: 1.9 Consensus size: 73
61086911 ATCTATTTGA
*
61086921 TACACAATTGAGATATGATAAAATAATTGCAACAATAGTTATTAAGATTTAAAAAGCTTAAATTT
1 TACACAATTGAGATATAATAAAATAATTGCAACAATAGTTATTAAGATTTAAAAAGCTTAAATTT
61086986 TACTTTTT
66 TACTTTTT
*
61086994 TACACAATTGAGATATAATAAAATAATTGCAACAATAGTTATTGAGATTTAAAAAGCTTAAATTT
1 TACACAATTGAGATATAATAAAATAATTGCAACAATAGTTATTAAGATTTAAAAAGCTTAAATTT
61087059 T
66 T
61087060 TATGAAAGGG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 64 1.00
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (73 bp):
TACACAATTGAGATATAATAAAATAATTGCAACAATAGTTATTAAGATTTAAAAAGCTTAAATTT
TACTTTTT
Found at i:61089208 original size:41 final size:41
Alignment explanation
Indices: 61089121--61089240 Score: 114
Period size: 41 Copynumber: 2.9 Consensus size: 41
61089111 CCGGTTCAGC
* * * * *
61089121 TGAAATGTAGAAAAATACTTCCAACTTGAAGCTCTTTCAAG
1 TGAAATGTAGAAAAACACTTCCAGCTGGAAGCGCTTTTAAG
* * *
61089162 CGAAATATAGAAAAACACTTCCAGCTGGAAGCGCTTTTAGG
1 TGAAATGTAGAAAAACACTTCCAGCTGGAAGCGCTTTTAAG
** * * * *
61089203 TGAAATGCGGAAAAACGCTTTCAGTTGGAAGTGCTTTT
1 TGAAATGTAGAAAAACACTTCCAGCTGGAAGCGCTTTT
61089241 CGCATGTTAC
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (41 bp):
TGAAATGTAGAAAAACACTTCCAGCTGGAAGCGCTTTTAAG
Found at i:61096883 original size:11 final size:12
Alignment explanation
Indices: 61096856--61096888 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
61096846 TTTTTAATAA
61096856 AAAAATATTAAT
1 AAAAATATTAAT
*
61096868 AAAAATTTTAAT
1 AAAAATATTAAT
61096880 AAAAATATT
1 AAAAATATT
61096889 TTTAAGAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AAAAATATTAAT
Found at i:61096889 original size:14 final size:13
Alignment explanation
Indices: 61096847--61096890 Score: 54
Period size: 12 Copynumber: 3.3 Consensus size: 13
61096837 GCGAATTAAT
61096847 TTTTAATAAAAAAA
1 TTTTAAT-AAAAAA
*
61096861 TATTAAT-AAAAA
1 TTTTAATAAAAAA
61096873 TTTTAATAAAAATA
1 TTTTAATAAAAA-A
61096887 TTTT
1 TTTT
61096891 TAAGAGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 11 0.42
13 4 0.15
14 11 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTTAATAAAAAA
Found at i:61114527 original size:29 final size:29
Alignment explanation
Indices: 61114493--61114554 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
61114483 TCGAATATCA
61114493 ACTTGGTTCAAACCAACAGCTCAGATACC
1 ACTTGGTTCAAACCAACAGCTCAGATACC
* * *
61114522 ACTTGGTTCAAACCTACAGCTCTGATACT
1 ACTTGGTTCAAACCAACAGCTCAGATACC
61114551 ACTT
1 ACTT
61114555 TTCACGGGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (29 bp):
ACTTGGTTCAAACCAACAGCTCAGATACC
Found at i:61120343 original size:111 final size:105
Alignment explanation
Indices: 61120257--61121486 Score: 442
Period size: 111 Copynumber: 11.4 Consensus size: 105
61120247 TTAAAAAAAA
* * *
61120257 TTTCGTATACTGATGTCGGCCAATGACAGCCCAAAATATAAATTTTTTTACATAAAGGTGGTGCC
1 TTTCGTATATTGGTGCCGGCCAATGACAGCCCAAAATATAAATTTTTTTACATAAAGGTGGTGCC
61120322 GGCCATTGGCAGGCCACCACC--AATTTTTTTTT-AATTT
66 GGCCATTGGCAGGCCACCACCAAAATTTTTTTTTAAATTT
* * * * * * * ***** *
61120359 TTTCGTATACTAGTGTCGACCAATTAAAGCCCAAAATGTAAAACAAAAAAAAATTACAAAAAGGT
1 TTTCGTATATTGGTGCCGGCCAATGACAGCCCAAAA--T---A-TAAATTTTTTTACATAAAGGT
* * *
61120424 GGTGTCGGCCATTGGTAGGCCACTACCAAAATTTTTTTTTAAATTT
60 GGTGCCGGCCATTGGCAGGCCACCACCAAAATTTTTTTTTAAATTT
* * * * * *
61120470 TTTCGTATATTGGTGCCAGTCATTGACAGCCCAAAATGTAATTTTTTTTTTACATAAAGGTGATG
1 TTTCGTATATTGGTGCCGGCCAATGACAGCCCAAAATATAA--ATTTTTTTACATAAAGGTGGTG
* * * *
61120535 TCGGCTATTGCCAGGCCACTACC-AAATTTTTTTTT-AATTT
64 CCGGCCATTGGCAGGCCACCACCAAAATTTTTTTTTAAATTT
* * * * ****
61120575 TTTCGTATATTGGTGCCAGCTATTGACAGCCCAAAATGTAAAAAGAAAAAAAATTTACATAAAGG
1 TTTCGTATATTGGTGCCGGCCAATGACAGCCCAAAA--T----A-TAAATTTTTTTACATAAAGG
* * ** *
61120640 TAGTGCTGGCCATTGGCAGGCCACCACCAAAAAAAGAAATGTTTTTAACATTT
59 TGGTGCCGGCCATTGGCAGGCCACCACC----AAA-ATTTTTTTTTAA-ATTT
* *
61120693 TTTCGTATATTGGTGCCGGCCAATTACAGCCCAAAATATAAATTTTTTAACATAAAGGTGGTGCC
1 TTTCGTATATTGGTGCCGGCCAATGACAGCCCAAAATATAAATTTTTTTACATAAAGGTGGTGCC
* *** * *
61120758 GGTCATTGGCAGGCCACCACCAAAAAAATATTTT-ATTTT
66 GGCCATTGGCAGGCCACCACCAAAATTTTTTTTTAAATTT
* * *** * * * ** * *
61120797 TTTCCTATATTGGTACCGGTTGATAACAACCCAAAATGTATTTTTTTTTTACATAAAAGTGGTGT
1 TTTCGTATATTGGTGCCGGCCAATGACAGCCCAAAATATA-AATTTTTTTACATAAAGGTGGTGC
* * * * * **** *
61120862 CGACTATTGCCAAGCCACCACAAAAAGAAATTTTTAAAATT
65 CGGCCATTGGCAGGCCACCACCAAAATTTTTTTTTAAATTT
* * * * * ***** *
61120903 TTTCGTATATTAGTGCC-TCTCATTAATAGCCCAAAATATAAAAAAAATTACATAAAGGTGGTGT
1 TTTCGTATATTGGTGCCGGC-CAATGACAGCCCAAAATATAAATTTTTTTACATAAAGGTGGTGC
* ** * * ***** * *
61120967 CGGCAATTGATAGGCTA-CA-AAAAAAACAATTTCATATTT
65 CGGCCATTGGCAGGCCACCACCAAAATTTTTTTTTAAATTT
* * * * * * * * *****
61121006 TTTTGTAAACTAGTGCCGGCAAATGACAACCTAAAATGTAAAAAAAAATTACATAAAGGTGGTGC
1 TTTCGTATATTGGTGCCGGCCAATGACAGCCCAAAATAT-AAATTTTTTTACATAAAGGTGGTGC
* ** ****
61121071 CGGCCATTGGCAAGCCACCATTAAAA---AAAATTAAATTT
65 CGGCCATTGGCAGGCCACCACCAAAATTTTTTTTTAAATTT
* *
61121109 TTTCGTATACTGGTGCCGGCCAATGACAGCCCAAAATGTAAAAAAAATAATTTTTTTTACATAAA
1 TTTCGTATATTGGTGCCGGCCAATGACAGCCCAAAA--T-------ATAAATTTTTTTACATAAA
* * * **** *
61121174 GGTGGTGCCGGCTATTGGTAGGCTACCACCAAAA--AAAATTCAAATTT
57 GGTGGTGCCGGCCATTGGCAGGCCACCACCAAAATTTTTTTTTAAATTT
* * ** * * * *
61121221 TTCCGTATACTGGTGTAGGTCAATGATAGCCCAAAATGTAAAAAAAAAATATTTTTTTTATATAA
1 TTTCGTATATTGGTGCCGGCCAATGACAGCCCAAAA--T------ATAA-A-TTTTTTTACATAA
** * * *
61121286 AGGTGGTGCTTGCCATTGGCAGGCTACCACAAAAAAAAGTTTTTTTTTAAAAAATT
56 AGGTGGTGCCGGCCATTGGCAGGCCACCAC---CAAAA-TTTTTTTTT--AAATTT
* * ** * ***** *
61121342 TTT-GTAAATTGGTACCGGGAAATGACAGCCCAAAATGTAAAAAAAAATTACATAAAGGTGATGC
1 TTTCGTATATTGGTGCCGGCCAATGACAGCCCAAAATAT-AAATTTTTTTACATAAAGGTGGTGC
* ** ** ****
61121406 CGGCCATTGGAAGGCCAAAATTAAAA--AAAATTTAAATTT
65 CGGCCATTGGCAGGCCACCACCAAAATTTTTTTTTAAATTT
* * *
61121445 TTTCGTATACTGGTGCCGGCCAATAACAGCCCAAAATGTAAA
1 TTTCGTATATTGGTGCCGGCCAATGACAGCCCAAAATATAAA
61121487 AAAAAATATT
Statistics
Matches: 846, Mismatches: 227, Indels: 109
0.72 0.19 0.09
Matches are distributed among these distances:
102 31 0.04
103 89 0.11
104 104 0.12
105 120 0.14
106 54 0.06
107 39 0.05
108 42 0.05
109 1 0.00
110 44 0.05
111 148 0.17
112 49 0.06
113 40 0.05
115 2 0.00
116 12 0.01
117 1 0.00
118 37 0.04
119 2 0.00
120 24 0.03
121 7 0.01
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (105 bp):
TTTCGTATATTGGTGCCGGCCAATGACAGCCCAAAATATAAATTTTTTTACATAAAGGTGGTGCC
GGCCATTGGCAGGCCACCACCAAAATTTTTTTTTAAATTT
Found at i:61120604 original size:105 final size:103
Alignment explanation
Indices: 61120280--61120863 Score: 388
Period size: 105 Copynumber: 5.4 Consensus size: 103
61120270 TGTCGGCCAA
* * *
61120280 TGACAGCCCAAAATATAAATTTTTTTACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACC-A
1 TGACAGCCCAAAATGTAAATTTTTTTACATAAAGGTGGTGTCGGCCATTGGCAGGCCACTACCAA
* * * * *
61120344 ATTTTTTTTTAATTTTTTCGTATACTAGTGTCGACCAAT
66 ATTTTTTTTTAATTTTTTCGTATATTGGTG-CCAGCTAT
* ***** * *
61120383 T-AAAGCCCAAAATGTAAAACAAAAAAAAATTACAAAAAGGTGGTGTCGGCCATTGGTAGGCCAC
1 TGACAGCCCAAAATGT------AAATTTTTTTACATAAAGGTGGTGTCGGCCATTGGCAGGCCAC
61120447 TACCAAAATTTTTTTTTAAATTTTTTCGTATATTGGTGCCAG-TCAT
60 TACC-AAATTTTTTTTT-AATTTTTTCGTATATTGGTGCCAGCT-AT
* * * *
61120493 TGACAGCCCAAAATGTAATTTTTTTTTTACATAAAGGTGATGTCGGCTATTGCCAGGCCACTACC
1 TGACAGCCCAAAATGTAA--ATTTTTTTACATAAAGGTGGTGTCGGCCATTGGCAGGCCACTACC
61120558 AAATTTTTTTTTAATTTTTTCGTATATTGGTGCCAGCTAT
64 AAATTTTTTTTTAATTTTTTCGTATATTGGTGCCAGCTAT
**** *
61120598 TGACAGCCCAAAATGTAAAAAGAAAAAAAATTTACATAAAGGTAGTG-CTGGCCATTGGCAGGCC
1 TGACAGCCCAAAATGT-------AAATTTTTTTACATAAAGGTGGTGTC-GGCCATTGGCAGGCC
* * * * * *
61120662 ACCACCAAAAAAAGAAATGTTTTTAACATTTTTTCGTATATTGGTGCCGGCCAAT
58 ACTACC------A-AATTTTTTTTTA-ATTTTTTCGTATATTGGTGCCAG-CTAT
* * * * *
61120717 T-ACAGCCCAAAATATAAATTTTTTAACATAAAGGTGGTGCCGGTCATTGGCAGGCCACCACCAA
1 TGACAGCCCAAAATGTAAATTTTTTTACATAAAGGTGGTGTCGGCCATTGGCAGGCCACTACC-A
*** * * * * * *
61120781 AAAAATATTTTATTTTTTTCCTATATTGGTACCGGTTGA-
65 AATTTTTTTTTAATTTTTTCGTATATTGGTGCCAGCT-AT
* * ** *
61120820 TAACAACCCAAAATGTATTTTTTTTTTACATAAAAGTGGTGTCG
1 TGACAGCCCAAAATGTA-AATTTTTTTACATAAAGGTGGTGTCG
61120864 ACTATTGCCA
Statistics
Matches: 379, Mismatches: 67, Indels: 68
0.74 0.13 0.13
Matches are distributed among these distances:
102 12 0.03
103 2 0.01
104 34 0.09
105 73 0.19
106 15 0.04
107 34 0.09
108 38 0.10
109 1 0.00
110 49 0.13
111 69 0.18
112 3 0.01
116 1 0.00
117 9 0.02
118 35 0.09
119 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (103 bp):
TGACAGCCCAAAATGTAAATTTTTTTACATAAAGGTGGTGTCGGCCATTGGCAGGCCACTACCAA
ATTTTTTTTTAATTTTTTCGTATATTGGTGCCAGCTAT
Found at i:61121048 original size:103 final size:102
Alignment explanation
Indices: 61120932--61121156 Score: 265
Period size: 103 Copynumber: 2.2 Consensus size: 102
61120922 TCATTAATAG
* * * * *
61120932 CCCAAAATATAAAAAAAATTACATAAAGGTGGTGTCGGCAATTGATAGGCTA-CA-AAAAAAACA
1 CCCAAAATGTAAAAAAAATTACATAAAGGTGGTGCCGGCAATTGACAAGCCACCATAAAAAAA-A
* *
61120995 ATTTCATATTTTTTTGTAAACTAGTGCCGGCAAATGACAA
65 A-TT-AAATTTTTTCGTAAACTAGTGCCGGCAAATGACAA
* * * *
61121035 CCTAAAATGTAAAAAAAAATTACATAAAGGTGGTGCCGGCCATTGGCAAGCCACCATTAAAAAAA
1 CCCAAAATGT-AAAAAAAATTACATAAAGGTGGTGCCGGCAATTGACAAGCCACCATAAAAAAAA
* * * *
61121100 ATTAAATTTTTTCGTATACTGGTGCCGGCCAATGACAG
65 ATTAAATTTTTTCGTAAACTAGTGCCGGCAAATGACAA
61121138 CCCAAAATGTAAAAAAAAT
1 CCCAAAATGTAAAAAAAAT
61121157 AATTTTTTTT
Statistics
Matches: 103, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
102 9 0.09
103 46 0.45
104 38 0.37
105 4 0.04
106 6 0.06
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.24
Consensus pattern (102 bp):
CCCAAAATGTAAAAAAAATTACATAAAGGTGGTGCCGGCAATTGACAAGCCACCATAAAAAAAAA
TTAAATTTTTTCGTAAACTAGTGCCGGCAAATGACAA
Found at i:61121125 original size:54 final size:54
Alignment explanation
Indices: 61121065--61121235 Score: 139
Period size: 54 Copynumber: 3.1 Consensus size: 54
61121055 TACATAAAGG
61121065 TGGTGCCGGCCATTGGCAAGCCACCATTAAAAAAAATTAAATTTTTTCGTATAC
1 TGGTGCCGGCCATTGGCAAGCCACCATTAAAAAAAATTAAATTTTTTCGTATAC
* * ** * * * *
61121119 TGGTGCCGGCCAATGAC-AGCCCAAAATGTAAAAAAAA-TAATTTTTTTTACATAAAGG
1 TGGTGCCGGCCATTGGCAAG-CCACCAT-TAAAAAAAATTAA-ATTTTTT-CGTATA-C
* * * * ** *
61121176 TGGTGCCGGCTATTGGTAGGCTACCACCAAAAAAAATTCAAATTTTTCCGTATAC
1 TGGTGCCGGCCATTGGCAAGCCACCATTAAAAAAAATT-AAATTTTTTCGTATAC
61121231 TGGTG
1 TGGTG
61121236 TAGGTCAATG
Statistics
Matches: 86, Mismatches: 23, Indels: 15
0.69 0.19 0.12
Matches are distributed among these distances:
53 2 0.02
54 23 0.27
55 20 0.23
56 16 0.19
57 22 0.26
58 3 0.03
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (54 bp):
TGGTGCCGGCCATTGGCAAGCCACCATTAAAAAAAATTAAATTTTTTCGTATAC
Found at i:61121504 original size:111 final size:112
Alignment explanation
Indices: 61120950--61121604 Score: 561
Period size: 112 Copynumber: 5.9 Consensus size: 112
61120940 ATAAAAAAAA
* * * * *
61120950 TTACATAAAGGTGGTGTCGGCAATT-GATAGGCTA-CA-AAAAAAACAATTTCATATTTTTTTGT
1 TTACATAAAGGTGGTGCCGGCCATTGGA-AGGCTACCACCAAAAAA-AATTT-AAATTTTTTCGT
* * * * *
61121012 AAACTAGTGCCGGCAAATGACAACCTAAAATGT-AAAAAAAA-A------
63 ATACTGGTGCCGGCCAATGACAGCCCAAAATGTAAAAAAAAATATTTTTT
* **
61121054 TTACATAAAGGTGGTGCCGGCCATTGGCAA-GCCACCATTAAAAAAAA-TTAAATTTTTTCGTAT
1 TTACATAAAGGTGGTGCCGGCCATTGG-AAGGCTACCACCAAAAAAAATTTAAATTTTTTCGTAT
61121117 ACTGGTGCCGGCCAATGACAGCCCAAAATGT-AAAAAAAATAATTTTTT
65 ACTGGTGCCGGCCAATGACAGCCCAAAATGTAAAAAAAAAT-ATTTTTT
* * * *
61121165 TTACATAAAGGTGGTGCCGGCTATTGGTAGGCTACCACCAAAAAAAATTCAAATTTTTCCGTATA
1 TTACATAAAGGTGGTGCCGGCCATTGGAAGGCTACCACCAAAAAAAATTTAAATTTTTTCGTATA
** * *
61121230 CTGGTGTAGGTCAATGATAGCCCAAAATGTAAAAAAAAAATATTTTTT
66 CTGGTGCCGGCCAATGACAGCCCAAAATGT-AAAAAAAAATATTTTTT
* ** * *
61121278 TTATATAAAGGTGGTGCTTGCCATTGGCAGGCTACCA-CAAAAAAAAGTTTTTTTTTAAAAAATT
1 TTACATAAAGGTGGTGCCGGCCATTGGAAGGCTACCACCAAAAAAAA-------TTT--AAATTT
* * * **
61121342 TTT-GTAAATTGGTACCGGGAAATGACAGCCCAAAATGT-AAAAAAAA-A------
57 TTTCGTATACTGGTGCCGGCCAATGACAGCCCAAAATGTAAAAAAAAATATTTTTT
* * ** **
61121389 TTACATAAAGGTGATGCCGGCCATTGGAAGGCCAAAATTAAAAAAAATTTAAATTTTTTCGTATA
1 TTACATAAAGGTGGTGCCGGCCATTGGAAGGCTACCACCAAAAAAAATTTAAATTTTTTCGTATA
*
61121454 CTGGTGCCGGCCAATAACAGCCCAAAATGTAAAAAAAAATA-TTTTT
66 CTGGTGCCGGCCAATGACAGCCCAAAATGTAAAAAAAAATATTTTTT
* * *
61121500 TTACATAAAGATGGTGTCAGG-CATTGGTAGGCTACCACCAAAAAAAATTTTAAATTTTTTCGTA
1 TTACATAAAGGTGGTG-CCGGCCATTGGAAGGCTACCACCAAAAAAAA-TTTAAATTTTTTCGTA
* * * * *
61121564 TACTAGTGTCAGCCAATGACATCCAAAAATGTAAAAAAAAA
64 TACTGGTGCCGGCCAATGACAGCCCAAAATGTAAAAAAAAA
61121605 ATTACATAAA
Statistics
Matches: 446, Mismatches: 69, Indels: 64
0.77 0.12 0.11
Matches are distributed among these distances:
103 54 0.12
104 57 0.13
105 18 0.04
106 8 0.02
110 1 0.00
111 103 0.23
112 112 0.25
113 39 0.09
114 9 0.02
117 1 0.00
118 8 0.02
119 2 0.00
120 27 0.06
121 7 0.02
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (112 bp):
TTACATAAAGGTGGTGCCGGCCATTGGAAGGCTACCACCAAAAAAAATTTAAATTTTTTCGTATA
CTGGTGCCGGCCAATGACAGCCCAAAATGTAAAAAAAAATATTTTTT
Found at i:61121649 original size:48 final size:47
Alignment explanation
Indices: 61121597--61121703 Score: 126
Period size: 48 Copynumber: 2.2 Consensus size: 47
61121587 CAAAAATGTA
* **
61121597 AAAAAAAAATTACATAAAAGATGGTGCTTGCCATTGGC-AAGCTAACAC
1 AAAAAAAAATTACAT-AAAGATGATGCCGGCCATT-GCTAAGCTAACAC
* * *
61121645 AAAAAAAAATTTACATAAAGGTGATGCCGGCCATTGCTAGGCTACCAC
1 AAAAAAAAA-TTACATAAAGATGATGCCGGCCATTGCTAAGCTAACAC
61121693 AAAAAAAAATT
1 AAAAAAAAATT
61121704 CAGATTTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
47 4 0.08
48 41 0.80
49 6 0.12
ACGTcount: A:0.47, C:0.17, G:0.16, T:0.21
Consensus pattern (47 bp):
AAAAAAAAATTACATAAAGATGATGCCGGCCATTGCTAAGCTAACAC
Found at i:61121755 original size:106 final size:105
Alignment explanation
Indices: 61121645--61122067 Score: 340
Period size: 108 Copynumber: 4.0 Consensus size: 105
61121635 AAGCTAACAC
* * *
61121645 AAAAAAAAATTTACATAAAGGTGATGCCGGCCATT-GCTAGGCTACCACAAAAAAAAATTCAGAT
1 AAAAAAAAATTTACATAAAGGTGGTGCCAGCCATTGGC-AGGCTACCACAAAAAAAAATTTA-AT
* *
61121709 TTTTTCGTATACTGGTGTCAGCCAATGACAACCCAAAATGTA
64 TTTTTCGTATACTGGTGCCAGCCAATGACAGCCCAAAATGTA
* * * * ** *
61121751 AAAAAAATATTTTTTTACATAAAGGTGGTGCCAACCATTGGCAGGCCATCA-TTAAAAAAATTAA
1 AAAAAAA-A---ATTTACATAAAGGTGGTGCCAGCCATTGGCAGGCTACCACAAAAAAAAATTTA
* * * *
61121815 ATTTTTTCGTATATTAGTGCCAGCCATTAACAGCCCAAAA--TA
62 ATTTTTTCGTATACTGGTGCCAGCCAATGACAGCCCAAAATGTA
* * * * * * *
61121857 TAAAAAAAATTTATATAAAGTTGGTGCCGGCTATTGGCAGGCTACAAAAAAAAAACAATTTTATA
1 AAAAAAAAATTTACATAAAGGTGGTGCCAGCCATTGGCAGGCTACCACAAAAAAA-AA-TTTA-A
* * ** * *
61121922 TTTTTTTGTATACTGGTGCCGGATAATGACAGCCTAAAATGTG
63 TTTTTTCGTATACTGGTGCCAGCCAATGACAGCCCAAAATGTA
* * * *
61121965 AAAAAAAAATTTACATAAAGTTGGTGTCAGCCATT-ACTAGGC--CC-CAAAAAAAATTTTAATT
1 AAAAAAAAATTTACATAAAGGTGGTGCCAGCCATTGGC-AGGCTACCACAAAAAAAAATTTAATT
* * ** ** *
61122026 TTTTTGTATACTGATGCTGGCCAATGTTAGCCAAAAATGTA
65 TTTTCGTATACTGGTGCCAGCCAATGACAGCCCAAAATGTA
61122067 A
1 A
61122068 TTTTTTTTTA
Statistics
Matches: 250, Mismatches: 55, Indels: 28
0.75 0.17 0.08
Matches are distributed among these distances:
102 67 0.27
103 9 0.04
104 3 0.01
105 11 0.04
106 47 0.19
107 2 0.01
108 69 0.28
109 10 0.04
110 30 0.12
111 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (105 bp):
AAAAAAAAATTTACATAAAGGTGGTGCCAGCCATTGGCAGGCTACCACAAAAAAAAATTTAATTT
TTTCGTATACTGGTGCCAGCCAATGACAGCCCAAAATGTA
Found at i:61121808 original size:155 final size:153
Alignment explanation
Indices: 61121499--61121793 Score: 362
Period size: 154 Copynumber: 1.9 Consensus size: 153
61121489 AAAATATTTT
* * * *
61121499 TTTACATAAAGATGGTGTCAGGCATTGGTAGGCTACCACCAAAAAAAATTTTAAATTTTTTCGTA
1 TTTACATAAAGATGATGTCAGGCATTGCTAGGCTACCACCAAAAAAAAATTCAAATTTTTTCGTA
* ***
61121564 TACTAGTGTCAGCCAATGACATCCAAAAATGTAAAAAAAAAATTACATAAAAGATGGTGCTTGCC
66 TACTAGTGTCAGCCAATGACAACCAAAAATGTAAAAAAAAAATTACATAAAAGATGGTGCCAACC
61121629 ATTGGCAAGCTAACACAAAAAAAAA
131 ATTGGCAAGC--ACACAAAAAAAAA
* * *
61121654 TTTACATAAAGGTGATG-CCGGCCATTGCTAGGCTACCA-CAAAAAAAAATTCAGATTTTTTCGT
1 TTTACATAAAGATGATGTCAGG-CATTGCTAGGCTACCACCAAAAAAAAATTCAAATTTTTTCGT
* * * *
61121717 ATACTGGTGTCAGCCAATGACAACCCAAAATGTAAAAAAAATATTTTTTTACAT-AAAGGTGGTG
65 ATACTAGTGTCAGCCAATGACAACCAAAAATGTAAAAAAAA-A----ATTACATAAAAGATGGTG
61121781 CCAACCATTGGCA
125 CCAACCATTGGCA
61121794 GGCCATCATT
Statistics
Matches: 119, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
154 63 0.53
155 31 0.26
158 19 0.16
159 6 0.05
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (153 bp):
TTTACATAAAGATGATGTCAGGCATTGCTAGGCTACCACCAAAAAAAAATTCAAATTTTTTCGTA
TACTAGTGTCAGCCAATGACAACCAAAAATGTAAAAAAAAAATTACATAAAAGATGGTGCCAACC
ATTGGCAAGCACACAAAAAAAAA
Found at i:61125763 original size:17 final size:17
Alignment explanation
Indices: 61125716--61125763 Score: 51
Period size: 22 Copynumber: 2.5 Consensus size: 17
61125706 CCGTGGAGGA
61125716 CCGGAGGTGGATCGGTG
1 CCGGAGGTGGATCGGTG
61125733 CCAGACTAGAGGTGGATCGGTG
1 CC-G----GAGGTGGATCGGTG
61125755 CCGGAGGTG
1 CCGGAGGTG
61125764 AAGATTGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
17 8 0.31
18 1 0.04
21 1 0.04
22 16 0.62
ACGTcount: A:0.17, C:0.19, G:0.48, T:0.17
Consensus pattern (17 bp):
CCGGAGGTGGATCGGTG
Found at i:61127781 original size:18 final size:18
Alignment explanation
Indices: 61127748--61127783 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
61127738 AAACCGAAAA
61127748 AATTCGGTTAACCGATCG
1 AATTCGGTTAACCGATCG
*
61127766 AATTCGGTTAATCGATCG
1 AATTCGGTTAACCGATCG
61127784 GTTAACCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (18 bp):
AATTCGGTTAACCGATCG
Found at i:61128046 original size:13 final size:13
Alignment explanation
Indices: 61128025--61128054 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
61128015 AGCCCAAACT
*
61128025 CAATTACCCAACC
1 CAATCACCCAACC
61128038 CAATCACCCAACC
1 CAATCACCCAACC
61128051 CAAT
1 CAAT
61128055 AATACTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.47, G:0.00, T:0.13
Consensus pattern (13 bp):
CAATCACCCAACC
Found at i:61130799 original size:19 final size:17
Alignment explanation
Indices: 61130718--61130812 Score: 50
Period size: 19 Copynumber: 5.2 Consensus size: 17
61130708 TACACCCTTC
*
61130718 TTTTATTTTTATTTTTTAA
1 TTTT-TTTTTAATTTTT-A
* *
61130737 CTTTTTTATTAACTTTTGTC
1 -TTTTTTTTTAA-TTTT-TA
* *
61130757 TTTTTCTTTAATTTTTT
1 TTTTTTTTTAATTTTTA
61130774 TTCTTTTTTTAAGTTTTATA
1 TT-TTTTTTTAA-TTTT-TA
*
61130794 TTTTTTCTT-A-TTTTA
1 TTTTTTTTTAATTTTTA
61130809 TTTT
1 TTTT
61130813 ATTTATTTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
15 6 0.10
16 3 0.05
17 3 0.05
18 13 0.21
19 24 0.39
20 11 0.18
21 1 0.02
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTTTTTTTAATTTTTA
Found at i:61130913 original size:33 final size:34
Alignment explanation
Indices: 61130875--61130945 Score: 110
Period size: 32 Copynumber: 2.1 Consensus size: 34
61130865 TTTATAATAT
61130875 ATATTTTTTAAAATTTTAAATATTA-TTTTTAAA
1 ATATTTTTTAAAATTTTAAATATTATTTTTTAAA
* *
61130908 TTA-TTTTTAAAATTTTTAATATTATTTTTTAAA
1 ATATTTTTTAAAATTTTAAATATTATTTTTTAAA
61130941 ATATT
1 ATATT
61130946 AAATATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 20 0.61
33 12 0.36
34 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (34 bp):
ATATTTTTTAAAATTTTAAATATTATTTTTTAAA
Found at i:61130939 original size:22 final size:22
Alignment explanation
Indices: 61130899--61130959 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
61130889 TTTAAATATT
61130899 ATTTTTAA-ATTA-TTTTTAAA
1 ATTTTTAATATTATTTTTTAAA
61130919 ATTTTTAATATTATTTTTTAAA
1 ATTTTTAATATTATTTTTTAAA
* *
61130941 ATATTAAATATATATTTTT
1 ATTTTTAATAT-TATTTTT
61130960 AATAATATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 8 0.22
21 4 0.11
22 17 0.47
23 7 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
ATTTTTAATATTATTTTTTAAA
Found at i:61130966 original size:23 final size:21
Alignment explanation
Indices: 61130907--61130975 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 21
61130897 TTATTTTTAA
* *
61130907 ATTATTTTTAAAATTTTTAAT
1 ATTATTTTTAAAATATTAAAT
61130928 ATTATTTTTTAAAATATTAAAT
1 ATTA-TTTTTAAAATATTAAAT
*
61130950 ATATATTTTTAATAATATAAAAT
1 AT-TATTTTTAA-AATATTAAAT
61130973 ATT
1 ATT
61130976 TAAATATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 4 0.10
22 25 0.60
23 13 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTATTTTTAAAATATTAAAT
Found at i:61131065 original size:21 final size:21
Alignment explanation
Indices: 61131026--61131066 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
61131016 TTTTTTAATA
*
61131026 TTTTAAATATTATTTAATTTG
1 TTTTAAATATTATTAAATTTG
61131047 TTTTATAATATT-TTAAATTT
1 TTTTA-AATATTATTAAATTT
61131067 CGATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTAAATATTATTAAATTTG
Found at i:61131381 original size:19 final size:19
Alignment explanation
Indices: 61131351--61131397 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
61131341 TTTGAATTAA
61131351 TTAAAAATAAGAAATATTTG
1 TTAAAAA-AAGAAATATTTG
**
61131371 TTAAAAAAAGATTTATTTG
1 TTAAAAAAAGAAATATTTG
61131390 TTAAAAAA
1 TTAAAAAA
61131398 TAAATTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (19 bp):
TTAAAAAAAGAAATATTTG
Found at i:61131404 original size:20 final size:19
Alignment explanation
Indices: 61131365--61131408 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
61131355 AAATAAGAAA
*
61131365 TATTTGTTAAAAAAAGATT
1 TATTTGTTAAAAAAAAATT
61131384 TATTTGTTAAAAAATAAATT
1 TATTTGTTAAAAAA-AAATT
61131404 TATTT
1 TATTT
61131409 AAAAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (19 bp):
TATTTGTTAAAAAAAAATT
Found at i:61131432 original size:19 final size:20
Alignment explanation
Indices: 61131407--61131461 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
61131397 ATAAATTTAT
61131407 TTAAAAATATATATTAAAAG
1 TTAAAAATATATATTAAAAG
* *
61131427 -TAAAAATTTAAATTAAAAG
1 TTAAAAATATATATTAAAAG
61131446 TTAAAAATATATATTA
1 TTAAAAATATATATTA
61131462 TAAGATCACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (20 bp):
TTAAAAATATATATTAAAAG
Found at i:61131959 original size:41 final size:42
Alignment explanation
Indices: 61131906--61131988 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 42
61131896 TTGGTTATAA
*
61131906 TTTTTTAATTTTAGGACACATTTATAAATTTATATA-TTAAT
1 TTTTTTAATTTTAGGACACATTCATAAATTTATATACTTAAT
* *
61131947 TTTTTTAATTTTAGTACACATTCATAAATTTATGTACTTAAT
1 TTTTTTAATTTTAGGACACATTCATAAATTTATATACTTAAT
61131989 ATATATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
41 33 0.87
42 5 0.13
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (42 bp):
TTTTTTAATTTTAGGACACATTCATAAATTTATATACTTAAT
Found at i:61132136 original size:73 final size:73
Alignment explanation
Indices: 61132057--61132203 Score: 222
Period size: 73 Copynumber: 2.0 Consensus size: 73
61132047 AAACTTAAAG
* * ** * *
61132057 AAATTAAATATATTAAAAAATGTTATGTATAGCCAATTTTAAAATTTTAATATATTTAATATATT
1 AAATTAAATATATTAAAAAATGTTAAGTATAACCAAAATTAAAATTATAATATATTCAATATATT
61132122 TTTAAAAA
66 TTTAAAAA
*
61132130 AAATTAAATATATTAAAAAATTTTAAGTATAACCAAAATTAAAATTATAATATATTCAATATATT
1 AAATTAAATATATTAAAAAATGTTAAGTATAACCAAAATTAAAATTATAATATATTCAATATATT
*
61132195 TTTTAAAA
66 TTTAAAAA
61132203 A
1 A
61132204 TATATTTTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (73 bp):
AAATTAAATATATTAAAAAATGTTAAGTATAACCAAAATTAAAATTATAATATATTCAATATATT
TTTAAAAA
Found at i:61132838 original size:21 final size:20
Alignment explanation
Indices: 61132796--61132838 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
61132786 CTCAACCTTT
*
61132796 TAATTTTAGTCTTCAATATA
1 TAATTTTAGTCTTAAATATA
61132816 TAATTTTATGT-TTAAATTATA
1 TAATTTTA-GTCTTAAA-TATA
61132837 TA
1 TA
61132839 GATAATTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (20 bp):
TAATTTTAGTCTTAAATATA
Found at i:61134457 original size:30 final size:30
Alignment explanation
Indices: 61134423--61134501 Score: 113
Period size: 30 Copynumber: 2.6 Consensus size: 30
61134413 ACATTGCCGA
* *
61134423 TTCAAATTCATATCACCTAGACATAGGCGG
1 TTCAAGTTCATATCACCCAGACATAGGCGG
*
61134453 TTCAAGTTCATATCACCCAGACATAGGCTG
1 TTCAAGTTCATATCACCCAGACATAGGCGG
* *
61134483 TTCGAGTTCATTTCACCCA
1 TTCAAGTTCATATCACCCA
61134502 AAGCAACCAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TTCAAGTTCATATCACCCAGACATAGGCGG
Found at i:61137906 original size:13 final size:13
Alignment explanation
Indices: 61137888--61137917 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
61137878 AAAAATATAT
61137888 TTAATATTTAAAA
1 TTAATATTTAAAA
61137901 TTAATATTTAAAA
1 TTAATATTTAAAA
61137914 TTAA
1 TTAA
61137918 AAAAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTAATATTTAAAA
Found at i:61137920 original size:20 final size:18
Alignment explanation
Indices: 61137875--61137920 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
61137865 TTTAAATATT
61137875 ATTAAAAATATATTTAATA
1 ATTAAAAATATATTTAA-A
* *
61137894 TTTAAAATTAATATTTAAA
1 ATTAAAAAT-ATATTTAAA
61137913 ATTAAAAA
1 ATTAAAAA
61137921 AATAATTTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTAAAAATATATTTAAA
Found at i:61137962 original size:36 final size:34
Alignment explanation
Indices: 61137907--61138174 Score: 206
Period size: 36 Copynumber: 7.5 Consensus size: 34
61137897 AAAATTAATA
* *
61137907 TTTAAAATTAAAAAAATAATTTCAAATATATATT
1 TTTAAAATTTAAAAAATAATTTCAAAAATATATT
* *
61137941 TTTCAAATTTATAAGAAATAATTTCAAAAATATATA
1 TTTAAAATTTA-AA-AAATAATTTCAAAAATATATT
*
61137977 TTTAAAATTTAAAAATATATATTT--GAAAT-TATT
1 TTTAAAATTTAAAAA-ATA-ATTTCAAAAATATATT
**** * *
61138010 TTATCTTGTTTAAAAATATATTTTTAAAAATATATTT
1 TT-TAAAATTTAAAAA-ATAATTTCAAAAATATA-TT
61138047 AAAATTTAAAATTTAGAAAAATTAATTTCAAAAATATATT
1 ----TTTAAAATTTA-AAAAA-TAATTTCAAAAATATATT
* * *
61138087 TTTAAAATTTATAAGACATAATTTGAAAAA-ATAATA
1 TTTAAAATTTA-AA-AAATAATTTCAAAAATAT-ATT
61138123 TTTAAAATTTAAAAAATAATTT-AAAAATA-ATT
1 TTTAAAATTTAAAAAATAATTTCAAAAATATATT
61138155 TTTAAAATTTTTAAAAAATA
1 TTTAAAA--TTTAAAAAATA
61138175 TATATTATAA
Statistics
Matches: 189, Mismatches: 25, Indels: 40
0.74 0.10 0.16
Matches are distributed among these distances:
32 9 0.05
33 13 0.07
34 48 0.25
35 15 0.08
36 72 0.38
37 4 0.02
40 8 0.04
41 20 0.11
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (34 bp):
TTTAAAATTTAAAAAATAATTTCAAAAATATATT
Found at i:61137990 original size:21 final size:22
Alignment explanation
Indices: 61137960--61138006 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
61137950 TATAAGAAAT
61137960 AATTTCAAAAATATATATTTAA
1 AATTTCAAAAATATATATTTAA
*
61137982 AATTT-AAAAATATATATTTGA
1 AATTTCAAAAATATATATTTAA
61138003 AATT
1 AATT
61138007 ATTTTATCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
AATTTCAAAAATATATATTTAA
Found at i:61138037 original size:14 final size:14
Alignment explanation
Indices: 61138018--61138093 Score: 59
Period size: 14 Copynumber: 5.5 Consensus size: 14
61138008 TTTTATCTTG
61138018 TTTAAAAATATATT
1 TTTAAAAATATATT
61138032 TTTAAAAATATA--
1 TTTAAAAATATATT
* *
61138044 TTTAAAATTTAAAATT
1 TTTAAAA-AT-ATATT
** *
61138060 TAGAAAAAT-TAAT
1 TTTAAAAATATATT
*
61138073 TTCAAAAATATATT
1 TTTAAAAATATATT
61138087 TTTAAAA
1 TTTAAAA
61138094 TTTATAAGAC
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
12 7 0.15
13 10 0.22
14 23 0.50
15 1 0.02
16 5 0.11
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (14 bp):
TTTAAAAATATATT
Found at i:61138138 original size:21 final size:21
Alignment explanation
Indices: 61138106--61138150 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
61138096 TATAAGACAT
*
61138106 AATTTGAAAAAATAATATTTAA
1 AATTTGAAAAAATAAT-TTAAA
61138128 AATTT-AAAAAATAATTTAAA
1 AATTTGAAAAAATAATTTAAA
61138148 AAT
1 AAT
61138151 AATTTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
21 10 0.45
22 5 0.23
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AATTTGAAAAAATAATTTAAA
Found at i:61138146 original size:110 final size:110
Alignment explanation
Indices: 61137897--61138164 Score: 268
Period size: 110 Copynumber: 2.5 Consensus size: 110
61137887 TTTAATATTT
* * * * *
61137897 AAAATTAATATTTAAAATTAAAAAAATAATTT-CAAATATATATT----TTTCAAATTTATAAGA
1 AAAAATAATATTTAAAATTTAAAAAATAATTTAAAAATATAT-TTAAAATTTAAAATTTAGAAGA
*
61137957 AATAATTTCAAAAATATATATTTAAAATTTAAAAATATATATTTGA
65 AATAATTTCAAAAATATATATTTAAAATTTAAAAACATATATTTGA
** ** * *
61138003 AATTATTTTATCTT---GTTTAAAAATATATTTTTAAAAATATATTTAAAATTTAAAATTTAGAA
1 AAAAATAATAT-TTAAAATTTAAAAA-ATA-ATTTAAAAATATATTTAAAATTTAAAATTTAGAA
* *
61138065 -AAATTAATTTCAAAAATATATTTTTAAAATTTATAAGACATA-ATTTGA
63 GAAA-TAATTTCAAAAATATATATTTAAAATTTA-AAAACATATATTTGA
*
61138113 AAAAATAATATTTAAAATTTAAAAAATAATTTAAAAATAATTTTTAAAATTT
1 AAAAATAATATTTAAAATTTAAAAAATAATTTAAAAAT-ATATTTAAAATTT
61138165 TTAAAAAATA
Statistics
Matches: 127, Mismatches: 21, Indels: 23
0.74 0.12 0.13
Matches are distributed among these distances:
104 7 0.06
105 3 0.02
106 11 0.09
107 10 0.08
109 5 0.04
110 62 0.49
111 21 0.17
112 8 0.06
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (110 bp):
AAAAATAATATTTAAAATTTAAAAAATAATTTAAAAATATATTTAAAATTTAAAATTTAGAAGAA
ATAATTTCAAAAATATATATTTAAAATTTAAAAACATATATTTGA
Found at i:61138150 original size:11 final size:12
Alignment explanation
Indices: 61138128--61138174 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 12
61138118 TAATATTTAA
61138128 AATTTAAAAAAT
1 AATTTAAAAAAT
61138140 AATTT-AAAAAT
1 AATTTAAAAAAT
**
61138151 AATTTTTAAAAT
1 AATTTAAAAAAT
*
61138163 -TTTTAAAAAAT
1 AATTTAAAAAAT
61138174 A
1 A
61138175 TATATTATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AATTTAAAAAAT
Found at i:61138241 original size:9 final size:9
Alignment explanation
Indices: 61138214--61138258 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
61138204 TCAAATTTTT
*
61138214 TAAAATTAA
1 TAAAATAAA
61138223 TAACAATAAA
1 TAA-AATAAA
61138233 TAAAATAAA
1 TAAAATAAA
61138242 T-AAATAAA
1 TAAAATAAA
*
61138250 CAAAATAAA
1 TAAAATAAA
61138259 ATAAGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 7 0.22
9 17 0.53
10 8 0.25
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (9 bp):
TAAAATAAA
Found at i:61138322 original size:19 final size:20
Alignment explanation
Indices: 61138278--61138323 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
61138268 ATATAAAACT
*
61138278 TAAAAAAGAAATAAATTTAA
1 TAAAAAAGAAATAAAGTTAA
*
61138298 -AGAAAAAGACA-AAAGTTAA
1 TA-AAAAAGAAATAAAGTTAA
61138317 TAAAAAA
1 TAAAAAA
61138324 ATAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.17
Consensus pattern (20 bp):
TAAAAAAGAAATAAAGTTAA
Found at i:61139504 original size:43 final size:43
Alignment explanation
Indices: 61139436--61139518 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
61139426 GTTTTTTTTA
* *
61139436 ATTTGTTTTTCATTTTTTCCCTTTTCTGATTTTTTTATTTGTT
1 ATTTGTTTTTCATTTTTTACCTTTTCAGATTTTTTTATTTGTT
* *
61139479 ATTTGTTTTTC-TTTATTTACTTTTTCAGTTTTTTTTATTT
1 ATTTGTTTTTCATTT-TTTACCTTTTCAGATTTTTTTATTT
61139519 ATTTGCTTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 3 0.09
43 32 0.91
ACGTcount: A:0.11, C:0.10, G:0.06, T:0.73
Consensus pattern (43 bp):
ATTTGTTTTTCATTTTTTACCTTTTCAGATTTTTTTATTTGTT
Found at i:61139558 original size:18 final size:18
Alignment explanation
Indices: 61139530--61139577 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
61139520 TTTGCTTGTC
*
61139530 CTTTATTTATTTATTAGTT
1 CTTTCTTTATTT-TTAGTT
**
61139549 -TTTCTTTATTTTTCTTT
1 CTTTCTTTATTTTTAGTT
61139566 CTTTCTTTATTT
1 CTTTCTTTATTT
61139578 GTTTATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.75
Consensus pattern (18 bp):
CTTTCTTTATTTTTAGTT
Found at i:61139583 original size:40 final size:38
Alignment explanation
Indices: 61139486--61139599 Score: 115
Period size: 40 Copynumber: 2.9 Consensus size: 38
61139476 GTTATTTGTT
*
61139486 TTTCTTTATTTACTTT-TTCAGTTTTTTTTATTTATTTGC
1 TTTCTTTATTTA-TTTATT-AGTTTTTTTTATTTTTTTGC
*
61139525 TTGTCCTTTATTTATTTATTAGTTTTTCTTTATTTTTCTTTC
1 TT-T-CTTTATTTATTTATTAGTTTTT-TTTATTTTT-TTGC
* *
61139567 TTTCTTTATTTGTTTATTA-TTTTTATTTGTTTT
1 TTTCTTTATTTATTTATTAGTTTTT-TTTATTTT
61139600 ATAATATTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
39 14 0.22
40 26 0.40
41 20 0.31
42 5 0.08
ACGTcount: A:0.12, C:0.09, G:0.05, T:0.74
Consensus pattern (38 bp):
TTTCTTTATTTATTTATTAGTTTTTTTTATTTTTTTGC
Found at i:61140880 original size:26 final size:28
Alignment explanation
Indices: 61140851--61140902 Score: 90
Period size: 26 Copynumber: 1.9 Consensus size: 28
61140841 AAATAAAGAA
61140851 AAACAAATAAAAAAA-C-GAAAAAGGAC
1 AAACAAATAAAAAAATCAGAAAAAGGAC
61140877 AAACAAATAAAAAAATCAGAAAAAGG
1 AAACAAATAAAAAAATCAGAAAAAGG
61140903 TAAAAATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 15 0.62
27 1 0.04
28 8 0.33
ACGTcount: A:0.73, C:0.10, G:0.12, T:0.06
Consensus pattern (28 bp):
AAACAAATAAAAAAATCAGAAAAAGGAC
Found at i:61140924 original size:61 final size:56
Alignment explanation
Indices: 61140785--61140924 Score: 147
Period size: 62 Copynumber: 2.4 Consensus size: 56
61140775 ATCATTAATG
* * *
61140785 AAAAAT-AAAAAAATAAAAAAAAACAAAGGACAAATAAATAAAAAAGCTGAGAAAGT
1 AAAAATGAAAAAAA-AAAAAAAAACAAAGGACAAACAAATAAAAAAGCAGAAAAAGT
* * *
61140841 AAATAAAGAAAAACAAATAAAAAAACGAAAAAGGACAAACAAATAAAAAAATCAGAAAAAGGT
1 AAA-AATGAAAAA-AAA-AAAAAAA--ACAAAGGACAAACAAAT-AAAAAAGCAGAAAAA-GT
61140904 AAAAATGAAAAAAAAAAAAAA
1 AAAAATGAAAAAAAAAAAAAA
61140925 GGAAAAAGGT
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
56 3 0.04
57 2 0.03
58 6 0.09
59 9 0.13
60 6 0.09
61 18 0.26
62 20 0.29
63 5 0.07
ACGTcount: A:0.76, C:0.06, G:0.10, T:0.09
Consensus pattern (56 bp):
AAAAATGAAAAAAAAAAAAAAAACAAAGGACAAACAAATAAAAAAGCAGAAAAAGT
Found at i:61145060 original size:8 final size:8
Alignment explanation
Indices: 61145009--61145112 Score: 52
Period size: 8 Copynumber: 12.4 Consensus size: 8
61144999 ATTTTGTATG
61145009 AATATTGT
1 AATATTGT
*
61145017 AAT-TTTT
1 AATATTGT
*
61145024 TATA-TG-
1 AATATTGT
61145030 AATATTGT
1 AATATTGT
*
61145038 AATTTTGTAT
1 AATATTG--T
61145048 GAATATTGT
1 -AATATTGT
61145057 AATATTGT
1 AATATTGT
*
61145065 AATTTTGTAT
1 AATATTG--T
61145075 GAATATTGT
1 -AATATTGT
* * *
61145084 AATGTCGGG
1 AATAT-TGT
61145093 ATATATTGT
1 A-ATATTGT
61145102 AATATTGT
1 AATATTGT
61145110 AAT
1 AAT
61145113 TTTTTGTATG
Statistics
Matches: 71, Mismatches: 14, Indels: 22
0.66 0.13 0.21
Matches are distributed among these distances:
6 3 0.04
7 8 0.11
8 37 0.52
9 6 0.08
10 5 0.07
11 12 0.17
ACGTcount: A:0.34, C:0.01, G:0.15, T:0.50
Consensus pattern (8 bp):
AATATTGT
Found at i:61145061 original size:27 final size:27
Alignment explanation
Indices: 61145009--61145086 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 27
61144999 ATTTTGTATG
61145009 AATATTGTAATTTT-T-T--ATA-TG-
1 AATATTGTAATTTTGTATGAATATTGT
61145030 AATATTGTAATTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGT
61145057 AATATTGTAATTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGT
61145084 AAT
1 AAT
61145087 GTCGGGATAT
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
21 14 0.27
22 1 0.02
23 1 0.02
25 3 0.06
26 2 0.04
27 30 0.59
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.53
Consensus pattern (27 bp):
AATATTGTAATTTTGTATGAATATTGT
Found at i:61145086 original size:19 final size:19
Alignment explanation
Indices: 61144926--61145065 Score: 99
Period size: 19 Copynumber: 7.1 Consensus size: 19
61144916 AGAGACGCCA
61144926 ATGAATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
* *
61144945 ATTAATATTGTAATTATTTT
1 ATGAATATTGTAATT-TTGT
61144965 AT-AATTAAATTTGT-ATTTATAGTT
1 ATGAA-T--A-TTGTAATTT-T-G-T
* * *
61144989 TTGGAT-TAGT-ATTTTGT
1 ATGAATATTGTAATTTTGT
*
61145006 ATGAATATTGTAATTTTTTAT
1 ATGAATATTGTAA--TTTTGT
61145027 ATGAATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
*
61145046 ATGAATATTGTAATATTGT
1 ATGAATATTGTAATTTTGT
61145065 A
1 A
61145066 ATTTTGTATG
Statistics
Matches: 96, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
17 5 0.05
18 4 0.04
19 42 0.44
20 13 0.14
21 19 0.20
22 5 0.05
23 4 0.04
24 3 0.03
25 1 0.01
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (19 bp):
ATGAATATTGTAATTTTGT
Found at i:61145134 original size:21 final size:21
Alignment explanation
Indices: 61145000--61145086 Score: 97
Period size: 21 Copynumber: 4.0 Consensus size: 21
61144990 TGGATTAGTA
61145000 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
*
61145021 TTTTATATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
61145040 TTTTGTATGAATATTGTAATATTGT
1 TTTTGTATGAATATTGT-A-A-T-T
61145065 AATTTTGTATGAATATTGTAAT
1 --TTTTGTATGAATATTGTAAT
61145087 GTCGGGATAT
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
19 16 0.29
20 1 0.02
21 19 0.34
24 1 0.02
25 1 0.02
26 1 0.02
27 17 0.30
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:61145209 original size:60 final size:60
Alignment explanation
Indices: 61145127--61145248 Score: 167
Period size: 60 Copynumber: 2.0 Consensus size: 60
61145117 TGTATGAATA
* * * *
61145127 TTGTAATTATTTTATAAATAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTATAAATAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
*
61145187 TTGTAATTA-TTTA-AAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTTATAAA--TAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
61145247 TT
1 TT
61145249 AGTTTAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
58 3 0.05
59 4 0.07
60 48 0.87
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (60 bp):
TTGTAATTATTTTATAAATAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:61145333 original size:37 final size:37
Alignment explanation
Indices: 61145284--61145359 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
61145274 ATAAAGTTTA
61145284 AAAAAATTAAAAATCATCTTATTAAAAGTTTAATTAT
1 AAAAAATTAAAAATCATCTTATTAAAAGTTTAATTAT
*
61145321 AAAAAATTAAAAATCATTTTATTAAAAGTTTAATTAT
1 AAAAAATTAAAAATCATCTTATTAAAAGTTTAATTAT
61145358 AA
1 AA
61145360 CTGACTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (37 bp):
AAAAAATTAAAAATCATCTTATTAAAAGTTTAATTAT
Found at i:61145437 original size:15 final size:15
Alignment explanation
Indices: 61145396--61145437 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
61145386 GTTAACTAAT
*
61145396 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
61145411 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
61145427 TTAAATTTTAT
1 TTAAATTTTAT
61145438 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:61145551 original size:21 final size:21
Alignment explanation
Indices: 61145506--61145568 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
61145496 CATTTTTTTG
* * *
61145506 ATTACAAAATTACAAACACAAA
1 ATTACAATATT-CATACAAAAA
*
61145528 ATTACAATATTCATATAAAAA
1 ATTACAATATTCATACAAAAA
61145549 ATTACAATATTCATACAAAA
1 ATTACAATATTCATACAAAA
61145569 TACTAATCCA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 26 0.72
22 10 0.28
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (21 bp):
ATTACAATATTCATACAAAAA
Found at i:61145679 original size:27 final size:27
Alignment explanation
Indices: 61145641--61145704 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
61145631 TACAATATTT
61145641 ATTGGCGCCTCTCTATGAGGCACCTTC
1 ATTGGCGCCTCTCTATGAGGCACCTTC
* *
61145668 ATTGGTGCCTCTCTGTGAGGCACCTTC
1 ATTGGCGCCTCTCTATGAGGCACCTTC
61145695 ATTGGCGCCT
1 ATTGGCGCCT
61145705 ACCTGATAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.12, C:0.31, G:0.25, T:0.31
Consensus pattern (27 bp):
ATTGGCGCCTCTCTATGAGGCACCTTC
Found at i:61160046 original size:21 final size:22
Alignment explanation
Indices: 61160020--61160067 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
61160010 TAAAAATTCC
*
61160020 AAAATTTAT-ATTTTTTTGAAA
1 AAAATTTATAATTTTTTTAAAA
61160041 AAAA-TTATAATTTTTTTAAAA
1 AAAATTTATAATTTTTTTAAAA
61160062 AAAATT
1 AAAATT
61160068 CTAAAGAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 19 0.79
22 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
AAAATTTATAATTTTTTTAAAA
Found at i:61163735 original size:21 final size:20
Alignment explanation
Indices: 61163707--61163745 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
61163697 CTTTCCAGAG
61163707 TTTTAATTTTGA-AAATCAAA
1 TTTTAA-TTTGATAAATCAAA
61163727 TTTTCAATTTGATAAATCA
1 TTTT-AATTTGATAAATCA
61163746 TAAGATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (20 bp):
TTTTAATTTGATAAATCAAA
Found at i:61164462 original size:22 final size:23
Alignment explanation
Indices: 61164409--61164464 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
61164399 CCCGTTTTTA
* * *
61164409 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
61164432 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
61164454 ATTAAAATTAA
1 ATTAAAATTAA
61164465 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:61164477 original size:16 final size:16
Alignment explanation
Indices: 61164440--61164479 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
61164430 TTAATAAAAT
* *
61164440 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
61164456 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
61164472 TAAAATTA
1 TAAAATTA
61164480 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:61164585 original size:9 final size:9
Alignment explanation
Indices: 61164552--61164579 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
61164542 TTTATCAAAT
61164552 TATTAATTG
1 TATTAATTG
61164561 TATTAATTG
1 TATTAATTG
61164570 TATTAATTG
1 TATTAATTG
61164579 T
1 T
61164580 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:61164589 original size:68 final size:68
Alignment explanation
Indices: 61164468--61164677 Score: 388
Period size: 68 Copynumber: 3.1 Consensus size: 68
61164458 AAATTAATTG
*
61164468 TTAGTAAAATTATCAAATTATTAATTG--TTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
61164531 TGA
66 TGA
61164534 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
61164599 TGA
66 TGA
*
61164602 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
61164667 TGA
66 TGA
61164670 TTAGTAAA
1 TTAGTAAA
61164678 ACAAACTTGA
Statistics
Matches: 140, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
66 26 0.19
68 114 0.81
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (68 bp):
TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
TGA
Found at i:61164632 original size:9 final size:9
Alignment explanation
Indices: 61164620--61164647 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
61164610 TTTATCAAAT
61164620 TATTAATTG
1 TATTAATTG
61164629 TATTAATTG
1 TATTAATTG
61164638 TATTAATTG
1 TATTAATTG
61164647 T
1 T
61164648 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:61164768 original size:23 final size:23
Alignment explanation
Indices: 61164742--61164788 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
61164732 GTAAATAAAC
*
61164742 TTAAAATTAAAAACTAT-TATATT
1 TTAAAAATAAAAA-TATATATATT
61164765 TTAAAAATAAAAATATATATATT
1 TTAAAAATAAAAATATATATATT
61164788 T
1 T
61164789 AATATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TTAAAAATAAAAATATATATATT
Found at i:61165539 original size:9 final size:9
Alignment explanation
Indices: 61165521--61165703 Score: 54
Period size: 10 Copynumber: 19.3 Consensus size: 9
61165511 GCCCATTTTT
61165521 ATTTTAAAA
1 ATTTTAAAA
61165530 ATTTTTAAAA
1 A-TTTTAAAA
**
61165540 ATTAAAAAAA
1 ATT-TTAAAA
61165550 GTATTTTAAAAA
1 --ATTTT-AAAA
61165562 TATTTTAAAA
1 -ATTTTAAAA
*
61165572 ATATTTTAAA
1 AT-TTTAAAA
*
61165582 A-TTAAAAA
1 ATTTTAAAA
* *
61165590 AATTAAAAA
1 ATTTTAAAA
61165599 AGTATTTAAAA
1 A-T-TTTAAAA
*
61165610 ATATTTTAAA
1 AT-TTTAAAA
*
61165620 A-TTAAAAA
1 ATTTTAAAA
*
61165628 AATTTAAAA
1 ATTTTAAAA
*
61165637 A----AAAGT
1 ATTTTAAA-A
61165643 ATTTTAAAA
1 ATTTTAAAA
*
61165652 ATATTTTAAA
1 AT-TTTAAAA
**
61165662 ATTAAAAAA
1 ATTTTAAAA
*
61165671 AATTTAAAA
1 ATTTTAAAA
61165680 ATTATGTAAAA
1 ATT-T-TAAAA
*
61165691 ATATTTTAAA
1 AT-TTTAAAA
61165701 ATT
1 ATT
61165704 AAAAAAAATA
Statistics
Matches: 131, Mismatches: 24, Indels: 38
0.68 0.12 0.20
Matches are distributed among these distances:
5 3 0.02
6 1 0.01
8 12 0.09
9 35 0.27
10 51 0.39
11 21 0.16
12 8 0.06
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:61165597 original size:8 final size:9
Alignment explanation
Indices: 61165579--61165639 Score: 52
Period size: 9 Copynumber: 6.4 Consensus size: 9
61165569 AAAATATTTT
61165579 AAAATTAAA
1 AAAATTAAA
61165588 AAAATTAAA
1 AAAATTAAA
61165597 AAAGTATTTAAA
1 AAA--A-TTAAA
* **
61165609 AATATT-TT
1 AAAATTAAA
61165617 AAAATTAAA
1 AAAATTAAA
61165626 AAAATTTAAA
1 AAAA-TTAAA
61165636 AAAA
1 AAAA
61165640 AGTATTTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
8 5 0.12
9 18 0.44
10 10 0.24
11 1 0.02
12 7 0.17
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAATTAAA
Found at i:61165621 original size:80 final size:81
Alignment explanation
Indices: 61165523--61165710 Score: 276
Period size: 81 Copynumber: 2.3 Consensus size: 81
61165513 CCATTTTTAT
**
61165523 TTTAAAAAT-TTTTAAAAATTAAAAAAAGTATT-TTAAAAA-TATTTTAAAAATATTTTAAAATT
1 TTTAAAAATATTTT-AAAATTAAAAAAA-T-TTAAAAAAAAGTATTTTAAAAATATTTTAAAATT
61165585 -AAAAAAATTAAAAAAGTA
63 AAAAAAAATTAAAAAAGTA
61165603 TTTAAAAATATTTTAAAATTAAAAAAATTTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
1 TTTAAAAATATTTTAAAATTAAAAAAATTTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
* *
61165668 AAAAATTTAAAAATTA
66 AAAAATTAAAAAAGTA
*
61165684 TGTAAAAATATTTTAAAATTAAAAAAA
1 TTTAAAAATATTTTAAAATTAAAAAAA
61165711 ATAAATATAT
Statistics
Matches: 99, Mismatches: 5, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
78 2 0.02
79 6 0.06
80 45 0.45
81 46 0.46
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (81 bp):
TTTAAAAATATTTTAAAATTAAAAAAATTTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
AAAAATTAAAAAAGTA
Found at i:61165701 original size:11 final size:11
Alignment explanation
Indices: 61165520--61165662 Score: 82
Period size: 11 Copynumber: 13.9 Consensus size: 11
61165510 GGCCCATTTT
61165520 TATTTTAAAAA
1 TATTTTAAAAA
61165531 T-TTTT-AAAA
1 TATTTTAAAAA
**
61165540 -ATTAAAAAAA
1 TATTTTAAAAA
61165550 GTATTTTAAAAA
1 -TATTTTAAAAA
61165562 TATTTTAAAAA
1 TATTTTAAAAA
61165573 TATTTT--AAA
1 TATTTTAAAAA
61165582 -A--TTAAAAA
1 TATTTTAAAAA
* *
61165590 -AATTAAAAAA
1 TATTTTAAAAA
61165600 GTA-TTTAAAAA
1 -TATTTTAAAAA
61165611 TATTTT--AAA
1 TATTTTAAAAA
61165620 -A--TTAAAAA
1 TATTTTAAAAA
* *
61165628 AATTTAAAAAAAA
1 TATTT--TAAAAA
61165641 GTATTTTAAAAA
1 -TATTTTAAAAA
61165653 TATTTTAAAA
1 TATTTTAAAA
61165663 TTAAAAAAAA
Statistics
Matches: 104, Mismatches: 9, Indels: 38
0.69 0.06 0.25
Matches are distributed among these distances:
6 4 0.04
8 9 0.09
9 13 0.12
10 16 0.15
11 39 0.38
12 14 0.13
13 5 0.05
14 4 0.04
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:61172257 original size:43 final size:43
Alignment explanation
Indices: 61172196--61172278 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
61172186 ATACGCTACT
61172196 AGATGGTTGTGAATACACAACATAAATGTAGATGAGAGCTGTC
1 AGATGGTTGTGAATACACAACATAAATGTAGATGAGAGCTGTC
*
61172239 AGATGGTTGTGAATACACAAGATAAATGTAGATGAGAGCT
1 AGATGGTTGTGAATACACAACATAAATGTAGATGAGAGCT
61172279 ACCAGAAAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.39, C:0.10, G:0.27, T:0.25
Consensus pattern (43 bp):
AGATGGTTGTGAATACACAACATAAATGTAGATGAGAGCTGTC
Found at i:61172688 original size:25 final size:25
Alignment explanation
Indices: 61172654--61172704 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
61172644 TAAACAAAGC
61172654 ACTAAAATAGTTCGGGAACCATTCA
1 ACTAAAATAGTTCGGGAACCATTCA
61172679 ACTAAAATAGTTCGGGAACCATTCA
1 ACTAAAATAGTTCGGGAACCATTCA
61172704 A
1 A
61172705 GGACTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
ACTAAAATAGTTCGGGAACCATTCA
Found at i:61174472 original size:21 final size:21
Alignment explanation
Indices: 61174435--61174487 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
61174425 GGAGAAGAGA
*
61174435 AATGG-GTTATGTAATATGTTT
1 AATGGAGTTTTGTAATAT-TTT
61174456 AATGGAGTTTTGT-ATATTTT
1 AATGGAGTTTTGTAATATTTT
*
61174476 -CTGGAGTTTTGT
1 AATGGAGTTTTGT
61174488 TATTAGAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 11 0.38
20 3 0.10
21 9 0.31
22 6 0.21
ACGTcount: A:0.23, C:0.02, G:0.25, T:0.51
Consensus pattern (21 bp):
AATGGAGTTTTGTAATATTTT
Found at i:61177417 original size:16 final size:15
Alignment explanation
Indices: 61177392--61177446 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
61177382 TAAAATATAA
61177392 AATA-TTTTTTATATT
1 AATATTTTTTTA-ATT
61177407 AATATTTTTTTAATTT
1 AATATTTTTTTAA-TT
*
61177423 AAT-TTATTTTTAA-A
1 AATATT-TTTTTAATT
61177437 AATATTTTTT
1 AATATTTTTT
61177447 ATTATTTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
14 7 0.20
15 9 0.26
16 19 0.54
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
AATATTTTTTTAATT
Found at i:61197262 original size:19 final size:19
Alignment explanation
Indices: 61197221--61197262 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
61197211 AGATTTGTTT
*
61197221 TTTATTTTTGAATTATAGT
1 TTTATTTTTGAATTATAGA
61197240 TTTATTTTATGAATT-TAGA
1 TTTATTTT-TGAATTATAGA
61197259 TTTA
1 TTTA
61197263 AAAAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.62
Consensus pattern (19 bp):
TTTATTTTTGAATTATAGA
Found at i:61202957 original size:30 final size:31
Alignment explanation
Indices: 61202916--61202997 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 31
61202906 ATGAGCATTG
*
61202916 AAACTAAACTCAAGTACCAAATT-AAAATATA
1 AAACAAAACTCAAGTACCAAATTGAAAAT-TA
* * *
61202947 AAA-AAAACTCAAATACTAAATTGAACATTA
1 AAACAAAACTCAAGTACCAAATTGAAAATTA
* *
61202977 AAACCAAACTTAAGTACCAAA
1 AAACAAAACTCAAGTACCAAA
61202998 GAGTATATTA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
30 21 0.51
31 20 0.49
ACGTcount: A:0.59, C:0.17, G:0.04, T:0.21
Consensus pattern (31 bp):
AAACAAAACTCAAGTACCAAATTGAAAATTA
Found at i:61203321 original size:25 final size:27
Alignment explanation
Indices: 61203293--61203350 Score: 93
Period size: 25 Copynumber: 2.2 Consensus size: 27
61203283 TTAAAAATCT
*
61203293 TTTTCATAAATA-TTTCAAAA-AAAAG
1 TTTTCATAAATATTTTAAAAAGAAAAG
61203318 TTTTCATAAATATTTTAAAAAGAAAAG
1 TTTTCATAAATATTTTAAAAAGAAAAG
61203345 TTTTCA
1 TTTTCA
61203351 AGTAAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 12 0.40
26 7 0.23
27 11 0.37
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (27 bp):
TTTTCATAAATATTTTAAAAAGAAAAG
Found at i:61208251 original size:113 final size:111
Alignment explanation
Indices: 61208052--61208276 Score: 387
Period size: 113 Copynumber: 2.0 Consensus size: 111
61208042 TTTTGTATGA
*
61208052 TGATGGCCACACATATATCTCAACCTAAAGTAAGAAGATTTAAGCAATTCCTATGTATTTACCTT
1 TGATGGCCACACATATATCTCAACCTAAAGTAAGAAGATTTAAGCAATTCCTATGTATTGACCTT
61208117 TAACTACTATTTAACGGAAGCTCATCTACATTAGATAAATTATTGT
66 TAACTACTATTTAACGGAAGCTCATCTACATTAGATAAATTATTGT
*
61208163 TGATGGCCACACATATATATCTCAAGCTAAAGTAAGAAGATTTAAGCAATTCCTATGTATTGACC
1 TGATGGCCACAC--ATATATCTCAACCTAAAGTAAGAAGATTTAAGCAATTCCTATGTATTGACC
* * *
61208228 TTTAACTAGTATTTAATGTAAGCTCATCTACATTAGATAAATTATTGT
64 TTTAACTACTATTTAACGGAAGCTCATCTACATTAGATAAATTATTGT
61208276 T
1 T
61208277 TATAATATTT
Statistics
Matches: 107, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
111 12 0.11
113 95 0.89
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (111 bp):
TGATGGCCACACATATATCTCAACCTAAAGTAAGAAGATTTAAGCAATTCCTATGTATTGACCTT
TAACTACTATTTAACGGAAGCTCATCTACATTAGATAAATTATTGT
Found at i:61226114 original size:49 final size:50
Alignment explanation
Indices: 61226046--61226143 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 50
61226036 TCTTATAAAG
* * *
61226046 AACATATGGAAAGCATT-AAACACGTTATATTCTTTCCAAAAAGAATTAT
1 AACATATGGAAAACATTAAAAAACATTATATTCTTTCCAAAAAGAATTAT
* *
61226095 AACATATGGAAAACATTAAAAAATATTATATTTTTTCCAAAAAGAATTA
1 AACATATGGAAAACATTAAAAAACATTATATTCTTTCCAAAAAGAATTA
61226144 AAACTACCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 16 0.37
50 27 0.63
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (50 bp):
AACATATGGAAAACATTAAAAAACATTATATTCTTTCCAAAAAGAATTAT
Found at i:61228397 original size:9 final size:9
Alignment explanation
Indices: 61228383--61228413 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
61228373 AGTTAAAGAA
61228383 TCGAGTTAT
1 TCGAGTTAT
*
61228392 TCGAGTTAA
1 TCGAGTTAT
61228401 TCGAGTTAT
1 TCGAGTTAT
61228410 TCGA
1 TCGA
61228414 ATGAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:61230231 original size:24 final size:23
Alignment explanation
Indices: 61230177--61230239 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
61230167 AACGTAATCA
*
61230177 AACATGTTCACAAACATTAAACG
1 AACATGTTCACGAACATTAAACG
* **
61230200 AACATGTTCATGAACATATAATTG
1 AACATGTTCACGAACAT-TAAACG
61230224 AACATGTTCACGAACA
1 AACATGTTCACGAACA
61230240 ATGTTAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 15 0.44
24 19 0.56
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.25
Consensus pattern (23 bp):
AACATGTTCACGAACATTAAACG
Found at i:61256254 original size:40 final size:40
Alignment explanation
Indices: 61256199--61256279 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
61256189 TTAAAAAAAA
61256199 TTTAATTTTAAAATATTTTTAAAATACA-TTTTTAATTTTT
1 TTTAATTTTAAAATATTTTTAAAATA-ATTTTTTAATTTTT
61256239 TTTAATTTTAAAATATTTTTAAAATAATTTTTTTAATTTTT
1 TTTAATTTTAAAATATTTTTAAAATAA-TTTTTTAATTTTT
61256280 AAAATAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
39 1 0.03
40 26 0.67
41 12 0.31
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (40 bp):
TTTAATTTTAAAATATTTTTAAAATAATTTTTTAATTTTT
Found at i:61256260 original size:17 final size:17
Alignment explanation
Indices: 61256166--61256220 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
61256156 TTATTTTTTT
61256166 TTTTTAATTTTAAAATA
1 TTTTTAATTTTAAAATA
* *
61256183 -CTTT--TTTTAAAAAA
1 TTTTTAATTTTAAAATA
**
61256197 AATTTAATTTTAAAATA
1 TTTTTAATTTTAAAATA
61256214 TTTTTAA
1 TTTTTAA
61256221 AATACATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
14 9 0.31
15 3 0.10
16 3 0.10
17 14 0.48
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTTAATTTTAAAATA
Found at i:61256270 original size:12 final size:12
Alignment explanation
Indices: 61256244--61256292 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
61256234 TTTTTTTTAA
61256244 TTTTAAAAT-AT
1 TTTTAAAATAAT
61256255 TTTTAAAATAAT
1 TTTTAAAATAAT
*
61256267 TTTT---TTAAT
1 TTTTAAAATAAT
61256276 TTTTAAAATAAAT
1 TTTTAAAAT-AAT
61256289 TTTT
1 TTTT
61256293 GGTATTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
9 8 0.26
11 9 0.29
12 7 0.23
13 7 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTTAAAATAAT
Found at i:61256277 original size:21 final size:21
Alignment explanation
Indices: 61256253--61256292 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
61256243 ATTTTAAAAT
*
61256253 ATTTTTAAAATAATTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
61256274 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
61256293 GGTATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:61256299 original size:22 final size:20
Alignment explanation
Indices: 61256252--61256299 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 20
61256242 AATTTTAAAA
*
61256252 TATTTTTAAAATAATTTTTT
1 TATTTTTAAAATAATTTTTG
61256272 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTT-G
61256295 TATTT
1 TATTT
61256300 ATTTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.04
21 11 0.46
22 11 0.46
23 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTG
Found at i:61259368 original size:11 final size:12
Alignment explanation
Indices: 61259354--61259402 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
61259344 GCAATTATAT
61259354 TATAA-AATAAA
1 TATAATAATAAA
61259365 TATAATAATATAA
1 TATAATAATA-AA
*
61259378 TA-ATATAATAAT
1 TATA-ATAATAAA
61259390 TA-AATAATAAA
1 TATAATAATAAA
61259401 TA
1 TA
61259403 AAATTTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 14 0.42
12 9 0.27
13 10 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TATAATAATAAA
Found at i:61259376 original size:8 final size:8
Alignment explanation
Indices: 61259363--61259403 Score: 59
Period size: 8 Copynumber: 5.2 Consensus size: 8
61259353 TTATAAAATA
61259363 AATATAAT
1 AATATAAT
61259371 AATATAAT
1 AATATAAT
61259379 AATATAAT
1 AATATAAT
61259387 AAT-TAAAT
1 AATAT-AAT
61259395 AATA-AAT
1 AATATAAT
61259402 AA
1 AA
61259404 AATTTTTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
7 6 0.19
8 25 0.81
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AATATAAT
Found at i:61259382 original size:16 final size:16
Alignment explanation
Indices: 61259358--61259403 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
61259348 TTATATTATA
61259358 AAATAAATATAATAA-T
1 AAAT-AATATAATAATT
61259374 ATAATAATATAATAATT
1 A-AATAATATAATAATT
61259391 AAATAATA-AATAA
1 AAATAATATAATAA
61259404 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.18
16 18 0.64
17 5 0.18
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATAATATAATAATT
Found at i:61259404 original size:11 final size:11
Alignment explanation
Indices: 61259359--61259404 Score: 56
Period size: 11 Copynumber: 3.9 Consensus size: 11
61259349 TATATTATAA
61259359 AATAAATATAAT
1 AATAAATA-AAT
61259371 AATATAATAATAT
1 AATA-AATAA-AT
*
61259384 AATAATTAAAT
1 AATAAATAAAT
61259395 AATAAATAAA
1 AATAAATAAA
61259405 ATTTTTATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 11 0.37
12 9 0.30
13 10 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AATAAATAAAT
Found at i:61261503 original size:176 final size:180
Alignment explanation
Indices: 61261189--61261546 Score: 591
Period size: 176 Copynumber: 2.0 Consensus size: 180
61261179 AATTATTCTA
61261189 GGGACCCCACAATAAATAACCCAATTTAATTTAAACAAAATAAAAAAAATTAAATATAAAAAGGG
1 GGGACCCCACAATAAATAACCCAATTTAATTTAAACAAAATAAAAAAAATTAAATATAAAAAGGG
* *
61261254 CTAAATTACGGAATAAAGCCTTTTTTTTCAAATTTACGAAAATAGGCCAGTTTTTTTTAAATGAC
66 CTAAATTACGGAATAAAGCCCTTTTTTTCAAAATTACGAAAATAGGCCAGTTTTTTTTAAATGAC
* * * *
61261319 ATAAATGGGCCGATTTTTCTAAAACGCATCTAACTAGTGTTGTTTTTATG
131 AGAAATGGGCCGATTTTGCTAAAACGCATCCAACTAGTGTCGTTTTTATG
61261369 GGGACCCCACAATAAATAACCCAATTTAATTTAAACAAAATAAAAAAAA-TAAATAT-AAAA-GG
1 GGGACCCCACAATAAATAACCCAATTTAATTTAAACAAAATAAAAAAAATTAAATATAAAAAGGG
*
61261431 CTAAATTAC-GAATAAAGCCCTTTTTTTCAAAATTAC-AGAAATAGGCTAGTTTTTTTTAAATGA
66 CTAAATTACGGAATAAAGCCCTTTTTTTCAAAATTACGA-AAATAGGCCAGTTTTTTTTAAATGA
**
61261494 CAGAAATGGGCCGATTTTGCTAAAACGTGTCCAACTAGTGTCGTTTTTATG
130 CAGAAATGGGCCGATTTTGCTAAAACGCATCCAACTAGTGTCGTTTTTATG
61261545 GG
1 GG
61261547 AAAATCTAAA
Statistics
Matches: 168, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
175 1 0.01
176 96 0.57
177 11 0.07
178 4 0.02
179 7 0.04
180 49 0.29
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (180 bp):
GGGACCCCACAATAAATAACCCAATTTAATTTAAACAAAATAAAAAAAATTAAATATAAAAAGGG
CTAAATTACGGAATAAAGCCCTTTTTTTCAAAATTACGAAAATAGGCCAGTTTTTTTTAAATGAC
AGAAATGGGCCGATTTTGCTAAAACGCATCCAACTAGTGTCGTTTTTATG
Found at i:61261821 original size:11 final size:12
Alignment explanation
Indices: 61261807--61261835 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
61261797 ATCCAAATTC
61261807 TATTTTTATT-A
1 TATTTTTATTAA
61261818 TATTTTTATTAA
1 TATTTTTATTAA
61261830 TATTTT
1 TATTTT
61261836 CAAGAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TATTTTTATTAA
Found at i:61261996 original size:20 final size:22
Alignment explanation
Indices: 61261950--61261996 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 22
61261940 CCACTTTTCA
*
61261950 TTTTTATTACTTCTAAAATGTT
1 TTTTTATTACTTCTAAAATATT
* *
61261972 ATTTTATT-C-TCTCAAATATT
1 TTTTTATTACTTCTAAAATATT
61261992 TTTTT
1 TTTTT
61261997 TGTTTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 13 0.62
21 1 0.05
22 7 0.33
ACGTcount: A:0.26, C:0.11, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTTATTACTTCTAAAATATT
Found at i:61264597 original size:3 final size:3
Alignment explanation
Indices: 61264589--61264618 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
61264579 GTGGGTTCTT
61264589 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
61264619 ATTAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:61265668 original size:24 final size:24
Alignment explanation
Indices: 61265632--61265683 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
61265622 GACAAAGTTA
*
61265632 ATTGTTAATGTGTCATAATGTTCT
1 ATTGTTAACGTGTCATAATGTTCT
61265656 ATTGTTAACGTGTCATAATGTTCT
1 ATTGTTAACGTGTCATAATGTTCT
61265680 ATTG
1 ATTG
61265684 ATGCTATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.48
Consensus pattern (24 bp):
ATTGTTAACGTGTCATAATGTTCT
Found at i:61266222 original size:93 final size:95
Alignment explanation
Indices: 61266111--61266296 Score: 331
Period size: 93 Copynumber: 2.0 Consensus size: 95
61266101 TTTGTAAAAT
*
61266111 CTAACATTTTGCTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTTCTAAAATTATCAAATT
1 CTAACATTTTGCTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATT
61266176 ATATCAAATTATTAA-T-TATTAATTGTAA
66 ATATCAAATTATTAATTGTATTAATTGTAA
* *
61266204 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATT
1 CTAACATTTTGCTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATT
61266269 ATATCAAATTATTAATTGTATTAATTGT
66 ATATCAAATTATTAATTGTATTAATTGT
61266297 TGTAACAAAA
Statistics
Matches: 88, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
93 77 0.88
94 1 0.01
95 10 0.11
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (95 bp):
CTAACATTTTGCTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATT
ATATCAAATTATTAATTGTATTAATTGTAA
Found at i:61266236 original size:19 final size:19
Alignment explanation
Indices: 61266212--61266262 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 19
61266202 AACTAACATT
61266212 TTGTTAGTAAAATTATTAA
1 TTGTTAGTAAAATTATTAA
*
61266231 TTG-T--T-AATTGTATTAA
1 TTGTTAGTAAAAT-TATTAA
61266247 TTGTTAGTAAAATTAT
1 TTGTTAGTAAAATTAT
61266263 CAAATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
15 3 0.12
16 10 0.40
17 1 0.04
18 1 0.04
19 7 0.28
20 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (19 bp):
TTGTTAGTAAAATTATTAA
Found at i:61274218 original size:111 final size:111
Alignment explanation
Indices: 61273881--61274593 Score: 801
Period size: 111 Copynumber: 6.2 Consensus size: 111
61273871 TACGAAAGAA
* ***
61273881 AAAAAACAAAAAAAAATATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTGCAGTA
1 AAAAAA-ATAAAAAAA-A-TTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTA
* * * *
61273946 CCAAATTTTTTTTTTGTTTTTTTTGTGTCAGAATCAGATTTAAAAATACG
63 CGAAATTTTTTTTTTATTTTTTTCGTGTCAGAATCAGA-TAAAAAATACG
*
61273996 AAAAAAAAATAAAAAAAATTTTTTTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTACACAGT
1 --AAAAAAATAAAAAAAA--TTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGT
61274061 ACGAAGAAAATTTTTTTTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
62 AC---G-AAATTTTTTTTTTA-TTTTTTTCGTGTCAGAATCAGAT-AAAAAATACG
* *
61274117 AAAAAAATAAAAAAAATTTATTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTACACAGTACGA
1 AAAAAAATAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGA
* * *
61274182 AA-TTTTTTTTTATTTTTTTCGTGTAAGAATTAGATAAAAAATATG
66 AATTTTTTTTTTATTTTTTTCGTGTCAGAATCAGATAAAAAATACG
* *** *
61274227 AAAAAAATTTAAAATTTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGCACAGTAC-
1 AAAAAAA-TAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACG
***** * * *
61274291 AAA-AAAAATTAT-TTTTTTTCGTGTTAAAATCAGATAAAAAATACG
65 AAATTTTTTTTTTATTTTTTTCGTGTCAGAATCAGATAAAAAATACG
* *
61274336 AAAAAAATAAAAAAAA--ATTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGA
1 AAAAAAATAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGA
61274399 AATTTTTTTTTGTTTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
66 AA----TTTTT-TTTTTA-TTTTTTTCGTGTCAGAATCAGATAAAAAATACG
61274451 AAAAAAATAAAAAAAAAACAATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACA
1 AAAAAAAT----AAAAAA-AA-TTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACA
* *
61274516 ATACGAAGAAATTTTTTATTTTATTTTTTTTGTGTCAGAATCAGATAAAAAAATACG
60 GTAC---GAAATTTTTT-TTTTATTTTTTTCGTGTCAGAATCAGAT-AAAAAATACG
*
61274573 AAAAAAA-AAATAAAATTTTTT
1 AAAAAAATAAAAAAAATTTTTT
61274594 TCGTACTGTG
Statistics
Matches: 514, Mismatches: 52, Indels: 62
0.82 0.08 0.10
Matches are distributed among these distances:
106 42 0.08
107 3 0.01
108 5 0.01
109 36 0.07
110 22 0.04
111 70 0.14
112 10 0.02
113 6 0.01
114 1 0.00
115 46 0.09
116 54 0.11
117 55 0.11
119 22 0.04
120 16 0.03
121 53 0.10
122 27 0.05
123 42 0.08
126 4 0.01
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (111 bp):
AAAAAAATAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGA
AATTTTTTTTTTATTTTTTTCGTGTCAGAATCAGATAAAAAATACG
Found at i:61274521 original size:123 final size:117
Alignment explanation
Indices: 61274299--61274587 Score: 392
Period size: 123 Copynumber: 2.5 Consensus size: 117
61274289 ACAAAAAAAA
* *
61274299 TTATTTTTTTTCGTGTTAAAATCAGATAAAAAATACGAAAAAAAT---AAAAAAAAATTTGGGTG
1 TTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAAATAAAAAAAAAAAATTTGGGTG
* * ** *
61274361 TTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAA-ATTTTTTTTTGTTT
66 CTGGCCTGTCAATGGCCGGCACCCAGTACACAATACGAAGA-AATTTTTT-ATT
61274414 TTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAAATAAAAAAAAAACAATTTTTTT
1 TTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAAATAAAAAAAAAA-AA----TTT
61274479 GGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAATACGAAGAAATTTTTTATT
61 GGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAATACGAAGAAATTTTTTATT
*
61274536 TTATTTTTTTT-GTGTCAGAATCAGATAAAAAAATACGAAAAAAA-AAATAAAA
1 TTATTTTTTTTCGTGTCAGAATCAGAT-AAAAAATACGAAAAAAATAAAAAAAA
61274588 TTTTTTTCGT
Statistics
Matches: 156, Mismatches: 8, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
115 43 0.28
118 7 0.04
119 2 0.01
121 22 0.14
122 30 0.19
123 51 0.33
124 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (117 bp):
TTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAAATAAAAAAAAAAAATTTGGGTG
CTGGCCTGTCAATGGCCGGCACCCAGTACACAATACGAAGAAATTTTTTATT
Found at i:61274723 original size:116 final size:117
Alignment explanation
Indices: 61274573--61274870 Score: 410
Period size: 116 Copynumber: 2.6 Consensus size: 117
61274563 AAAAAATACG
*
61274573 AAAAAAA-AAATAAAATTTTTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC
1 AAAAAAACAAAAAAAATTTTTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC
* * *
61274637 AAAAAAATTTATTTTT-TATTTTTTTCGTATTTTT-TATCTGATTCTGACAC-G
66 AAAAAAATTT-TTTTTAT-TTTTTTTCGTATTTTTAAATCTGATTCTAACACAA
* ****
61274688 AAAAAAA-ATAATTTTTTTTTCTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACC
1 AAAAAAACAAAAAAAATTTTT-TTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACC
61274752 C-AAAAAATTTTTTTTATTTTTTTTCGTATTTTTAAATCTGATTCTAACACAA
65 CAAAAAAATTTTTTTTATTTTTTTTCGTATTTTTAAATCTGATTCTAACACAA
* * **
61274804 AAAAAAACAAAAAAAAATTTTTTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCC
1 AAAAAAACAAAAAAAATTTTTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC
61274869 AA
66 AA
61274871 TTTTTTTTTT
Statistics
Matches: 159, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
114 21 0.13
115 38 0.24
116 92 0.58
117 8 0.05
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (117 bp):
AAAAAAACAAAAAAAATTTTTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC
AAAAAAATTTTTTTTATTTTTTTTCGTATTTTTAAATCTGATTCTAACACAA
Found at i:61276658 original size:20 final size:18
Alignment explanation
Indices: 61276616--61276663 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
61276606 TGATTGAACC
61276616 AATTTTTT-TATTTTTAA
1 AATTTTTTATATTTTTAA
61276633 ATATTTTTTATGATTTTTAA
1 A-ATTTTTTAT-ATTTTTAA
61276653 TAATTTATTTA
1 -AATTT-TTTA
61276664 ATAGAACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.04
18 7 0.27
19 1 0.04
20 12 0.46
21 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
AATTTTTTATATTTTTAA
Found at i:61280371 original size:10 final size:10
Alignment explanation
Indices: 61280356--61280385 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
61280346 TATCGTATAT
61280356 ATATATCACA
1 ATATATCACA
61280366 ATATATCACA
1 ATATATCACA
*
61280376 CTATATCACA
1 ATATATCACA
61280386 GGACTTGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (10 bp):
ATATATCACA
Found at i:61281264 original size:18 final size:17
Alignment explanation
Indices: 61281237--61281280 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
61281227 ATTAGGATGC
*
61281237 CCCTCTTTCCCCCTTTCT
1 CCCTCCTTCCCCCTTT-T
61281255 CCCTCCTTCCCCCCTTTT
1 CCCTCCTT-CCCCCTTTT
61281273 CCC-CCTTC
1 CCCTCCTTC
61281281 GATTTTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 1 0.04
17 4 0.17
18 11 0.46
19 8 0.33
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (17 bp):
CCCTCCTTCCCCCTTTT
Found at i:61283404 original size:24 final size:24
Alignment explanation
Indices: 61283376--61283422 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
61283366 TGAGATAAAA
61283376 ATGG-TTTGAAAAAAAATAAATGAG
1 ATGGTTTTG-AAAAAAATAAATGAG
61283400 ATGGTTTTGAAAAAAATAAATGA
1 ATGGTTTTGAAAAAAATAAATGA
61283423 TCAACTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (24 bp):
ATGGTTTTGAAAAAAATAAATGAG
Found at i:61285620 original size:45 final size:46
Alignment explanation
Indices: 61285571--61285667 Score: 151
Period size: 46 Copynumber: 2.1 Consensus size: 46
61285561 TTGTAATTTA
* *
61285571 AATTTTCAAGTTTGT-ATTAATTTAATTATAACAACTATTTGGCTT
1 AATTTTCAAGTTTGTAATTAATTTAATTATAACAAATATTTGACTT
* *
61285616 AATTTTCAAGTTTGTAATTAATTTAATTATAGCAAATGTTTGACTT
1 AATTTTCAAGTTTGTAATTAATTTAATTATAACAAATATTTGACTT
61285662 AATTTT
1 AATTTT
61285668 ATTTGAAAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 15 0.32
46 32 0.68
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.49
Consensus pattern (46 bp):
AATTTTCAAGTTTGTAATTAATTTAATTATAACAAATATTTGACTT
Found at i:61297621 original size:21 final size:21
Alignment explanation
Indices: 61297595--61297635 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
61297585 AGTAATATTA
61297595 CAGTAAAATTAGT-TATTGTAT
1 CAGTAAAATT-GTATATTGTAT
61297616 CAGTAAAATTGTATATTGTA
1 CAGTAAAATTGTATATTGTA
61297636 ACATTGAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (21 bp):
CAGTAAAATTGTATATTGTAT
Found at i:61309141 original size:19 final size:19
Alignment explanation
Indices: 61309117--61309153 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
61309107 CGTTCATGTG
*
61309117 TTTTAACAATACTAGTGGT
1 TTTTAACAATACAAGTGGT
61309136 TTTTAACAATACAAGTGG
1 TTTTAACAATACAAGTGG
61309154 AAACATGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (19 bp):
TTTTAACAATACAAGTGGT
Found at i:61313411 original size:21 final size:20
Alignment explanation
Indices: 61313385--61313423 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
61313375 TGAGGTAGTT
61313385 TTGAAATGGAAAAGTATTGAA
1 TTGAAAT-GAAAAGTATTGAA
*
61313406 TTGAAATGTAAAGTATTG
1 TTGAAATGAAAAGTATTG
61313424 CATGGAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (20 bp):
TTGAAATGAAAAGTATTGAA
Found at i:61313680 original size:29 final size:27
Alignment explanation
Indices: 61313608--61313680 Score: 67
Period size: 29 Copynumber: 2.6 Consensus size: 27
61313598 ACAATTGAAG
*
61313608 GTACTATGTACCGGTGTTTCAGTTCTA
1 GTACTATGTACCAGTGTTTCAGTTCTA
* * *
61313635 G-ACATTCTGTGCTAGTGTTTACAGTTCTAA
1 GTAC--TATGTACCAGTGTTT-CAGTTCT-A
61313665 GTACTATGTACCAGTG
1 GTACTATGTACCAGTG
61313681 GTGGATACCA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
26 2 0.06
27 1 0.03
28 11 0.32
29 16 0.47
30 2 0.06
31 2 0.06
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (27 bp):
GTACTATGTACCAGTGTTTCAGTTCTA
Found at i:61315088 original size:30 final size:31
Alignment explanation
Indices: 61315054--61315115 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
61315044 AAACCTTTTT
* * *
61315054 ACTTTTCCCTCAAAACTTTTAC-TCCTTCCC
1 ACTTTCCCCCCAAAACTTTTACTTCCCTCCC
61315084 ACTTTCCCCCCAAAACTTTTACTTCCCTCCC
1 ACTTTCCCCCCAAAACTTTTACTTCCCTCCC
61315115 A
1 A
61315116 TCCCAACCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 20 0.71
31 8 0.29
ACGTcount: A:0.21, C:0.44, G:0.00, T:0.35
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACTTCCCTCCC
Found at i:61315266 original size:30 final size:29
Alignment explanation
Indices: 61315218--61315275 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
61315208 AACTTTTTAT
61315218 TTTCCCCCAAAATTTTACTCCC-TCCCAC
1 TTTCCCCCAAAATTTTACTCCCTTCCCAC
61315246 TTTCCCCCTAAAACTTTTACTCCCTTCCCA
1 TTTCCCCC-AAAA-TTTTACTCCCTTCCCA
61315276 TCCCTCCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 8 0.30
29 4 0.15
30 10 0.37
31 5 0.19
ACGTcount: A:0.21, C:0.45, G:0.00, T:0.34
Consensus pattern (29 bp):
TTTCCCCCAAAATTTTACTCCCTTCCCAC
Found at i:61316307 original size:19 final size:20
Alignment explanation
Indices: 61316270--61316310 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
61316260 TACAACACAA
*
61316270 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
61316290 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
61316309 TT
1 TT
61316311 GCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:61317688 original size:12 final size:12
Alignment explanation
Indices: 61317663--61317701 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
61317653 ACTCGCTTCT
* *
61317663 TTACTTACTCAC
1 TTACTTGCTTAC
*
61317675 TTACTTGTTTAC
1 TTACTTGCTTAC
61317687 TTACTTGCTTAC
1 TTACTTGCTTAC
61317699 TTA
1 TTA
61317702 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:61318018 original size:50 final size:50
Alignment explanation
Indices: 61317954--61318142 Score: 198
Period size: 50 Copynumber: 3.7 Consensus size: 50
61317944 CTGTACTGCT
* * *
61317954 AATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCAGTGCC
1 AATGCCATATCCCAGACATGGTCTTACATGGGACTTCTCATCTCAGTGCC
* * ** * *
61318004 CATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCC
1 AATGCCATATCCCAGACATGGTCTTACATGGGACTTCTCATCTCAGTGCC
* * * *
61318054 AACGCCATATCCCAGACATGGTCTTACATGTGACCTCTCGTAATCTCAATGATGCT
1 AATGCCATATCCCAGACATGGTCTTACATGGGA-CT-TC-TCATCTC-A-G-TGCC
*
61318110 AATGCCATGTCCCAGACATGGTCTTACATGGGA
1 AATGCCATATCCCAGACATGGTCTTACATGGGA
61318143 TCTCATTCCC
Statistics
Matches: 111, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 68 0.61
51 1 0.01
52 2 0.02
53 6 0.05
55 1 0.01
56 33 0.30
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
AATGCCATATCCCAGACATGGTCTTACATGGGACTTCTCATCTCAGTGCC
Found at i:61321326 original size:15 final size:15
Alignment explanation
Indices: 61321306--61321341 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
61321296 TTATACTGTT
* *
61321306 ACATTCTTGGTAATC
1 ACATTCTTAGCAATC
61321321 ACATTCTTAGCAATC
1 ACATTCTTAGCAATC
61321336 ACATTC
1 ACATTC
61321342 CCTTGGAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (15 bp):
ACATTCTTAGCAATC
Found at i:61322741 original size:30 final size:30
Alignment explanation
Indices: 61322692--61322750 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
61322682 AACTTTTTAT
*
61322692 TTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTCCCCCAAAACTTTTACTCCCTTCCCAC
61322721 TTTCCCCCTAAAACTTTTACTCCCTTCCCA
1 TTTCCCCC-AAAACTTTTACTCCCTTCCCA
61322751 TCCCTCCCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.30
30 14 0.52
31 5 0.19
ACGTcount: A:0.20, C:0.44, G:0.00, T:0.36
Consensus pattern (30 bp):
TTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:61323782 original size:19 final size:20
Alignment explanation
Indices: 61323745--61323785 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
61323735 TACAACACAA
*
61323745 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
61323765 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
61323784 TT
1 TT
61323786 GCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:61325158 original size:12 final size:12
Alignment explanation
Indices: 61325133--61325171 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
61325123 ACTCGCTTCT
* *
61325133 TTACTTACTCAC
1 TTACTTGCTTAC
*
61325145 TTACTTGTTTAC
1 TTACTTGCTTAC
61325157 TTACTTGCTTAC
1 TTACTTGCTTAC
61325169 TTA
1 TTA
61325172 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:61325488 original size:50 final size:50
Alignment explanation
Indices: 61325424--61325612 Score: 198
Period size: 50 Copynumber: 3.7 Consensus size: 50
61325414 CTGTACTGCT
* * *
61325424 AATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCAGTGCC
1 AATGCCATATCCCAGACATGGTCTTACATGGGACTTCTCATCTCAGTGCC
* * ** * *
61325474 CATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCC
1 AATGCCATATCCCAGACATGGTCTTACATGGGACTTCTCATCTCAGTGCC
* * * *
61325524 AACGCCATATCCCAGACATGGTCTTACATGTGACCTCTCGTAATCTCAATGATGCT
1 AATGCCATATCCCAGACATGGTCTTACATGGGA-CT-TC-TCATCTC-A-G-TGCC
*
61325580 AATGCCATGTCCCAGACATGGTCTTACATGGGA
1 AATGCCATATCCCAGACATGGTCTTACATGGGA
61325613 TCTCATTCCC
Statistics
Matches: 111, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 68 0.61
51 1 0.01
52 2 0.02
53 6 0.05
55 1 0.01
56 33 0.30
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
AATGCCATATCCCAGACATGGTCTTACATGGGACTTCTCATCTCAGTGCC
Found at i:61328796 original size:15 final size:15
Alignment explanation
Indices: 61328776--61328811 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
61328766 TTATACTGTT
* *
61328776 ACATTCTTGGTAATC
1 ACATTCTTAGCAATC
61328791 ACATTCTTAGCAATC
1 ACATTCTTAGCAATC
61328806 ACATTC
1 ACATTC
61328812 CCTTGGAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (15 bp):
ACATTCTTAGCAATC
Found at i:61330658 original size:9 final size:9
Alignment explanation
Indices: 61330644--61330669 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
61330634 TGTATTGGAA
61330644 TTTAATTTT
1 TTTAATTTT
61330653 TTTAATTTT
1 TTTAATTTT
61330662 TTTAATTT
1 TTTAATTT
61330670 CAAAATTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTAATTTT
Found at i:61347745 original size:16 final size:17
Alignment explanation
Indices: 61347724--61347756 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
61347714 TTATATTTAA
61347724 TTATTTTATAT-ATTTT
1 TTATTTTATATGATTTT
*
61347740 TTATTTTTTATGATTTT
1 TTATTTTATATGATTTT
61347757 ATATATAGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTATTTTATATGATTTT
Found at i:61353541 original size:41 final size:43
Alignment explanation
Indices: 61353458--61353563 Score: 162
Period size: 41 Copynumber: 2.5 Consensus size: 43
61353448 TGCGGCGTTT
*
61353458 TTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACACCG
1 TTATAAAACATGACCTTTAGCGGCGCTTTTCCCACAAACACCG
*
61353501 TTATAAAACATGACCTTTA-CGG-GTTTTTCCCACAAACACCG
1 TTATAAAACATGACCTTTAGCGGCGCTTTTCCCACAAACACCG
* *
61353542 CTATAAAATATGACCTTTAGCG
1 TTATAAAACATGACCTTTAGCG
61353564 AAAATATTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
41 35 0.60
42 5 0.09
43 18 0.31
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
TTATAAAACATGACCTTTAGCGGCGCTTTTCCCACAAACACCG
Done.