Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 32 of 131
Found at i:10334393 original size:41 final size:41
Alignment explanation
Indices: 10334340--10334624 Score: 387
Period size: 41 Copynumber: 6.9 Consensus size: 41
10334330 GACTTTTCGG
10334340 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTC-
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
*
10334380 GGGACTTTAGCGGCGTTTTTATGTAAGCGTCGCTAATGTTCT
1 GGG-CTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
* * *
10334422 GGGCTTTAGCGGCATTTTTATTTAAGCGCCGCTAATGTTCC
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
10334463 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
*
10334504 GGGCTTTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGTTCT
1 GGGC-TTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
* * *
10334546 GGGATTTAGCGGCGTTTTTAT-TGATGCGCCGCTAAT-TCTCA
1 GGGCTTTAGCGGCGTTTTTATGT-AAGCGCCGCTAATGT-TCT
* * ** *
10334587 GGCCTTTAGCGGCGCTTTTTTTAAAAACGCCGCTAATG
1 GGGCTTTAGCGGCG-TTTTTATGTAAGCGCCGCTAATG
10334625 CTATTCATTT
Statistics
Matches: 218, Mismatches: 19, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
40 5 0.02
41 154 0.71
42 59 0.27
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.36
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
Found at i:10334477 original size:82 final size:82
Alignment explanation
Indices: 10334340--10334624 Score: 387
Period size: 83 Copynumber: 3.5 Consensus size: 82
10334330 GACTTTTCGG
10334340 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTT-CGGGACTTTAGCGGCGTTTTTATGT
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCCGGG-CTTTAGCGGCGTTTTTATGT
*
10334404 AAGCGTCGCTAATGTTCT
65 AAGCGCCGCTAATGTTCT
* *
10334422 GGGCTTTAGCGGCATTTTTATTTAAGCGCCGCTAATGTTCCGGGCTTTAGCGGCGTTTTTATGTA
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCCGGGCTTTAGCGGCGTTTTTATGTA
10334487 AGCGCCGCTAATGTTCT
66 AGCGCCGCTAATGTTCT
* * *
10334504 GGGCTTTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGTTCTGGGATTTAGCGGCGTTTTTAT-T
1 GGGC-TTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCCGGGCTTTAGCGGCGTTTTTATGT
* *
10334568 GATGCGCCGCTAAT-TCTCA
65 -AAGCGCCGCTAATGT-TCT
* * ** *
10334587 GGCCTTTAGCGGCGCTTTTTTTAAAAACGCCGCTAATG
1 GGGCTTTAGCGGCG-TTTTTATGTAAGCGCCGCTAATG
10334625 CTATTCATTT
Statistics
Matches: 182, Mismatches: 16, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
82 90 0.49
83 92 0.51
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.36
Consensus pattern (82 bp):
GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCCGGGCTTTAGCGGCGTTTTTATGTA
AGCGCCGCTAATGTTCT
Found at i:10334647 original size:124 final size:123
Alignment explanation
Indices: 10334343--10334659 Score: 352
Period size: 124 Copynumber: 2.6 Consensus size: 123
10334333 TTTTCGGGGG
** * * * *
10334343 CTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGT-TCGGGACTTTAGCGGCGTTTTTATGTAAG
1 CTTTAGCGGCGTTTTTATAAAAACGCCGCTAATGTCTAGGCA-TTTAGCGGCGTTTTTAAGTAAG
* * * * *
10334407 CGTCGCTAATGTTCTGGGCTTTAGCGGCATTTTTATTTAAGCGCCGCTAATGTTCCGGG
65 CGCCGCTAATGTTCTGGGATTTAGCGGCATTTTTATTGAAGCGCCGCTAATGTTCAGGC
** * * *
10334466 CTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCTGGGCTTTTAGCGGCGTTTTTAAGTAAG
1 CTTTAGCGGCGTTTTTATAAAAACGCCGCTAATG-TCTAGGCATTTAGCGGCGTTTTTAAGTAAG
* *
10334531 CGCCGCTAATGTTCTGGGATTTAGCGGCGTTTTTATTGATGCGCCGCTAAT-TCTCAGGC
65 CGCCGCTAATGTTCTGGGATTTAGCGGCATTTTTATTGAAGCGCCGCTAATGT-TCAGGC
* ** * * * *
10334590 CTTTAGCGGCGCTTTTTTTAAAAACGCCGCTAATG-CTATTCATTTAGTGGCATTTTTTAGAAAG
1 CTTTAGCGGCG-TTTTTATAAAAACGCCGCTAATGTCTAGGCATTTAGCGGCGTTTTTAAGTAAG
10334654 CGCCGC
65 CGCCGC
10334660 AAAAAAATTA
Statistics
Matches: 167, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
123 62 0.37
124 83 0.50
125 22 0.13
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (123 bp):
CTTTAGCGGCGTTTTTATAAAAACGCCGCTAATGTCTAGGCATTTAGCGGCGTTTTTAAGTAAGC
GCCGCTAATGTTCTGGGATTTAGCGGCATTTTTATTGAAGCGCCGCTAATGTTCAGGC
Found at i:10334657 original size:165 final size:162
Alignment explanation
Indices: 10334340--10334659 Score: 382
Period size: 165 Copynumber: 1.9 Consensus size: 162
10334330 GACTTTTCGG
*
10334340 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCGGGACTTTAGCGGCGTTTTTATGTA
1 GGGCTTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGTTCGGGACTTTAGCGGCGTTTTTATGTA
* * * * * *
10334405 AGCGTCGCTAATGTTCTGGGCTTTAGCGGCATTTTTATTTAAGCGCCGCTAATGTTCCGGGCTTT
66 AGCGCCGCTAATGTTCAGGCCTTTAGCGGCATTTTTATTAAAACGCCGCTAATGTTCC--GATTT
*
10334470 AGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
129 AGCGGCGTTTTTATGAAAGCGCCGCTAATGTTCT
10334504 GGGCTTTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGTTCTGGGA-TTTAGCGGCGTTTTTAT-
1 GGGC-TTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGTTC-GGGACTTTAGCGGCGTTTTTATG
* * *
10334567 TGATGCGCCGCTAAT-TCTCAGGCCTTTAGCGGCGCTTTTT-TTAAAAACGCCGCTAATGCTATT
64 T-AAGCGCCGCTAATGT-TCAGGCCTTTAGCGGC-ATTTTTATT-AAAACGCCGCTAATG-T-TC
* *
10334630 C-ATTTAGTGGCATTTTT-TAGAAAGCGCCGC
123 CGATTTAGCGGCGTTTTTAT-GAAAGCGCCGC
10334660 AAAAAAATTA
Statistics
Matches: 134, Mismatches: 13, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
164 7 0.05
165 102 0.76
166 22 0.16
167 1 0.01
168 2 0.01
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.36
Consensus pattern (162 bp):
GGGCTTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGTTCGGGACTTTAGCGGCGTTTTTATGTA
AGCGCCGCTAATGTTCAGGCCTTTAGCGGCATTTTTATTAAAACGCCGCTAATGTTCCGATTTAG
CGGCGTTTTTATGAAAGCGCCGCTAATGTTCT
Found at i:10334696 original size:24 final size:21
Alignment explanation
Indices: 10334665--10334714 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 21
10334655 GCCGCAAAAA
10334665 AATTATTTACCTATTTATTATTT
1 AATTATTTACCTATTTA-TA-TT
**
10334688 AATTGATTTATTTATTTATATT
1 AATT-ATTTACCTATTTATATT
10334710 AATTA
1 AATTA
10334715 AAATTAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 1 0.04
22 6 0.25
23 6 0.25
24 11 0.46
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (21 bp):
AATTATTTACCTATTTATATT
Found at i:10339772 original size:12 final size:12
Alignment explanation
Indices: 10339740--10339812 Score: 87
Period size: 12 Copynumber: 6.2 Consensus size: 12
10339730 CATAATATCC
10339740 TAACTTACATAA
1 TAACTTACATAA
* *
10339752 TATCCTACATAA
1 TAACTTACATAA
*
10339764 TAATTTACA-AA
1 TAACTTACATAA
10339775 -AACTTACATAA
1 TAACTTACATAA
* *
10339786 TAACCTAAATAA
1 TAACTTACATAA
10339798 TAACTTACATAA
1 TAACTTACATAA
10339810 TAA
1 TAA
10339813 TACATAACCT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
10 7 0.14
11 4 0.08
12 38 0.78
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
TAACTTACATAA
Found at i:10339779 original size:34 final size:34
Alignment explanation
Indices: 10339741--10339806 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
10339731 ATAATATCCT
* * *
10339741 AACTTACATAATATCCTACATAATAATTTACAAA
1 AACTTACATAATAACCTAAATAATAACTTACAAA
10339775 AACTTACATAATAACCTAAATAATAACTTACA
1 AACTTACATAATAACCTAAATAATAACTTACA
10339807 TAATAATACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (34 bp):
AACTTACATAATAACCTAAATAATAACTTACAAA
Found at i:10339817 original size:34 final size:33
Alignment explanation
Indices: 10339745--10339819 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 33
10339735 TATCCTAACT
* * *
10339745 TACATAATATCCTACATAATAATTTACAAAAAC
1 TACATAATAACCTAAATAATAACTTACAAAAAC
10339778 TTACATAATAACCTAAATAATAACTTACATAATAA-
1 -TACATAATAACCTAAATAATAACTTACA-AA-AAC
10339813 TACATAA
1 TACATAA
10339820 CCTACATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 32 0.89
35 2 0.06
36 2 0.06
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (33 bp):
TACATAATAACCTAAATAATAACTTACAAAAAC
Found at i:10339843 original size:18 final size:18
Alignment explanation
Indices: 10339792--10339846 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
10339782 ATAATAACCT
10339792 AAAT-AATAACTTACATA
1 AAATAAATAACTTACATA
* *
10339809 ATAATACATAACCTACATA
1 A-AATAAATAACTTACATA
*
10339828 AAATAAATAAGTTACATA
1 AAATAAATAACTTACATA
10339846 A
1 A
10339847 TACACAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 1 0.03
18 18 0.58
19 12 0.39
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (18 bp):
AAATAAATAACTTACATA
Found at i:10339875 original size:9 final size:9
Alignment explanation
Indices: 10339861--10339971 Score: 87
Period size: 9 Copynumber: 13.2 Consensus size: 9
10339851 CAAAAACAAA
10339861 AACTTACAT
1 AACTTACAT
10339870 AACTTACAT
1 AACTTACAT
*
10339879 AA--GACAT
1 AACTTACAT
10339886 AACTTACAT
1 AACTTACAT
* **
10339895 AACCTATTT
1 AACTTACAT
10339904 AA--TACAT
1 AACTTACAT
10339911 AACTTACAT
1 AACTTACAT
* *
10339920 AATTTGCAT
1 AACTTACAT
10339929 AA--TACAT
1 AACTTACAT
10339936 AACTTACAT
1 AACTTACAT
*
10339945 AATTTAC-T
1 AACTTACAT
10339953 -A-TATACAT
1 AACT-TACAT
10339961 AACTTACAT
1 AACTTACAT
10339970 AA
1 AA
10339972 ATATCCCTTA
Statistics
Matches: 81, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
6 1 0.01
7 21 0.26
8 2 0.02
9 56 0.69
10 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (9 bp):
AACTTACAT
Found at i:10339889 original size:25 final size:25
Alignment explanation
Indices: 10339861--10339971 Score: 143
Period size: 25 Copynumber: 4.4 Consensus size: 25
10339851 CAAAAACAAA
*
10339861 AACTTACATAACTTACATAAGACAT
1 AACTTACATAACTTACATAATACAT
* **
10339886 AACTTACATAACCTATTTAATACAT
1 AACTTACATAACTTACATAATACAT
* *
10339911 AACTTACATAATTTGCATAATACAT
1 AACTTACATAACTTACATAATACAT
*
10339936 AACTTACATAATTTAC-TATATACAT
1 AACTTACATAACTTACATA-ATACAT
10339961 AACTTACATAA
1 AACTTACATAA
10339972 ATATCCCTTA
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
24 2 0.03
25 73 0.97
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAT
Found at i:10339922 original size:16 final size:17
Alignment explanation
Indices: 10339861--10339971 Score: 74
Period size: 16 Copynumber: 6.6 Consensus size: 17
10339851 CAAAAACAAA
10339861 AACTTACATAACTTACAT
1 AACTTACATAA-TTACAT
*
10339879 AA--GACATAACTTACAT
1 AACTTACATAA-TTACAT
* **
10339895 AACCTATTTAA-TACAT
1 AACTTACATAATTACAT
*
10339911 AACTTACATAATTTGCAT
1 AACTTACATAA-TTACAT
10339929 AA--TACATAACTTACAT
1 AACTTACATAA-TTACAT
*
10339945 AATTTAC-T-ATATACAT
1 AACTTACATAAT-TACAT
10339961 AACTTACATAA
1 AACTTACATAA
10339972 ATATCCCTTA
Statistics
Matches: 73, Mismatches: 11, Indels: 18
0.72 0.11 0.18
Matches are distributed among these distances:
15 1 0.01
16 54 0.74
17 2 0.03
18 16 0.22
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (17 bp):
AACTTACATAATTACAT
Found at i:10346465 original size:21 final size:21
Alignment explanation
Indices: 10346436--10346506 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
10346426 CTACAACTTA
* *
10346436 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGAG
* *
10346457 AAACAGAGGCTGCAGTGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
*
10346478 AAGCAGAGGCTGCAACGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
10346499 AAGCAGAG
1 AAGCAGAG
10346507 CAGAGCAGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.37, C:0.17, G:0.42, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGAG
Found at i:10346821 original size:43 final size:45
Alignment explanation
Indices: 10346781--10346899 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 45
10346771 ACACCAAAAT
*
10346781 TAGTGGCGTTT-TTTAAAAAAGCGCCGCTAAAAGCAACCAAACAAA
1 TAGTGGCGTTTGTGT-AAAAAGCGCCGCTAAAAGCAACCAAACAAA
* **
10346826 TAGTGGCGTTTGTGTAAAAAGCGCCGCT-AAAG-AA-CATGAGC-TT
1 TAGTGGCGTTTGTGTAAAAAGCGCCGCTAAAAGCAACCA--AACAAA
*
10346869 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAA
1 TAGTGGCGTTTGTGTAAAAAGCGCCGCTAAA
10346900 GAACATGTTC
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
42 2 0.03
43 29 0.45
44 8 0.12
45 24 0.37
46 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.23
Consensus pattern (45 bp):
TAGTGGCGTTTGTGTAAAAAGCGCCGCTAAAAGCAACCAAACAAA
Found at i:10346900 original size:43 final size:43
Alignment explanation
Indices: 10346830--10346915 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
10346820 AACAAATAGT
10346830 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGAGCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGAGCTTTAGC
**
10346873 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGAGCTTTAGC
10346916 TTCTTTAGCG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (43 bp):
GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGAGCTTTAGC
Found at i:10348154 original size:74 final size:75
Alignment explanation
Indices: 10348065--10348213 Score: 291
Period size: 74 Copynumber: 2.0 Consensus size: 75
10348055 ATGGGTTTTG
10348065 ATTCTTTTAATAAAATTTTAGGATTTTATAAATATAATCTAGTTTAATATTTGCATAATCTATTC
1 ATTCTTTTAATAAAATTTTAGGATTTTATAAATATAATCTAGTTTAATATTTGCATAATCTATTC
10348130 GAAAGATGAA
66 GAAAGATGAA
10348140 ATTCTTTTAA-AAAATTTTAGGATTTTATAAATATAATCTAGTTTAATATTTGCATAATCTATTC
1 ATTCTTTTAATAAAATTTTAGGATTTTATAAATATAATCTAGTTTAATATTTGCATAATCTATTC
10348204 GAAAGATGAA
66 GAAAGATGAA
10348214 TATTTATATA
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
74 64 0.86
75 10 0.14
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (75 bp):
ATTCTTTTAATAAAATTTTAGGATTTTATAAATATAATCTAGTTTAATATTTGCATAATCTATTC
GAAAGATGAA
Found at i:10353266 original size:25 final size:25
Alignment explanation
Indices: 10353232--10353301 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
10353222 CACACCACAA
*
10353232 CTCTCTTGAGCTTCCCGATACTTGG
1 CTCTCATGAGCTTCCCGATACTTGG
* * *
10353257 CTCTCATGAGCTTCTCGATATTTGT
1 CTCTCATGAGCTTCCCGATACTTGG
* *
10353282 CTCGCAAGAGCTTCCCGATA
1 CTCTCATGAGCTTCCCGATA
10353302 TACAGCTAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.17, C:0.30, G:0.19, T:0.34
Consensus pattern (25 bp):
CTCTCATGAGCTTCCCGATACTTGG
Found at i:10364487 original size:14 final size:14
Alignment explanation
Indices: 10364468--10364507 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
10364458 TTGATTGCCA
10364468 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
10364482 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
10364496 GGAAAATGTTTT
1 GTAAAATGTTTT
10364508 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:10364516 original size:20 final size:20
Alignment explanation
Indices: 10364491--10364530 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10364481 CGTAAAATGA
*
10364491 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
10364511 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
10364531 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:10364520 original size:34 final size:35
Alignment explanation
Indices: 10364476--10364542 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
10364466 CAGTAAAATG
*
10364476 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
10364510 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
10364543 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:10364546 original size:14 final size:15
Alignment explanation
Indices: 10364470--10364546 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
10364460 GATTGCCAGT
* *
10364470 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
10364484 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
10364498 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
10364518 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
10364533 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
10364547 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:10370571 original size:50 final size:49
Alignment explanation
Indices: 10370506--10370702 Score: 200
Period size: 50 Copynumber: 4.0 Consensus size: 49
10370496 AAAGTGAAAG
* *
10370506 TGAT-GGTCACGTGTGTAGTACTTTGTGCAGGCTACTACGTGTACCGGAA
1 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-A
* * *
10370555 TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATG-GTACCAGA
1 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA
* * * * * *
10370603 TAGTTTCGATCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGA
1 T-G-ATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA
* * * *
10370654 TGGTAATGGTCACATGTGTAGTACTATGTGTAGGCTACTATGTGAACCG
1 TGAT-A-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
10370703 AACATCATTG
Statistics
Matches: 121, Mismatches: 21, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
48 2 0.02
49 12 0.10
50 63 0.52
51 44 0.36
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (49 bp):
TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA
Found at i:10370638 original size:100 final size:101
Alignment explanation
Indices: 10370512--10370695 Score: 291
Period size: 100 Copynumber: 1.8 Consensus size: 101
10370502 AAAGTGATGG
* *
10370512 TCACGTGTGTAGTACTTTGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGATAATGGTCACATGTGTAGT
10370575 ACTATGTGCAGGCTACTATGGTACCAGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGGTACCAGATAGTTTCGA
* * *
10370612 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
*
10370677 CTATGTGTAGGCTACTATG
66 CTATGTGCAGGCTACTATG
10370696 TGAACCGAAC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
99 4 0.05
100 39 0.51
101 33 0.43
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGGTACCAGATAGTTTCGA
Found at i:10371107 original size:17 final size:18
Alignment explanation
Indices: 10371077--10371117 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
10371067 TTTCTGCTTC
10371077 TTCTTCTCGTACGTTTCTT
1 TTCTTCTCG-ACGTTTCTT
*
10371096 TTCTTCTC-ACGTTTTTT
1 TTCTTCTCGACGTTTCTT
10371113 TTCTT
1 TTCTT
10371118 TTCTCTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.62
19 8 0.38
ACGTcount: A:0.05, C:0.24, G:0.07, T:0.63
Consensus pattern (18 bp):
TTCTTCTCGACGTTTCTT
Found at i:10372098 original size:21 final size:20
Alignment explanation
Indices: 10372072--10372119 Score: 87
Period size: 21 Copynumber: 2.4 Consensus size: 20
10372062 CATGTTTTGG
10372072 TTTCTGTATTAAGTTGATGT
1 TTTCTGTATTAAGTTGATGT
10372092 TTGTCTGTATTAAGTTGATGT
1 TT-TCTGTATTAAGTTGATGT
10372113 TTTCTGT
1 TTTCTGT
10372120 TTATGGATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.17, C:0.06, G:0.21, T:0.56
Consensus pattern (20 bp):
TTTCTGTATTAAGTTGATGT
Found at i:10372676 original size:15 final size:15
Alignment explanation
Indices: 10372656--10372693 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
10372646 ACATTGTAAA
10372656 GTGTTTGACTATGGC
1 GTGTTTGACTATGGC
10372671 GTGTTTGACTATGGC
1 GTGTTTGACTATGGC
*
10372686 ATGTTTGA
1 GTGTTTGA
10372694 GAAAATGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.16, C:0.11, G:0.32, T:0.42
Consensus pattern (15 bp):
GTGTTTGACTATGGC
Found at i:10373324 original size:16 final size:16
Alignment explanation
Indices: 10373305--10373338 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
10373295 TAAATTAAAT
10373305 TTTTTTATTTTTAATA
1 TTTTTTATTTTTAATA
10373321 TTTTTTATTTTTAATA
1 TTTTTTATTTTTAATA
10373337 TT
1 TT
10373339 CTAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTATTTTTAATA
Found at i:10377025 original size:21 final size:21
Alignment explanation
Indices: 10376984--10377026 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
10376974 AGTAAAGTAG
*
10376984 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
10377005 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
10377026 A
1 A
10377027 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:10377879 original size:16 final size:16
Alignment explanation
Indices: 10377860--10377898 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
10377850 CTATATTCCT
10377860 TTACAGCTCTACTCCA
1 TTACAGCTCTACTCCA
* * *
10377876 TTACACCTGTATTCCA
1 TTACAGCTCTACTCCA
10377892 TTACAGC
1 TTACAGC
10377899 GAACTAAACG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.33, G:0.08, T:0.33
Consensus pattern (16 bp):
TTACAGCTCTACTCCA
Found at i:10378911 original size:35 final size:35
Alignment explanation
Indices: 10378871--10378940 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
10378861 TATACGATTT
*
10378871 GGTATGTAGCAATGTTAGAAATGGTTTATGAATTA
1 GGTATGTAGCAATGTCAGAAATGGTTTATGAATTA
10378906 GGTATGTAGCAATGTCAGAAATGGTTTATGAATTA
1 GGTATGTAGCAATGTCAGAAATGGTTTATGAATTA
10378941 ACTCATGTTG
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:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (35 bp):
GGTATGTAGCAATGTCAGAAATGGTTTATGAATTA
Found at i:10379463 original size:21 final size:20
Alignment explanation
Indices: 10379413--10379468 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 20
10379403 ATTAAATGGA
10379413 AATTGCAAATGATATGATTTG
1 AATTG-AAATGATATGATTTG
*
10379434 AATT-AAATGA-ATTATTGTG
1 AATTGAAATGATATGATT-TG
10379453 ATATTGAAATGTATAT
1 A-ATTGAAATG-ATAT
10379469 TGGATTGAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
18 5 0.17
19 9 0.31
20 3 0.10
21 9 0.31
22 1 0.03
23 2 0.07
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (20 bp):
AATTGAAATGATATGATTTG
Found at i:10381559 original size:20 final size:20
Alignment explanation
Indices: 10381531--10381570 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10381521 CTCTAATTAG
*
10381531 AATCTCTAAAAATCAACTAT
1 AATCCCTAAAAATCAACTAT
* *
10381551 AATCCCTAAAGATTAACTAT
1 AATCCCTAAAAATCAACTAT
10381571 TCAATGTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (20 bp):
AATCCCTAAAAATCAACTAT
Found at i:10390735 original size:82 final size:82
Alignment explanation
Indices: 10390564--10390746 Score: 224
Period size: 82 Copynumber: 2.2 Consensus size: 82
10390554 CCACATCGAC
* *
10390564 ATAAAGCCTTCTAGTCACAAAGCTAGATATGATACACCAACACGAAGCCTGCTAGGCATAAAGCC
1 ATAAAGCCTACTAGGCACAAAGCTAGATATGATACACCAACACGAAGCCTGCTAGGCATAAAGCC
** * *
10390629 TGATATGGTACACCGGC
66 TGATATAATACACCAGA
** * * * **
10390646 ACGAAGCCTGCTAGGCATAAAGCCT-GATATGGTACACCGGCACGAAGCCTGCTAGGCATAAAGC
1 ATAAAGCCTACTAGGCACAAAG-CTAGATATGATACACCAACACGAAGCCTGCTAGGCATAAAGC
*
10390710 CTGATATAATTCACCAGA
65 CTGATATAATACACCAGA
10390728 ATAAAGCCTACTAGGCACA
1 ATAAAGCCTACTAGGCACA
10390747 GAGCCCGAAT
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
82 81 0.98
83 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.19
Consensus pattern (82 bp):
ATAAAGCCTACTAGGCACAAAGCTAGATATGATACACCAACACGAAGCCTGCTAGGCATAAAGCC
TGATATAATACACCAGA
Found at i:10390744 original size:41 final size:41
Alignment explanation
Indices: 10390567--10390716 Score: 230
Period size: 41 Copynumber: 3.7 Consensus size: 41
10390557 CATCGACATA
* * * * **
10390567 AAGCCTTCTAGTCACAAAG-CTAGATATGATACACCAACACG
1 AAGCCTGCTAGGCATAAAGCCT-GATATGGTACACCGGCACG
10390608 AAGCCTGCTAGGCATAAAGCCTGATATGGTACACCGGCACG
1 AAGCCTGCTAGGCATAAAGCCTGATATGGTACACCGGCACG
10390649 AAGCCTGCTAGGCATAAAGCCTGATATGGTACACCGGCACG
1 AAGCCTGCTAGGCATAAAGCCTGATATGGTACACCGGCACG
10390690 AAGCCTGCTAGGCATAAAGCCTGATAT
1 AAGCCTGCTAGGCATAAAGCCTGATAT
10390717 AATTCACCAG
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
41 100 0.98
42 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.19
Consensus pattern (41 bp):
AAGCCTGCTAGGCATAAAGCCTGATATGGTACACCGGCACG
Found at i:10395883 original size:51 final size:50
Alignment explanation
Indices: 10395820--10395957 Score: 152
Period size: 50 Copynumber: 2.7 Consensus size: 50
10395810 ATACTCGATT
* *
10395820 CACATAGTAGCCTACACATAGTACTACACACGTGACCGAAGC-TATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC-AACCAT-TCCGGTA
* * * * * * * *
10395871 CGCATAGCAGCCTGCACACAATACTACACATGTAACCTACCATTTCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAACCATTCCGGTA
*
10395921 CACGTAGTAGCCTGCACATAGTACTACACACGTGACC
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC
10395958 TAGCAACTTC
Statistics
Matches: 69, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
50 38 0.55
51 31 0.45
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.20
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCAACCATTCCGGTA
Found at i:10400056 original size:49 final size:50
Alignment explanation
Indices: 10399986--10400091 Score: 155
Period size: 50 Copynumber: 2.2 Consensus size: 50
10399976 GAAGCTCATA
* *
10399986 AGAGCCA-TAATTGGGAAGCTCATGTGAG-CAAATATCGAAAAGCTCTGG
1 AGAGCCATTAATTGGGAAGCTCATGCGAGCCAAATATCGAAAAGCTCCGG
*
10400034 AGAGCCATTAATCT-GGAAGCTCATGCGAGCCATATATCGAAAAGCTCCGG
1 AGAGCCATTAAT-TGGGAAGCTCATGCGAGCCAAATATCGAAAAGCTCCGG
10400084 AGAGCCAT
1 AGAGCCAT
10400092 ATAACGAGAC
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
48 7 0.13
49 18 0.35
50 27 0.52
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (50 bp):
AGAGCCATTAATTGGGAAGCTCATGCGAGCCAAATATCGAAAAGCTCCGG
Found at i:10400078 original size:25 final size:25
Alignment explanation
Indices: 10399977--10400094 Score: 84
Period size: 25 Copynumber: 4.8 Consensus size: 25
10399967 CATATACGGG
* * **
10399977 AAGCTCATAAGAGCCATA-ATTGGG
1 AAGCTCATGAGAGCCATATATCGAA
* *
10400001 AAGCTCATGTGAG-CAAATATCGAA
1 AAGCTCATGAGAGCCATATATCGAA
*
10400025 AAGCTC-TGGAGAGCCAT-TAATCTG-G
1 AAGCTCAT-GAGAGCCATAT-ATC-GAA
*
10400050 AAGCTCATGCGAGCCATATATCGAA
1 AAGCTCATGAGAGCCATATATCGAA
**
10400075 AAGCTCCGGAGAGCCATATA
1 AAGCTCATGAGAGCCATATA
10400095 ACGAGACACT
Statistics
Matches: 72, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
23 4 0.06
24 26 0.36
25 39 0.54
26 3 0.04
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (25 bp):
AAGCTCATGAGAGCCATATATCGAA
Found at i:10407432 original size:95 final size:96
Alignment explanation
Indices: 10407315--10407507 Score: 379
Period size: 95 Copynumber: 2.0 Consensus size: 96
10407305 AATATAAAAA
10407315 TAAATATTTCATATTTAAAATAGTGAAAATAATTTAAAAATTCTTGACAATTCTTGTTTTTTAGA
1 TAAATATTTCATATTTAAAATAGTGAAAATAATTTAAAAATTCTTGACAATTCTTGTTTTTTAGA
10407380 AACATTTATGAAAGACTTTGAAATTTTATTT
66 AACATTTATGAAAGACTTTGAAATTTTATTT
10407411 TAAATATTTCA-ATTTAAAATAGTGAAAATAATTTAAAAATTCTTGACAATTCTTGTTTTTTAGA
1 TAAATATTTCATATTTAAAATAGTGAAAATAATTTAAAAATTCTTGACAATTCTTGTTTTTTAGA
10407475 AACATTTATGAAAGACTTTGAAATTTTATTT
66 AACATTTATGAAAGACTTTGAAATTTTATTT
10407506 TA
1 TA
10407508 TCAAATAATA
Statistics
Matches: 97, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 86 0.89
96 11 0.11
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (96 bp):
TAAATATTTCATATTTAAAATAGTGAAAATAATTTAAAAATTCTTGACAATTCTTGTTTTTTAGA
AACATTTATGAAAGACTTTGAAATTTTATTT
Found at i:10409051 original size:53 final size:53
Alignment explanation
Indices: 10408978--10409084 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
10408968 ACCATCCATG
10408978 TAAGATCCAGTTATAGCACATGAACAACAACTAGAAGGCCTCCAAGATCCAGC
1 TAAGATCCAGTTATAGCACATGAACAACAACTAGAAGGCCTCCAAGATCCAGC
10409031 TAAGATCCAGTTATAGCACATGAACAACAACTAGAAGGCCTCCAAGATCCAGC
1 TAAGATCCAGTTATAGCACATGAACAACAACTAGAAGGCCTCCAAGATCCAGC
10409084 T
1 T
10409085 GTATCAAGGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.39, C:0.26, G:0.17, T:0.18
Consensus pattern (53 bp):
TAAGATCCAGTTATAGCACATGAACAACAACTAGAAGGCCTCCAAGATCCAGC
Found at i:10417200 original size:18 final size:18
Alignment explanation
Indices: 10417177--10417220 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
10417167 GAAATGTATT
10417177 GAATCGATTCATTAAAAA
1 GAATCGATTCATTAAAAA
10417195 GAATCGATTCATTAAAAA
1 GAATCGATTCATTAAAAA
10417213 GAATCGAT
1 GAATCGAT
10417221 CCGATCGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (18 bp):
GAATCGATTCATTAAAAA
Found at i:10417607 original size:21 final size:21
Alignment explanation
Indices: 10417581--10417649 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
10417571 TCACTTTGTT
10417581 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
10417602 TCTTTTTGTCCAAGTTTCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
10417623 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
10417644 -CTTTTT
1 TCTTTTT
10417650 CTTTGTGAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.07, T:0.57
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:10418840 original size:29 final size:27
Alignment explanation
Indices: 10418806--10418874 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 27
10418796 ATTTTTAAAT
*
10418806 AATTATAAAAATATAGAAAATAATTTAA
1 AATTATAAAAA-ATAGAAAAGAATTTAA
10418834 AATTTATAAAAGAATAGAAAAGAATTTAA
1 AA-TTATAAAA-AATAGAAAAGAATTTAA
*
10418863 AATTATTAAAAA
1 AATTATAAAAAA
10418875 CTAATAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
27 2 0.05
28 9 0.24
29 25 0.68
30 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (27 bp):
AATTATAAAAAATAGAAAAGAATTTAA
Found at i:10419841 original size:12 final size:12
Alignment explanation
Indices: 10419810--10419835 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10419800 ATAAAAATAT
10419810 TAATTATAGAAA
1 TAATTATAGAAA
10419822 TAATTATAGAAA
1 TAATTATAGAAA
10419834 TA
1 TA
10419836 TATATAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
TAATTATAGAAA
Found at i:10420322 original size:19 final size:19
Alignment explanation
Indices: 10420298--10420339 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
10420288 TTCCCCTTCA
*
10420298 TTTCTACAAATCAGTTTTT
1 TTTCTACAAATCAATTTTT
*
10420317 TTTCTACAATTCAATTTTT
1 TTTCTACAAATCAATTTTT
10420336 TTTC
1 TTTC
10420340 ATGAACCAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.24, C:0.17, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTCTACAAATCAATTTTT
Found at i:10421854 original size:24 final size:25
Alignment explanation
Indices: 10421827--10421879 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 25
10421817 TTCAATCTTT
10421827 ATATTAAAAAAATTA-CAATTA-AAA
1 ATATT-AAAAAATTATCAATTATAAA
*
10421851 ATA-TAAAAAATTATTAATTATAAA
1 ATATTAAAAAATTATCAATTATAAA
10421875 ATATT
1 ATATT
10421880 TCAATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 9 0.36
23 6 0.24
24 9 0.36
25 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
ATATTAAAAAATTATCAATTATAAA
Found at i:10421861 original size:22 final size:24
Alignment explanation
Indices: 10421833--10421878 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
10421823 CTTTATATTA
10421833 AAAAAATTA-CAATTA-AAAATAT
1 AAAAAATTATCAATTATAAAATAT
*
10421855 AAAAAATTATTAATTATAAAATAT
1 AAAAAATTATCAATTATAAAATAT
10421879 TTCAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.43
23 5 0.24
24 7 0.33
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
AAAAAATTATCAATTATAAAATAT
Found at i:10429409 original size:25 final size:25
Alignment explanation
Indices: 10429373--10429441 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
10429363 CGGAGACACC
*
10429373 ACAGCTTGTATGAGCTTTCCAATTT
1 ACAGCTTGTATGAGCTTCCCAATTT
* * *
10429398 ATAGCTCGTATGAGCTTCCCGATTT
1 ACAGCTTGTATGAGCTTCCCAATTT
10429423 ACAGCTTGTATGAGCTTCC
1 ACAGCTTGTATGAGCTTCC
10429442 TGATTCATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (25 bp):
ACAGCTTGTATGAGCTTCCCAATTT
Found at i:10429462 original size:25 final size:25
Alignment explanation
Indices: 10429441--10429491 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
10429431 TATGAGCTTC
10429441 CTGATTCATAACTCGTGAGAGCATA
1 CTGATTCATAACTCGTGAGAGCATA
*
10429466 CTGATTCATAGCTCGT-ATGAGCATA
1 CTGATTCATAACTCGTGA-GAGCATA
10429491 C
1 C
10429492 ATGAATATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (25 bp):
CTGATTCATAACTCGTGAGAGCATA
Found at i:10437444 original size:29 final size:29
Alignment explanation
Indices: 10437402--10437472 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 29
10437392 AGACATTGAG
10437402 TTATATGT-AGGCCCTAGTGGC-GAAATCAA
1 TTATATGTGA-GCCCTAGTGGCAG-AATCAA
*
10437431 TTATATGTGAGCCCTAGTGGCAGAATCTA
1 TTATATGTGAGCCCTAGTGGCAGAATCAA
10437460 TTATATGTGAGCC
1 TTATATGTGAGCC
10437473 TTTGTGGTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 37 0.95
30 2 0.05
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (29 bp):
TTATATGTGAGCCCTAGTGGCAGAATCAA
Found at i:10437485 original size:29 final size:29
Alignment explanation
Indices: 10437425--10437513 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 29
10437415 CTAGTGGCGA
* * **
10437425 AATCAATTATATGTGAGCCCTAGTGGCAG
1 AATCTATTATATGTGAGCCCTTGTGGTTG
*
10437454 AATCTATTATATGTGAGCCTTTGTGGTTG
1 AATCTATTATATGTGAGCCCTTGTGGTTG
* * *
10437483 AATATGTTATATGCGGAAGCCCTTGTGGTTG
1 AATCTATTATATG-TG-AGCCCTTGTGGTTG
10437514 TTTTGTTATG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 35 0.71
30 1 0.02
31 13 0.27
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (29 bp):
AATCTATTATATGTGAGCCCTTGTGGTTG
Found at i:10439102 original size:33 final size:33
Alignment explanation
Indices: 10439037--10439110 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
10439027 GCTCACCTCA
* * *
10439037 TGTTTACTCTCCCGACGAACTTACTCTGTTCTG
1 TGTTTACTATCCCAACGAACTTACTCTATTCTG
*
10439070 TGTTTACTATCCCAACGGA-TTATCTCTATTCTG
1 TGTTTACTATCCCAACGAACTTA-CTCTATTCTG
10439103 TGTTTACT
1 TGTTTACT
10439111 TTCTCAGTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
32 3 0.08
33 33 0.92
ACGTcount: A:0.18, C:0.26, G:0.14, T:0.43
Consensus pattern (33 bp):
TGTTTACTATCCCAACGAACTTACTCTATTCTG
Found at i:10451070 original size:23 final size:22
Alignment explanation
Indices: 10451035--10451080 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
10451025 TTTGATAATA
*
10451035 TGTTTTGATATAACAAATTAAAG
1 TGTTTTGAAATAA-AAATTAAAG
* *
10451058 TGTTTTTAAATAAAAGTTAAAG
1 TGTTTTGAAATAAAAATTAAAG
10451080 T
1 T
10451081 TAAAAACAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.41
Consensus pattern (22 bp):
TGTTTTGAAATAAAAATTAAAG
Found at i:10453604 original size:42 final size:43
Alignment explanation
Indices: 10453494--10453660 Score: 216
Period size: 43 Copynumber: 3.9 Consensus size: 43
10453484 TCCACCATAA
* *
10453494 ATTCAGTGATACGG-GGAATCAGCACATAGCAACCCCTTTCACA
1 ATTCAGTGATACGGTGGAATCAGCACTTAGCAACCCCTTTCA-T
* *
10453537 ATTAAG-GATTCGGTGGAATCAGCACTTAGCAACCACCTTT-AT
1 ATTCAGTGATACGGTGGAATCAGCACTTAGCAACC-CCTTTCAT
10453579 ATTCAGTGATACGG-GGAATCAGCACTTAGCAACCCCTTTCAT
1 ATTCAGTGATACGGTGGAATCAGCACTTAGCAACCCCTTTCAT
* ** *
10453621 AATCAAAGATACGGTGGGATCAGCACTTAGCAACCCCTTT
1 ATTCAGTGATACGGTGGAATCAGCACTTAGCAACCCCTTT
10453661 TTATTCAATA
Statistics
Matches: 109, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
41 5 0.05
42 44 0.40
43 55 0.50
44 5 0.05
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
ATTCAGTGATACGGTGGAATCAGCACTTAGCAACCCCTTTCAT
Found at i:10453617 original size:85 final size:84
Alignment explanation
Indices: 10453494--10453667 Score: 276
Period size: 85 Copynumber: 2.1 Consensus size: 84
10453484 TCCACCATAA
* * *
10453494 ATTCAGTGATACGGGGAATCAGCACATAGCAACCCCTTTCACAATTAAGGATTCGGTGGAATCAG
1 ATTCAGTGATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAAGATACGGTGGAATCAG
10453559 CACTTAGCAACCACCTTTAT
66 CACTTAGCAACC-CCTTTAT
* * *
10453579 ATTCAGTGATACGGGGAATCAGCACTTAGCAACCCCTTTCATAATCAAAGATACGGTGGGATCAG
1 ATTCAGTGATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAAGATACGGTGGAATCAG
*
10453644 CACTTAGCAACCCCTTTTT
66 CACTTAGCAACCCCTTTAT
10453663 ATTCA
1 ATTCA
10453668 ATATATTCTG
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
84 11 0.13
85 71 0.87
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (84 bp):
ATTCAGTGATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAAGATACGGTGGAATCAG
CACTTAGCAACCCCTTTAT
Found at i:10458302 original size:15 final size:16
Alignment explanation
Indices: 10458270--10458303 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10458260 ATTTCATCTC
10458270 ATTTGCATTTAGGTTA
1 ATTTGCATTTAGGTTA
*
10458286 ATTTTCATTTA-GTTA
1 ATTTGCATTTAGGTTA
10458301 ATT
1 ATT
10458304 AATTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.56
Consensus pattern (16 bp):
ATTTGCATTTAGGTTA
Found at i:10461195 original size:41 final size:41
Alignment explanation
Indices: 10461118--10461195 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
10461108 TGATCCAGTA
** **
10461118 CACCGGCATTAAGCCTGCTAGACGTATAGTCTAAAATATTT
1 CACCGGCATTAAGCCTGCTAGACACATAAACTAAAATATTT
*
10461159 CACCGGCATTAAGCCTGCTAGGCACA-AAACTGAAAAT
1 CACCGGCATTAAGCCTGCTAGACACATAAACT-AAAAT
10461196 CTCATATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 3 0.10
41 28 0.90
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACACATAAACTAAAATATTT
Found at i:10462857 original size:24 final size:24
Alignment explanation
Indices: 10462830--10462914 Score: 99
Period size: 24 Copynumber: 3.6 Consensus size: 24
10462820 AACAACAATT
10462830 AGGATAAAGTTTTCATATAACATA
1 AGGATAAAGTTTTCATATAACATA
10462854 AGGATAAAGTTTTC-TATAA-ATA
1 AGGATAAAGTTTTCATATAACATA
10462876 A--ATAATTTA-TATTTCATATAACATA
1 AGGATAA---AGT-TTTCATATAACATA
10462901 AGGATAAAGTTTTC
1 AGGATAAAGTTTTC
10462915 CATTGCCACC
Statistics
Matches: 52, Mismatches: 0, Indels: 18
0.74 0.00 0.26
Matches are distributed among these distances:
20 4 0.08
22 5 0.10
23 10 0.19
24 24 0.46
25 5 0.10
27 4 0.08
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.38
Consensus pattern (24 bp):
AGGATAAAGTTTTCATATAACATA
Found at i:10468311 original size:20 final size:20
Alignment explanation
Indices: 10468283--10468336 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
10468273 GTACCATTTC
* *
10468283 AAAATTATCGATACTTTTGA-
1 AAAAATATCGATACTTGT-AT
*
10468303 AAAAATATCAATACTTGTAT
1 AAAAATATCGATACTTGTAT
*
10468323 AAAAATATTGATAC
1 AAAAATATCGATAC
10468337 CTACTGGGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.35
Consensus pattern (20 bp):
AAAAATATCGATACTTGTAT
Found at i:10470127 original size:17 final size:17
Alignment explanation
Indices: 10470100--10470176 Score: 63
Period size: 17 Copynumber: 4.7 Consensus size: 17
10470090 ATCTATAAGA
*
10470100 TAAACATTAAATTAAAT
1 TAAATATTAAATTAAAT
*
10470117 TTAATATTAAATT-AAT
1 TAAATATTAAATTAAAT
* *
10470133 AAAATACT--ATTAAGA-
1 TAAATATTAAATTAA-AT
*
10470148 TAAATATTAAATTTAAT
1 TAAATATTAAATTAAAT
*
10470165 TTAATATTAAAT
1 TAAATATTAAAT
10470177 CTATTAAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
14 3 0.07
15 7 0.15
16 10 0.22
17 26 0.57
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (17 bp):
TAAATATTAAATTAAAT
Found at i:10470157 original size:48 final size:48
Alignment explanation
Indices: 10470069--10470187 Score: 150
Period size: 48 Copynumber: 2.4 Consensus size: 48
10470059 TATTAAATAT
10470069 TATTAAATTAATAGAATATTTATCTATAAGATAAACATTAAATTAAATTTAA
1 TATTAAATTAATA-AA-A--TATCTATAAGATAAACATTAAATTAAATTTAA
* *
10470121 TATTAAATTAATAAAATA-CTATTAAGATAAATATTAAATTTAATTTAA
1 TATTAAATTAATAAAATATCTA-TAAGATAAACATTAAATTAAATTTAA
*
10470169 TATTAAATCTATTAAAATA
1 TATTAAAT-TAATAAAATA
10470188 ACATTATTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
47 3 0.05
48 34 0.55
49 9 0.15
50 1 0.02
51 2 0.03
52 13 0.21
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (48 bp):
TATTAAATTAATAAAATATCTATAAGATAAACATTAAATTAAATTTAA
Found at i:10470493 original size:20 final size:20
Alignment explanation
Indices: 10470453--10470495 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10470443 TTCGACTAGT
* * *
10470453 TTTTGGGGTCTTGGTCTCAA
1 TTTTGGGCTCTTGGGCCCAA
10470473 TTTTGGGCTCTTGGGCCCAA
1 TTTTGGGCTCTTGGGCCCAA
10470493 TTT
1 TTT
10470496 ACAATTTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (20 bp):
TTTTGGGCTCTTGGGCCCAA
Found at i:10473070 original size:17 final size:16
Alignment explanation
Indices: 10473048--10473079 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
10473038 TCACAAATTC
10473048 AACTAAGGTATCGATCA
1 AACTAA-GTATCGATCA
10473065 AACTAAGTATCGATC
1 AACTAAGTATCGATC
10473080 CAATATCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.25
Consensus pattern (16 bp):
AACTAAGTATCGATCA
Found at i:10474259 original size:16 final size:16
Alignment explanation
Indices: 10474238--10474271 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10474228 TAATTCGTGA
*
10474238 TTTATTATCTTTTATT
1 TTTATTATCTATTATT
*
10474254 TTTATTGTCTATTATT
1 TTTATTATCTATTATT
10474270 TT
1 TT
10474272 AATTTATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTATTATCTATTATT
Found at i:10474715 original size:2 final size:2
Alignment explanation
Indices: 10474708--10474733 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10474698 CATGCCTTTT
10474708 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
10474734 CACTTTTATC
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):
TA
Found at i:10475695 original size:18 final size:18
Alignment explanation
Indices: 10475672--10475707 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10475662 TAGGTCACAC
10475672 GGCCAGACCACATGCCCG
1 GGCCAGACCACATGCCCG
10475690 GGCCAGACCACATGCCCG
1 GGCCAGACCACATGCCCG
10475708 TGTGCTAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.44, G:0.28, T:0.06
Consensus pattern (18 bp):
GGCCAGACCACATGCCCG
Found at i:10482273 original size:14 final size:14
Alignment explanation
Indices: 10482254--10482282 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10482244 ATAACACCCC
10482254 TAACCCGTATTCGA
1 TAACCCGTATTCGA
10482268 TAACCCGTATTCGA
1 TAACCCGTATTCGA
10482282 T
1 T
10482283 GACGAAACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (14 bp):
TAACCCGTATTCGA
Found at i:10483513 original size:51 final size:51
Alignment explanation
Indices: 10483415--10483577 Score: 237
Period size: 51 Copynumber: 3.3 Consensus size: 51
10483405 CGGATCACAT
*
10483415 TTATCACTTGTCACTTGTC-C----CTGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
10483461 TTATCACTTGTTACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCAC
*
10483512 TTATCACTTGTCACTTGTCACTAATCAGATAAGCGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCAC
*
10483563 TTATCACTTTTCACT
1 TTATCACTTGTCACT
10483578 GGTTAGAAGT
Statistics
Matches: 104, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
46 18 0.17
47 1 0.01
51 85 0.82
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:10488106 original size:4 final size:4
Alignment explanation
Indices: 10488094--10488131 Score: 58
Period size: 4 Copynumber: 9.0 Consensus size: 4
10488084 AATAAATATG
10488094 TTAA TTTAA TTAA TTAA TTAA TTAA TTAA TATAA TTAA
1 TTAA -TTAA TTAA TTAA TTAA TTAA TTAA T-TAA TTAA
10488132 AAATAATTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 24 0.75
5 8 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:10491427 original size:12 final size:12
Alignment explanation
Indices: 10491370--10491427 Score: 55
Period size: 12 Copynumber: 4.7 Consensus size: 12
10491360 AAATTCTTAA
* *
10491370 AAAATATATTTT
1 AAAATAAATATT
10491382 AAAAT-AATATT
1 AAAATAAATATT
*
10491393 TAAATAAAATGATT
1 AAAAT-AAAT-ATT
10491407 AAAAATAAATATT
1 -AAAATAAATATT
10491420 AAAATAAA
1 AAAATAAA
10491428 AATCATCCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 8 0.21
12 13 0.34
13 6 0.16
14 7 0.18
15 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (12 bp):
AAAATAAATATT
Found at i:10491440 original size:30 final size:27
Alignment explanation
Indices: 10491382--10491433 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
10491372 AATATATTTT
* *
10491382 AAAAT-AATATTTAAATAAAATGATTA
1 AAAATAAATATTAAAATAAAATCATTA
10491408 AAAATAAATATTAAAATAAAAATCAT
1 AAAATAAATATTAAAAT-AAAATCAT
10491434 CCTAAAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 10 0.45
28 7 0.32
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (27 bp):
AAAATAAATATTAAAATAAAATCATTA
Found at i:10494513 original size:6 final size:6
Alignment explanation
Indices: 10494502--10494530 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
10494492 ACAAGCACCG
10494502 CCGCCT CCGCCT CCGCCT CCGCCT CCGCC
1 CCGCCT CCGCCT CCGCCT CCGCCT CCGCC
10494531 ATATCTGCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.69, G:0.17, T:0.14
Consensus pattern (6 bp):
CCGCCT
Found at i:10497150 original size:103 final size:102
Alignment explanation
Indices: 10496885--10497222 Score: 365
Period size: 103 Copynumber: 3.4 Consensus size: 102
10496875 ATATTTTTAA
*
10496885 GTTTAGGG-TTTTAGAGAAAAAATTAAATAAATAAGGGATTAGGGTTTATGGTTTGTCAATTAAA
1 GTTTAGGGTTTTTA-TGAAAAAATTAAATAAATAAGGGATTAGGGTTTATGGTTTGTCAATTAAA
* * *
10496949 TTAATTATAAATTTTT-CAAAATTGGATTAGGTTTCGT
65 TTAATTATAAATTTTTAAAAAATTAGATTAGGTTTAGT
** * * * ** * * *
10496986 GTTTATTGTTTTT-T-AAGAAA--AAATAATTAA---ATTAGGGTTTAAGGTTACTTAAGTAATT
1 GTTTAGGGTTTTTATGAAAAAATTAAATAAATAAGGGATTAGGGTTTATGGTTTGTCAATTAAAT
*
10497044 TAA-T-TAAATTTTTAAAAAAAATTAGATTAGGGTTTAGA
66 TAATTATAAATTTTT--AAAAAATTAGATTA-GGTTTAGT
*
10497082 GTTAAGGGTTTTTATGAAAAAATTAAATAAATAAGGGATTAGGGTTTATGGTTTGTCAATTAAAT
1 GTTTAGGGTTTTTATGAAAAAATTAAATAAATAAGGGATTAGGGTTTATGGTTTGTCAATTAAAT
10497147 TAATTATAAATTTTTAAAAAATTAGATTATGGTTTAGT
66 TAATTATAAATTTTTAAAAAATTAGATTA-GGTTTAGT
* * * *
10497185 GTTTAGGGTTTTTAAGTAAAAACTCAAATAAATTAGGG
1 GTTTAGGGTTTTTATG-AAAAAATTAAATAAATAAGGG
10497223 TTTGTGGTTG
Statistics
Matches: 189, Mismatches: 33, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
92 9 0.05
93 1 0.01
94 25 0.13
95 11 0.06
96 16 0.08
97 10 0.05
98 5 0.03
99 5 0.03
100 9 0.05
101 6 0.03
102 4 0.02
103 60 0.32
104 19 0.10
105 9 0.05
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (102 bp):
GTTTAGGGTTTTTATGAAAAAATTAAATAAATAAGGGATTAGGGTTTATGGTTTGTCAATTAAAT
TAATTATAAATTTTTAAAAAATTAGATTAGGTTTAGT
Found at i:10497489 original size:126 final size:126
Alignment explanation
Indices: 10497264--10497805 Score: 890
Period size: 126 Copynumber: 4.3 Consensus size: 126
10497254 TTGTTAATTT
* * * *
10497264 AAAGAAGTTCTCACGTAGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTTGAATAGAC
1 AAAGAAGTTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCATAAAAAAATAATTTTGAGTAGAC
10497329 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAACAATAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAACAATAGTACTG
* *
10497390 AAAGAAGTTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
1 AAAGAAGTTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCATAAAAAAATAATTTTGAGTAGAC
*
10497455 GTTTTTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAACAATAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAACAATAGTACTG
*
10497516 AAAGAAGTTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCATGAAAAAATAATTTTGAGTAGAC
1 AAAGAAGTTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCATAAAAAAATAATTTTGAGTAGAC
10497581 GTTTCTGAGCAAATAGTGTTCAAAAA-GCTTTAAGCAGGATGCTTTGTCAACAATAGTACTG
66 GTTTCTGAGCAAATAGTG-TCAAAAACGCTTTAAGCAGGATGCTTTGTCAACAATAGTACTG
*
10497642 AAAGAAGTTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCATGAAAAAATAATTTTGAGTAGAC
1 AAAGAAGTTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCATAAAAAAATAATTTTGAGTAGAC
* * * ** *
10497707 GTTTCTGAGCAAATAGTGTTAAAAAAGCTTTAAGCAGGATGGTTTGTCAGTAGA-AGTATTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAACA-ATAGTACTG
* * *
10497768 AAAGAAGCTCCCACGTGGATGTGCTTTTGCTACAGTAG
1 AAAGAAGTTCCCACGTGGACGCGCTTTTGCTACAGTAG
10497806 TGCATGTTTG
Statistics
Matches: 396, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
125 6 0.02
126 382 0.96
127 8 0.02
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (126 bp):
AAAGAAGTTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCATAAAAAAATAATTTTGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAACAATAGTACTG
Found at i:10499326 original size:18 final size:18
Alignment explanation
Indices: 10499300--10499343 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10499290 GACTAAAAAA
* * *
10499300 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
10499318 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
*
10499336 ACGATACA
1 AGGATACA
10499344 CACCTGGCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.11, G:0.25, T:0.18
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:10499996 original size:7 final size:7
Alignment explanation
Indices: 10499984--10500015 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
10499974 TATTAGTTAT
10499984 ATACATA
1 ATACATA
10499991 ATACATA
1 ATACATA
10499998 ATACATA
1 ATACATA
10500005 ATACATA
1 ATACATA
10500012 ATAC
1 ATAC
10500016 TAAATACTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:10501169 original size:29 final size:28
Alignment explanation
Indices: 10501129--10501184 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
10501119 AAAAAAATTC
*
10501129 AAAAAAAT-AAAATTTAAAACTTTTTTT
1 AAAAAAATAAAAAATTAAAACTTTTTTT
10501156 AAAAATAATTAAAAAATTAAAACTTTTTT
1 AAAAA-AA-TAAAAAATTAAAACTTTTTT
10501185 AAATAGGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 5 0.20
28 2 0.08
29 1 0.04
30 17 0.68
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (28 bp):
AAAAAAATAAAAAATTAAAACTTTTTTT
Found at i:10501203 original size:11 final size:11
Alignment explanation
Indices: 10501189--10501256 Score: 68
Period size: 11 Copynumber: 6.2 Consensus size: 11
10501179 TTTTTTAAAT
10501189 AGGAATTTGAG
1 AGGAATTTGAG
*
10501200 AGGAACTTGAG
1 AGGAATTTGAG
* *
10501211 AGGAAATTGGG
1 AGGAATTTGAG
10501222 AGGAATTTGAG
1 AGGAATTTGAG
10501233 A-GAATATT-AG
1 AGGAAT-TTGAG
*
10501243 AGAGAAATTGAG
1 AG-GAATTTGAG
10501255 AG
1 AG
10501257 AAATGATTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
10 7 0.15
11 33 0.70
12 7 0.15
ACGTcount: A:0.41, C:0.01, G:0.35, T:0.22
Consensus pattern (11 bp):
AGGAATTTGAG
Found at i:10501250 original size:33 final size:33
Alignment explanation
Indices: 10501189--10501252 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
10501179 TTTTTTAAAT
*
10501189 AGGAATTTGAGAGGAACTTGAGAGGAAATTGGG
1 AGGAATTTGAGAGGAAATTGAGAGGAAATTGGG
10501222 AGGAATTTGAGA-GAATATT-AGAGAGAAATTG
1 AGGAATTTGAGAGGAA-ATTGAGAG-GAAATTG
10501253 AGAGAAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.41, C:0.02, G:0.34, T:0.23
Consensus pattern (33 bp):
AGGAATTTGAGAGGAAATTGAGAGGAAATTGGG
Found at i:10503751 original size:26 final size:26
Alignment explanation
Indices: 10503721--10503770 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
10503711 CATGTATGTG
*
10503721 AAAATATGTATG-ATTTATAAAATGGA
1 AAAATATATATGTA-TTATAAAATGGA
*
10503747 AAAATGTATATGTATTATAAAATG
1 AAAATATATATGTATTATAAAATG
10503771 TAAATGTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (26 bp):
AAAATATATATGTATTATAAAATGGA
Found at i:10503928 original size:3 final size:3
Alignment explanation
Indices: 10503920--10503960 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
10503910 ATGTAAAAGT
* *
10503920 ATA ATA ATA ATA CTGT ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
10503961 ACTTAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 32 0.97
4 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:10505630 original size:21 final size:19
Alignment explanation
Indices: 10505592--10505638 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
10505582 TTAATTTATT
*
10505592 TTTTTAAAATTTTAAATATA
1 TTTTTAAAATTATAAATA-A
10505612 TATTTTATAAATTAT-AATAA
1 T-TTTTA-AAATTATAAATAA
10505632 TTTTTAA
1 TTTTTAA
10505639 TTTTGAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
19 5 0.21
20 3 0.12
21 9 0.38
22 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTTAAAATTATAAATAA
Found at i:10508605 original size:3 final size:3
Alignment explanation
Indices: 10508503--10508589 Score: 84
Period size: 3 Copynumber: 28.3 Consensus size: 3
10508493 CTTCCATCCC
* * * * * * *
10508503 TCT TCT TCT TCT TCT TTT TCCT TTT TCT TCCT TCT ACG CCT CCT TCC
1 TCT TCT TCT TCT TCT TCT T-CT TCT TCT T-CT TCT TCT TCT TCT TCT
*
10508550 CCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
10508590 TCCTTTTCTT
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
3 64 0.93
4 5 0.07
ACGTcount: A:0.01, C:0.37, G:0.01, T:0.61
Consensus pattern (3 bp):
TCT
Found at i:10509890 original size:132 final size:132
Alignment explanation
Indices: 10509653--10509921 Score: 511
Period size: 132 Copynumber: 2.0 Consensus size: 132
10509643 AAAATGAAAA
10509653 CAAATATGGGCTCACTGGTTATCTAGTATTTAACTAATACTAAGCGGTTTCACGTGGTCAAATCA
1 CAAATATGGGCTCACTGGTTATCTAGTATTTAACTAATACTAAGCGGTTTCACGTGGTCAAATCA
*
10509718 TAATACAGAAAGACAACTTGTATTAGTAGATGAACCTAAACATATCATTAGTCTAATTGGAAATG
66 TAATACAGAAAGACAACTTGTATTAGTAGATGAACCTAAACATATCATTAGTCTAATTAGAAATG
10509783 AG
131 AG
* *
10509785 CAAATATGGGCTCACTGGTTATCTAGTATTTAACTAATACTAAGCGGTTTCACGTGGTCAGATCG
1 CAAATATGGGCTCACTGGTTATCTAGTATTTAACTAATACTAAGCGGTTTCACGTGGTCAAATCA
10509850 TAATACAGAAAGACAACTTGTATTAGTAGATGAACCTAAACATATCATTAGTCTAATTAGAAATG
66 TAATACAGAAAGACAACTTGTATTAGTAGATGAACCTAAACATATCATTAGTCTAATTAGAAATG
10509915 AG
131 AG
10509917 CAAAT
1 CAAAT
10509922 CAATTGAAAG
Statistics
Matches: 134, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 134 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (132 bp):
CAAATATGGGCTCACTGGTTATCTAGTATTTAACTAATACTAAGCGGTTTCACGTGGTCAAATCA
TAATACAGAAAGACAACTTGTATTAGTAGATGAACCTAAACATATCATTAGTCTAATTAGAAATG
AG
Found at i:10511513 original size:13 final size:14
Alignment explanation
Indices: 10511484--10511513 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10511474 TCTTGTTAGA
10511484 TTTAGTCTTTATTC
1 TTTAGTCTTTATTC
10511498 TTTAGTCTTT-TTC
1 TTTAGTCTTTATTC
10511511 TTT
1 TTT
10511514 TCTTAGGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.10, C:0.13, G:0.07, T:0.70
Consensus pattern (14 bp):
TTTAGTCTTTATTC
Found at i:10515052 original size:22 final size:22
Alignment explanation
Indices: 10515021--10515064 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10515011 TGCACTATGC
*
10515021 CAATAGAATTGATTGGTTGTGT
1 CAATAGAATTGAATGGTTGTGT
* *
10515043 CAATATAATTGAATGTTTGTGT
1 CAATAGAATTGAATGGTTGTGT
10515065 TAAAAGTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.43
Consensus pattern (22 bp):
CAATAGAATTGAATGGTTGTGT
Found at i:10518228 original size:11 final size:11
Alignment explanation
Indices: 10518212--10518240 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
10518202 AGTTATTGTT
10518212 GTTGGAGAGAA
1 GTTGGAGAGAA
10518223 GTTGGAGAGAA
1 GTTGGAGAGAA
10518234 GTTGGAG
1 GTTGGAG
10518241 TTGCTTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.48, T:0.21
Consensus pattern (11 bp):
GTTGGAGAGAA
Found at i:10521291 original size:2 final size:2
Alignment explanation
Indices: 10521284--10521309 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10521274 AAATTGAGAG
10521284 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
10521310 TTGCTTGTAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10526271 original size:11 final size:11
Alignment explanation
Indices: 10526257--10526281 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10526247 AATCCAATAT
10526257 AATACTTTTAA
1 AATACTTTTAA
10526268 AATACTTTTAA
1 AATACTTTTAA
10526279 AAT
1 AAT
10526282 TCGCTATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (11 bp):
AATACTTTTAA
Found at i:10531021 original size:33 final size:33
Alignment explanation
Indices: 10530978--10531096 Score: 105
Period size: 33 Copynumber: 3.3 Consensus size: 33
10530968 GGATTCAGCG
10530978 CTTAGCAACCACCACTGATTCGGGGAATCAACA
1 CTTAGCAACCACCACTGATTCGGGGAATCAACA
* *
10531011 TTTAGCAACCACTTTCACATTCAAAAATAT-GGTGGAATCAACA
1 CTTAGCAACCAC---CAC--T----GAT-TCGG-GGAATCAACA
*
10531054 CTTAGCAACCACCAATGATTCGGGGAATCAACA
1 CTTAGCAACCACCACTGATTCGGGGAATCAACA
10531087 CTTAGCAACC
1 CTTAGCAACC
10531097 CCTTGGGGGA
Statistics
Matches: 69, Mismatches: 5, Indels: 24
0.70 0.05 0.24
Matches are distributed among these distances:
33 32 0.46
34 4 0.06
36 3 0.04
38 2 0.03
40 2 0.03
42 4 0.06
43 22 0.32
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (33 bp):
CTTAGCAACCACCACTGATTCGGGGAATCAACA
Found at i:10531115 original size:27 final size:28
Alignment explanation
Indices: 10531075--10531128 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
10531065 CCAATGATTC
10531075 GGGGAATCAACACTTAGCAA-CCCCTTG
1 GGGGAATCAACACTTAGCAAGCCCCTTG
*
10531102 GGGGAATCAGCACTTAGCAAGCCCCTT
1 GGGGAATCAACACTTAGCAAGCCCCTT
10531129 CACATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.28, C:0.30, G:0.24, T:0.19
Consensus pattern (28 bp):
GGGGAATCAACACTTAGCAAGCCCCTTG
Found at i:10531196 original size:33 final size:33
Alignment explanation
Indices: 10531149--10531327 Score: 103
Period size: 27 Copynumber: 5.5 Consensus size: 33
10531139 ATATGGTGGG
10531149 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
1 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
* *
10531182 ATCAACACTTAGCAACC-CC--T---TGGGGGA
1 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
* *
10531209 ATCAGCACTTAGCAACCCCCTTTATATTCAAGATACGGTGGA
1 ATCAGCACTTAGCAACCACC---A-A-T-GA-AT-CGG-GGA
* *
10531251 ATCAGCACTTAGCAACCACCAATGAGTCGAGGA
1 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
* ** *
10531284 ACCAATACTTAGCAACC-CC--T---TGGGGGA
1 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
10531311 ATCAGCACTTAGCAACC
1 ATCAGCACTTAGCAACC
10531328 CCCTTTATAT
Statistics
Matches: 115, Mismatches: 16, Indels: 36
0.69 0.10 0.22
Matches are distributed among these distances:
27 41 0.36
28 2 0.02
30 2 0.02
32 4 0.03
33 33 0.29
34 2 0.02
35 2 0.02
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 1 0.01
41 2 0.02
42 22 0.19
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (33 bp):
ATCAGCACTTAGCAACCACCAATGAATCGGGGA
Found at i:10531333 original size:102 final size:102
Alignment explanation
Indices: 10530999--10531341 Score: 508
Period size: 102 Copynumber: 3.4 Consensus size: 102
10530989 CCACTGATTC
* * * *
10530999 GGGGAATCAACATTTAGCAA-CCACTTTCACATTCAAAAATATGGTGGAATCAACACTTAGCAAC
1 GGGGAATCAGCACTTAGCAACCCCCTTT-ACATTC-AAAATATGGTGGAATCAGCACTTAGCAAC
*
10531063 CACCAATGATTCGGGGAATCAACACTTAGCAACCCCTTG
64 CACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
* * * *
10531102 GGGGAATCAGCACTTAGCAAGCCCCTTCACATTTAAAATATGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTTACATTCAAAATATGGTGGAATCAGCACTTAGCAACCA
10531167 CCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
66 CCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
* * *
10531204 GGGGAATCAGCACTTAGCAACCCCCTTTATATTCAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTTACATTCAAAATATGGTGGAATCAGCACTTAGCAACCA
* * * *
10531269 CCAATGAGTCGAGGAACCAATACTTAGCAACCCCTTG
66 CCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
*
10531306 GGGGAATCAGCACTTAGCAACCCCCTTTATATTCAA
1 GGGGAATCAGCACTTAGCAACCCCCTTTACATTCAA
10531342 TGTGCTCCGG
Statistics
Matches: 220, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
102 192 0.87
103 23 0.10
104 5 0.02
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.22
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTTACATTCAAAATATGGTGGAATCAGCACTTAGCAACCA
CCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
Found at i:10538719 original size:27 final size:26
Alignment explanation
Indices: 10538682--10538732 Score: 93
Period size: 27 Copynumber: 1.9 Consensus size: 26
10538672 CCAATGATTC
10538682 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACTTAGCAACCCCTT
10538708 GGGGAAATCAGCACTTAGCAACCCC
1 GGGG-AATCAGCACTTAGCAACCCC
10538733 CCTCACATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.29, C:0.31, G:0.24, T:0.16
Consensus pattern (26 bp):
GGGGAATCAGCACTTAGCAACCCCTT
Found at i:10538778 original size:102 final size:102
Alignment explanation
Indices: 10538608--10538948 Score: 502
Period size: 102 Copynumber: 3.3 Consensus size: 102
10538598 AGTGATTTGA
* * *
10538608 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGGAACCAC
1 GGAATCAGCACTTAGCAACCCCCTTCACATTCAAA-ATACGGTGGAATCAGCACTTAGCAACCAC
*
10538673 CAATGATTCGGGGAATCAGCACTTAGCAACCCCTTGGG
65 CAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGG
* * * *
10538711 GAAATCAGCACTTAGCAACCCCCCTCACATTTAAAATACGGTGGGATCAGCACTTAGCAACCACC
1 GGAATCAGCACTTAGCAACCCCCTTCACATTCAAAATACGGTGGAATCAGCACTTAGCAACCACC
*
10538776 AATGAATCGGGGAATCAGCACTTAGCAACCCTTTGGG
66 AATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGG
* * * *
10538813 GGAATCAGCACTTAGCAACCCCTTTTATATTCAAGATACGGTGGAATCAGCACTTAGCAACCACC
1 GGAATCAGCACTTAGCAACCCCCTTCACATTCAAAATACGGTGGAATCAGCACTTAGCAACCACC
* * * **
10538878 AATGAGTCAGGGAATTAATACTTAGCAACCCCTTGGG
66 AATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGG
*
10538915 GGAATCAGCACTTAGCAACCCCCTTTACATTCAA
1 GGAATCAGCACTTAGCAACCCCCTTCACATTCAA
10538949 TGTACTCCGG
Statistics
Matches: 213, Mismatches: 25, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
102 182 0.85
103 31 0.15
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (102 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTCAAAATACGGTGGAATCAGCACTTAGCAACCACC
AATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGG
Found at i:10551844 original size:44 final size:44
Alignment explanation
Indices: 10551777--10552026 Score: 365
Period size: 44 Copynumber: 5.7 Consensus size: 44
10551767 AGAACAAACC
* * *
10551777 GGTGGAAGACTATAAATCCTAGCTCCCTGACCAACAGTGGAATA
1 GGTGGAAGATTGTAAATCCTAGCTCCCTGACCAGCAGTGGAATA
*
10551821 GGTAGAAGATTGTAAATCCTAGCTCCCTGACCAGCAGTGGAATA
1 GGTGGAAGATTGTAAATCCTAGCTCCCTGACCAGCAGTGGAATA
* * * * *
10551865 GGTGGAAGACTATAAGTCCTAGCTCCCTTAACAGCAGTGGAATA
1 GGTGGAAGATTGTAAATCCTAGCTCCCTGACCAGCAGTGGAATA
* * * *
10551909 GGCGGAAGATTATAAAACCTAGCTCCTTGACCAGCAGTGGAATA
1 GGTGGAAGATTGTAAATCCTAGCTCCCTGACCAGCAGTGGAATA
10551953 GGTGGAAGATTGTAAATCCTAGCTCCCTGACCAGCAGTGGAATA
1 GGTGGAAGATTGTAAATCCTAGCTCCCTGACCAGCAGTGGAATA
* *
10551997 GGTAGAAGATTGTAAGTCCTAGCTCCCTGA
1 GGTGGAAGATTGTAAATCCTAGCTCCCTGA
10552027 GAAGTAGTGG
Statistics
Matches: 183, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 183 1.00
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (44 bp):
GGTGGAAGATTGTAAATCCTAGCTCCCTGACCAGCAGTGGAATA
Found at i:10552017 original size:132 final size:132
Alignment explanation
Indices: 10551780--10552024 Score: 418
Period size: 132 Copynumber: 1.9 Consensus size: 132
10551770 ACAAACCGGT
*
10551780 GGAAGACTATAAATCCTAGCTCCCTGACCAACAGTGGAATAGGTAGAAGATTGTAAATCCTAGCT
1 GGAAGACTATAAAACCTAGCTCCCTGACCAACAGTGGAATAGGTAGAAGATTGTAAATCCTAGCT
*
10551845 CCCTGACCAGCAGTGGAATAGGTGGAAGACTATAAGTCCTAGCTCCCTTAACAGCAGTGGAATAG
66 CCCTGACCAGCAGTGGAATAGGTAGAAGACTATAAGTCCTAGCTCCCTTAACAGCAGTGGAATAG
10551910 GC
131 GC
* * * *
10551912 GGAAGATTATAAAACCTAGCTCCTTGACCAGCAGTGGAATAGGTGGAAGATTGTAAATCCTAGCT
1 GGAAGACTATAAAACCTAGCTCCCTGACCAACAGTGGAATAGGTAGAAGATTGTAAATCCTAGCT
* *
10551977 CCCTGACCAGCAGTGGAATAGGTAGAAGATTGTAAGTCCTAGCTCCCT
66 CCCTGACCAGCAGTGGAATAGGTAGAAGACTATAAGTCCTAGCTCCCT
10552025 GAGAAGTAGT
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 105 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.22
Consensus pattern (132 bp):
GGAAGACTATAAAACCTAGCTCCCTGACCAACAGTGGAATAGGTAGAAGATTGTAAATCCTAGCT
CCCTGACCAGCAGTGGAATAGGTAGAAGACTATAAGTCCTAGCTCCCTTAACAGCAGTGGAATAG
GC
Found at i:10552093 original size:132 final size:132
Alignment explanation
Indices: 10551780--10552093 Score: 335
Period size: 132 Copynumber: 2.4 Consensus size: 132
10551770 ACAAACCGGT
* * * * * * * *
10551780 GGAAGACTATAAATCCTAGCTCCCTGACCAACAGTGGAATAGGTAGAAGATTGTAAATCCTAGCT
1 GGAAGATTACAAAACCTAGCTCCCTAACCAGCAGTGGAACAGATGGAAGATTGTAAATCCTAGCT
* * *
10551845 CCCTGACCAGCAGTGGAATAGGTGGAAGACTATAAGTCCTAGCTCCCTTAACAGCAGTGGAATAG
66 CCCTGACCAGCAGTGGAATAGGTAGAAGACTATAAGTCCTAGCTCCCTGAACAGCAGTGGAACAG
10551910 GC
131 GC
* * * * *
10551912 GGAAGATTATAAAACCTAGCTCCTTGACCAGCAGTGGAATAGGTGGAAGATTGTAAATCCTAGCT
1 GGAAGATTACAAAACCTAGCTCCCTAACCAGCAGTGGAACAGATGGAAGATTGTAAATCCTAGCT
* * * *
10551977 CCCTGACCAGCAGTGGAATAGGTAGAAGATTGTAAGTCCTAGCTCCCTGAGA-AGTAGTGGAGCA
66 CCCTGACCAGCAGTGGAATAGGTAGAAGACTATAAGTCCTAGCTCCCTGA-ACAGCAGTGGAACA
*
10552041 GGT
130 GGC
* * * * * * * *
10552044 TGATA-ATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
1 GGA-AGATTACAAAACCTAGCTCCCTAACCAGCAGTGGAACAGATGGAAGA
10552094 CCCTAGCCTT
Statistics
Matches: 154, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
132 152 0.99
133 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.23
Consensus pattern (132 bp):
GGAAGATTACAAAACCTAGCTCCCTAACCAGCAGTGGAACAGATGGAAGATTGTAAATCCTAGCT
CCCTGACCAGCAGTGGAATAGGTAGAAGACTATAAGTCCTAGCTCCCTGAACAGCAGTGGAACAG
GC
Found at i:10552241 original size:88 final size:88
Alignment explanation
Indices: 10552098--10552261 Score: 215
Period size: 88 Copynumber: 1.9 Consensus size: 88
10552088 TGAAGACCCT
*
10552098 AGCCTTCCCTCCCTTGGTTGTAGAGGAACAGGTTGAAGATAGCAGATCCTTCCTTCCTAG-ATCG
1 AGCCTTCCCTCCCTCGGTTGTAGAGGAACAGGTTGAAGATAGCAGATCCTTCCTTCCT-GCATCG
*
10552162 ATAGCGAAGTAGATCAAAGACACA
65 ACAGCGAAGTAGATCAAAGACACA
* * * * * *
10552186 AGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCTGGT-TTTGCCTTCCTGCATCG
1 AGCCTTCCCTCCCTCGGTTGTAGAGGAACAGGTTGAAGATAGCAGATCCTT-CCTTCCTGCATCG
*
10552250 ACAGTGAAGTAG
65 ACAGCGAAGTAG
10552262 CTCATGGTCC
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
87 3 0.05
88 62 0.95
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (88 bp):
AGCCTTCCCTCCCTCGGTTGTAGAGGAACAGGTTGAAGATAGCAGATCCTTCCTTCCTGCATCGA
CAGCGAAGTAGATCAAAGACACA
Found at i:10553594 original size:19 final size:18
Alignment explanation
Indices: 10553562--10553598 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
10553552 TGGCCCTTAG
*
10553562 TTTTCTTTATTTTTGTTT
1 TTTTCTTTAATTTTGTTT
10553580 TTTTCCTTTAATTTTGTTT
1 TTTT-CTTTAATTTTGTTT
10553599 CAAATTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.08, C:0.08, G:0.05, T:0.78
Consensus pattern (18 bp):
TTTTCTTTAATTTTGTTT
Found at i:10569635 original size:20 final size:19
Alignment explanation
Indices: 10569621--10569675 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
10569611 CGCACTACGA
10569621 TGCCCCTGTTTGCACATTTG
1 TGCCCCTGTTTGCAC-TTTG
*
10569641 TGCCCCTGTCTGCACTTTGG
1 TGCCCCTGTTTGCACTTT-G
10569661 TGCCCCTGTTATGCA
1 TGCCCCTGTT-TGCA
10569676 TCTATGACGC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 3 0.10
20 24 0.77
21 4 0.13
ACGTcount: A:0.09, C:0.33, G:0.22, T:0.36
Consensus pattern (19 bp):
TGCCCCTGTTTGCACTTTG
Found at i:10574912 original size:26 final size:26
Alignment explanation
Indices: 10574883--10574933 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
10574873 TTTGATACAT
10574883 ATTTGATTA-TTTGATTATTATTTTTC
1 ATTT-ATTATTTTGATTATTATTTTTC
**
10574909 ATTTATTATTTTTCTTATTATTTTT
1 ATTTATTATTTTGATTATTATTTTT
10574934 AGTATAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.71
Consensus pattern (26 bp):
ATTTATTATTTTGATTATTATTTTTC
Found at i:10574916 original size:14 final size:12
Alignment explanation
Indices: 10574897--10574933 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 12
10574887 GATTATTTGA
10574897 TTATTATTTTTC
1 TTATTATTTTTC
10574909 ATTTATTATTTTTC
1 --TTATTATTTTTC
10574923 TTATTATTTTT
1 TTATTATTTTT
10574934 AGTATAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.48
14 12 0.52
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (12 bp):
TTATTATTTTTC
Found at i:10575287 original size:26 final size:26
Alignment explanation
Indices: 10575258--10575311 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
10575248 ATGACGGGAG
10575258 ATATTAAAATAAAAATTGGCATCGAC
1 ATATTAAAATAAAAATTGGCATCGAC
10575284 ATATTAAAATAAAAATTGGCATCGAC
1 ATATTAAAATAAAAATTGGCATCGAC
10575310 AT
1 AT
10575312 TCCAAGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (26 bp):
ATATTAAAATAAAAATTGGCATCGAC
Found at i:10576760 original size:6 final size:6
Alignment explanation
Indices: 10576746--10576783 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
10576736 ACAATAATCC
*
10576746 AAAAAT AAAACT AAAACT AAAACT AAAACT AAAACT AA
1 AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AA
10576784 TTTAACTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.71, C:0.13, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAACT
Found at i:10583162 original size:41 final size:41
Alignment explanation
Indices: 10583108--10583346 Score: 289
Period size: 41 Copynumber: 5.8 Consensus size: 41
10583098 AAGTTACCAG
* * *
10583108 AGTATAAATAGGGGCATATATGTGCTATTCAGGGGTATCGA
1 AGTACAAATAGGGGCACATATGTGCAATTCAGGGGTATCGA
* * * * * *
10583149 AGTACATACAGGGGCACTTATGTGCAATTCAGAGATATCAA
1 AGTACAAATAGGGGCACATATGTGCAATTCAGGGGTATCGA
* * * * * *
10583190 AGTACAAACAGGGGCACGTTTATGGAATTCAGGGGTACCGA
1 AGTACAAATAGGGGCACATATGTGCAATTCAGGGGTATCGA
*
10583231 AGTACAAATAGGGGCACATATGTGCAATTCAAGGGTATCGA
1 AGTACAAATAGGGGCACATATGTGCAATTCAGGGGTATCGA
* * * *
10583272 AGTACGAATAGGGACACATATGTGCAATTCAAGGGTACCGA
1 AGTACAAATAGGGGCACATATGTGCAATTCAGGGGTATCGA
*
10583313 AGTACAAATAGGGGCACATATGTGCAGTTCAGGG
1 AGTACAAATAGGGGCACATATGTGCAATTCAGGG
10583347 TATAATTAAT
Statistics
Matches: 166, Mismatches: 32, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 166 1.00
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (41 bp):
AGTACAAATAGGGGCACATATGTGCAATTCAGGGGTATCGA
Found at i:10587210 original size:50 final size:50
Alignment explanation
Indices: 10587103--10587350 Score: 262
Period size: 50 Copynumber: 4.8 Consensus size: 50
10587093 ATTTGGGTAA
* * * * *
10587103 AGAGATCCCATATAAGACCATGTATGGGACTTGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
*
10587159 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
10587209 AGAGGTTCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
10587259 AGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
10587309 AGAACTCCCATGTAAGACCATATCTAGGATATGGCGTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
10587351 GTACAGAAAA
Statistics
Matches: 164, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
50 123 0.75
53 3 0.02
56 38 0.23
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:10587616 original size:12 final size:12
Alignment explanation
Indices: 10587599--10587637 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
10587589 ATGAGTTATT
10587599 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
10587611 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
10587623 TAAGTGAGTAAG
1 TAAGTAAGCAAG
10587635 TAA
1 TAA
10587638 AGAAACGAGT
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:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:10592225 original size:45 final size:45
Alignment explanation
Indices: 10592145--10592233 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
10592135 GATGAAGGAC
* *
10592145 GTTATGGCATCATGATTCTATCTAGAAAGACCATAGGTGAAAGAT
1 GTTATGGCATCATGATTCAATCAAGAAAGACCATAGGTGAAAGAT
* * *
10592190 GTTATGGCATCATGATTCAATCAAGTAAGAGCATAGTTGAAAGA
1 GTTATGGCATCATGATTCAATCAAGAAAGACCATAGGTGAAAGA
10592234 CACTATTGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.28
Consensus pattern (45 bp):
GTTATGGCATCATGATTCAATCAAGAAAGACCATAGGTGAAAGAT
Found at i:10592245 original size:45 final size:44
Alignment explanation
Indices: 10592147--10592278 Score: 131
Period size: 45 Copynumber: 2.9 Consensus size: 44
10592137 TGAAGGACGT
* * * * ***
10592147 TATGGCATCATGATTCTATCTAGAAAGACCATAGGTGAAAGATGT
1 TATGGCATCATGATTCAATCAAGTAAGA-CATAGTTGAAAGACAC
10592192 TATGGCATCATGATTCAATCAAGTAAGAGCATAGTTGAAAGACAC
1 TATGGCATCATGATTCAATCAAGTAAGA-CATAGTTGAAAGACAC
* * *
10592237 TATTGCATCATGAATCAAACGAA-TAAGACTATAGTTGAAAGA
1 TATGGCATCATGATTCAATC-AAGTAAGAC-ATAGTTGAAAGA
10592279 AACAATGACA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 1 0.01
45 71 0.96
46 2 0.03
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.27
Consensus pattern (44 bp):
TATGGCATCATGATTCAATCAAGTAAGACATAGTTGAAAGACAC
Found at i:10592592 original size:41 final size:40
Alignment explanation
Indices: 10592501--10592602 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 40
10592491 TGATGTTGTG
* * * *
10592501 GTGTATTATATCAAGCTTTATGCCTAGCAAGCTTCGTGCT
1 GTGTATTATATCAGGCTTTGTCCCTAGCAAGCTTCGTGCA
*
10592541 GTTGTATTATATCAGGCTTTGTCCCTAGCAGGCTTCGTGCCA
1 G-TGTATTATATCAGGCTTTGTCCCTAGCAAGCTTCGTG-CA
* *
10592583 GTGTGTTATATTAGGCTTTG
1 GTGTATTATATCAGGCTTTG
10592603 AGCTTAGTAG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.02
41 50 0.94
42 2 0.04
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.39
Consensus pattern (40 bp):
GTGTATTATATCAGGCTTTGTCCCTAGCAAGCTTCGTGCA
Found at i:10602057 original size:45 final size:45
Alignment explanation
Indices: 10602005--10602128 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 45
10601995 CCAAAAACGA
* *
10602005 GTAAGACCATAGCTAAAAGACGTTATGGCATCACGATTCTATC-T
1 GTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCCATCGT
* * * * *
10602049 AGTCAGACCATAGGTGAAAGCCATATATGGCATCATGATTCCATCGT
1 -GTAAGACCATAGCTGAAAGACGT-TATGGCATCACGATTCCATCGT
* *
10602096 GTAAGTCCATAGCTGAAAGACGCTATGGCATCA
1 GTAAGACCATAGCTGAAAGACGTTATGGCATCA
10602129 AAAATCAAAT
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
45 28 0.44
46 35 0.55
47 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (45 bp):
GTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCCATCGT
Found at i:10602444 original size:41 final size:41
Alignment explanation
Indices: 10602382--10602520 Score: 145
Period size: 41 Copynumber: 3.4 Consensus size: 41
10602372 GTGATGTTAT
* * * *
10602382 GGTGCATTATATCGGGCTTTATGCCTAGCAAGCTTCACGCC
1 GGTGTATTATATCAGGCTTTATGCCTAGCAGGCTTCATGCC
** *
10602423 GGTGTATTATATCAGGCTTTATGCCTAGCAGGCTTTGTGTC
1 GGTGTATTATATCAGGCTTTATGCCTAGCAGGCTTCATGCC
* * * * *
10602464 GGTGTGTTATATTAGGCTTTGA-GCTTAGCAGGCTTCATACT
1 GGTGTATTATATCAGGCTTT-ATGCCTAGCAGGCTTCATGCC
*
10602505 GGTGTATTGTATCAGG
1 GGTGTATTATATCAGG
10602521 TAAGTTGTAC
Statistics
Matches: 79, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 78 0.99
42 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (41 bp):
GGTGTATTATATCAGGCTTTATGCCTAGCAGGCTTCATGCC
Found at i:10602911 original size:22 final size:22
Alignment explanation
Indices: 10602886--10602930 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
10602876 GAAATGTTGA
10602886 TATGTTTTATGCCATGTCTTGG
1 TATGTTTTATGCCATGTCTTGG
10602908 TATGTTTTATGCCATGTCTTGG
1 TATGTTTTATGCCATGTCTTGG
10602930 T
1 T
10602931 TGATGTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.13, G:0.22, T:0.51
Consensus pattern (22 bp):
TATGTTTTATGCCATGTCTTGG
Found at i:10602939 original size:22 final size:22
Alignment explanation
Indices: 10602886--10602939 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
10602876 GAAATGTTGA
*
10602886 TATGTTTTATGCCATGTCTTGG
1 TATGTGTTATGCCATGTCTTGG
*
10602908 TATGTTTTATGCCATGTCTTGG
1 TATGTGTTATGCCATGTCTTGG
10602930 T-TGATGTTAT
1 TATG-TGTTAT
10602940 AAATGCATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.15, C:0.11, G:0.22, T:0.52
Consensus pattern (22 bp):
TATGTGTTATGCCATGTCTTGG
Found at i:10606601 original size:18 final size:18
Alignment explanation
Indices: 10606578--10606612 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10606568 CAGAAAAGGA
*
10606578 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
10606596 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
10606613 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:10607274 original size:7 final size:7
Alignment explanation
Indices: 10607264--10607288 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10607254 ATACATACAT
10607264 AATACTA
1 AATACTA
10607271 AATACTA
1 AATACTA
10607278 AATACTA
1 AATACTA
10607285 AATA
1 AATA
10607289 TCAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:10608484 original size:51 final size:50
Alignment explanation
Indices: 10608429--10608541 Score: 181
Period size: 51 Copynumber: 2.2 Consensus size: 50
10608419 TATTTTAAAA
* *
10608429 AAGGAAATTGAGAAGAAATTGAAATTAAATATGGATTTGAGAGAATTTTTG
1 AAGGAAATTGAGAAGAAATTGAAATTAAATATAGA-TTGAGAGAATTTTAG
* *
10608480 AAGGAAATTAAGAGGAAATTGAAATTAAATATAGATTGAGAGAATTTTAG
1 AAGGAAATTGAGAAGAAATTGAAATTAAATATAGATTGAGAGAATTTTAG
10608530 AAGGAAATTGAG
1 AAGGAAATTGAG
10608542 GGATTTTGGA
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
50 25 0.44
51 32 0.56
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (50 bp):
AAGGAAATTGAGAAGAAATTGAAATTAAATATAGATTGAGAGAATTTTAG
Found at i:10608553 original size:21 final size:22
Alignment explanation
Indices: 10608514--10608587 Score: 82
Period size: 21 Copynumber: 3.4 Consensus size: 22
10608504 TTAAATATAG
10608514 ATTGAGAGAATTTTAGAAGGAA
1 ATTGAGAGAATTTTAGAAGGAA
* *
10608536 ATTGAG-GGATTTTGGAAGGAA
1 ATTGAGAGAATTTTAGAAGGAA
*
10608557 ATTGAGAGGAA-TTGAG-AGGAA
1 ATTGAGA-GAATTTTAGAAGGAA
10608578 ATATGAGAGA
1 AT-TGAGAGA
10608588 GGATTTGTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 28 0.64
22 14 0.32
23 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.34, T:0.24
Consensus pattern (22 bp):
ATTGAGAGAATTTTAGAAGGAA
Found at i:10608586 original size:12 final size:11
Alignment explanation
Indices: 10608531--10608586 Score: 55
Period size: 10 Copynumber: 5.2 Consensus size: 11
10608521 GAATTTTAGA
10608531 AGGAAATTGAG
1 AGGAAATTGAG
**
10608542 -GGATTTTG-G
1 AGGAAATTGAG
10608551 AAGGAAATTGAG
1 -AGGAAATTGAG
10608563 AGG-AATTGAG
1 AGGAAATTGAG
10608573 AGGAAATATGAG
1 AGGAAAT-TGAG
10608585 AG
1 AG
10608587 AGGATTTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
9 1 0.03
10 16 0.44
11 12 0.33
12 7 0.19
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.21
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:10610938 original size:106 final size:107
Alignment explanation
Indices: 10610750--10610962 Score: 410
Period size: 106 Copynumber: 2.0 Consensus size: 107
10610740 AACAATTGTT
10610750 TAGAAAGGTTTTGCTATGTTGATATATCGGGAATGAGTTGAGAAAATAAAAATTGTTATTAATTT
1 TAGAAAGGTTTTGCTATGTTGATATATCGGGAATGAGTTGAGAAAATAAAAATTGTTATTAATTT
*
10610815 TAATTATAATTAAAAAATAATAGTATTTATTTATAAGTCCTC
66 TAATTATAATTAAAAAATAATAGGATTTATTTATAAGTCCTC
10610857 TAGAAAGG-TTTGCTATGTTGATATATCGGGAATGAGTTGAGAAAATAAAAATTGTTATTAATTT
1 TAGAAAGGTTTTGCTATGTTGATATATCGGGAATGAGTTGAGAAAATAAAAATTGTTATTAATTT
10610921 TAATTATAATTAAAAAATAATAGGATTTATTTATAAGTCCTC
66 TAATTATAATTAAAAAATAATAGGATTTATTTATAAGTCCTC
10610963 AAATATTTTA
Statistics
Matches: 105, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
106 97 0.92
107 8 0.08
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.39
Consensus pattern (107 bp):
TAGAAAGGTTTTGCTATGTTGATATATCGGGAATGAGTTGAGAAAATAAAAATTGTTATTAATTT
TAATTATAATTAAAAAATAATAGGATTTATTTATAAGTCCTC
Done.