Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 190 of 310
Found at i:61962285 original size:3 final size:3
Alignment explanation
Indices: 61962277--61962306 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
61962267 ATGTTACATG
61962277 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
61962307 TAAAAAACTA
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:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:61963657 original size:16 final size:16
Alignment explanation
Indices: 61963633--61963675 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
61963623 CAAACCCGAT
*
61963633 AAAATCTGAACCTGAA
1 AAAACCTGAACCTGAA
*
61963649 AAGAA-CTGAATCTGAA
1 AA-AACCTGAACCTGAA
61963665 AAAACCTGAAC
1 AAAACCTGAAC
61963676 TCAAAAAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 2 0.09
16 19 0.83
17 2 0.09
ACGTcount: A:0.51, C:0.19, G:0.14, T:0.16
Consensus pattern (16 bp):
AAAACCTGAACCTGAA
Found at i:61970471 original size:15 final size:17
Alignment explanation
Indices: 61970443--61970475 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
61970433 ATTGAAATTT
61970443 AATATATTTCAAAAATA
1 AATATATTTCAAAAATA
61970460 AATATA-TT-AAAAATA
1 AATATATTTCAAAAATA
61970475 A
1 A
61970476 TAAGAATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
AATATATTTCAAAAATA
Found at i:61971936 original size:20 final size:21
Alignment explanation
Indices: 61971898--61971936 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
61971888 AATATACCAA
61971898 ACATATTTAATCAATTATACT
1 ACATATTTAATCAATTATACT
61971919 ACAT-TTTAAT-AATCTATA
1 ACATATTTAATCAAT-TATA
61971937 AGCATCATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 10 0.59
21 4 0.24
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (21 bp):
ACATATTTAATCAATTATACT
Found at i:61972304 original size:16 final size:17
Alignment explanation
Indices: 61972283--61972320 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
61972273 GCCCATTCAG
*
61972283 AATAAGCAAAAATAA-A
1 AATAAGAAAAAATAATA
61972299 AATAAGAAAAAATAATA
1 AATAAGAAAAAATAATA
61972316 AATAA
1 AATAA
61972321 AATTAAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (17 bp):
AATAAGAAAAAATAATA
Found at i:61976612 original size:44 final size:44
Alignment explanation
Indices: 61976564--61976708 Score: 156
Period size: 44 Copynumber: 3.3 Consensus size: 44
61976554 TAAAATTTTT
61976564 ATTAAAAATAAAATTATTATAAATTCAAAAACTATTAGAAAGAA
1 ATTAAAAATAAAATTATTATAAATTCAAAAACTATTAGAAAGAA
* * * ***
61976608 ATTAAAAATAAAA-AAATA-AAATTTATAGAAGAC--TTA-AAATTTTT
1 ATTAAAAATAAAATTATTATAAATTCA-A-AA-ACTATTAGAAA--GAA
61976652 ATTAAAAATAAAATTATTATAAATTCAAAAACTATTAGAAAGAA
1 ATTAAAAATAAAATTATTATAAATTCAAAAACTATTAGAAAGAA
61976696 ATTAAAAATAAAA
1 ATTAAAAATAAAA
61976709 AAATAAAATT
Statistics
Matches: 79, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
42 9 0.11
43 9 0.11
44 43 0.54
45 9 0.11
46 9 0.11
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (44 bp):
ATTAAAAATAAAATTATTATAAATTCAAAAACTATTAGAAAGAA
Found at i:61976637 original size:88 final size:88
Alignment explanation
Indices: 61976466--61976936 Score: 657
Period size: 88 Copynumber: 5.2 Consensus size: 88
61976456 AAACCCAAAC
* * * * *
61976466 TAAAATTCATTATTAAAAACAAAATTATTATAAATTCAAAAAATATTTA-AAATAAATAAAAAAT
1 TAAAATT-TTTATTAAAAATAAAATTATTATAAATTCAAAAACTA-TTAGAAAGAAATTAAAAAT
61976530 -AAAAAATAAAATTTATAGAAGACT
64 AAAAAAATAAAATTTATAGAAGACT
61976554 TAAAATTTTTATTAAAAATAAAATTATTATAAATTCAAAAACTATTAGAAAGAAATTAAAAATAA
1 TAAAATTTTTATTAAAAATAAAATTATTATAAATTCAAAAACTATTAGAAAGAAATTAAAAATAA
61976619 AAAAATAAAATTTATAGAAGACT
66 AAAAATAAAATTTATAGAAGACT
61976642 TAAAATTTTTATTAAAAATAAAATTATTATAAATTCAAAAACTATTAGAAAGAAATTAAAAATAA
1 TAAAATTTTTATTAAAAATAAAATTATTATAAATTCAAAAACTATTAGAAAGAAATTAAAAATAA
61976707 AAAAATAAAATTTATAGAAGACT
66 AAAAATAAAATTTATAGAAGACT
* * * *
61976730 TAAAATTTTTATTAAAAATTATTATAAATT-TTATTAAA--AATAAAATTAATATAAATTCAAAA
1 TAAAATTTTTATT-AAAA--A-TA-AAATTATTA-TAAATTCA-AAAACT-AT-TAGA---AAGA
61976792 AATTAGAAAGA-AATTAAAAATAAAATTTATAGAAGACT
54 AATTA-AAA-ATAA--AAAAATAAAATTTATAGAAGACT
61976830 TAAAATTTTTATTAAAAATAAAATTATTATAAATTCAAAAACTATTAGAAAGAAATTAAAAATAA
1 TAAAATTTTTATTAAAAATAAAATTATTATAAATTCAAAAACTATTAGAAAGAAATTAAAAATAA
61976895 AAAAATAAAATTTATAGAAGACT
66 AAAAATAAAATTTATAGAAGACT
61976918 TAAAATTTTTATTAAAAAT
1 TAAAATTTTTATTAAAAAT
61976937 TATTATAAAT
Statistics
Matches: 348, Mismatches: 13, Indels: 44
0.86 0.03 0.11
Matches are distributed among these distances:
86 3 0.01
87 47 0.14
88 174 0.50
89 5 0.01
90 5 0.01
91 10 0.03
92 10 0.03
93 11 0.03
94 6 0.02
95 11 0.03
96 10 0.03
97 10 0.03
98 5 0.01
99 5 0.01
100 36 0.10
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (88 bp):
TAAAATTTTTATTAAAAATAAAATTATTATAAATTCAAAAACTATTAGAAAGAAATTAAAAATAA
AAAAATAAAATTTATAGAAGACT
Found at i:61976770 original size:12 final size:12
Alignment explanation
Indices: 61976729--61976770 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
61976719 TATAGAAGAC
*
61976729 TTAAAATTTTTA
1 TTAAAAATTTTA
61976741 TTAAAAA--TTA
1 TTAAAAATTTTA
*
61976751 TTATAAATTTTA
1 TTAAAAATTTTA
61976763 TTAAAAAT
1 TTAAAAAT
61976771 AAAATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
10 9 0.36
12 16 0.64
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTAAAAATTTTA
Found at i:61976811 original size:42 final size:42
Alignment explanation
Indices: 61976762--61976896 Score: 124
Period size: 42 Copynumber: 3.3 Consensus size: 42
61976752 TATAAATTTT
61976762 ATTAAAAATAAAATTAATATAAATTCAAAAAATTAGAAAGAA
1 ATTAAAAATAAAATTAATATAAATTCAAAAAATTAGAAAGAA
* * ***
61976804 ATTAAAAATAAAATTTATAGAAGACTT---AAAATT-----TTT
1 ATTAAAAATAAAATTAATATAA-A-TTCAAAAAATTAGAAAGAA
*
61976840 ATTAAAAATAAAATTATTATAAATTCAAAAACTATTAGAAAGAA
1 ATTAAAAATAAAATTAATATAAATTCAAAAA--ATTAGAAAGAA
61976884 ATTAAAAATAAAA
1 ATTAAAAATAAAA
61976897 AAATAAAATT
Statistics
Matches: 70, Mismatches: 11, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
34 2 0.03
35 1 0.01
36 19 0.27
37 3 0.04
39 3 0.04
41 6 0.09
42 20 0.29
43 1 0.01
44 15 0.21
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (42 bp):
ATTAAAAATAAAATTAATATAAATTCAAAAAATTAGAAAGAA
Found at i:61976830 original size:188 final size:188
Alignment explanation
Indices: 61976619--61977036 Score: 836
Period size: 188 Copynumber: 2.2 Consensus size: 188
61976609 TTAAAAATAA
61976619 AAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAATAAAATTATTATAAATTCAAAAAC
1 AAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAATAAAATTATTATAAATTCAAAAAC
61976684 TATTAGAAAGAAATTAAAAATAAAAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAAT
66 TATTAGAAAGAAATTAAAAATAAAAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAAT
61976749 TATTATAAATTTTATTAAAAATAAAATTAATATAAATTCAAAAAATTAGAAAGAAATT
131 TATTATAAATTTTATTAAAAATAAAATTAATATAAATTCAAAAAATTAGAAAGAAATT
61976807 AAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAATAAAATTATTATAAATTCAAAAAC
1 AAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAATAAAATTATTATAAATTCAAAAAC
61976872 TATTAGAAAGAAATTAAAAATAAAAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAAT
66 TATTAGAAAGAAATTAAAAATAAAAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAAT
61976937 TATTATAAATTTTATTAAAAATAAAATTAATATAAATTCAAAAAATTAGAAAGAAATT
131 TATTATAAATTTTATTAAAAATAAAATTAATATAAATTCAAAAAATTAGAAAGAAATT
61976995 AAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAAT
1 AAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAAT
61977037 TACTAAAAAA
Statistics
Matches: 230, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
188 230 1.00
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (188 bp):
AAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAATAAAATTATTATAAATTCAAAAAC
TATTAGAAAGAAATTAAAAATAAAAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAAT
TATTATAAATTTTATTAAAAATAAAATTAATATAAATTCAAAAAATTAGAAAGAAATT
Found at i:61976906 original size:100 final size:98
Alignment explanation
Indices: 61976707--61977004 Score: 259
Period size: 100 Copynumber: 2.9 Consensus size: 98
61976697 TTAAAAATAA
61976707 AAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAATTATTATAAATT-TTATTAAA---
1 AAAAATAAAATTTATAGAAGACTTAAAATTTTTATT-AAAA--A-TA-AAATTATTA-TAAATTC
* * * * *
61976768 AATAAAATTA-ATATAAATTCAAAAA-ATTAGAAAGAAA-TT
60 AA-AAAATTAGAAAGAAATT-AAAAATA-AAAAAAAAAATTT
61976807 AAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAATAAAATTATTATAAATTCAAAAAC
1 AAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAATAAAATTATTATAAATTCAAAAA-
61976872 TATTAGAAAGAAATTAAAAATAAAAAAATAAAATTT
65 -ATTAGAAAGAAATTAAAAATAAAAAAA-AAAATTT
* * * * * *
61976908 ATAGAAGACTTAAAATTTTTATTAAAAATTATTATAAATTTTATTAAAAATAAAATTAATATAAA
1 A-A-AA-A--TAAAATTTATA-GAAGACTTA--A-AATTTTTATTAAAAATAAAATTATTATAAA
61976973 TTCAAAAAATTAGAAAGAAATTAAAAATAAAA
57 TTCAAAAAATTAGAAAGAAATTAAAAATAAAA
61977005 TTTATAGAAG
Statistics
Matches: 168, Mismatches: 11, Indels: 30
0.80 0.05 0.14
Matches are distributed among these distances:
95 9 0.05
96 5 0.03
97 4 0.02
98 2 0.01
99 17 0.10
100 47 0.28
101 3 0.02
102 1 0.01
103 2 0.01
104 1 0.01
106 10 0.06
107 6 0.04
108 24 0.14
109 1 0.01
110 36 0.21
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (98 bp):
AAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAATAAAATTATTATAAATTCAAAAAA
TTAGAAAGAAATTAAAAATAAAAAAAAAAATTT
Found at i:61976958 original size:12 final size:12
Alignment explanation
Indices: 61976917--61976958 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
61976907 TATAGAAGAC
*
61976917 TTAAAATTTTTA
1 TTAAAAATTTTA
61976929 TTAAAAA--TTA
1 TTAAAAATTTTA
*
61976939 TTATAAATTTTA
1 TTAAAAATTTTA
61976951 TTAAAAAT
1 TTAAAAAT
61976959 AAAATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
10 9 0.36
12 16 0.64
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTAAAAATTTTA
Found at i:61976974 original size:88 final size:90
Alignment explanation
Indices: 61976526--61977038 Score: 460
Period size: 88 Copynumber: 5.5 Consensus size: 90
61976516 AATAAATAAA
* * *
61976526 AAATAAAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAATAAAATTATTATAAATTCA
1 AAAT-AAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAAT--TATTATAATAAATTAA
**
61976591 AAAACTATTAGAAAGAAATT-AAAAA-T
63 AAAAAAATTAGAAAGAAATTAAAAAATT
* * *
61976617 -AA-AAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAATAAAATTATTATAAATTCAA
1 AAATAAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAAT--TATTATAATAAATTAAA
**
61976680 AAACTATTAGAAAGAAATT-AAAAA-T
64 AAAAAATTAGAAAGAAATTAAAAAATT
**
61976705 -AA-AAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAATTATTATAAATTTTATTAAA
1 AAATAAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAATTATTAT-AA-TAAATTAAA
* *
61976768 AATAAAATTA-ATATAAATTCAAAAAATT
64 AA-AAAATTAGAAAGAAATT-AAAAAATT
* *
61976796 AGAAAGAAATTAAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAATAAAATTATTATA
1 ------AAA-TAAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAAT--TATTATAATA
* **
61976861 AATTCAAAAACTATTAGAAAGAAATT-AAAAA-T
57 AATTAAAAAAAAATTAGAAAGAAATTAAAAAATT
**
61976893 -AA-AAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAATTATTATAAATTTTATTAAA
1 AAATAAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAATTATTAT-AA-TAAATTAAA
* *
61976956 AATAAAATTA-ATATAAATTCAAAAAATT
64 AA-AAAATTAGAAAGAAATT-AAAAAATT
61976984 AGAAAGAAATTAAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAATTA
1 ------AAA-TAAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAATTA
61977039 CTAAAAAATC
Statistics
Matches: 362, Mismatches: 27, Indels: 57
0.81 0.06 0.13
Matches are distributed among these distances:
86 10 0.03
87 2 0.01
88 202 0.56
89 10 0.03
90 14 0.04
91 2 0.01
97 1 0.00
98 9 0.02
99 5 0.01
100 101 0.28
101 1 0.00
102 5 0.01
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (90 bp):
AAATAAAAATAAAATTTATAGAAGACTTAAAATTTTTATTAAAAATTATTATAATAAATTAAAAA
AAAATTAGAAAGAAATTAAAAAATT
Found at i:61977059 original size:19 final size:19
Alignment explanation
Indices: 61977031--61977067 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
61977021 AATTTTTATT
61977031 AAAAATTACTA-AAAAATC
1 AAAAATTACTAGAAAAATC
61977049 AAAACATTACTAGAAAAAT
1 AAAA-ATTACTAGAAAAAT
61977068 ATTAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.65, C:0.11, G:0.03, T:0.22
Consensus pattern (19 bp):
AAAAATTACTAGAAAAATC
Found at i:61978409 original size:16 final size:14
Alignment explanation
Indices: 61978380--61978414 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
61978370 GCCCTGAGTA
61978380 GAAAAGAAAAAAAG
1 GAAAAGAAAAAAAG
61978394 GAAAATGAAGAAAAAG
1 GAAAA-GAA-AAAAAG
61978410 GAAAA
1 GAAAA
61978415 AAGGTTTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 3 0.16
16 11 0.58
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (14 bp):
GAAAAGAAAAAAAG
Found at i:61983955 original size:8 final size:8
Alignment explanation
Indices: 61983942--61983967 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
61983932 TTTAGTCCCT
61983942 AATTCACC
1 AATTCACC
61983950 AATTCACC
1 AATTCACC
61983958 AATTCACC
1 AATTCACC
61983966 AA
1 AA
61983968 ATACACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (8 bp):
AATTCACC
Found at i:61984515 original size:38 final size:39
Alignment explanation
Indices: 61984473--61984560 Score: 101
Period size: 38 Copynumber: 2.3 Consensus size: 39
61984463 GCAATGAACT
* *
61984473 TGCTTAACATGATTT-AAGTTCAACAGT-AATAGTAAACA
1 TGCTTAACATGATTTCAA-TTCAAAAATAAATAGTAAACA
* *
61984511 TGCTTAACATGTTTTCAATTCAAAAATAAATAGTAGACA
1 TGCTTAACATGATTTCAATTCAAAAATAAATAGTAAACA
61984550 TG-TTGAACATG
1 TGCTT-AACATG
61984561 CAATCAATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
38 23 0.53
39 20 0.47
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (39 bp):
TGCTTAACATGATTTCAATTCAAAAATAAATAGTAAACA
Found at i:61989698 original size:2 final size:2
Alignment explanation
Indices: 61989691--61989827 Score: 274
Period size: 2 Copynumber: 68.5 Consensus size: 2
61989681 AGGTATTGAA
61989691 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
61989733 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
61989775 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
61989817 AG AG AG AG AG A
1 AG AG AG AG AG A
61989828 AAGATGCAAC
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 135 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:61997510 original size:15 final size:15
Alignment explanation
Indices: 61997490--61997518 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
61997480 TTATTTATAT
61997490 TTTATATTATATAAA
1 TTTATATTATATAAA
61997505 TTTATATTATATAA
1 TTTATATTATATAA
61997519 TTAAAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTATATTATATAAA
Found at i:62028638 original size:32 final size:31
Alignment explanation
Indices: 62028597--62028663 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 31
62028587 TTGTCAATCG
62028597 AACTTCAAGATTCGTAATATCATTATCTCGA
1 AACTTCAAGATTCGTAATATCATTATCTCGA
62028628 CAACTTCAAGATTCGTAATATCATTATCTCGA
1 -AACTTCAAGATTCGTAATATCATTATCTCGA
62028660 AACT
1 AACT
62028664 ACTTTTTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.11
32 31 0.89
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (31 bp):
AACTTCAAGATTCGTAATATCATTATCTCGA
Found at i:62032012 original size:3 final size:3
Alignment explanation
Indices: 62032006--62032052 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
62031996 AATGATCAAA
62032006 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
62032053 AATAAGGTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:62033774 original size:44 final size:44
Alignment explanation
Indices: 62033690--62034026 Score: 327
Period size: 44 Copynumber: 7.6 Consensus size: 44
62033680 TCATTCTAAC
* * * *
62033690 CCACTGCAACTTCAGGG-GTATAGGATTTATTG-TTTCAATCTACT
1 CCACTGCAACTTCAGGGAG-ATAAGATTTGTAGCTTT-AATCTGCT
* * * * *
62033734 CCACTACAGCTCCAGGGAGATTAGACTTGTAGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * * *
62033778 CTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCT
* *
62033823 CCATTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * * * *
62033867 CTACTGCAACTTTAGAGAGATAAGATTTGTGGTTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
** * * ** *
62033911 CCACTATAACTTTAGGGAGATAAGATTTGCTATCTTCGATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCT
* ** *
62033956 CCATTGCAACTTCAGGGAGATAAGATTTGTAGCTTTGGTTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* *
62034000 CCATTACAACTTCAGGGAGATAAGATT
1 CCACTGCAACTTCAGGGAGATAAGATT
62034027 CGCCACGATG
Statistics
Matches: 240, Mismatches: 49, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
44 164 0.68
45 76 0.32
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
Found at i:62033853 original size:89 final size:88
Alignment explanation
Indices: 62033747--62034026 Score: 346
Period size: 89 Copynumber: 3.2 Consensus size: 88
62033737 CTACAGCTCC
* *
62033747 AGGGAGATTAGACTTGTAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATC
1 AGGGAGATAAGATTTGTAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTG-TATC
* *
62033812 TTCAATCTGCTCCATTGCAACTTT
65 TTTAATCTGCTCCATTACAACTTT
* *
62033836 AGGGAGATAAGATTTGTAGCTTTAATCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGTGGT-
1 AGGGAGATAAGATTTGTAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGT-ATC
* *
62033900 TTTAATCTGCTCCACTATAACTTT
65 TTTAATCTGCTCCATTACAACTTT
* ** * * * * *
62033924 AGGGAGATAAGATTTGCTATCTTCGATCTACTCCATTGCAACTTCAGGGAGATAAGATTTGTAGC
1 AGGGAGATAAGATTTG-TAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTATC
** * *
62033989 TTTGGTTTGCTCCATTACAACTTC
65 TTTAATCTGCTCCATTACAACTTT
62034013 AGGGAGATAAGATT
1 AGGGAGATAAGATT
62034027 CGCCACGATG
Statistics
Matches: 164, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
88 37 0.23
89 127 0.77
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (88 bp):
AGGGAGATAAGATTTGTAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTATCT
TTAATCTGCTCCATTACAACTTT
Found at i:62034000 original size:133 final size:133
Alignment explanation
Indices: 62033694--62034026 Score: 391
Period size: 133 Copynumber: 2.5 Consensus size: 133
62033684 TCTAACCCAC
* * * * * * * *
62033694 TGCAACTTCAGGG-GTATAGGATTTATTG-TTTCAATCTACTCCACTACAGCTCCAGGGAGATTA
1 TGCAACTTCAGGGAG-ATAAGATTTGTAGCTTT-AATCTGCTCCACTACAACTTCAGAGAGATAA
* * * * * *
62033757 GACTTGTAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGC
64 GATTTGTGGTTTTAATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTAC
62033822 TCCAT
129 TCCAT
* * * *
62033827 TGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGCTCTACTGCAACTTTAGAGAGATAAGA
1 TGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTACAACTTCAGAGAGATAAGA
* * * *
62033892 TTTGTGGTTTTAATCTGCTCCACTATAACTTTAGGGAGATAAGATTTGCTATCTTCGATCTACTC
66 TTTGTGGTTTTAATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTC
62033957 CAT
131 CAT
** * * *
62033960 TGCAACTTCAGGGAGATAAGATTTGTAGCTTTGGTTTGCTCCATTACAACTTCAGGGAGATAAGA
1 TGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTACAACTTCAGAGAGATAAGA
62034025 TT
66 TT
62034027 CGCCACGATG
Statistics
Matches: 167, Mismatches: 31, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
133 163 0.98
134 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (133 bp):
TGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTACAACTTCAGAGAGATAAGA
TTTGTGGTTTTAATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTC
CAT
Found at i:62045882 original size:19 final size:20
Alignment explanation
Indices: 62045858--62045895 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62045848 CAAATGTGTG
62045858 GTAATAAA-AATATACATGT
1 GTAATAAATAATATACATGT
*
62045877 GTAATAAATATTATACATG
1 GTAATAAATAATATACATG
62045896 CATTTGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (20 bp):
GTAATAAATAATATACATGT
Found at i:62046272 original size:25 final size:25
Alignment explanation
Indices: 62046226--62046273 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
62046216 TGTATAAATA
*
62046226 ATAAATAAGTATTACTAATTTAAGT
1 ATAAATAAGTATTAATAATTTAAGT
*
62046251 ATAAATAA-TATATAATAGTTTAA
1 ATAAATAAGTAT-TAATAATTTAA
62046274 TGAAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (25 bp):
ATAAATAAGTATTAATAATTTAAGT
Found at i:62047713 original size:18 final size:18
Alignment explanation
Indices: 62047626--62047753 Score: 96
Period size: 18 Copynumber: 7.1 Consensus size: 18
62047616 TAAATAAAGG
*
62047626 TACTGAATAATTGACTGC
1 TACTGAATAATTGACTGT
* *
62047644 TATTGAATAACTGACTGT
1 TACTGAATAATTGACTGT
* * *
62047662 TACTGGATAACTGACTGC
1 TACTGAATAATTGACTGT
** ** *
62047680 TACTGCGTAAAAGATTGT
1 TACTGAATAATTGACTGT
* *
62047698 TACTGAATAATTGATTAT
1 TACTGAATAATTGACTGT
*
62047716 TACTGAATAATTTA-TCGT
1 TACTGAATAATTGACT-GT
* *
62047734 TACTGAATAACTGGCTGT
1 TACTGAATAATTGACTGT
62047752 TA
1 TA
62047754 AAGAGTGACT
Statistics
Matches: 86, Mismatches: 22, Indels: 4
0.77 0.20 0.04
Matches are distributed among these distances:
17 1 0.01
18 84 0.98
19 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TACTGAATAATTGACTGT
Found at i:62050984 original size:15 final size:15
Alignment explanation
Indices: 62050964--62050997 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
62050954 AGGCGTCGTT
62050964 AGTGTTGACGACGCC
1 AGTGTTGACGACGCC
*
62050979 AGTGTTGATGACGCC
1 AGTGTTGACGACGCC
62050994 AGTG
1 AGTG
62050998 CTCTCTCGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.35, T:0.24
Consensus pattern (15 bp):
AGTGTTGACGACGCC
Found at i:62051900 original size:24 final size:24
Alignment explanation
Indices: 62051873--62051919 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
62051863 ATAATGCAGA
*
62051873 AATAATGAATAAAATGGAAATAGT
1 AATAATGAACAAAATGGAAATAGT
62051897 AATAATGAACAAAATGGAAATAG
1 AATAATGAACAAAATGGAAATAG
62051920 GAAGAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.60, C:0.02, G:0.17, T:0.21
Consensus pattern (24 bp):
AATAATGAACAAAATGGAAATAGT
Found at i:62065573 original size:3 final size:3
Alignment explanation
Indices: 62065565--62065607 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
62065555 CTAATGTAAT
* *
62065565 TAA TAA TAA TAA TGA TAA -AA TGA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
62065608 ATAAGATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:62065588 original size:8 final size:9
Alignment explanation
Indices: 62065556--62065602 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
62065546 ATAGTAATAC
62065556 TAATG-TAA
1 TAATGATAA
*
62065564 TTAATAATAA
1 -TAATGATAA
62065574 TAATGATAA
1 TAATGATAA
62065583 -AATGATAA
1 TAATGATAA
*
62065591 TAATAATAA
1 TAATGATAA
62065600 TAA
1 TAA
62065603 AATAAATAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 8 0.24
9 22 0.67
10 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (9 bp):
TAATGATAA
Found at i:62065592 original size:20 final size:20
Alignment explanation
Indices: 62065567--62065605 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
62065557 AATGTAATTA
*
62065567 ATAATAATAATGATAAAATG
1 ATAATAATAATAATAAAATG
62065587 ATAATAATAATAATAAAAT
1 ATAATAATAATAATAAAAT
62065606 AAATAAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (20 bp):
ATAATAATAATAATAAAATG
Found at i:62065607 original size:17 final size:17
Alignment explanation
Indices: 62065566--62065599 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
62065556 TAATGTAATT
*
62065566 AATAATAATAATGATAA
1 AATAATAATAATAATAA
*
62065583 AATGATAATAATAATAA
1 AATAATAATAATAATAA
62065600 TAAAATAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
AATAATAATAATAATAA
Found at i:62067767 original size:14 final size:15
Alignment explanation
Indices: 62067748--62067777 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
62067738 ATATTTAACT
62067748 TGTTCTTAATT-ATG
1 TGTTCTTAATTCATG
62067762 TGTTCTTAATTCATG
1 TGTTCTTAATTCATG
62067777 T
1 T
62067778 TTTGATATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.20, C:0.10, G:0.13, T:0.57
Consensus pattern (15 bp):
TGTTCTTAATTCATG
Found at i:62074708 original size:42 final size:42
Alignment explanation
Indices: 62074612--62074753 Score: 185
Period size: 42 Copynumber: 3.4 Consensus size: 42
62074602 ACGAAGGAAG
* * *
62074612 AGTGGCAGTTTTATCTACAAATATGTTGTTCGTCCATAACCC
1 AGTGGCAGTTTTATCTACAAATATGTTGTGCATCCACAACCC
* * * * * *
62074654 AATGACAGTTTTATTTGCAAATATGTTGTGCATCCACCACCT
1 AGTGGCAGTTTTATCTACAAATATGTTGTGCATCCACAACCC
*
62074696 AGTGGCAATTTTATCTACAAATATGTTGTGCATCCACAACCC
1 AGTGGCAGTTTTATCTACAAATATGTTGTGCATCCACAACCC
*
62074738 AGTAGCAGTTTTATCT
1 AGTGGCAGTTTTATCT
62074754 GTAAATGTTT
Statistics
Matches: 82, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.35
Consensus pattern (42 bp):
AGTGGCAGTTTTATCTACAAATATGTTGTGCATCCACAACCC
Found at i:62076296 original size:40 final size:39
Alignment explanation
Indices: 62076211--62076310 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 39
62076201 GAACATTATC
* ** *
62076211 ACAGTTTGGGCCTAAGCCTTTTTCCGTAACGGAATCAGCT
1 ACAGTTT-GGCCTTAGCCCATTTCAGTAACGGAATCAGCT
*
62076251 TCAGTTTGGCCTTAGCCCATTTCAGT-ACGGAATCAGTCAT
1 ACAGTTTGGCCTTAGCCCATTTCAGTAACGGAATCAG-C-T
*
62076291 ACAGTTGGGCCTTAGCCCAT
1 ACAGTTTGGCCTTAGCCCAT
62076311 CAATGTATCA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
38 10 0.20
39 16 0.31
40 25 0.49
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (39 bp):
ACAGTTTGGCCTTAGCCCATTTCAGTAACGGAATCAGCT
Found at i:62079998 original size:27 final size:27
Alignment explanation
Indices: 62079946--62080000 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
62079936 CCAACAAAGG
*
62079946 AAATATATAAATTTTTTTATCAAAAAC
1 AAATATATAAATTTTTTTATAAAAAAC
* *
62079973 AAATATATAATTTTTTTTAAATAAAAAC
1 AAATATATAAATTTTTTTATA-AAAAAC
62080001 CTTACTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (27 bp):
AAATATATAAATTTTTTTATAAAAAAC
Found at i:62084592 original size:128 final size:126
Alignment explanation
Indices: 62084444--62084712 Score: 427
Period size: 129 Copynumber: 2.1 Consensus size: 126
62084434 TCTGATTATG
*
62084444 TGTATGTATGATATGTGATATGCGTCTAATGTATGTAAGATATGTCAATATT-TTATATATGTAT
1 TGTATGTATGATATGTGATATGCATCTAATGTATGTAAGATATGTCAATATTATTATATATGTAT
*
62084508 GTATGTCATGATATGCATGTAACAGAC-TCTAATATATATGCATGATATATAACTAACTTTA
66 GTATGTCATAATATGCATGTAACAGACTTC-AATATATATGCATGATATATAACTAACTTTA
*
62084569 CTAAGTATGTATGATATGTGATATGCATCTAATGTATGTATGATATGTCAATATTATTATATATG
1 -T--GTATGTATGATATGTGATATGCATCTAATGTATGTAAGATATGTCAATATTATTATATATG
* * *
62084634 TATGTATGTCATAATTTGCATGTTACAGACTTCAATATATATGCATGATATGTAACTAACTTTA
63 TATGTATGTCATAATATGCATGTAACAGACTTCAATATATATGCATGATATATAACTAACTTTA
62084698 T-TATGTATGATATGT
1 TGTATGTATGATATGT
62084713 TCATATTATA
Statistics
Matches: 133, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
125 14 0.11
126 1 0.01
128 50 0.38
129 66 0.50
130 2 0.02
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.42
Consensus pattern (126 bp):
TGTATGTATGATATGTGATATGCATCTAATGTATGTAAGATATGTCAATATTATTATATATGTAT
GTATGTCATAATATGCATGTAACAGACTTCAATATATATGCATGATATATAACTAACTTTA
Found at i:62084753 original size:5 final size:5
Alignment explanation
Indices: 62084743--62085554 Score: 1624
Period size: 5 Copynumber: 162.4 Consensus size: 5
62084733 TATGTGTGTG
62084743 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
62084793 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
62084843 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
62084893 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
62084943 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
62084993 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
62085043 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
62085093 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
62085143 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
62085193 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
62085243 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
62085293 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
62085343 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
62085393 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
62085443 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
62085493 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
62085543 TGATA TGATA TG
1 TGATA TGATA TG
62085555 TAACATACTT
Statistics
Matches: 807, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 807 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
TGATA
Found at i:62088723 original size:18 final size:18
Alignment explanation
Indices: 62088696--62088731 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
62088686 TCTTAAGAGA
*
62088696 TGATATCCAAGAACTTGG
1 TGATACCCAAGAACTTGG
62088714 TGATACCCAAGAACTTGG
1 TGATACCCAAGAACTTGG
62088732 AAATCCTCTC
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:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (18 bp):
TGATACCCAAGAACTTGG
Found at i:62103802 original size:28 final size:28
Alignment explanation
Indices: 62103762--62103822 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
62103752 ACTTCGTATG
*
62103762 ATAGTTTCAAGAGAGAAGGGAAATTGTT
1 ATAGTTTCAAGAGAAAAGGGAAATTGTT
62103790 ATAGTTTCAAGAGAAAAGGGAAATTGTT
1 ATAGTTTCAAGAGAAAAGGGAAATTGTT
*
62103818 GTAGT
1 ATAGT
62103823 AAACACCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.39, C:0.03, G:0.28, T:0.30
Consensus pattern (28 bp):
ATAGTTTCAAGAGAAAAGGGAAATTGTT
Found at i:62106847 original size:3 final size:3
Alignment explanation
Indices: 62106839--62106867 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
62106829 AATAAAAGGT
62106839 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
62106868 GAATTTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:62107323 original size:17 final size:17
Alignment explanation
Indices: 62107275--62107325 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
62107265 AAAAACCTAA
62107275 AAAATAATTA-AAAGTAT
1 AAAATAATTATAAA-TAT
*
62107292 AAAA-AATTGTAAATAT
1 AAAATAATTATAAATAT
*
62107308 AAAATATTTATAAATAT
1 AAAATAATTATAAATAT
62107325 A
1 A
62107326 TATAATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 11 0.38
17 18 0.62
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (17 bp):
AAAATAATTATAAATAT
Found at i:62107351 original size:27 final size:27
Alignment explanation
Indices: 62107319--62107370 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
62107309 AAATATTTAT
62107319 AAATATATATA-ATTTTTTTAAAATTAG
1 AAATATAT-TAGATTTTTTTAAAATTAG
*
62107346 AAATATGTTAGATTTTTTTAAAATT
1 AAATATATTAGATTTTTTTAAAATT
62107371 TGTACAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (27 bp):
AAATATATTAGATTTTTTTAAAATTAG
Found at i:62107414 original size:9 final size:9
Alignment explanation
Indices: 62107402--62107466 Score: 58
Period size: 9 Copynumber: 7.0 Consensus size: 9
62107392 AAAAACTTTC
62107402 AAAAATTAT
1 AAAAATTAT
*
62107411 AAAATTTATT
1 AAAAATTA-T
* *
62107421 AAAATTTGT
1 AAAAATTAT
*
62107430 AAAAAATATT
1 AAAAATTA-T
*
62107440 AAAAATAAT
1 AAAAATTAT
*
62107449 AAAAATAAT
1 AAAAATTAT
62107458 AAAAATTAT
1 AAAAATTAT
62107467 TGTATCTTGG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
9 31 0.67
10 15 0.33
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:62107424 original size:19 final size:18
Alignment explanation
Indices: 62107402--62107466 Score: 67
Period size: 19 Copynumber: 3.5 Consensus size: 18
62107392 AAAAACTTTC
*
62107402 AAAAATTATAAAATTTATT
1 AAAAATTATAAAA-ATATT
* *
62107421 AAAATTTGTAAAAAATATT
1 AAAAATTAT-AAAAATATT
* *
62107440 AAAAATAATAAAAATAAT
1 AAAAATTATAAAAATATT
62107458 AAAAATTAT
1 AAAAATTAT
62107467 TGTATCTTGG
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
18 16 0.43
19 17 0.46
20 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAAATTATAAAAATATT
Found at i:62107559 original size:17 final size:17
Alignment explanation
Indices: 62107533--62107565 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
62107523 TATACAATCA
*
62107533 ATTTTCATAAAAATTAT
1 ATTTTAATAAAAATTAT
62107550 ATTTTAATAAAAATTA
1 ATTTTAATAAAAATTA
62107566 AATAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTTAATAAAAATTAT
Found at i:62121294 original size:44 final size:44
Alignment explanation
Indices: 62121245--62121332 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
62121235 ACTATCAATG
* * *
62121245 GTTGTGGACACACAATAAAATTTTGCAAATGGAATCTACCTCTA
1 GTTGTGGACACACAACAAAATCTTGCAAATGAAATCTACCTCTA
** *
62121289 GTTGTGGGTACACAACAAAGTCTTGCAAATGAAATCTACCTCTA
1 GTTGTGGACACACAACAAAATCTTGCAAATGAAATCTACCTCTA
62121333 ACTATTGATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (44 bp):
GTTGTGGACACACAACAAAATCTTGCAAATGAAATCTACCTCTA
Found at i:62122383 original size:23 final size:24
Alignment explanation
Indices: 62122354--62122419 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
62122344 TATGTTTACT
62122354 TATATTATAAATAAATAATAATAA
1 TATATTATAAATAAATAATAATAA
* * *
62122378 TA-ATTACTAAA-ATATAGTAATAT
1 TATATTA-TAAATAAATAATAATAA
*
62122401 TATATTTTAAAGTAAATAA
1 TATATTATAAA-TAAATAA
62122420 AAGAAAATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
23 19 0.59
24 9 0.28
25 4 0.12
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (24 bp):
TATATTATAAATAAATAATAATAA
Found at i:62122664 original size:29 final size:29
Alignment explanation
Indices: 62122630--62122687 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
62122620 TTTAGAATGT
62122630 TAGTGAATTTTTAAATGTTGATTAAGTTG
1 TAGTGAATTTTTAAATGTTGATTAAGTTG
62122659 TAGTGAATTTTTAAATGTTGATTAAGTTG
1 TAGTGAATTTTTAAATGTTGATTAAGTTG
62122688 AACAATTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (29 bp):
TAGTGAATTTTTAAATGTTGATTAAGTTG
Found at i:62125243 original size:13 final size:12
Alignment explanation
Indices: 62125211--62125245 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
62125201 AAAAAAGGAA
62125211 AGAAAAGAAAAG
1 AGAAAAGAAAAG
*
62125223 AGAGAAGAAATAG
1 AGAAAAGAAA-AG
62125236 AGAAAAGAAA
1 AGAAAAGAAA
62125246 GAAAATCCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (12 bp):
AGAAAAGAAAAG
Found at i:62129097 original size:13 final size:13
Alignment explanation
Indices: 62129081--62129115 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
62129071 AATGATTTCA
*
62129081 TGAAAATTTCGTT
1 TGAAAATTTCGTC
62129094 TGAAAATTTCGTC
1 TGAAAATTTCGTC
*
62129107 CGAAAATTT
1 TGAAAATTT
62129116 TGACGTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (13 bp):
TGAAAATTTCGTC
Found at i:62130237 original size:23 final size:24
Alignment explanation
Indices: 62130207--62130276 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
62130197 TGACATTGTG
* *
62130207 CTAAGTGAAATAAGACCATGGC-T
1 CTAAGTGAAATAAGTCCATGGCAA
*
62130230 CTAAGTGAAATAAGTCTATGGCAA
1 CTAAGTGAAATAAGTCCATGGCAA
*
62130254 CCAAGTGAAATAAGTCCATGGCA
1 CTAAGTGAAATAAGTCCATGGCA
62130277 TTGTGCTAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 20 0.49
24 21 0.51
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (24 bp):
CTAAGTGAAATAAGTCCATGGCAA
Found at i:62130392 original size:51 final size:51
Alignment explanation
Indices: 62130313--62130511 Score: 344
Period size: 51 Copynumber: 3.9 Consensus size: 51
62130303 TGAACCTTAG
* *
62130313 GAATAAAATAGCTTTAGACACAATTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
62130364 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
62130415 GAATAAAATAGCTTTGGACACAAGTATGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
62130466 GAATAAAATAGCTTTGGATACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCAC
62130512 CGTGTATCTG
Statistics
Matches: 140, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 140 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:62134592 original size:46 final size:47
Alignment explanation
Indices: 62134440--62134612 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 47
62134430 TCACTTGTGT
*
62134440 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTACCTA-ACG-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT--CGAGACGTA
** * * *
62134486 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACATTGGGAC-TA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTA
* *
62134534 GTGCTAGTGTAAGACATGTCTGGGATATGCATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
*
62134581 -AGCCAGTGTAAGACATGTCTGGGACATGCATC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC
62134613 AGCTACGAGA
Statistics
Matches: 105, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
46 54 0.51
47 29 0.28
48 21 0.20
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
Found at i:62135731 original size:21 final size:21
Alignment explanation
Indices: 62135698--62135756 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
62135688 GTTAATGGCC
* *
62135698 ACACGGGCGTGTTGCCCTTCT
1 ACACGGGCATGTTGCCCTACT
*
62135719 ACACAGGCATGTTGCCCTACT
1 ACACGGGCATGTTGCCCTACT
*
62135740 ACATGGGCATG-TGCCCT
1 ACACGGGCATGTTGCCCT
62135757 GTTCCAGAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
20 6 0.18
21 27 0.82
ACGTcount: A:0.17, C:0.32, G:0.25, T:0.25
Consensus pattern (21 bp):
ACACGGGCATGTTGCCCTACT
Found at i:62138435 original size:46 final size:46
Alignment explanation
Indices: 62137690--62138416 Score: 1454
Period size: 46 Copynumber: 15.8 Consensus size: 46
62137680 TGTAACCCGC
62137690 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
62137736 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
62137782 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
62137828 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
62137874 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
62137920 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
62137966 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
62138012 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
62138058 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
62138104 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
62138150 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
62138196 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
62138242 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
62138288 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
62138334 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
62138380 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62138417 TGCCCAAATA
Statistics
Matches: 681, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 681 1.00
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:62148896 original size:17 final size:18
Alignment explanation
Indices: 62148856--62148898 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
62148846 TTATCTCGAT
62148856 CTTTATATTTATTTTTTTA
1 CTTTAT-TTTATTTTTTTA
62148875 CTTTATTTTATTTTTTTA
1 CTTTATTTTATTTTTTTA
62148893 -TTTATT
1 CTTTATT
62148899 AACTTACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.25
18 12 0.50
19 6 0.25
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (18 bp):
CTTTATTTTATTTTTTTA
Found at i:62149989 original size:25 final size:25
Alignment explanation
Indices: 62149943--62150002 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
62149933 TAATATTTAA
* *
62149943 TTTAAACTGTTTTATATGTTATTCAC
1 TTTAAA-TTTTTTATATATTATTCAC
* *
62149969 TTTAAATTTTTTATATATTATTTAT
1 TTTAAATTTTTTATATATTATTCAC
62149994 TTTAAATTT
1 TTTAAATTT
62150003 CACTTTTACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 24 0.80
26 6 0.20
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (25 bp):
TTTAAATTTTTTATATATTATTCAC
Found at i:62150066 original size:26 final size:26
Alignment explanation
Indices: 62149859--62150066 Score: 88
Period size: 26 Copynumber: 8.3 Consensus size: 26
62149849 TCATTTTCAT
**
62149859 TATTATTTATTTTTAAATTTCCCTATA
1 TATTATTTA-TTTTAAATTTCTTTATA
62149886 TATTATTTATTTT--A--T-TTTATA
1 TATTATTTATTTTAAATTTCTTTATA
* * * *
62149907 TATGT-TCTAATCTAAATTTTCATGTATA
1 TAT-TATTTATTTTAAA-TTTC-TTTATA
* *
62149935 -A-TATTTAATTTAAACTGT-TTTATA
1 TATTATTTATTTTAAA-TTTCTTTATA
* * *
62149959 TGTTATTCACTTTAAATTT-TTTATA
1 TATTATTTATTTTAAATTTCTTTATA
*
62149984 TATTATTTATTTTAAATTTCACTTTTACA
1 TATTATTTATTTTAAATTT--C-TTTATA
* ** *
62150013 TATTA-TTATTTT-GA-GCCTCT-TA
1 TATTATTTATTTTAAATTTCTTTATA
62150035 -A-TATTTATTTTAAATTTCTTTATA
1 TATTATTTATTTTAAATTTCTTTATA
62150059 TATTATTT
1 TATTATTT
62150067 TAAACTTGTC
Statistics
Matches: 132, Mismatches: 28, Indels: 43
0.65 0.14 0.21
Matches are distributed among these distances:
20 2 0.02
21 20 0.15
22 4 0.03
23 6 0.05
24 9 0.07
25 26 0.20
26 32 0.24
27 11 0.08
28 12 0.09
29 10 0.08
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (26 bp):
TATTATTTATTTTAAATTTCTTTATA
Found at i:62150094 original size:26 final size:23
Alignment explanation
Indices: 62149969--62150104 Score: 80
Period size: 22 Copynumber: 5.5 Consensus size: 23
62149959 TGTTATTCAC
*
62149969 TTTAAATTTTTTATATATTATTTAT
1 TTTAAATTTCTT-TATA-TATTTAT
*
62149994 TTTAAATTTCACTTTTACATATTATTAT
1 TTTAAATTT--C-TTTATATA-T-TTAT
* ***
62150022 TTTGAGCCTC-TTA-ATATTTAT
1 TTTAAATTTCTTTATATATTTAT
62150043 TTTAAATTTCTTTATATA-TTAT
1 TTTAAATTTCTTTATATATTTAT
62150065 TTTAAACTTGTCTTTACGTATATTTAT
1 TTTAAA-TT-TCTTTA--TATATTTAT
*
62150092 TTAAAATTATCTT
1 TTTAAATT-TCTT
62150105 ATACAACTAA
Statistics
Matches: 87, Mismatches: 12, Indels: 23
0.71 0.10 0.19
Matches are distributed among these distances:
21 10 0.11
22 14 0.16
23 8 0.09
24 9 0.10
25 9 0.10
26 13 0.15
27 13 0.15
28 11 0.13
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (23 bp):
TTTAAATTTCTTTATATATTTAT
Found at i:62150226 original size:26 final size:27
Alignment explanation
Indices: 62150185--62150238 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
62150175 ATATAGTATT
*
62150185 TATTATATAAATATATTACCTATTTTAA
1 TATTATAT-AATATATCACCTATTTTAA
*
62150213 TATTATAT-ATATATCATCTATTTTAA
1 TATTATATAATATATCACCTATTTTAA
62150239 ATTGTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 16 0.67
28 8 0.33
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (27 bp):
TATTATATAATATATCACCTATTTTAA
Found at i:62155320 original size:14 final size:13
Alignment explanation
Indices: 62155301--62155341 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
62155291 ATACTTGTTA
62155301 TTGTTCTTAATTAT
1 TTGTTCTTAA-TAT
*
62155315 TTGTTCTTAATAC
1 TTGTTCTTAATAT
62155328 TTGTT-TTAATAT
1 TTGTTCTTAATAT
62155340 TT
1 TT
62155342 TCAAGATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 8 0.32
13 7 0.28
14 10 0.40
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (13 bp):
TTGTTCTTAATAT
Found at i:62156686 original size:27 final size:28
Alignment explanation
Indices: 62156656--62156712 Score: 64
Period size: 29 Copynumber: 2.0 Consensus size: 28
62156646 ATTTTTGATG
*
62156656 AAATGAGCTATTT-AGG-CTAATTTGTGA
1 AAATAAGCT-TTTAAGGACTAATTTGTGA
*
62156683 AAATAAGGTTTTGAAGGACTAATTTGTGA
1 AAATAAGCTTTT-AAGGACTAATTTGTGA
62156712 A
1 A
62156713 TTAAACATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 3 0.12
27 7 0.28
28 3 0.12
29 12 0.48
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.35
Consensus pattern (28 bp):
AAATAAGCTTTTAAGGACTAATTTGTGA
Found at i:62162402 original size:46 final size:46
Alignment explanation
Indices: 62162350--62162577 Score: 305
Period size: 46 Copynumber: 5.0 Consensus size: 46
62162340 AGTGTGCTCT
62162350 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
62162396 CTGATATGAAATGTGTAAGACCATCGTTGAAAGATACCATGGTAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
62162442 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** *
62162488 GTGACATGAAATGAATAAGACCATGGTTGAAAGATATCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
62162534 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
62162578 TTACGTCAAA
Statistics
Matches: 164, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 163 0.99
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:62175328 original size:21 final size:21
Alignment explanation
Indices: 62175302--62175343 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
62175292 TTAAAAAAGA
62175302 CCAAATTAAAAAAACTTGCAT
1 CCAAATTAAAAAAACTTGCAT
*
62175323 CCAAATTAAAAAAAGTTGCAT
1 CCAAATTAAAAAAACTTGCAT
62175344 TCTCAGGACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (21 bp):
CCAAATTAAAAAAACTTGCAT
Found at i:62175738 original size:18 final size:18
Alignment explanation
Indices: 62175717--62175751 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62175707 AACGATACAG
*
62175717 AAAAGCAAAACGAAAAAA
1 AAAAGAAAAACGAAAAAA
*
62175735 AAAAGAAAAAGGAAAAA
1 AAAAGAAAAACGAAAAA
62175752 GAAACAGATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAACGAAAAAA
Found at i:62176453 original size:24 final size:24
Alignment explanation
Indices: 62176426--62176472 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
62176416 GTTGAAATAG
62176426 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
62176450 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
62176473 GGTATATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:62178296 original size:18 final size:18
Alignment explanation
Indices: 62178260--62178297 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
62178250 GTTTTATGCT
* *
62178260 TTAATCTACCTCTCGTAC
1 TTAATCTACCTCACATAC
62178278 TTAATCTACCTCACATAC
1 TTAATCTACCTCACATAC
62178296 TT
1 TT
62178298 GGGCTATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.32, G:0.03, T:0.39
Consensus pattern (18 bp):
TTAATCTACCTCACATAC
Found at i:62178567 original size:18 final size:18
Alignment explanation
Indices: 62178544--62178581 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
62178534 GTTCGAGACC
62178544 ACCAAATCCAAAAAATGA
1 ACCAAATCCAAAAAATGA
*
62178562 ACCAAATCCGAAAAATGA
1 ACCAAATCCAAAAAATGA
62178580 AC
1 AC
62178582 TCATAGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.24, G:0.08, T:0.11
Consensus pattern (18 bp):
ACCAAATCCAAAAAATGA
Found at i:62180333 original size:25 final size:25
Alignment explanation
Indices: 62180304--62180355 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
62180294 AAGAATAATT
**
62180304 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
62180329 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
62180354 TG
1 TG
62180356 CCAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:62182094 original size:23 final size:22
Alignment explanation
Indices: 62182051--62182108 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
62182041 AAAATGTATC
* *
62182051 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
62182072 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
62182095 TGCATATCATATCT
1 TACAAATCATATCT
62182109 AATATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:62182102 original size:17 final size:19
Alignment explanation
Indices: 62182087--62182158 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
62182077 AATCATATCT
62182087 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
62182106 TCTAATATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
62182124 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
62182141 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
62182159 TGAAGATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
17 16 0.33
18 15 0.31
19 17 0.35
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:62182143 original size:35 final size:37
Alignment explanation
Indices: 62182080--62182158 Score: 112
Period size: 35 Copynumber: 2.2 Consensus size: 37
62182070 ATTACAAAAT
*
62182080 CATATC-T-TCTAAGATTGCATATCATATCTAATATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
62182116 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
62182151 CATATCAT
1 CATATCAT
62182159 TGAAGATTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 21 0.54
36 8 0.21
37 10 0.26
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.39
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:62182156 original size:14 final size:15
Alignment explanation
Indices: 62182119--62182156 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
62182109 AATATTGCAA
62182119 TCATATCTAAGATTG
1 TCATATCTAAGATTG
62182134 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
62182151 -CATATC
1 TCATATC
62182157 ATTGAAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
17 15 0.71
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:62182559 original size:45 final size:45
Alignment explanation
Indices: 62182504--62182694 Score: 249
Period size: 45 Copynumber: 4.3 Consensus size: 45
62182494 AGAAGGTGAT
** *
62182504 ATCTGCTATCTTTGATCTGCTCCCCATCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAA
* ** * *
62182549 ATCTGTTATCTTTGATTTGCTCCCCGTCTAATACAAAGACGCCAA
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
62182594 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * *
62182638 ATCTGTTATCTCCAATTTTCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAA
62182683 ATCTGCTATCTT
1 ATCTGCTATCTT
62182695 AGGTTTGCTT
Statistics
Matches: 129, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
44 38 0.29
45 91 0.71
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (45 bp):
ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:62182669 original size:89 final size:90
Alignment explanation
Indices: 62182504--62182694 Score: 285
Period size: 89 Copynumber: 2.1 Consensus size: 90
62182494 AGAAGGTGAT
** ***
62182504 ATCTGCTATCTTTGATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTTATCTTTGATTTGC
1 ATCTGCTATCTTCAATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTTATCTCCAATTTGC
62182569 TCCCCGTCTAATACAAAGACGCCAA
66 TCCCCGTCTAATACAAAGACGCCAA
* * *
62182594 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCAATTTTC
1 ATCTGCTATCTTCAATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTTATCTCCAATTTGC
* *
62182658 TCCCCGTCTAATACAGAGATGCCAA
66 TCCCCGTCTAATACAAAGACGCCAA
62182683 ATCTGCTATCTT
1 ATCTGCTATCTT
62182695 AGGTTTGCTT
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
89 79 0.88
90 11 0.12
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (90 bp):
ATCTGCTATCTTCAATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTTATCTCCAATTTGC
TCCCCGTCTAATACAAAGACGCCAA
Found at i:62182676 original size:134 final size:136
Alignment explanation
Indices: 62182523--62182777 Score: 331
Period size: 134 Copynumber: 1.9 Consensus size: 136
62182513 CTTTGATCTG
* *
62182523 CTCCCCATCTAATACAGAGACGCCAAATCTGTTATCTTTGATTTGCTCCCCG-TCTAATACA-AA
1 CTCCCCATCTAATACAGAGACGCCAAATCTGCTATCTTAGATTTGCT--CCGATCTAA-ACACAA
62182586 G-ACGCCAAATCTGC-T-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATC
63 GAACGCCAAATCTGCATGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATC
62182648 TCCAATTTT
128 TCCAATTTT
* * * * * *
62182657 CTCCCCGTCTAATACAGAGATGCCAAATCTGCTATCTTAGGTTTGCTTCGATGTAAACACATGAA
1 CTCCCCATCTAATACAGAGACGCCAAATCTGCTATCTTAGATTTGCTCCGATCTAAACACAAGAA
* * * *
62182722 GGTCAGATCTGCTATGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCTAAATC
66 CGCCAAATCTGC-ATGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
62182778 ATCTTGGATC
Statistics
Matches: 103, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
132 5 0.05
133 6 0.06
134 52 0.50
136 1 0.01
137 39 0.38
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.31
Consensus pattern (136 bp):
CTCCCCATCTAATACAGAGACGCCAAATCTGCTATCTTAGATTTGCTCCGATCTAAACACAAGAA
CGCCAAATCTGCATGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCC
AATTTT
Found at i:62182846 original size:78 final size:78
Alignment explanation
Indices: 62182717--62183089 Score: 577
Period size: 78 Copynumber: 4.8 Consensus size: 78
62182707 ATGTAAACAC
* *
62182717 ATGAAGGTCAGATCTGCTATGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCTAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
62182782 TGGATCTACTTCA
66 TGGATCTGCTTCA
* *
62182795 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTTTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
62182859 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * *
62182873 ATGAAGGTTAGATCTGCTGTGTCTTCGATCTGCTTCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
62182938 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
62182951 ATGAAGGTCAGATTTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
62183016 TGGATCTGCTTTA
66 TGGATCTGCTTCA
* * * ** *
62183029 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGATCTCCGTCGAATATGGAGATGTCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
62183090 TGTTTCTTCG
Statistics
Matches: 271, Mismatches: 22, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
77 1 0.00
78 268 0.99
79 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:62193130 original size:31 final size:31
Alignment explanation
Indices: 62193089--62193149 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
62193079 CGTAAATACT
*
62193089 CAAAGTCAGGACGTCGACCCTTTTCTTTACA
1 CAAAGCCAGGACGTCGACCCTTTTCTTTACA
62193120 CAAAGCCAGGACGTCGACCCTTTTCTTTAC
1 CAAAGCCAGGACGTCGACCCTTTTCTTTAC
62193150 GTCTGGATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (31 bp):
CAAAGCCAGGACGTCGACCCTTTTCTTTACA
Found at i:62194617 original size:12 final size:12
Alignment explanation
Indices: 62194600--62194626 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
62194590 AAAGAATACA
62194600 AACATCACATCC
1 AACATCACATCC
62194612 AACATCACATCC
1 AACATCACATCC
62194624 AAC
1 AAC
62194627 TGAAATCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (12 bp):
AACATCACATCC
Found at i:62194924 original size:17 final size:18
Alignment explanation
Indices: 62194902--62194936 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
62194892 GATATGATAC
*
62194902 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
62194919 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
62194937 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:62195232 original size:23 final size:22
Alignment explanation
Indices: 62195189--62195246 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
62195179 AAAAGGTATC
* *
62195189 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
62195210 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
62195233 TGCATATCATATCT
1 TACAAATCATATCT
62195247 AAGATTGGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:62195261 original size:18 final size:19
Alignment explanation
Indices: 62195225--62195279 Score: 94
Period size: 18 Copynumber: 2.9 Consensus size: 19
62195215 AATCATATCT
62195225 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
62195244 TCTAAGATTGGA-ATCATA
1 TCTAAGATTGCATATCATA
62195262 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
62195280 TGAAGATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
18 17 0.52
19 16 0.48
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:62197800 original size:47 final size:47
Alignment explanation
Indices: 62197743--62197870 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 47
62197733 TCAATCGACA
* *
62197743 AGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTTATCTCGG
1 AGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCTAGG
* * * * * *
62197790 AGTACTTATACCATAGCCCGCAGCTAAATCAAGGTAACTCCTCTATG
1 AGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCTAGG
* * * *
62197837 AATACCTATACTATGGCCGGTAGCCAAATCAAGG
1 AGTACCTATACCATGGCCCGAAGCCAAATCAAGG
62197871 CATTTTTTGC
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.23
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCTAGG
Found at i:62198471 original size:28 final size:29
Alignment explanation
Indices: 62198407--62198471 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
62198397 TTTTCATTTA
* *
62198407 TTTCACAATTTAACCTCTCAATTTACACT
1 TTTCTCAATTTAACCTCTCAATTGACACT
*
62198436 TTTCTCAATTTAATCC-CT-AATTGACATT
1 TTTCTCAATTTAA-CCTCTCAATTGACACT
*
62198464 TTTGTCAA
1 TTTCTCAA
62198472 AAATCACTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 15 0.48
29 14 0.45
30 2 0.06
ACGTcount: A:0.29, C:0.23, G:0.03, T:0.45
Consensus pattern (29 bp):
TTTCTCAATTTAACCTCTCAATTGACACT
Found at i:62202645 original size:21 final size:21
Alignment explanation
Indices: 62202619--62202688 Score: 106
Period size: 21 Copynumber: 3.3 Consensus size: 21
62202609 CATGTTTACT
* *
62202619 TTCTGTTTAGCTC-TCACGAGC
1 TTCTGTTTAACTCAT-ATGAGC
62202640 TTCTGTTTAACTCATATGAGC
1 TTCTGTTTAACTCATATGAGC
62202661 TTCTGTTTAACTCATATGAGC
1 TTCTGTTTAACTCATATGAGC
62202682 TTCTGTT
1 TTCTGTT
62202689 CAGCTCTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
21 45 0.98
22 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (21 bp):
TTCTGTTTAACTCATATGAGC
Found at i:62202753 original size:21 final size:21
Alignment explanation
Indices: 62202636--62202792 Score: 120
Period size: 21 Copynumber: 7.5 Consensus size: 21
62202626 TAGCTCTCAC
* *
62202636 GAGCTTCTGTTTAACTCATAT
1 GAGCTTCTGTTCAACTCTTAT
* *
62202657 GAGCTTCTGTTTAACTCATAT
1 GAGCTTCTGTTCAACTCTTAT
* *
62202678 GAGCTTCTGTTCAGCTCTTTT
1 GAGCTTCTGTTCAACTCTTAT
* * * *
62202699 AAGCTTTTATTTAACTCTTAT
1 GAGCTTCTGTTCAACTCTTAT
* * * *
62202720 GGGTTTCTATTCAACTCTTAC
1 GAGCTTCTGTTCAACTCTTAT
*
62202741 GAGCTTTTGTTCAAC-CTTTAT
1 GAGCTTCTGTTCAACTC-TTAT
* * * *
62202762 GGGTTTCTGTT-AGCTCTCAT
1 GAGCTTCTGTTCAACTCTTAT
62202782 GAGCTTCTGTT
1 GAGCTTCTGTT
62202793 TAGCCTTCGG
Statistics
Matches: 106, Mismatches: 28, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
20 15 0.14
21 91 0.86
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (21 bp):
GAGCTTCTGTTCAACTCTTAT
Found at i:62207391 original size:33 final size:34
Alignment explanation
Indices: 62207349--62207427 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 34
62207339 GGGCCATGCG
* *
62207349 GTGTGACCCACATGGGCAAGGCCAAC-TTGGGTC
1 GTGTGACCCACATGGGCAAGGCCAACTTTAGGCC
62207382 GTGTGACCCACATGGGCAAGGCCAACTTTAGGCC
1 GTGTGACCCACATGGGCAAGGCCAACTTTAGGCC
62207416 GTGTGACCCACA
1 GTGTGACCCACA
62207428 CGGGTGTGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
33 26 0.60
34 17 0.40
ACGTcount: A:0.23, C:0.29, G:0.30, T:0.18
Consensus pattern (34 bp):
GTGTGACCCACATGGGCAAGGCCAACTTTAGGCC
Found at i:62208347 original size:41 final size:41
Alignment explanation
Indices: 62208286--62208372 Score: 140
Period size: 41 Copynumber: 2.1 Consensus size: 41
62208276 TTGATTTATG
* *
62208286 ACTT-AATGATGTTTTTGCTTCCGCTTTAATGAAATGCTTC
1 ACTTAAATGATGTTTTAGCTTCCGCGTTAATGAAATGCTTC
*
62208326 ACTTAAATGATGTTTTAGCTTCCGCGTTAATGAAATGTTTC
1 ACTTAAATGATGTTTTAGCTTCCGCGTTAATGAAATGCTTC
62208367 ACTTAA
1 ACTTAA
62208373 TATCTGGATT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
40 4 0.09
41 39 0.91
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (41 bp):
ACTTAAATGATGTTTTAGCTTCCGCGTTAATGAAATGCTTC
Found at i:62210497 original size:13 final size:14
Alignment explanation
Indices: 62210455--62210499 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
62210445 TAATAATGAT
62210455 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
62210470 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
62210483 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
62210496 TAAA
1 TAAA
62210500 ACAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:62212312 original size:20 final size:20
Alignment explanation
Indices: 62212283--62212329 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
62212273 GGCCTGGCCC
* *
62212283 CACGGCCATGT-TCCAGGTCA
1 CACGGGCATGTCT-CAGGGCA
62212303 CACGGGCATGTCTCAGGGCA
1 CACGGGCATGTCTCAGGGCA
62212323 CACGGGC
1 CACGGGC
62212330 GTGTGCCCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.19, C:0.34, G:0.32, T:0.15
Consensus pattern (20 bp):
CACGGGCATGTCTCAGGGCA
Found at i:62212997 original size:37 final size:38
Alignment explanation
Indices: 62212933--62213004 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 38
62212923 GCTGAAAAGG
*
62212933 GAGTTGATCTGAGGACCAAGGAGGATAACGAGATAAGA
1 GAGTTGATCTGAGGACCAAGGAGGATAAAGAGATAAGA
* *
62212971 GAGTTGTTCTGAGTA-CAAGGAGGATAAAGAGATA
1 GAGTTGATCTGAGGACCAAGGAGGATAAAGAGATA
62213005 GTTGTGATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 18 0.58
38 13 0.42
ACGTcount: A:0.39, C:0.08, G:0.33, T:0.19
Consensus pattern (38 bp):
GAGTTGATCTGAGGACCAAGGAGGATAAAGAGATAAGA
Found at i:62216560 original size:15 final size:15
Alignment explanation
Indices: 62216540--62216569 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62216530 TCTTCTCTGT
62216540 TTTTCTTCTTATTCG
1 TTTTCTTCTTATTCG
*
62216555 TTTTCTTCTTTTTCG
1 TTTTCTTCTTATTCG
62216570 ATAAGCTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.20, G:0.07, T:0.70
Consensus pattern (15 bp):
TTTTCTTCTTATTCG
Found at i:62217606 original size:40 final size:40
Alignment explanation
Indices: 62217562--62217639 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
62217552 ATGCTGCGAT
* *
62217562 TATGGTGTGTAGGG-TTGGATGGGTCGATTATATCCCCATA
1 TATGGTGTGCAGGGATAGG-TGGGTCGATTATATCCCCATA
*
62217602 TATGGTGTGCAGGGATAGGTGGGTCGATTTTATCCCCA
1 TATGGTGTGCAGGGATAGGTGGGTCGATTATATCCCCA
62217640 CATAGTGTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 31 0.91
41 3 0.09
ACGTcount: A:0.19, C:0.14, G:0.33, T:0.33
Consensus pattern (40 bp):
TATGGTGTGCAGGGATAGGTGGGTCGATTATATCCCCATA
Found at i:62218321 original size:39 final size:34
Alignment explanation
Indices: 62218288--62218356 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
62218278 AATAACAATC
*
62218288 CAGTATCAGTGTGGGCCTTAGCCCATTATAATAA
1 CAGTATCAGTGTGGGCCTTAGCCCATTACAATAA
*
62218322 CAGTATCAGTGTGGGCCTTAGCCCATTACAGTAA
1 CAGTATCAGTGTGGGCCTTAGCCCATTACAATAA
62218356 C
1 C
62218357 CAGAACAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCCTTAGCCCATTACAATAA
Found at i:62218518 original size:21 final size:21
Alignment explanation
Indices: 62218493--62218532 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
62218483 GGCGCTATTT
62218493 AGTAATTACAGCAAAGCTATC
1 AGTAATTACAGCAAAGCTATC
* *
62218514 AGTAATTGCAGCAGAGCTA
1 AGTAATTACAGCAAAGCTA
62218533 CCAATACAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (21 bp):
AGTAATTACAGCAAAGCTATC
Found at i:62220852 original size:25 final size:25
Alignment explanation
Indices: 62220815--62220871 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
62220805 CTTTCTGATT
** *
62220815 ATGGCTCTTATGAGTTTCCCGATAC
1 ATGGCTCACATGAGCTTCCCGATAC
* *
62220840 ATGGCTCACATGAGCTTCCCGTTAT
1 ATGGCTCACATGAGCTTCCCGATAC
62220865 ATGGCTC
1 ATGGCTC
62220872 GAGAGAGGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.33
Consensus pattern (25 bp):
ATGGCTCACATGAGCTTCCCGATAC
Found at i:62221654 original size:19 final size:21
Alignment explanation
Indices: 62221630--62221670 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
62221620 AAAGACTTGA
*
62221630 TCTTGG-TTGG-TTTTGAATG
1 TCTTGGATTGGCTTGTGAATG
62221649 TCTTGGATTGGCTTGTGAATG
1 TCTTGGATTGGCTTGTGAATG
62221670 T
1 T
62221671 GTTAAAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 4 0.21
21 9 0.47
ACGTcount: A:0.12, C:0.07, G:0.32, T:0.49
Consensus pattern (21 bp):
TCTTGGATTGGCTTGTGAATG
Found at i:62221970 original size:52 final size:52
Alignment explanation
Indices: 62221877--62221975 Score: 128
Period size: 52 Copynumber: 1.9 Consensus size: 52
62221867 CACAAGGGCG
* * ** *
62221877 TGTGGCTTGGCCGTGTGGCCCCTGCACCTACACACAGCCTAGTACATCGGCA
1 TGTGGCTTAGCCATGTAACCCCTGCACCTACACACAGCCTAGCACATCGGCA
*
62221929 TGTGGCTTAGCCATGTAACCCCTGCATCTACACAC-GACCTAGCACAT
1 TGTGGCTTAGCCATGTAACCCCTGCACCTACACACAG-CCTAGCACAT
62221976 TGGTGTGTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
51 1 0.03
52 39 0.98
ACGTcount: A:0.21, C:0.34, G:0.22, T:0.22
Consensus pattern (52 bp):
TGTGGCTTAGCCATGTAACCCCTGCACCTACACACAGCCTAGCACATCGGCA
Found at i:62229048 original size:21 final size:21
Alignment explanation
Indices: 62229022--62229062 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
62229012 ATCTGCTCAA
* *
62229022 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
62229043 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
62229063 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:62236267 original size:52 final size:52
Alignment explanation
Indices: 62236206--62236312 Score: 205
Period size: 52 Copynumber: 2.1 Consensus size: 52
62236196 CCAGAGCAAC
62236206 GGCCGGTGCCACATACTCATTTAGGGCAAGGAATATTCATATCAAAGTCTGG
1 GGCCGGTGCCACATACTCATTTAGGGCAAGGAATATTCATATCAAAGTCTGG
*
62236258 GGCCGGTGCCACATCCTCATTTAGGGCAAGGAATATTCATATCAAAGTCTGG
1 GGCCGGTGCCACATACTCATTTAGGGCAAGGAATATTCATATCAAAGTCTGG
62236310 GGC
1 GGC
62236313 TAATCCTGCC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (52 bp):
GGCCGGTGCCACATACTCATTTAGGGCAAGGAATATTCATATCAAAGTCTGG
Found at i:62244331 original size:73 final size:72
Alignment explanation
Indices: 62244140--62244346 Score: 229
Period size: 73 Copynumber: 2.8 Consensus size: 72
62244130 ATTTCTGTTC
* ** ** *
62244140 CAAAGATCAACTCATAGGGCGAGAGGTGAGTTGAGCCTCAGAACATGCTGAGGTATTTTCAAATT
1 CAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAAATT
62244205 CTTTTTT
66 CTTTTTT
* * * *
62244212 CAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGGCACGGTGAGGTATTTTC-AA
1 C--AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAAA
62244276 -TCGTTGTTTGT
64 TTC-TT-TTT-T
* * * *
62244287 CAAAAATCAACTCATACTGCCAGAGGTGAGTTGAGCCCCAGGGCACGCTAATGTATTTTC
1 CAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
62244347 GATTTCTGCT
Statistics
Matches: 113, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
72 3 0.03
73 55 0.49
74 53 0.47
75 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (72 bp):
CAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAAATT
CTTTTTT
Found at i:62244688 original size:241 final size:235
Alignment explanation
Indices: 62244145--62244833 Score: 920
Period size: 241 Copynumber: 2.9 Consensus size: 235
62244135 TGTTCCAAAG
** * * * *
62244145 ATCAACTCATAGGGCGAGAGGTGAGTTGAGCCTCAGAACATGCTGAGGTATTTTCAAATTCT-TT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
* * *
62244209 TTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGGCAC-GGTGAGGTATTTT
66 TGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GGCACAGCTGAGGTATTTT
* * * *
62244273 CAATCGT-TGTTTGTCAAAAATCAACTCATACTGCCAGAGGTGAGTTGAGCCCCAGGGCACGCTA
127 CAAT-TTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTA
* *
62244337 ATGTATTTTCGATTTCTGCTTTCCAATGTCTGCTCTTAAAAAAAA
191 AGGTATTTTCGATTTCTGCTTTCCAATGTCTACTCTTAAAAAAAA
* * *
62244382 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGGTAATTTCAATTTCTGTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
* * * *
62244447 TGTCAAAAATCAACTCATATCGCAAGAGGTGAGTTGAGCATCGGCTCACATGCTGAGGTCTTTTC
66 TGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CACA-GCTGAGGTATTTTC
* * * *
62244512 AATTTCTGTTCGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGAGGGCATGCTG
128 AATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTA
*
62244577 AGGTATTTTCGATTTCTGCTTTCCAATTTCTACTCTTCAAAAAAAA
191 AGGTATTTTCGATTTCTGCTTTCCAATGTCTACTCTT-AAAAAAAA
62244623 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
*
62244688 TGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCA
66 TGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCACA-GCTGAGGTATTTTCA
*
62244752 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTA
129 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-GCAC--GCTA
* *
62244816 AGGTCTTTTCAATTTCTG
191 AGGTATTTTCGATTTCTG
62244834 TTCGTCAAAT
Statistics
Matches: 396, Mismatches: 43, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
234 2 0.01
236 39 0.10
237 93 0.23
238 27 0.07
239 47 0.12
240 77 0.19
241 109 0.28
242 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (235 bp):
ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
TGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACAGCTGAGGTATTTTCAAT
TTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTAAGGTA
TTTTCGATTTCTGCTTTCCAATGTCTACTCTTAAAAAAAA
Found at i:62244707 original size:164 final size:165
Alignment explanation
Indices: 62244451--62244758 Score: 458
Period size: 164 Copynumber: 1.9 Consensus size: 165
62244441 TCTGTTTGTC
* **
62244451 AAAAATCAACTCATATCGCAAGAGGTGAGTTGAGCATCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATCGCAAGAGGTGAGTTGAGCATCGG--CACACGCTGAGGTAATTTCAATT
* * *
62244516 TCTGTTCGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGAGGGCATGCTGAGGT
64 TCTGTTCGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
* *
62244581 ATTTTCGATTTCTGCTTTCCAATTTCTACTCTTCAAAA
128 AATTTCAATTTCTGCTTTCCAATTTCTACTCTTCAAAA
* * *
62244619 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAATTT
1 AAAAATCAACTCATATCGCAAGAGGTGAGTTGAGCATC-GGCACACGCTGAGGTAATTTCAATTT
*
62244683 CTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
65 CTGTTCGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
62244747 TTTCAATTTCTG
130 TTTCAATTTCTG
62244759 TTTGTCAAAA
Statistics
Matches: 127, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
164 62 0.49
166 28 0.22
168 35 0.28
169 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (165 bp):
AAAAATCAACTCATATCGCAAGAGGTGAGTTGAGCATCGGCACACGCTGAGGTAATTTCAATTTC
TGTTCGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
TTCAATTTCTGCTTTCCAATTTCTACTCTTCAAAA
Found at i:62244723 original size:73 final size:72
Alignment explanation
Indices: 62244619--62244884 Score: 401
Period size: 73 Copynumber: 3.6 Consensus size: 72
62244609 CTCTTCAAAA
62244619 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTAATTTCAATTTC
62244684 TGTTTGTC
65 TGTTTGTC
62244692 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTAATTTCAATTTC
62244757 TGTTTGTC
65 TGTTTGTC
* * **
62244765 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTAAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTAATTTCAATT
*
62244830 TCTGTTCGTC
63 TCTGTTTGTC
* *
62244840 --AAATCAACTCACATTGCAAGAGGTGAGTTGAGCCTCGAGACACGC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GACACGC
62244885 CGAGTTATTT
Statistics
Matches: 181, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
71 5 0.03
72 2 0.01
73 146 0.81
74 1 0.01
75 27 0.15
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTAATTTCAATTTCT
GTTTGTC
Found at i:62246686 original size:22 final size:22
Alignment explanation
Indices: 62246660--62246704 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
62246650 AAATTGTGTT
62246660 AAAATAAATAAAACAAAATGAA
1 AAAATAAATAAAACAAAATGAA
62246682 AAAATAAATAAAACAAAATGAA
1 AAAATAAATAAAACAAAATGAA
62246704 A
1 A
62246705 TTATCTCCTA
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:0.78, C:0.04, G:0.04, T:0.13
Consensus pattern (22 bp):
AAAATAAATAAAACAAAATGAA
Found at i:62246954 original size:27 final size:28
Alignment explanation
Indices: 62246911--62246965 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
62246901 GAATGTTTCC
* *
62246911 ATTGATGAATATGTATG-ATTTTTGATG
1 ATTGATGAAGATGTATGAATATTTGATG
62246938 ATTGATGATAGAT-TATGAATATTTGATG
1 ATTGATGA-AGATGTATGAATATTTGATG
62246966 TTAGTTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.45
Consensus pattern (28 bp):
ATTGATGAAGATGTATGAATATTTGATG
Found at i:62247517 original size:40 final size:40
Alignment explanation
Indices: 62247462--62247564 Score: 116
Period size: 40 Copynumber: 2.6 Consensus size: 40
62247452 ACATATCGGT
* *
62247462 TAAATGTGGCACTTAGTGTGCGGTTCAATATAGCTTCAGC
1 TAAATATGGCACTTAGTGTGCGATTCAATATAGCTTCAGC
* * ** *
62247502 TAAATTTGGCACTTAGTGTGTGATTTGATATAGCTTCGGC
1 TAAATATGGCACTTAGTGTGCGATTCAATATAGCTTCAGC
* * *
62247542 TATATATAGTACTTAGTGTGCGA
1 TAAATATGGCACTTAGTGTGCGA
62247565 GACATTAATT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (40 bp):
TAAATATGGCACTTAGTGTGCGATTCAATATAGCTTCAGC
Found at i:62247592 original size:28 final size:28
Alignment explanation
Indices: 62247552--62247653 Score: 186
Period size: 28 Copynumber: 3.6 Consensus size: 28
62247542 TATATATAGT
*
62247552 ACTTAGTGTGCGAGACATTAATTATGGC
1 ACTTAGTGTGCGAGACATTGATTATGGC
62247580 ACTTAGTGTGCGAGACATTGATTATGGC
1 ACTTAGTGTGCGAGACATTGATTATGGC
*
62247608 ACTTAGTGTGCGAGACATTGATTGTGGC
1 ACTTAGTGTGCGAGACATTGATTATGGC
62247636 ACTTAGTGTGCGAGACAT
1 ACTTAGTGTGCGAGACAT
62247654 CGAGTATGCG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 72 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.31
Consensus pattern (28 bp):
ACTTAGTGTGCGAGACATTGATTATGGC
Found at i:62249692 original size:18 final size:19
Alignment explanation
Indices: 62249669--62249705 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
62249659 TCAAATACAT
*
62249669 TTAAAACATAAAA-AAATA
1 TTAAAACAAAAAACAAATA
62249687 TTAAAACAAAAAACAAATA
1 TTAAAACAAAAAACAAATA
62249706 AAAAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.19
Consensus pattern (19 bp):
TTAAAACAAAAAACAAATA
Found at i:62249721 original size:11 final size:12
Alignment explanation
Indices: 62249707--62249759 Score: 56
Period size: 11 Copynumber: 4.6 Consensus size: 12
62249697 AAACAAATAA
62249707 AAAATAATAC-T
1 AAAATAATACAT
* *
62249718 AAAATAATTCTT
1 AAAATAATACAT
62249730 AAAATAATACAT
1 AAAATAATACAT
* *
62249742 AAATTAA-AAAT
1 AAAATAATACAT
62249753 AAAATAA
1 AAAATAA
62249760 AAAGTAATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
11 18 0.51
12 17 0.49
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (12 bp):
AAAATAATACAT
Found at i:62249818 original size:17 final size:17
Alignment explanation
Indices: 62249798--62249835 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
62249788 GAAACAAATT
62249798 AAAATTAAATTAAGAAC
1 AAAATTAAATTAAGAAC
* *
62249815 AAAATTATATTAATAAC
1 AAAATTAAATTAAGAAC
62249832 AAAA
1 AAAA
62249836 GTTTTACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (17 bp):
AAAATTAAATTAAGAAC
Found at i:62250034 original size:71 final size:71
Alignment explanation
Indices: 62249959--62250099 Score: 273
Period size: 71 Copynumber: 2.0 Consensus size: 71
62249949 GCCGGGCCGG
62249959 GTCGGGCCGGGCCCGGGCCAAAAAAATCTTACCCGAGGCCCGGCTCGGTTTTTGTCCAAGCCCAT
1 GTCGGGCCGGGCCCGGGCCAAAAAAATCTTACCCGAGGCCCGGCTCGGTTTTTGTCCAAGCCCAT
62250024 TTTTCT
66 TTTTCT
*
62250030 GTCGGGCCGGGCCCGGGCCAAAAAAATCTTACCCGAGGCCCGGCTCGTTTTTTGTCCAAGCCCAT
1 GTCGGGCCGGGCCCGGGCCAAAAAAATCTTACCCGAGGCCCGGCTCGGTTTTTGTCCAAGCCCAT
62250095 TTTTC
66 TTTTC
62250100 GGGCCTATAT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.17, C:0.33, G:0.26, T:0.24
Consensus pattern (71 bp):
GTCGGGCCGGGCCCGGGCCAAAAAAATCTTACCCGAGGCCCGGCTCGGTTTTTGTCCAAGCCCAT
TTTTCT
Found at i:62251983 original size:18 final size:18
Alignment explanation
Indices: 62251960--62251995 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
62251950 AAATGGTATG
62251960 CTCGTGGCTCAAGAAAGC
1 CTCGTGGCTCAAGAAAGC
62251978 CTCGTGGCTCAAGAAAGC
1 CTCGTGGCTCAAGAAAGC
62251996 ATTTTTGGTA
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:0.28, C:0.28, G:0.28, T:0.17
Consensus pattern (18 bp):
CTCGTGGCTCAAGAAAGC
Found at i:62262631 original size:50 final size:51
Alignment explanation
Indices: 62262541--62262642 Score: 188
Period size: 50 Copynumber: 2.0 Consensus size: 51
62262531 AGAAGATGAA
62262541 TTAGCTGAATATAGAACAAAAAATAAATAAGCTCACATCAATATTCATAAG
1 TTAGCTGAATATAGAACAAAAAATAAATAAGCTCACATCAATATTCATAAG
*
62262592 TTAGCTGAATATAGAAC-AAAAATAAATAAGTTCACATCAATATTCATAAG
1 TTAGCTGAATATAGAACAAAAAATAAATAAGCTCACATCAATATTCATAAG
62262642 T
1 T
62262643 AAACAATAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 33 0.66
51 17 0.34
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (51 bp):
TTAGCTGAATATAGAACAAAAAATAAATAAGCTCACATCAATATTCATAAG
Found at i:62265171 original size:23 final size:22
Alignment explanation
Indices: 62265145--62265193 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
62265135 AAATCCATAA
62265145 AATTAAAAAAGAAAAAATGAATC
1 AATTAAAAAAGAAAAAA-GAATC
* *
62265168 AATTAAAAAATAATAAAGAATC
1 AATTAAAAAAGAAAAAAGAATC
62265190 AATT
1 AATT
62265194 CATTCTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.22
Consensus pattern (22 bp):
AATTAAAAAAGAAAAAAGAATC
Found at i:62274893 original size:27 final size:27
Alignment explanation
Indices: 62274863--62274925 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
62274853 AATTTTCATA
62274863 CAATGAACATTCAAATCATATTCACAT
1 CAATGAACATTCAAATCATATTCACAT
62274890 CAATGAACATTCAAATCATATTCACAT
1 CAATGAACATTCAAATCATATTCACAT
62274917 CAAT-AACAT
1 CAATGAACAT
62274926 ACAATCTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 5 0.14
27 31 0.86
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.29
Consensus pattern (27 bp):
CAATGAACATTCAAATCATATTCACAT
Found at i:62278075 original size:19 final size:19
Alignment explanation
Indices: 62278042--62278093 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
62278032 TGCTTTTGAT
*
62278042 GTTAAAAGTATTTTTA-AA
1 GTTAGAAGTATTTTTAGAA
62278060 GTTAGAAGTAATTTTTAGAA
1 GTTAGAAGT-ATTTTTAGAA
*
62278080 -TTAGAAGTGTTTTT
1 GTTAGAAGTATTTTT
62278094 CAACTCGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 13 0.43
19 15 0.50
20 2 0.07
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (19 bp):
GTTAGAAGTATTTTTAGAA
Found at i:62280411 original size:60 final size:60
Alignment explanation
Indices: 62280298--62280411 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
62280288 CTATGATTTT
* * *
62280298 TTTCCTTTTCGGTCACTCAACTATGAAAAGTTACAAAATGGCCATCCAGCTATTAGTAAA
1 TTTCCTTTTCGGTCACCCAACTATGAAAAGTTACAAAATAGCCATCCAACTATTAGTAAA
* *
62280358 TTTCCTTTTTGGTCACCCAACTATGAAAAGTTACAAAATAGTCA-CTCAACTATT
1 TTTCCTTTTCGGTCACCCAACTATGAAAAGTTACAAAATAGCCATC-CAACTATT
62280412 CAATTTTCTC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 1 0.02
60 47 0.98
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (60 bp):
TTTCCTTTTCGGTCACCCAACTATGAAAAGTTACAAAATAGCCATCCAACTATTAGTAAA
Done.