Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 116 of 172
Found at i:33345505 original size:18 final size:17
Alignment explanation
Indices: 33345477--33345511 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33345467 ATTATTAAGA
*
33345477 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
33345494 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
33345512 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:33345518 original size:120 final size:120
Alignment explanation
Indices: 33345306--33345767 Score: 867
Period size: 120 Copynumber: 3.9 Consensus size: 120
33345296 TTAATTATAT
33345306 TATCATATATTATGATTTGAGTAAATT-ATATAAGAATATGAATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAATT
33345370 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAG
66 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAG
33345425 TATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAATT
33345490 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAG
66 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAG
*
33345545 TATCATATATTATGATTTGAGTAAATTAATATAAG-ATATTAATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAATT
33345609 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAG
66 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAG
*
33345664 TATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAA-AATTTTTATTAAAT
1 TATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAA-TTTTATTAAAT
*
33345728 TATATATTTTAATTAAAATATATTTAATAAAAATTATGTT
65 TATATATTTTAATTAAAATATATTTAATAATAATTATGTT
33345768 TAAATATGAT
Statistics
Matches: 338, Mismatches: 2, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
119 147 0.43
120 191 0.57
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
TATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAATT
ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAG
Found at i:33345555 original size:239 final size:239
Alignment explanation
Indices: 33345306--33345767 Score: 865
Period size: 239 Copynumber: 1.9 Consensus size: 239
33345296 TTAATTATAT
33345306 TATCATATATTATGATTTGAGTAAATT-ATATAAGAATATGAATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTAATATAAG-ATATGAATTATTAAGAATTTTATTAAATT
33345370 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATAT
65 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATAT
33345435 TATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAA-TTTTATTAAATTATATATTTT
130 TATGATTTGAGTAAATTAATATAAGAATATGAATTATTAA-AATTTTTATTAAATTATATATTTT
*
33345499 AATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAG
194 AATTAAAATATATTTAATAAAAATTATGTTAATTTATATTTTACAG
*
33345545 TATCATATATTATGATTTGAGTAAATTAATATAAGATATTAATTATTAAGAATTTTATTAAATTA
1 TATCATATATTATGATTTGAGTAAATTAATATAAGATATGAATTATTAAGAATTTTATTAAATTA
33345610 TATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATT
*
33345675 ATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAAATTTTTATTAAATTATATATTTTAA
131 ATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAAATTTTTATTAAATTATATATTTTAA
33345740 TTAAAATATATTTAATAAAAATTATGTT
196 TTAAAATATATTTAATAAAAATTATGTT
33345768 TAAATATGAT
Statistics
Matches: 218, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
238 2 0.01
239 209 0.96
240 7 0.03
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (239 bp):
TATCATATATTATGATTTGAGTAAATTAATATAAGATATGAATTATTAAGAATTTTATTAAATTA
TATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATT
ATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAAATTTTTATTAAATTATATATTTTAA
TTAAAATATATTTAATAAAAATTATGTTAATTTATATTTTACAG
Found at i:33345599 original size:66 final size:65
Alignment explanation
Indices: 33345529--33345723 Score: 193
Period size: 66 Copynumber: 3.2 Consensus size: 65
33345519 TAATTATGTT
33345529 AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGATATTAATTATTAA
1 AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGATATTAATTATTAA
* * * * *
33345594 GAATTT-TA--TTA-A--AT--TATA-TAT--TTTAATTAAAAT-ATATTTA-ATAATAATTATG
1 -AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATA-TAAGATATTAATTAT-
*
33345646 T-T
63 TAA
33345648 AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTA
1 AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAG-ATATTAATTATTA
33345713 A
65 A
*
33345714 AATTTTTATT
1 AATTTATATT
33345724 AAATTATATA
Statistics
Matches: 99, Mismatches: 13, Indels: 34
0.68 0.09 0.23
Matches are distributed among these distances:
53 5 0.05
54 15 0.15
55 12 0.12
56 3 0.03
57 4 0.04
58 4 0.04
59 2 0.02
60 2 0.02
61 4 0.04
62 4 0.04
63 3 0.03
64 11 0.11
65 6 0.06
66 24 0.24
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (65 bp):
AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGATATTAATTATTAA
Found at i:33345624 original size:18 final size:17
Alignment explanation
Indices: 33345596--33345630 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33345586 ATTATTAAGA
*
33345596 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
33345613 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
33345631 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:33345742 original size:18 final size:18
Alignment explanation
Indices: 33345715--33345750 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33345705 AATTATTAAA
* *
33345715 ATTTTTATTAAATTATAT
1 ATTTTAATTAAAATATAT
33345733 ATTTTAATTAAAATATAT
1 ATTTTAATTAAAATATAT
33345751 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTTAATTAAAATATAT
Found at i:33345750 original size:16 final size:16
Alignment explanation
Indices: 33345715--33345770 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
33345705 AATTATTAAA
*
33345715 ATTTTTATTAAATTATAT
1 ATTTTAATTAAA--ATAT
33345733 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
33345749 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
33345763 ATGTTTAA
1 AT-TTTAA
33345771 ATATGATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
18 11 0.32
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:33346010 original size:16 final size:16
Alignment explanation
Indices: 33345989--33346019 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
33345979 TTGCTATTAC
33345989 ACCTCTAATCCAATAT
1 ACCTCTAATCCAATAT
33346005 ACCTCTAATCCAATA
1 ACCTCTAATCCAATA
33346020 CAGCGAACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (16 bp):
ACCTCTAATCCAATAT
Found at i:33350588 original size:17 final size:17
Alignment explanation
Indices: 33350554--33350588 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
33350544 GCATATCCTG
* *
33350554 ATTCGAAATTCAAAAAA
1 ATTCAAAATTAAAAAAA
33350571 ATTCAAAATTAAAAAAA
1 ATTCAAAATTAAAAAAA
33350588 A
1 A
33350589 AAGAGAGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.09, G:0.03, T:0.23
Consensus pattern (17 bp):
ATTCAAAATTAAAAAAA
Found at i:33350612 original size:29 final size:30
Alignment explanation
Indices: 33350570--33350631 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
33350560 AATTCAAAAA
* *
33350570 AATTCAAAATTAAA-AAAAAAAGAGAGATG
1 AATTCAAAATTAAATAAAAAAACAAAGATG
* * *
33350599 AATTCATATTTAAATAAAGAAACAAAGATG
1 AATTCAAAATTAAATAAAAAAACAAAGATG
33350629 AAT
1 AAT
33350632 GAATTAAGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.61, C:0.05, G:0.11, T:0.23
Consensus pattern (30 bp):
AATTCAAAATTAAATAAAAAAACAAAGATG
Found at i:33351384 original size:19 final size:18
Alignment explanation
Indices: 33351351--33351390 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
33351341 ATCTCTCTCA
33351351 ATAAAAATTCAAAATATTT
1 ATAAAAATTCAAAAT-TTT
**
33351370 ATAAAAATTTTAAATTTT
1 ATAAAAATTCAAAATTTT
33351388 ATA
1 ATA
33351391 TTTTTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAAAATTCAAAATTTT
Found at i:33351392 original size:24 final size:24
Alignment explanation
Indices: 33351364--33351411 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
33351354 AAAATTCAAA
*
33351364 ATATTTATAAAAATTTTAAATTTT
1 ATATTTATAAAAATTATAAATTTT
* *
33351388 ATATTTTTTAAAATTATAAATTTT
1 ATATTTATAAAAATTATAAATTTT
33351412 TAAAAAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATATTTATAAAAATTATAAATTTT
Found at i:33351999 original size:17 final size:17
Alignment explanation
Indices: 33351977--33352010 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33351967 ATTTTAATGT
33351977 TTTTAATATATTATATA
1 TTTTAATATATTATATA
* *
33351994 TTTTAATTTTTTATATA
1 TTTTAATATATTATATA
33352011 AAAATAAAAT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAATATATTATATA
Found at i:33357187 original size:7 final size:7
Alignment explanation
Indices: 33357177--33357223 Score: 67
Period size: 7 Copynumber: 6.4 Consensus size: 7
33357167 TACTAATTTA
33357177 AAATTAT
1 AAATTAT
33357184 AAATTAT
1 AAATTAT
33357191 AAATTAT
1 AAATTAT
33357198 AAATTAT
1 AAATTAT
33357205 AAATTTTAT
1 AAA--TTAT
*
33357214 AAATCAT
1 AAATTAT
33357221 AAA
1 AAA
33357224 AGCTAAAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
7 30 0.81
9 7 0.19
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATTAT
Found at i:33357188 original size:14 final size:14
Alignment explanation
Indices: 33357171--33357217 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
33357161 TATTATTACT
33357171 AATTTAAAATTATA
1 AATTTAAAATTATA
33357185 AA-TTATAAATTATA
1 AATTTA-AAATTATA
*
33357199 AATTATAAATTTTATA
1 AATT-TAAA-ATTATA
33357215 AAT
1 AAT
33357218 CATAAAAGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 3 0.11
14 12 0.43
15 3 0.11
16 10 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AATTTAAAATTATA
Found at i:33357935 original size:33 final size:33
Alignment explanation
Indices: 33357892--33357954 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
33357882 GGCTCCTCTG
33357892 GTCTTCTGCTTCGCTGCTTCTGCTGTCTCCATT
1 GTCTTCTGCTTCGCTGCTTCTGCTGTCTCCATT
* *
33357925 GTCTTTTGCTTCGCTGCTTCTGCTTTCTCC
1 GTCTTCTGCTTCGCTGCTTCTGCTGTCTCC
33357955 TTCATGCTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.02, C:0.33, G:0.17, T:0.48
Consensus pattern (33 bp):
GTCTTCTGCTTCGCTGCTTCTGCTGTCTCCATT
Found at i:33359110 original size:10 final size:11
Alignment explanation
Indices: 33359095--33359119 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33359085 TATAATTTAT
33359095 AAAAAATTAAA
1 AAAAAATTAAA
33359106 AAAAAATTAAA
1 AAAAAATTAAA
33359117 AAA
1 AAA
33359120 TCAATAAAAT
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAATTAAA
Found at i:33364167 original size:21 final size:20
Alignment explanation
Indices: 33364142--33364193 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
33364132 ATTTAAGTAT
33364142 ATTTAAATTTTATATAATATA
1 ATTTAAATTTTATATAATA-A
* ** *
33364163 ATTTACATAATATATTATAA
1 ATTTAAATTTTATATAATAA
*
33364183 ATTTGAATTTT
1 ATTTAAATTTT
33364194 CTTTTTATGA
Statistics
Matches: 23, Mismatches: 8, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
ATTTAAATTTTATATAATAA
Found at i:33367818 original size:7 final size:7
Alignment explanation
Indices: 33367806--33367837 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
33367796 TGATCTGATC
33367806 AGTGACA
1 AGTGACA
33367813 AGTGACA
1 AGTGACA
33367820 AGTGACA
1 AGTGACA
*
33367827 AGTGATA
1 AGTGACA
33367834 AGTG
1 AGTG
33367838 GTAGCTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.31, T:0.19
Consensus pattern (7 bp):
AGTGACA
Found at i:33367852 original size:58 final size:58
Alignment explanation
Indices: 33367762--33367875 Score: 219
Period size: 58 Copynumber: 2.0 Consensus size: 58
33367752 ACTTCTGATC
33367762 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTGATCTGATCAGTGACAAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTGATCTGATCAGTGACAAGTGACA
*
33367820 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTGATCTGATCAGTGACAAGTGA
33367876 TAAATGTGAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (58 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTGATCTGATCAGTGACAAGTGACA
Found at i:33376989 original size:25 final size:25
Alignment explanation
Indices: 33376943--33377003 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
33376933 TGGTAATTTA
* *
33376943 ATTTAAATTTTGATTTTTATA-TCAT
1 ATTTAAA-TTTGAATTTAATATTCAT
*
33376968 ATTTAAATTTGAGATTTAATATTTAT
1 ATTTAAATTTGA-ATTTAATATTCAT
*
33376994 ATTTTAATTT
1 ATTTAAATTT
33377004 TTAAACATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 5 0.17
25 13 0.43
26 12 0.40
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (25 bp):
ATTTAAATTTGAATTTAATATTCAT
Found at i:33382527 original size:3 final size:3
Alignment explanation
Indices: 33382519--33382545 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
33382509 AAAAGCATAG
33382519 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
33382546 ATTTAGTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:33383092 original size:7 final size:6
Alignment explanation
Indices: 33383065--33383098 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
33383055 AATCCCTTCC
*
33383065 TTTTAC TTTTAT TTTTAT TTTTATT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTT
33383099 ATAAAGAGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:33389405 original size:4 final size:4
Alignment explanation
Indices: 33389396--33389426 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
33389386 GAAGAAGATT
*
33389396 GATG GATG GATG GATG GATG GATG GGTG GAT
1 GATG GATG GATG GATG GATG GATG GATG GAT
33389427 TACAGTAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.52, T:0.26
Consensus pattern (4 bp):
GATG
Found at i:33390134 original size:21 final size:20
Alignment explanation
Indices: 33390110--33390155 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
33390100 ATATATAATA
33390110 ATTT-GATTTTACATTATATGT
1 ATTTAGATTTTA-ATTATAT-T
*
33390131 ATTTATATTTTAATTATATT
1 ATTTAGATTTTAATTATATT
33390151 ATTTA
1 ATTTA
33390156 TAAATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 11 0.48
22 6 0.26
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (20 bp):
ATTTAGATTTTAATTATATT
Found at i:33390155 original size:20 final size:22
Alignment explanation
Indices: 33390115--33390157 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
33390105 TAATAATTTG
33390115 ATTTTACATTATATGTATTTAT
1 ATTTTACATTATATGTATTTAT
33390137 ATTTTA-ATTATAT-TATTTAT
1 ATTTTACATTATATGTATTTAT
33390157 A
1 A
33390158 AATTTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 8 0.38
21 7 0.33
22 6 0.29
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTTTACATTATATGTATTTAT
Found at i:33390163 original size:21 final size:21
Alignment explanation
Indices: 33390117--33390164 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
33390107 ATAATTTGAT
*
33390117 TTTACATTATATGTATTTATAT
1 TTTA-ATTATATGTATTTATAA
33390139 TTTAATTATAT-TATTTATAAA
1 TTTAATTATATGTATTTAT-AA
33390160 TTTAA
1 TTTAA
33390165 AAAAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 13 0.54
22 4 0.17
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTAATTATATGTATTTATAA
Found at i:33391256 original size:22 final size:21
Alignment explanation
Indices: 33391231--33391272 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
33391221 CAAAGTGAAA
33391231 AAAACGGTATA-TATAAGAAATC
1 AAAA-GGTATATTATAA-AAATC
*
33391253 AAAATGTATATTATAAAAAT
1 AAAAGGTATATTATAAAAAT
33391273 TAGAAAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.57, C:0.05, G:0.10, T:0.29
Consensus pattern (21 bp):
AAAAGGTATATTATAAAAATC
Found at i:33392542 original size:16 final size:17
Alignment explanation
Indices: 33392505--33392540 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
33392495 ATCAAAAAAT
* *
33392505 AAATTAAAATTTATAAA
1 AAATAAAAATTCATAAA
33392522 AAATAAAAATTCATAAA
1 AAATAAAAATTCATAAA
33392539 AA
1 AA
33392541 TAGCTTGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
AAATAAAAATTCATAAA
Found at i:33396784 original size:19 final size:19
Alignment explanation
Indices: 33396760--33396808 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
33396750 TGAGAGTTTC
*
33396760 TTTTATATTTATTCTTCTG
1 TTTTATATTTATTCTCCTG
* *
33396779 TTTTATTAGTTCTTCTCCTG
1 TTTTA-TATTTATTCTCCTG
*
33396799 TTTAATATTT
1 TTTTATATTT
33396809 TGAAGCTGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.16, C:0.12, G:0.06, T:0.65
Consensus pattern (19 bp):
TTTTATATTTATTCTCCTG
Found at i:33396829 original size:11 final size:11
Alignment explanation
Indices: 33396813--33396837 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33396803 ATATTTTGAA
33396813 GCTGTTGATTT
1 GCTGTTGATTT
33396824 GCTGTTGATTT
1 GCTGTTGATTT
33396835 GCT
1 GCT
33396838 TTTCATTAAG
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:0.08, C:0.12, G:0.28, T:0.52
Consensus pattern (11 bp):
GCTGTTGATTT
Found at i:33398231 original size:20 final size:20
Alignment explanation
Indices: 33398206--33398248 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
33398196 GGTAAAATTA
33398206 ATATTAGAATATGTATTTTC
1 ATATTAGAATATGTATTTTC
33398226 ATATTAGAATATGTATTTTC
1 ATATTAGAATATGTATTTTC
33398246 ATA
1 ATA
33398249 CACATGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (20 bp):
ATATTAGAATATGTATTTTC
Found at i:33399510 original size:72 final size:72
Alignment explanation
Indices: 33399434--33399600 Score: 194
Period size: 72 Copynumber: 2.3 Consensus size: 72
33399424 CAACGTTAAA
* * **
33399434 CTAGTTTTATCAATATTTATTTATATTTGGTTTTTAGATATTGAATTTATGTTCTATTTATTTAT
1 CTAGTTTTATCAATAGTTATTTATATTTGGTCTTTAGATATTGAATTTATGTTCTACATATTTAT
33399499 GTGTAAT
66 GTGTAAT
* * * * *
33399506 CTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGATTTTATGTTCTACATATTTAT
1 CTAGTTTTATCAATAGTTATTTATATTTGGTCTTTAGATATTGAATTTATGTTCTACATATTTAT
* *
33399571 ACT-AAAT
66 -GTGTAAT
*
33399578 -TAGTTTTTATCAATAGTTGTTTA
1 CTAG-TTTTATCAATAGTTATTTA
33399601 AATATGATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
71 3 0.04
72 77 0.95
73 1 0.01
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTATTTATATTTGGTCTTTAGATATTGAATTTATGTTCTACATATTTAT
GTGTAAT
Found at i:33400998 original size:12 final size:12
Alignment explanation
Indices: 33400961--33401003 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
33400951 GAGAAAGTGA
*
33400961 TGATGATGACGA
1 TGATGATGACGG
* *
33400973 CGATGATGATGG
1 TGATGATGACGG
33400985 TGATGATGACGG
1 TGATGATGACGG
33400997 TGATGAT
1 TGATGAT
33401004 AACGCTGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.28, C:0.07, G:0.37, T:0.28
Consensus pattern (12 bp):
TGATGATGACGG
Found at i:33402950 original size:40 final size:40
Alignment explanation
Indices: 33402818--33402931 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
33402808 TCCCCTAAAC
* * ** *
33402818 CGCGTCCACGTCAGCGCGATGTCAGGGGACGTGTCAGCAAAT
1 CGCGTCCACGTCAGCGCGCT-T-TGATGACGTGGCAGCAAAT
* *
33402860 CGTGTCCACGTCAGCGCGGTTTGATGACGTGGCAGCAAAT
1 CGCGTCCACGTCAGCGCGCTTTGATGACGTGGCAGCAAAT
*
33402900 CGCGTCCACGTCAGCGCGCTTTGCTGACGTGG
1 CGCGTCCACGTCAGCGCGCTTTGATGACGTGG
33402932 ACGCGATTTG
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 44 0.70
41 1 0.02
42 18 0.29
ACGTcount: A:0.18, C:0.29, G:0.33, T:0.20
Consensus pattern (40 bp):
CGCGTCCACGTCAGCGCGCTTTGATGACGTGGCAGCAAAT
Found at i:33403009 original size:9 final size:9
Alignment explanation
Indices: 33402991--33403028 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
33402981 GTTTCCCAAG
33402991 TTAGGATTT
1 TTAGGATTT
*
33403000 TTAGGGTTT
1 TTAGGATTT
33403009 TTAGGATTT
1 TTAGGATTT
*
33403018 TTAGGGTTT
1 TTAGGATTT
33403027 TT
1 TT
33403029 GGAGAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.26, T:0.58
Consensus pattern (9 bp):
TTAGGATTT
Found at i:33403014 original size:18 final size:18
Alignment explanation
Indices: 33402991--33403028 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
33402981 GTTTCCCAAG
33402991 TTAGGATTTTTAGGGTTT
1 TTAGGATTTTTAGGGTTT
33403009 TTAGGATTTTTAGGGTTT
1 TTAGGATTTTTAGGGTTT
33403027 TT
1 TT
33403029 GGAGAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.26, T:0.58
Consensus pattern (18 bp):
TTAGGATTTTTAGGGTTT
Found at i:33403416 original size:127 final size:125
Alignment explanation
Indices: 33403137--33403704 Score: 802
Period size: 125 Copynumber: 4.5 Consensus size: 125
33403127 AATAAAATCA
* * * * * * * *
33403137 AAGTAGGATGATTTATCAGAAGGATTTTTGAAGTCGCACTCACGTGTACGCGCTTTTGCTACAGT
1 AAGTAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
*
33403202 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTAAAAAAACACTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTAAAAAAACGCTTC
* * *
33403262 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAAT
1 AAGTAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
33403327 TGGTTCTGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
66 AGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAG-TTAAAAAAACGCTTC
*
33403389 AAGTAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACTTGGACGCGCTTTTGCTACAGT
1 AAGTAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
33403454 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAG-TATAAACAACGCTGC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTA-AAAAAACGCTTC
* *
33403514 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
1 AAGTAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * * * *
33403578 TAGGTCTTGGAAAAATAA-TTCTGACTTGACGTTTCTGAGCAAATAG-TATAAAATCGTTTC
65 TAGGTCCTGGAAAAATAATTTC-GAGTTGACGTTTCTGAGCAAATAGTTAAAAAAACGCTTC
* * *
33403638 TAGTAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGTTTTTGCTAAAGT
1 AAGTAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
33403703 AG
66 AG
33403705 CATGTTTGGG
Statistics
Matches: 396, Mismatches: 41, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
123 2 0.01
124 71 0.18
125 172 0.43
126 68 0.17
127 83 0.21
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (125 bp):
AAGTAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTAAAAAAACGCTTC
Found at i:33406998 original size:43 final size:42
Alignment explanation
Indices: 33406857--33407543 Score: 553
Period size: 43 Copynumber: 15.8 Consensus size: 42
33406847 TCAAATTATA
* *
33406857 TTTAAGTTAAGGGCTAAGGTTTTTAAGTTAAGTG-TTAGGGTT
1 TTTAAGTTAAGGGTTAA-GTTTTTAAGTTAAGGGTTTAGGGTT
* * *
33406899 TTTTATTTAAGGGTTAAGGTTTTAAAGTTAAGGGTTTA--GTT
1 TTTAAGTTAAGGGTTAA-GTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
33406940 TTTTATTTAAGGGTTACATTTTTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTA-AGTTTTTAAGTTAAGGGTTTAGGGTT
*
33406983 TTAAAGTTAAGGGTTAAGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAA-GTTTTTAAGTTAAGGGTTTAGGGTT
* * *
33407026 TTTAAGTTAATGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTT
1 TTTAAGTTAAGGGTTA-AGTTTTTAAGTTAAGGGTTTAGGGTT
* * * **
33407069 TTTAATTTAAGGGTTTAGAG-TTTTAGGGTTTTAGGGTTTAAAGTT
1 TTTAAGTTAAGGG-TTA-AGTTTTTA-AG-TTAAGGGTTTAGGGTT
* * * *
33407114 TTAAAGATAAGGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAA-GGGTTA-AGTTTTTAAGTTAAGGGTTTAGGGTT
* * * * * **
33407158 TTAAAGTTAAGTGTTTAGGGTTTTTAATTTAAGGG-TCACAGTT
1 TTTAAGTTAAG-GGTTA-AGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
33407201 TTTAAGTTAATGGTTTATGGTTTTTATGTTAA-GGATTAGGGTT
1 TTTAAGTTAA-GGGTTA-AGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
33407244 TTTAAGTTAAGAGTTTATTGTTTTTAATTTAAGGGTTTAGGG-T
1 TTTAAGTTAAG-GGTTA-AGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
33407287 TTTAGGGTTTTAATGTTTAAGCTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTA-AG--TTAAGGGTTAAG-TTTTTAAGTTAAGGGTTTAGGGTT
* * * * *
33407333 TTAAAGTTAAAGGTTTAGGGTTTTAAAGTTAAGGGTTTATGGTT
1 TTTAAGTT-AAGGGTTA-AGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
33407377 TTTAATTTAAGGGCTTATGGTTTTTAAATTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGG-TTA-AGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
33407420 TTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAAGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTA-AGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
33407464 TTTAAGTTAATGTTTATGGATTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTA-AGTTTTTAAGTTAAGGGTTTAGGGTT
*
33407507 TTTAATTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTT
1 TTTAAGTTAAGGG-TTAA-GTTTTTAAGTTAAGGGTT
33407544 AGAGTTAAGG
Statistics
Matches: 537, Mismatches: 81, Indels: 52
0.80 0.12 0.08
Matches are distributed among these distances:
41 36 0.07
42 34 0.06
43 246 0.46
44 152 0.28
45 53 0.10
46 16 0.03
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.47
Consensus pattern (42 bp):
TTTAAGTTAAGGGTTAAGTTTTTAAGTTAAGGGTTTAGGGTT
Found at i:33407204 original size:197 final size:196
Alignment explanation
Indices: 33406857--33407543 Score: 738
Period size: 197 Copynumber: 3.5 Consensus size: 196
33406847 TCAAATTATA
* * *** *
33406857 TTTAAGTTAAGGGC-TAAGGTTTTTAAGTTAAGTG-TTAGGGTTTT-TTATTTAAGGG-TTAAGG
1 TTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTAGGGTTTAAGGGTTTAAAG
* * * * *
33406918 TTTTAAAGTTAAGGGTTTA--GTTTTTTATTTAAGGG-TTACA-TTTTTTAATTTAAGGGTTTAG
66 TTTTAAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTA-AGGTTTTAAAGTTAAGGGTTTAG
* *
33406979 GGTTTTAAAGTTAAGGGTTAAGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAATGG-TTAG
130 GGTTTTTAATTTAAGGGTTAA-GTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAA-GGATTAG
33407043 GGTT
193 GGTT
* * *
33407047 TTTAAGTTAAGGGCTTAGGGTTTTTAATTTAAGGGTTTAGAGTTTTAGGGTTTTAGGGTTTAAAG
1 TTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTAGGGTTTAAGGGTTTAAAG
* * *
33407112 TTTTAAAGATAAGGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTAAAGTTAAGTGTTTAGG
66 TTTTAAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTAAAGTTAAGGGTTTAGG
* * * *
33407177 GTTTTTAATTTAAGGGTCACAGTTTTTAAGTTAATGGTTTATGGTTTTTATGTTAAGGATTAGGG
131 GTTTTTAATTTAAGGGTTA-AGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGATTAGGG
33407242 TT
195 TT
* * ** * *
33407244 TTTAAGTTAAGAGTTTATTGTTTTTAATTTAAGGGTTTAGGGTTTTAGGGTTTTAA-TGTTT-AA
1 TTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTAGGG-TTTAAGGGTTTAAA
* * * *
33407307 GCTTTTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAAGGTTTAGGGTTTTAAAGTTAAGGGTTTA
65 G-TTTTAAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTAAAGTTAAGGGTTTA
* * * * *
33407372 TGGTTTTTAATTTAAGGGCTTATGGTTTTTAAATTAAGGG-TTAGGGTTTTTAGGTTAAGGGTTT
129 GGGTTTTTAATTTAAGGG-TTA-AGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAA-GGATT
*
33407436 ATGGTT
191 AGGGTT
* * * * * **
33407442 TTTAAGTTAAAGGTTTAGGGTTTTTAAGTTAA-TGTTTATGGATTTTA-AG-TTAAGGGTTTAGG
1 TTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTA-GGGTTTTAGGGTTTAAGGGTTTAAA
* * *
33407504 GTTTTTAATTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTT
65 GTTTTAAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTT
33407544 AGAGTTAAGG
Statistics
Matches: 418, Mismatches: 62, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
190 14 0.03
191 17 0.04
192 9 0.02
193 7 0.02
194 22 0.05
195 4 0.01
196 59 0.14
197 222 0.53
198 64 0.15
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.47
Consensus pattern (196 bp):
TTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTAGGGTTTAAGGGTTTAAAG
TTTTAAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTAAAGTTAAGGGTTTAGG
GTTTTTAATTTAAGGGTTAAGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGATTAGGGT
T
Found at i:33407540 original size:14 final size:14
Alignment explanation
Indices: 33407521--33407567 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
33407511 ATTTAAGGGT
33407521 TTAAGGTTTTTAAG
1 TTAAGGTTTTTAAG
*
33407535 TTAAGG--GTTAGAG
1 TTAAGGTTTTTA-AG
*
33407548 TTAAGGTTTTTAGG
1 TTAAGGTTTTTAAG
33407562 TTAAGG
1 TTAAGG
33407568 GTTTAAGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
12 3 0.11
13 8 0.30
14 13 0.48
15 3 0.11
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.43
Consensus pattern (14 bp):
TTAAGGTTTTTAAG
Found at i:33407576 original size:14 final size:14
Alignment explanation
Indices: 33407529--33407577 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
33407519 GTTTAAGGTT
33407529 TTTAA-GTTAAGGG
1 TTTAAGGTTAAGGG
*
33407542 -TT-AGAGTTAAGGT
1 TTTAAG-GTTAAGGG
*
33407555 TTTTAGGTTAAGGG
1 TTTAAGGTTAAGGG
33407569 TTTAAGGTT
1 TTTAAGGTT
33407578 TGTCAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
11 1 0.03
12 2 0.07
13 7 0.24
14 17 0.59
15 2 0.07
ACGTcount: A:0.27, C:0.00, G:0.31, T:0.43
Consensus pattern (14 bp):
TTTAAGGTTAAGGG
Found at i:33407587 original size:22 final size:22
Alignment explanation
Indices: 33406857--33407543 Score: 675
Period size: 22 Copynumber: 31.7 Consensus size: 22
33406847 TCAAATTATA
* *
33406857 TTTAAGTTAAGGG-CTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
33406878 TTTAAGTTAAGTG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
33406899 TTTTATTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
33406920 TTAAAGTTAAGGGTTTA--GTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * ***
33406940 TTTTATTTAAGGG-TTACATTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
33406961 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
33406983 TTAAAGTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
33407004 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
33407026 TTTAAGTTAATGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
33407047 TTTAAGTTAAGGGCTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
33407069 TTTAATTTAAGGGTTTAGAG-T
1 TTTAAGTTAAGGGTTTAGGGTT
* * **
33407090 TTTAGGGTTTTAGGGTTTAAAGTT
1 TTTA-AG-TTAAGGGTTTAGGGTT
* * *
33407114 TTAAAGATAAGGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
33407136 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
33407158 TTAAAGTTAAGTGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * **
33407180 TTTAATTTAAGGG-TCACAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
33407201 TTTAAGTTAATGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
33407223 TTTATGTTAA-GGATTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* **
33407244 TTTAAGTTAAGAGTTTATTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
33407266 TTTAATTTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
* * * *
33407287 TTTAGGGTTTTAA-TGTTTAAGCTT
1 TTTA-AG--TTAAGGGTTTAGGGTT
33407311 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
33407333 TTAAAGTTAAAGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
33407355 TTAAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
33407377 TTTAATTTAAGGGCTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
33407399 TTTAAATTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
33407420 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
33407442 TTTAAGTTAAAGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
33407464 TTTAAGTTAA-TGTTTATGGAT
1 TTTAAGTTAAGGGTTTAGGGTT
33407485 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
33407507 TTTAATTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
33407529 TTTAAGTTAAGGGTT
1 TTTAAGTTAAGGGTT
33407544 AGAGTTAAGG
Statistics
Matches: 546, Mismatches: 102, Indels: 35
0.80 0.15 0.05
Matches are distributed among these distances:
19 3 0.01
20 13 0.02
21 182 0.33
22 315 0.58
23 20 0.04
24 13 0.02
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.47
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:33408159 original size:17 final size:18
Alignment explanation
Indices: 33408122--33408161 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
33408112 GACTCGGAAA
*
33408122 AGGAAACATATAAAGGTT
1 AGGAAACATATAAAGGCT
*
33408140 AGGATACATA-AAAGGCT
1 AGGAAACATATAAAGGCT
33408157 AGGAA
1 AGGAA
33408162 TCGCACTTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.50, C:0.07, G:0.25, T:0.17
Consensus pattern (18 bp):
AGGAAACATATAAAGGCT
Found at i:33410044 original size:22 final size:22
Alignment explanation
Indices: 33410019--33410075 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 22
33410009 GATTAAATAT
33410019 GAAATTGAGAGAAATTTGGAAG
1 GAAATTGAGAGAAATTTGGAAG
33410041 GAAATTGAGAGAAATTTGGAAG
1 GAAATTGAGAGAAATTTGGAAG
33410063 GAAATTTGAGAGA
1 GAAA-TTGAGAGA
33410076 GGATTAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 26 0.76
23 8 0.24
ACGTcount: A:0.46, C:0.00, G:0.32, T:0.23
Consensus pattern (22 bp):
GAAATTGAGAGAAATTTGGAAG
Found at i:33410046 original size:12 final size:12
Alignment explanation
Indices: 33410029--33410070 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
33410019 GAAATTGAGA
33410029 GAAATTTGGAAG
1 GAAATTTGGAAG
33410041 GAAA-TT-G-AG
1 GAAATTTGGAAG
33410050 AGAAATTTGGAAG
1 -GAAATTTGGAAG
33410063 GAAATTTG
1 GAAATTTG
33410071 AGAGAGGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
9 2 0.08
10 5 0.19
11 4 0.15
12 13 0.50
13 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.26
Consensus pattern (12 bp):
GAAATTTGGAAG
Found at i:33429366 original size:13 final size:13
Alignment explanation
Indices: 33429350--33429374 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33429340 TTCTACACGA
33429350 GCTGGCCACACAG
1 GCTGGCCACACAG
33429363 GCTGGCCACACA
1 GCTGGCCACACA
33429375 CCCATGTGCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.40, G:0.28, T:0.08
Consensus pattern (13 bp):
GCTGGCCACACAG
Found at i:33431336 original size:21 final size:21
Alignment explanation
Indices: 33431312--33431351 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
33431302 ATATGCGCCT
33431312 ATATAA-ATAAATATAATAATA
1 ATATAACATAAA-ATAATAATA
*
33431333 ATATAACATATAATAATAA
1 ATATAACATAAAATAATAA
33431352 ACTAATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
ATATAACATAAAATAATAATA
Found at i:33431359 original size:21 final size:19
Alignment explanation
Indices: 33431317--33431406 Score: 64
Period size: 18 Copynumber: 4.8 Consensus size: 19
33431307 CGCCTATATA
33431317 AATAA-ATATAATAATAAT
1 AATAACATATAATAATAAT
33431335 -ATAACATATAATAATAAACT
1 AATAACATATAATAAT-AA-T
* *
33431355 AATAACA-AT-ACAGTAAT
1 AATAACATATAATAATAAT
* *
33431372 AATAACGTA-AATAAACAAT
1 AATAACATATAAT-AATAAT
*
33431391 ATTAACAATATAATAA
1 AATAAC-ATATAATAA
33431407 AAACTAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
17 11 0.20
18 14 0.25
19 14 0.25
20 7 0.13
21 9 0.16
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.28
Consensus pattern (19 bp):
AATAACATATAATAATAAT
Found at i:33437465 original size:2 final size:2
Alignment explanation
Indices: 33437460--33437520 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
33437450 GTGTGTATAA
33437460 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
33437502 AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG A
33437521 CTTTATTAGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33438323 original size:23 final size:23
Alignment explanation
Indices: 33438297--33438348 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
33438287 TAATGCGATT
*
33438297 CATTCTGACA-CTTCGGTGTGATC
1 CATTCTGACATCTT-GGTGGGATC
* *
33438320 CATTCTGGCATCTTGGTGGGATT
1 CATTCTGACATCTTGGTGGGATC
33438343 CATTCT
1 CATTCT
33438349 ATGGAGTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (23 bp):
CATTCTGACATCTTGGTGGGATC
Found at i:33439035 original size:117 final size:117
Alignment explanation
Indices: 33438874--33439107 Score: 405
Period size: 117 Copynumber: 2.0 Consensus size: 117
33438864 ATGTGCTTAC
* * *
33438874 CTTGATAGGTCATATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTTTTAGTGACGTT
1 CTTGATAGGTCACATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTCTTAATGACGTT
*
33438939 TTGAACATGGCTTAGATGTTTTGGATGATTTTAGTATTACATATCGTATGGT
66 TTGAACATGGCTTAGATGTTTTGGATGATTTTAGTAGTACATATCGTATGGT
*
33438991 CTTGATAGGTTACATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTCTTAATGACGTT
1 CTTGATAGGTCACATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTCTTAATGACGTT
* *
33439056 TTGAACATGTCTTGGATGTTTTGGATGATTTTAGTAGTACATATCGTATGGT
66 TTGAACATGGCTTAGATGTTTTGGATGATTTTAGTAGTACATATCGTATGGT
33439108 TAATGACTAA
Statistics
Matches: 110, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 110 1.00
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (117 bp):
CTTGATAGGTCACATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTCTTAATGACGTT
TTGAACATGGCTTAGATGTTTTGGATGATTTTAGTAGTACATATCGTATGGT
Found at i:33440226 original size:51 final size:51
Alignment explanation
Indices: 33440171--33440268 Score: 160
Period size: 51 Copynumber: 1.9 Consensus size: 51
33440161 ACATTGTCTA
* *
33440171 ATCATGTTTATGTTATAGTTCTAAGCGTATGGGAATCATTATTATTGTTTG
1 ATCATGTTTATGTTATAGTTCTAAACGTATGGGAATCATTATGATTGTTTG
* *
33440222 ATCATGTTTATGTTATAGTTCTAAATGTATGGGAATTATTATGATTG
1 ATCATGTTTATGTTATAGTTCTAAACGTATGGGAATCATTATGATTG
33440269 AATGCTAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.28, C:0.06, G:0.19, T:0.47
Consensus pattern (51 bp):
ATCATGTTTATGTTATAGTTCTAAACGTATGGGAATCATTATGATTGTTTG
Found at i:33442555 original size:12 final size:12
Alignment explanation
Indices: 33442538--33442562 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33442528 GATGAAGTTA
33442538 ATTGTTAATATT
1 ATTGTTAATATT
33442550 ATTGTTAATATT
1 ATTGTTAATATT
33442562 A
1 A
33442563 GTAGTTGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (12 bp):
ATTGTTAATATT
Found at i:33442997 original size:17 final size:18
Alignment explanation
Indices: 33442966--33443001 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
33442956 TTTGGTTATA
33442966 TTTATTTTTCAATATGTT
1 TTTATTTTTCAATATGTT
*
33442984 TTTATTTTT-GATATGTT
1 TTTATTTTTCAATATGTT
33443001 T
1 T
33443002 CATTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.19, C:0.03, G:0.08, T:0.69
Consensus pattern (18 bp):
TTTATTTTTCAATATGTT
Found at i:33443300 original size:17 final size:17
Alignment explanation
Indices: 33443278--33443314 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
33443268 TTGCAAAGAA
33443278 TATGGAGTTTTAGATTT
1 TATGGAGTTTTAGATTT
33443295 TATGGAGTTTTAGATTT
1 TATGGAGTTTTAGATTT
33443312 TAT
1 TAT
33443315 TTAAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.54
Consensus pattern (17 bp):
TATGGAGTTTTAGATTT
Found at i:33445035 original size:58 final size:57
Alignment explanation
Indices: 33444964--33445134 Score: 153
Period size: 58 Copynumber: 3.1 Consensus size: 57
33444954 TTATAATTAT
** *
33444964 TTTTATTGTATTATATATTATGATTT-TTTAATTCATA-TAATAATAATTATATTAAGAA
1 TTTTATTAAATTATATATTAT--TTTATTAAATT-ATATTAATAATAATTATATTAAGAA
*
33445022 TTTTATTAAATTATATATTATTTTATTAAATTATATTTAATAATAATTATGTTAA-AA
1 TTTTATTAAATTATATATTATTTTATTAAATTATA-TTAATAATAATTATATTAAGAA
* ** *
33445079 TATGGTTAAA-T-TAT-TT-TTTTATTAAATTATTTTTAATAATAATCT-TATTAA-AA
1 TTTTATTAAATTATATATTATTTTATTAAATTA-TATTAATAATAAT-TATATTAAGAA
33445132 TTT
1 TTT
33445135 AATAATAATA
Statistics
Matches: 98, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
53 33 0.34
54 4 0.04
55 3 0.03
56 7 0.07
57 15 0.15
58 36 0.37
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (57 bp):
TTTTATTAAATTATATATTATTTTATTAAATTATATTAATAATAATTATATTAAGAA
Found at i:33445126 original size:26 final size:25
Alignment explanation
Indices: 33445043--33445130 Score: 68
Period size: 26 Copynumber: 3.4 Consensus size: 25
33445033 TATATATTAT
33445043 TTTATTAAATTATATTTAATAATAA
1 TTTATTAAATTATATTTAATAATAA
* * * * * **
33445068 TTATGTTAAAATATGGTTAAATTATTTT
1 TT-TATTAAATTAT-ATTTAA-TAATAA
*
33445096 TTTATTAAATTATTTTTAATAATAA
1 TTTATTAAATTATATTTAATAATAA
33445121 TCTTATTAAA
1 T-TTATTAAA
33445131 ATTTAATAAT
Statistics
Matches: 45, Mismatches: 14, Indels: 7
0.68 0.21 0.11
Matches are distributed among these distances:
25 6 0.13
26 21 0.47
27 13 0.29
28 5 0.11
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (25 bp):
TTTATTAAATTATATTTAATAATAA
Found at i:33445279 original size:44 final size:46
Alignment explanation
Indices: 33445229--33445315 Score: 119
Period size: 46 Copynumber: 1.9 Consensus size: 46
33445219 AACATCTCCG
33445229 TTCAACCAAACACA-AGAA-TACT-ATTACAG-TTCTATTCCATTCCA
1 TTCAACCAAACA-ATAGAATTACTGATTACAGCTT-TATTCCATTCCA
*
33445273 TTCAACCAAACAATTGAATTACTGATTACAGCTTTATTCCATT
1 TTCAACCAAACAATAGAATTACTGATTACAGCTTTATTCCATT
33445316 ACAACTCTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
43 1 0.03
44 15 0.39
45 4 0.11
46 16 0.42
47 2 0.05
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (46 bp):
TTCAACCAAACAATAGAATTACTGATTACAGCTTTATTCCATTCCA
Found at i:33445318 original size:16 final size:16
Alignment explanation
Indices: 33445297--33445350 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
33445287 TGAATTACTG
* *
33445297 ATTACAGCTTTATTCC
1 ATTACAACTCTATTCC
**
33445313 ATTACAACTCTATTAA
1 ATTACAACTCTATTCC
33445329 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
33445345 ATTACA
1 ATTACA
33445351 GTGAATCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.39
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:33446100 original size:24 final size:24
Alignment explanation
Indices: 33446055--33446101 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
33446045 TAACCTCAGT
* ** *
33446055 TTTTCTGAAAAATTAAACTAAAAG
1 TTTTATGAAAAACAAAAATAAAAG
33446079 TTTTATGAAAAACAAAAATAAAA
1 TTTTATGAAAAACAAAAATAAAA
33446102 TAAAGGATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.30
Consensus pattern (24 bp):
TTTTATGAAAAACAAAAATAAAAG
Found at i:33461963 original size:20 final size:21
Alignment explanation
Indices: 33461929--33461967 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
33461919 ACTCTATTTG
33461929 ATATTTTTATAAAATTTAATA
1 ATATTTTTATAAAATTTAATA
*
33461950 ATATTTTTA-CAAATTTAA
1 ATATTTTTATAAAATTTAA
33461968 AAAAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTTTTATAAAATTTAATA
Found at i:33463019 original size:20 final size:20
Alignment explanation
Indices: 33462996--33463042 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
33462986 TTATTTTTAC
*
33462996 TTTTTTATTAACTTTTGTCT
1 TTTTTTATAAACTTTTGTCT
* *
33463016 TTTTCTT-TAAATTTTTTTCT
1 TTTT-TTATAAACTTTTGTCT
33463036 TTTTTTA
1 TTTTTTA
33463043 AGTTTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
19 2 0.09
20 18 0.82
21 2 0.09
ACGTcount: A:0.15, C:0.09, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTTTTATAAACTTTTGTCT
Found at i:33463057 original size:9 final size:8
Alignment explanation
Indices: 33463026--33463095 Score: 59
Period size: 8 Copynumber: 8.4 Consensus size: 8
33463016 TTTTCTTTAA
33463026 ATTTTTTT
1 ATTTTTTT
*
33463034 CTTTTTTT
1 ATTTTTTT
* *
33463042 AAGTTTTAT
1 -ATTTTTTT
33463051 ATTTTTTT
1 ATTTTTTT
* *
33463059 CTTATTTT
1 ATTTTTTT
33463067 ATTTTGTTT
1 ATTTT-TTT
*
33463076 ATTTATTT
1 ATTTTTTT
33463084 ATTTTATTT
1 ATTTT-TTT
33463093 ATT
1 ATT
33463096 GTTATTAATT
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
8 29 0.62
9 18 0.38
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (8 bp):
ATTTTTTT
Found at i:33463193 original size:32 final size:33
Alignment explanation
Indices: 33463147--33463217 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 33
33463137 TTTATAATAT
33463147 ATATCTTTTAAAATTTTAAATACTA-TTTTTAAA
1 ATAT-TTTTAAAATTTTAAATACTATTTTTTAAA
* * *
33463180 TTATTTTTAAAATTTTGAATATTATTTTTTAAA
1 ATATTTTTAAAATTTTAAATACTATTTTTTAAA
33463213 ATATT
1 ATATT
33463218 AAATATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 18 0.55
33 15 0.45
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.56
Consensus pattern (33 bp):
ATATTTTTAAAATTTTAAATACTATTTTTTAAA
Found at i:33463205 original size:21 final size:21
Alignment explanation
Indices: 33463171--33463247 Score: 75
Period size: 22 Copynumber: 3.6 Consensus size: 21
33463161 TTTAAATACT
*
33463171 ATTTTTAA-ATTATTTTTAAA
1 ATTTTAAATATTATTTTTAAA
*
33463191 ATTTTGAATATTATTTTTTAAA
1 ATTTTAAATATTA-TTTTTAAA
*
33463213 ATATTAAATATATATTTTTAATA
1 ATTTTAAATAT-TATTTTTAA-A
* *
33463236 ATATAAAATATT
1 ATTTTAAATATT
33463248 TAAATATTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.14
21 4 0.08
22 25 0.51
23 13 0.27
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (21 bp):
ATTTTAAATATTATTTTTAAA
Found at i:33463232 original size:22 final size:21
Alignment explanation
Indices: 33463179--33463247 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 21
33463169 CTATTTTTAA
* *
33463179 ATTATTTTTAAAATTTTGAAT
1 ATTATTTTTAAAATATTAAAT
33463200 ATTATTTTTTAAAATATTAAAT
1 ATTA-TTTTTAAAATATTAAAT
*
33463222 ATATATTTTTAATAATATAAAAT
1 AT-TATTTTTAA-AATATTAAAT
33463245 ATT
1 ATT
33463248 TAAATATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 4 0.10
22 25 0.60
23 13 0.31
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (21 bp):
ATTATTTTTAAAATATTAAAT
Found at i:33463304 original size:17 final size:19
Alignment explanation
Indices: 33463279--33463315 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
33463269 CTTTCAAATT
33463279 TATTATTAAT-TT-TTTAA
1 TATTATTAATATTATTTAA
*
33463296 TATTTTTAATATTATTTAA
1 TATTATTAATATTATTTAA
33463315 T
1 T
33463316 TTGTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTATTAATATTATTTAA
Found at i:33463327 original size:22 final size:23
Alignment explanation
Indices: 33463297--33463355 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
33463287 ATTTTTTAAT
33463297 ATTTTTAATATTATTTAATT-TG
1 ATTTTTAATATTATTTAATTATG
*
33463319 -TTTTATAATATT-TTAAATTATG
1 ATTTT-TAATATTATTTAATTATG
33463341 ATTTTTAA-ATTATTT
1 ATTTTTAATATTATTT
33463356 TTAAAGATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
21 13 0.42
22 14 0.45
23 4 0.13
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (23 bp):
ATTTTTAATATTATTTAATTATG
Found at i:33463646 original size:18 final size:18
Alignment explanation
Indices: 33463632--33463671 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33463622 TAAAAAATAA
33463632 AAATATTTGTTAAAAAAG
1 AAATATTTGTTAAAAAAG
** *
33463650 ATTTATTTGTTAAAAAAT
1 AAATATTTGTTAAAAAAG
33463668 AAAT
1 AAAT
33463672 TTATTTAAAT
Statistics
Matches: 17, Mismatches: 5, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (18 bp):
AAATATTTGTTAAAAAAG
Found at i:33463673 original size:20 final size:20
Alignment explanation
Indices: 33463621--33463677 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
33463611 TTTGAATTAA
**
33463621 TTAAAAAATAAAAATATTTG
1 TTAAAAAATAAATTTATTTG
*
33463641 TT-AAAAA-AGATTTATTTG
1 TTAAAAAATAAATTTATTTG
33463659 TTAAAAAATAAATTTATTT
1 TTAAAAAATAAATTTATTT
33463678 AAATATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 10 0.32
19 10 0.32
20 11 0.35
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
TTAAAAAATAAATTTATTTG
Found at i:33463731 original size:20 final size:20
Alignment explanation
Indices: 33463676--33463731 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
33463666 ATAAATTTAT
*
33463676 TTAAATATATATATTAAAAAG
1 TTAAAAATATATATT-AAAAG
* *
33463697 -TAAAAATTTAAATTAAAAG
1 TTAAAAATATATATTAAAAG
33463716 TTAAAAATATATATTA
1 TTAAAAATATATATTA
33463732 TAAGATCACA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 5 0.17
20 24 0.83
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (20 bp):
TTAAAAATATATATTAAAAG
Found at i:33464212 original size:40 final size:41
Alignment explanation
Indices: 33464168--33464252 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 41
33464158 GTGTTGGTTA
* *
33464168 TAATTTTTTAATTTTAGTACACATTTATAATTTTATATA-T
1 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
* *
33464208 TAATTTTTTAATTTTAGTACACGTTCATAAATTTATGTACT
1 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
33464249 TAAT
1 TAAT
33464253 ATATATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 35 0.88
41 5 0.12
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (41 bp):
TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
Found at i:33464263 original size:40 final size:40
Alignment explanation
Indices: 33464176--33464263 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
33464166 TATAATTTTT
* * * *
33464176 TAATTTTAGTACACATTTATAATTTTATATATTAATTTTT
1 TAATTTTAGTACACATTCATAAATTTATATATTAATTATA
* *
33464216 TAATTTTAGTACACGTTCATAAATTTATGTACTTAA-TATA
1 TAATTTTAGTACACATTCATAAATTTATATA-TTAATTATA
*
33464256 TATTTTTA
1 TAATTTTA
33464264 ATAGATAAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 36 0.90
41 4 0.10
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (40 bp):
TAATTTTAGTACACATTCATAAATTTATATATTAATTATA
Found at i:33464401 original size:71 final size:71
Alignment explanation
Indices: 33464315--33464463 Score: 237
Period size: 71 Copynumber: 2.1 Consensus size: 71
33464305 GTTTAAAAAC
* * * *
33464315 TTAAAGAAATTAAATATATTAAAAAATGTTATGTATAGCCAATTTTAAAACTT-TAATATATTTA
1 TTAAA-AAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAA-TTATAATATATTCA
33464379 ATATATTT
64 ATATATTT
33464387 TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAAT
1 TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAAT
33464452 ATATTT
66 ATATTT
33464458 TTAAAA
1 TTAAAA
33464464 TATATATTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
70 2 0.03
71 65 0.90
72 5 0.07
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (71 bp):
TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAAT
ATATTT
Found at i:33464470 original size:15 final size:14
Alignment explanation
Indices: 33464449--33464478 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33464439 TAATATATTC
33464449 AATATAT-TTTTAA
1 AATATATATTTTAA
33464462 AATATATATTTTAA
1 AATATATATTTTAA
33464476 AAT
1 AAT
33464479 GTTAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATATATATTTTAA
Found at i:33467376 original size:12 final size:13
Alignment explanation
Indices: 33467322--33467376 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 13
33467312 AAATGTTTGA
33467322 ATATCTTTAAAATT
1 ATAT-TTTAAAATT
33467336 A-ATTTTAAAATT
1 ATATTTTAAAATT
33467348 AATAATTTATAAAAATT
1 -AT-ATTT-T-AAAATT
33467365 ATA-TTTAAAATT
1 ATATTTTAAAATT
33467377 TAAAATATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
12 15 0.42
13 4 0.11
14 3 0.08
15 5 0.14
16 3 0.08
17 6 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATTTTAAAATT
Found at i:33467387 original size:29 final size:29
Alignment explanation
Indices: 33467330--33467387 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
33467320 GAATATCTTT
*
33467330 AAAATTAATTTTAAAATTAATAATTTATA
1 AAAATTAATTTTAAAATTAATAATATATA
33467359 AAAATT-ATATTTAAAATTTAA-AATATATA
1 AAAATTAAT-TTTAAAA-TTAATAATATATA
33467388 TTTAAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 2 0.08
29 20 0.77
30 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
AAAATTAATTTTAAAATTAATAATATATA
Found at i:33467553 original size:57 final size:56
Alignment explanation
Indices: 33467375--33467557 Score: 171
Period size: 57 Copynumber: 3.2 Consensus size: 56
33467365 ATATTTAAAA
*
33467375 TTTAAAATATATATTTAAAATATTATAAAACAAATAATAAATTTGAAAAGTCATATC
1 TTTAAAATATATATTTAAAATATTATAAAACTAATAATAAATTTG-AAAGTCATATC
* * *
33467432 TTTAAAAATAATATATTTTAAATAATT-TAAAAATCATAATTAAAAAAATTAT-AAA-ACA-A--
1 TTT-AAAAT-ATATATTTAAAAT-ATTAT-AAAA-C-TAA-T-AATAAATT-TGAAAGTCATATC
* *
33467491 ATTAAAATATACATTTAAAATATTATAAAACTAATAATAAATTTGAAAGGTCATATC
1 TTTAAAATATATATTTAAAATATTATAAAACTAATAATAAATTTGAAA-GTCATATC
33467548 TTTAAAATAT
1 TTTAAAATAT
33467558 TTAAATGTTT
Statistics
Matches: 100, Mismatches: 10, Indels: 32
0.70 0.07 0.23
Matches are distributed among these distances:
51 1 0.01
52 10 0.10
53 1 0.01
54 5 0.05
55 2 0.02
56 7 0.07
57 24 0.24
58 10 0.10
59 15 0.15
60 7 0.07
61 2 0.02
62 4 0.04
63 4 0.04
64 7 0.07
65 1 0.01
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.37
Consensus pattern (56 bp):
TTTAAAATATATATTTAAAATATTATAAAACTAATAATAAATTTGAAAGTCATATC
Found at i:33467594 original size:18 final size:21
Alignment explanation
Indices: 33467577--33467625 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
33467567 TTATATTATT
33467577 AAAAAT-ATATTTAATATTTA
1 AAAAATAATATTTAATATTTA
*
33467597 AAAAATAATATTTAAATTTTTTA
1 AAAAATAATATTT-AA-TATTTA
33467620 AAAAAT
1 AAAAAT
33467626 TAAAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 6 0.24
21 6 0.24
22 2 0.08
23 11 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AAAAATAATATTTAATATTTA
Found at i:33467619 original size:23 final size:20
Alignment explanation
Indices: 33467577--33467670 Score: 66
Period size: 20 Copynumber: 4.5 Consensus size: 20
33467567 TTATATTATT
33467577 AAAAATATATTTAATATTTA
1 AAAAATATATTTAATATTTA
*
33467597 AAAAATAATATTTAAATTTTTTA
1 AAAAAT-ATATTT-AA-TATTTA
**
33467620 AAAAAT-TA-AAAATAATTTCA
1 AAAAATATATTTAAT-ATTT-A
* * *
33467640 AATATATATATTTAAAATTAA
1 AA-AAATATATTTAATATTTA
33467661 AAAAATATAT
1 AAAAATATAT
33467671 ATTATAAAAC
Statistics
Matches: 56, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
18 1 0.02
19 5 0.09
20 16 0.29
21 14 0.25
22 7 0.12
23 13 0.23
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATATATTTAATATTTA
Found at i:33467658 original size:22 final size:24
Alignment explanation
Indices: 33467624--33467692 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 24
33467614 TTTTTAAAAA
*
33467624 ATTAAAAATAATTTCAAATATATAT
1 ATTATAAA-AATTTCAAATATATAT
** *
33467649 ATT-T-AAAATTAAAAAAATATAT
1 ATTATAAAAATTTCAAATATATAT
33467671 ATTATAAAACATTTCAAATATA
1 ATTATAAAA-ATTTCAAATATA
33467693 CATTTCAAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
22 16 0.47
23 3 0.09
24 3 0.09
25 12 0.35
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (24 bp):
ATTATAAAAATTTCAAATATATAT
Found at i:33467734 original size:22 final size:21
Alignment explanation
Indices: 33467708--33467773 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 21
33467698 CAAGTTTTTT
33467708 AAAATTAATAATAAAATAAATA
1 AAAATTAA-AATAAAATAAATA
*
33467730 AAAA-T-AAAT-CAATAAATA
1 AAAATTAAAATAAAATAAATA
33467748 AAAATTAAGACA-AAAATAAA-A
1 AAAATTAA-A-ATAAAATAAATA
33467769 AAAAT
1 AAAAT
33467774 GTCAGAGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
18 12 0.32
19 4 0.11
20 2 0.05
21 8 0.22
22 11 0.30
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAATTAAAATAAAATAAATA
Found at i:33467743 original size:18 final size:18
Alignment explanation
Indices: 33467722--33467773 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
33467712 TTAATAATAA
33467722 AATAAATAAAAATAAATC
1 AATAAATAAAAATAAATC
33467740 AATAAATAAAAATTAAGA-C
1 AATAAATAAAAA-TAA-ATC
33467759 AA-AAATAAAAA-AAAT
1 AATAAATAAAAATAAAT
33467774 GTCAGAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.03
16 2 0.06
18 21 0.68
19 6 0.19
20 1 0.03
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (18 bp):
AATAAATAAAAATAAATC
Found at i:33467957 original size:9 final size:9
Alignment explanation
Indices: 33467930--33467974 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
33467920 TCAAATTTTT
*
33467930 TAAAATTAA
1 TAAAATAAA
33467939 TAACAATAAA
1 TAA-AATAAA
33467949 TAAAATAAA
1 TAAAATAAA
33467958 T-AAATAAA
1 TAAAATAAA
*
33467966 CAAAATAAA
1 TAAAATAAA
33467975 ATAAGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 7 0.22
9 17 0.53
10 8 0.25
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (9 bp):
TAAAATAAA
Found at i:33468040 original size:20 final size:20
Alignment explanation
Indices: 33467994--33468049 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
33467984 ATATAAAACT
*
33467994 TAAAAAAAGAAAAAAATTTA
1 TAAAAAAAGAAAAAAATTGA
* *
33468014 -AAGAAAAAGACAAAAGTTGA
1 TAA-AAAAAGAAAAAAATTGA
33468034 T-AAAAAAGTAAAAAAA
1 TAAAAAAAG-AAAAAAA
33468050 ATAAAAAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.73, C:0.02, G:0.11, T:0.14
Consensus pattern (20 bp):
TAAAAAAAGAAAAAAATTGA
Found at i:33480588 original size:67 final size:65
Alignment explanation
Indices: 33480480--33480741 Score: 314
Period size: 67 Copynumber: 3.9 Consensus size: 65
33480470 TTCACTTGTC
* * * * *
33480480 TTTTCTTGCAGGGAATATTTCC-GTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCA--CATCATT-TCTTGCAGGGAATCTCTCCTGTTCACA
*
33480544 TCA
63 TTA
* *
33480547 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTCTCCTGTT--CA
33480611 CATTA
61 CATTA
* *
33480616 TTTTGTTGCAGGGAATCTTTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCACGGAT
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCAC--AT
33480681 TA
64 TA
*
33480683 TTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCT-CTGTTCA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCA
33480742 TGTATTATTT
Statistics
Matches: 179, Mismatches: 9, Indels: 15
0.88 0.04 0.07
Matches are distributed among these distances:
65 3 0.02
66 26 0.15
67 113 0.63
68 6 0.03
69 6 0.03
70 25 0.14
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (65 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCACATTA
Found at i:33480595 original size:35 final size:35
Alignment explanation
Indices: 33480480--33480751 Score: 323
Period size: 35 Copynumber: 8.1 Consensus size: 35
33480470 TTCACTTGTC
* *
33480480 TTTTCTTGCAGGGAATATTTCC-GTTCACGCATTA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * * *
33480514 TTCTGTTGCAGGGAATCTTTCCTGTTCA--CATCA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
33480547 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
33480581 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * *
33480616 TTTTGTTGCAGGGAATCTTTCCTGTTCA--CATCA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
*
33480649 -TTTCTTGCAGGGAATCTCTCCTGTTCACGGATTA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
33480683 TTTTGTTGCAGGGAATCTCTCCTGTTCA--CATCA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
33480716 -TTTCTTGCAGGGAATCTCT-CTGTTCATGTATTA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
33480749 TTT
1 TTT
33480752 CTTTTTGGAC
Statistics
Matches: 206, Mismatches: 22, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
31 7 0.03
32 67 0.33
33 14 0.07
34 28 0.14
35 90 0.44
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.41
Consensus pattern (35 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:33480683 original size:102 final size:102
Alignment explanation
Indices: 33480480--33480741 Score: 408
Period size: 102 Copynumber: 2.6 Consensus size: 102
33480470 TTCACTTGTC
* * * * *
33480480 TTTTCTTGCAGGGAATATTTCC-GTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
33480544 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
66 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
33480581 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
*
33480646 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGGATTA
66 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * *
33480683 TTTTGTTGCAGGGAATCTCTCCTGTT--CACATCA-TTTCTTGCAGGGAATCTCT-CTGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCA
33480742 TGTATTATTT
Statistics
Matches: 151, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
98 7 0.05
99 17 0.11
100 6 0.04
101 19 0.13
102 102 0.68
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (102 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:33483580 original size:21 final size:22
Alignment explanation
Indices: 33483550--33483594 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
33483540 GAGCAAATTG
33483550 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
33483572 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
33483593 TT
1 TT
33483595 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:33503386 original size:31 final size:30
Alignment explanation
Indices: 33503347--33503406 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
33503337 TTTTTTGTCA
* *
33503347 CAAGTGGTACTTAAACTATATTTTATTACT
1 CAAGTGGTACCTAAACTATATTTCATTACT
*
33503377 CAAGATGGTACCTAAACTATGTTTCATTAC
1 CAAG-TGGTACCTAAACTATATTTCATTAC
33503407 CCAAATGACC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (30 bp):
CAAGTGGTACCTAAACTATATTTCATTACT
Found at i:33513793 original size:26 final size:25
Alignment explanation
Indices: 33513736--33513790 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
33513726 ACATACCGCA
*
33513736 GCTCTTTATGAGCTTCTCGATATAAG
1 GCTCTTAATGAGCTTCTCGATAT-AG
*
33513762 GCTCTTAATGAGCTTCTTGATAT-G
1 GCTCTTAATGAGCTTCTCGATATAG
33513786 GCTCT
1 GCTCT
33513791 CTTGAACTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 6 0.22
26 21 0.78
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (25 bp):
GCTCTTAATGAGCTTCTCGATATAG
Found at i:33517442 original size:34 final size:34
Alignment explanation
Indices: 33517399--33517464 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
33517389 TATTGATCAA
*
33517399 AGGGATGATTACAATGCTTTATCAAAGTCTCTAT
1 AGGGATGATTACAATGCTTCATCAAAGTCTCTAT
*
33517433 AGGGATGATTACAGTGCTTCATCAAAGTCTCT
1 AGGGATGATTACAATGCTTCATCAAAGTCTCT
33517465 GTTTATAGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (34 bp):
AGGGATGATTACAATGCTTCATCAAAGTCTCTAT
Found at i:33525795 original size:26 final size:26
Alignment explanation
Indices: 33525766--33525817 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
33525756 TTTAAGAATT
33525766 TTTTAAAAAATATATAAA-TTTTGAAA
1 TTTTAAAAAAT-TATAAATTTTTGAAA
* * *
33525792 TTTTTATAAATTTTAAATTTTTGAAA
1 TTTTAAAAAATTATAAATTTTTGAAA
33525818 GTTATTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (26 bp):
TTTTAAAAAATTATAAATTTTTGAAA
Found at i:33525811 original size:17 final size:18
Alignment explanation
Indices: 33525778--33525813 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
33525768 TTAAAAAATA
33525778 TATAAATTTTGAAATTTT
1 TATAAATTTTGAAATTTT
33525796 TATAAATTTT-AAATTTT
1 TATAAATTTTGAAATTTT
33525813 T
1 T
33525814 GAAAGTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TATAAATTTTGAAATTTT
Found at i:33527048 original size:18 final size:18
Alignment explanation
Indices: 33527010--33527045 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33527000 TTATTATTTT
*
33527010 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
33527028 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
33527046 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:33527057 original size:31 final size:29
Alignment explanation
Indices: 33527020--33527085 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
33527010 TAAAATTTAC
33527020 TATTAAAATAAAATTTAA-ATATTAAATAATT
1 TATTAAAA-AAAA-TTAATATATT-AATAATT
*
33527051 TATTAAAAACAATTAATTATATTAATAATT
1 TATTAAAAAAAATTAA-TATATTAATAATT
33527081 TATTA
1 TATTA
33527086 TATGACTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
29 4 0.12
30 15 0.47
31 13 0.41
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (29 bp):
TATTAAAAAAAATTAATATATTAATAATT
Found at i:33531713 original size:29 final size:29
Alignment explanation
Indices: 33531640--33531714 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 29
33531630 GGAGAACTGG
* * *
33531640 CCCGTGTGGCTTCACACGATCTGGCACACG
1 CCCGTGTGTC-TCACACGATCTGACACACA
* * * * *
33531670 TCCGTATATCCCACACGGTCTGACACACA
1 CCCGTGTGTCTCACACGATCTGACACACA
33531699 CCCGTGTGTCTCACAC
1 CCCGTGTGTCTCACAC
33531715 ACCCATGTCA
Statistics
Matches: 33, Mismatches: 12, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
29 27 0.82
30 6 0.18
ACGTcount: A:0.20, C:0.39, G:0.20, T:0.21
Consensus pattern (29 bp):
CCCGTGTGTCTCACACGATCTGACACACA
Found at i:33535275 original size:98 final size:94
Alignment explanation
Indices: 33535104--33535314 Score: 262
Period size: 98 Copynumber: 2.2 Consensus size: 94
33535094 AATCTACAAC
33535104 ACTGGTGGTTCATCCATAAATTACTAACTTTTATCTACAAATATGTTGTGCATCCACAACAAGTG
1 ACTGGTGGTTCATCCATAAATTACTAACTTTTATCTACAAATATGTTGTGCATCCACAACAAGTG
** * *
33535169 GCAACTTGTCTGTGAACTATTTTTTTAAAT
66 GCAACTTGTCTGCAAACT-GTTTTTAAAAT
* ** * *
33535199 ATTGGTGGTTCATCCATAAATTACTGGTTGCTTTTATCTGCAGATATGTTGTGCA-CCTACAACA
1 ACTGGTGGTTCATCCATAAATTAC---TAACTTTTATCTACAAATATGTTGTGCATCC-ACAACA
*
33535263 AGTGGCAGCTTGTCTGCAAACTGTTTTTAAAAT
62 AGTGGCAACTTGTCTGCAAACTGTTTTTAAAAT
* *
33535296 ACTGGTTGTTTATCCATAA
1 ACTGGTGGTTCATCCATAA
33535315 TTTTGACTAC
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
95 23 0.23
97 27 0.27
98 49 0.49
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.38
Consensus pattern (94 bp):
ACTGGTGGTTCATCCATAAATTACTAACTTTTATCTACAAATATGTTGTGCATCCACAACAAGTG
GCAACTTGTCTGCAAACTGTTTTTAAAAT
Found at i:33542294 original size:6 final size:6
Alignment explanation
Indices: 33542283--33542315 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
33542273 GAAAATTTTG
33542283 ATAATT ATAATT ATAATT ATAAATT ATAATT AT
1 ATAATT ATAATT ATAATT AT-AATT ATAATT AT
33542316 TAGTTAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:33542309 original size:13 final size:12
Alignment explanation
Indices: 33542283--33542315 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
33542273 GAAAATTTTG
33542283 ATAATTATAATT
1 ATAATTATAATT
33542295 ATAATTATAAATT
1 ATAATTAT-AATT
33542308 ATAATTAT
1 ATAATTAT
33542316 TAGTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATAATTATAATT
Found at i:33551397 original size:435 final size:435
Alignment explanation
Indices: 33550586--33551451 Score: 1471
Period size: 435 Copynumber: 2.0 Consensus size: 435
33550576 TTTGCCATTG
* * *
33550586 AAGTATATGAAGGCGGTGAGGAGGAGTAAGAAGAGTATAAACAGGGCAAAGACAACGCATTTAAG
1 AAGTATATGAAGGCAGTGAGAAGGAGTAAGAAGAATATAAACAGGGCAAAGACAACGCATTTAAG
* *
33550651 CTCCAAGGGGAAGGGGATTGCTATGGTGTGACAAAATGCAGCAGCAGCTACAAGGACCCCAACTT
66 CTCCAAGGGGAAGGGGATTGCTATGGCGTAACAAAATGCAGCAGCAGCTACAAGGACCCCAACTT
* * *
33550716 TTTCTAATGTTTCTGAAGTTTGGGTAGAAATTGGTTTGATAAACAAAGCCAGTAAGAAAAGATTG
131 TTTCTAACGTTTCTGAAGTTTGGGTAGAAACTGGTTTGATAAACAAAGCCAATAAGAAAAGATTG
*
33550781 AAAGTAAGTAGGACGAGAAAGGAAAGCACAATCAAAGAAACATTGGATTGATTTTGATCGGTTTG
196 AAAGTAAGTAGGACGAGAAAGGAAAGCACAACCAAAGAAACATTGGATTGATTTTGATCGGTTTG
* * * *
33550846 GGCGTATTGGAATTGGAGCATGATAATGGGATACGAAAAACAAAATGACAGGACTGCGTTTATCC
261 GACGAATTGGAATTGGAGCACGATAATGGGATACGAAAAACAAAATGACAGGACTGCGCTTATCC
* *
33550911 ATTGCAGATGCTGCTGAGCTGCTGCAAGTTTCCGATGGGAGGGAGTTGGTGGCAGCGGTTGTTGT
326 ATTGCAGATGCTGCTGAGCTGCTGCAAGTTTCCGATGGGAGGGAATTGGTGGCAGCGATTGTTGT
*
33550976 TGGGGAAGCGGCGGTGTATGTGGTGGTGGTGATTGAAAGTCAACA
391 TGGGGAAGCGGCGGTGTATGTGGTGGCGGTGATTGAAAGTCAACA
*
33551021 AAGTATATGAAGGCAGTGAGAAGGAGTAAGAAGAATATAAACATGGCAAAGACAACGCATTTAAG
1 AAGTATATGAAGGCAGTGAGAAGGAGTAAGAAGAATATAAACAGGGCAAAGACAACGCATTTAAG
* *
33551086 CTCCAAGGGGAAGGGGATTGCTATGGCGTAACAAATTGCAGCAGCAGCTACAAGGACTCCAACTT
66 CTCCAAGGGGAAGGGGATTGCTATGGCGTAACAAAATGCAGCAGCAGCTACAAGGACCCCAACTT
*
33551151 TTTCTAACGTTTCTGAAGTTTGGGTAGAAACTGGTTTGATAAACAAAGCCAATAAGAAAAGTTTG
131 TTTCTAACGTTTCTGAAGTTTGGGTAGAAACTGGTTTGATAAACAAAGCCAATAAGAAAAGATTG
* *
33551216 AAAGTAAGTAGGATGAGAAAGGAAAGCACAACCAAAGAAACATTGGGTTGATTTTGATCGGTTTG
196 AAAGTAAGTAGGACGAGAAAGGAAAGCACAACCAAAGAAACATTGGATTGATTTTGATCGGTTTG
* * * *
33551281 GACGAATTGGAATTGGAGCACGGTCATGGGATACGAAAAACAAAATGAGAGGACTGCGCTTCTCC
261 GACGAATTGGAATTGGAGCACGATAATGGGATACGAAAAACAAAATGACAGGACTGCGCTTATCC
* * *
33551346 ATTGTAGATGCTGCTGAGCTGTTGCAAGTTTCTGATGGGAGGGAATTGGTGGCAGCGATTGTTGT
326 ATTGCAGATGCTGCTGAGCTGCTGCAAGTTTCCGATGGGAGGGAATTGGTGGCAGCGATTGTTGT
33551411 TGGGGAAGCGGCGGTGTATGTGGTGGCGGTGATTGAAAGTC
391 TGGGGAAGCGGCGGTGTATGTGGTGGCGGTGATTGAAAGTC
33551452 GGAGTGATTG
Statistics
Matches: 402, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
435 402 1.00
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.24
Consensus pattern (435 bp):
AAGTATATGAAGGCAGTGAGAAGGAGTAAGAAGAATATAAACAGGGCAAAGACAACGCATTTAAG
CTCCAAGGGGAAGGGGATTGCTATGGCGTAACAAAATGCAGCAGCAGCTACAAGGACCCCAACTT
TTTCTAACGTTTCTGAAGTTTGGGTAGAAACTGGTTTGATAAACAAAGCCAATAAGAAAAGATTG
AAAGTAAGTAGGACGAGAAAGGAAAGCACAACCAAAGAAACATTGGATTGATTTTGATCGGTTTG
GACGAATTGGAATTGGAGCACGATAATGGGATACGAAAAACAAAATGACAGGACTGCGCTTATCC
ATTGCAGATGCTGCTGAGCTGCTGCAAGTTTCCGATGGGAGGGAATTGGTGGCAGCGATTGTTGT
TGGGGAAGCGGCGGTGTATGTGGTGGCGGTGATTGAAAGTCAACA
Found at i:33559421 original size:31 final size:29
Alignment explanation
Indices: 33559380--33559460 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
33559370 AATCTCAAAA
* *
33559380 TTATAGATGAACTTTGGTTTAATGTGTAAAT
1 TTATACATGAACTTTGATTT--TGTGTAAAT
* *
33559411 TTATACATGAATTTTGATTTTGTGTAATT
1 TTATACATGAACTTTGATTTTGTGTAAAT
*
33559440 TTATACATGAAATTCTGATTT
1 TTATACATGAACTT-TGATTT
33559461 GATGCAATTC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
29 21 0.48
30 6 0.14
31 17 0.39
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (29 bp):
TTATACATGAACTTTGATTTTGTGTAAAT
Found at i:33559442 original size:29 final size:30
Alignment explanation
Indices: 33559402--33559460 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
33559392 TTTGGTTTAA
*
33559402 TGTGTAAATTTATACATG-AATTTTGATTT
1 TGTGTAAATTTATACATGAAATTCTGATTT
*
33559431 TGTGTAATTTTATACATGAAATTCTGATTT
1 TGTGTAAATTTATACATGAAATTCTGATTT
33559461 GATGCAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.51
Consensus pattern (30 bp):
TGTGTAAATTTATACATGAAATTCTGATTT
Found at i:33564472 original size:12 final size:12
Alignment explanation
Indices: 33564455--33564480 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33564445 AACATTGGCC
33564455 GGTGATGATGAT
1 GGTGATGATGAT
33564467 GGTGATGATGAT
1 GGTGATGATGAT
33564479 GG
1 GG
33564481 AGGGAGGGAA
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:0.23, C:0.00, G:0.46, T:0.31
Consensus pattern (12 bp):
GGTGATGATGAT
Found at i:33568383 original size:14 final size:14
Alignment explanation
Indices: 33568346--33568383 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
33568336 ATTCCTTAAC
*
33568346 ATAATAATGGTTTT
1 ATAATAATGATTTT
33568360 ATAA-ACATGATTTT
1 ATAATA-ATGATTTT
33568374 ATAATAATGA
1 ATAATAATGA
33568384 GTTGCTTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 1 0.05
14 19 0.90
15 1 0.05
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.42
Consensus pattern (14 bp):
ATAATAATGATTTT
Found at i:33575640 original size:4 final size:4
Alignment explanation
Indices: 33575631--33575721 Score: 53
Period size: 4 Copynumber: 22.8 Consensus size: 4
33575621 ATTAAAATAA
* * * ** *
33575631 AAAT AAAT AAAT GAAT -AAT ATAT AAAT AAAT AAGT AAAT AAGC AATT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* **
33575678 AAAT GAAT AAAAT AAA- AGGAAT -AAT AAAT AAAT ATGT AAAT AAA
1 AAAT AAAT -AAAT AAAT A--AAT AAAT AAAT AAAT AAAT AAAT AAA
33575722 AAAAACTAAA
Statistics
Matches: 65, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
3 7 0.11
4 53 0.82
5 5 0.08
ACGTcount: A:0.66, C:0.01, G:0.08, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:33575661 original size:23 final size:24
Alignment explanation
Indices: 33575612--33575663 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
33575602 CAAATAAAGG
33575612 AATAAAGGAATTAAAATAAAAATA
1 AATAAAGGAATTAAAATAAAAATA
* * *
33575636 AATAAATGAA-TAATATATAAATA
1 AATAAAGGAATTAAAATAAAAATA
33575659 AATAA
1 AATAA
33575664 GTAAATAAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (24 bp):
AATAAAGGAATTAAAATAAAAATA
Found at i:33577803 original size:51 final size:51
Alignment explanation
Indices: 33577723--33577895 Score: 182
Period size: 51 Copynumber: 3.5 Consensus size: 51
33577713 TTCAATCTAC
* * *
33577723 TCCACTGCAACTTCTGGGAGATGAGATTTGTAACTTGTAGCTTTAATTTGT
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATTTGT
* * * *
33577774 TCCACTACAACTTCAGGGAAATAATATTTGT-A----T--CTTCAATTTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATTTGT
* * * **
33577818 TCCACTGCTACTTCACGGAGATAAGATTTGTAACTTGTAGCTTTAATCCGT
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATTTGT
33577869 TCCACTGCAACTTCA-GGAAATAAGATT
1 TCCACTGCAACTTCAGGGAAATAAGATT
33577896 CACTATCTTC
Statistics
Matches: 97, Mismatches: 18, Indels: 15
0.75 0.14 0.12
Matches are distributed among these distances:
44 35 0.36
45 1 0.01
46 1 0.01
49 1 0.01
50 12 0.12
51 47 0.48
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (51 bp):
TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATTTGT
Found at i:33577821 original size:95 final size:95
Alignment explanation
Indices: 33577431--33577937 Score: 483
Period size: 95 Copynumber: 5.3 Consensus size: 95
33577421 TTGTCACTTA
* * * *
33577431 AATCTGCTCCACTACAATTTCAGGGAGATAAGATTTGTAACTTGTAGTTTTCATCTGTTCCACTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
** * * *
33577496 CAACGTTCAGAAAAATAAGATTTGTAACTTT
66 CAAC-TTCAGGGAAATAAGATTCGTATCTTC
* * **
33577527 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTACCTTGTAGCTTTAAAATGTTCCACTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
* * * *
33577592 CAACTTTAGGAAAATAAGATTCGCTATGGTAAATTT
66 CAACTTCAGGGAAATAAGATTCG-TA---T--CTTC
** * * * *
33577628 AATCCAAC-CCACTGCAATTTCA-GG-G---AGATTAG--ACTTGTAGCTTTAATCTGCTCCGCT
1 AAT-CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACT
** * *
33577685 GCAACTTCAGGGCGATGAGACTCGTATCTTC
65 GCAACTTCAGGGAAATAAGATTCGTATCTTC
* * * * *
33577716 AATCTACTCCACTGCAACTTCTGGGAGATGAGATTTGTAACTTGTAGCTTTAATTTGTTCCACTA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
* *
33577781 CAACTTCAGGGAAATAATATTTGTATCTTC
66 CAACTTCAGGGAAATAAGATTCGTATCTTC
* * * *
33577811 AATTTGCTCCACTGCTACTTCACGGAGATAAGATTTGTAACTTGTAGCTTTAATCCGTTCCACTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
*
33577876 CAACTTCA-GGAAATAAGATTCACTATCTTC
66 CAACTTCAGGGAAATAAGATTC-GTATCTTC
** * *
33577906 AATCTATTCCATTGCAACTTCAGGGAAATAAG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAG
33577938 GTTCGCTATC
Statistics
Matches: 332, Mismatches: 63, Indels: 33
0.78 0.15 0.08
Matches are distributed among these distances:
87 3 0.01
88 17 0.05
89 2 0.01
90 2 0.01
93 8 0.02
94 49 0.15
95 158 0.48
96 69 0.21
99 1 0.00
100 2 0.01
101 19 0.06
102 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (95 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
CAACTTCAGGGAAATAAGATTCGTATCTTC
Found at i:33577822 original size:44 final size:44
Alignment explanation
Indices: 33577757--33578062 Score: 182
Period size: 44 Copynumber: 6.7 Consensus size: 44
33577747 GATTTGTAAC
* * * * *
33577757 TTGTAGCTTTAATTTGTTCCACTACAACTTCAGGGAAATAATAT
1 TTGTATCTTCAATTTGCTCCACTGCAACTTCAGGGAAATAAGAT
* * *
33577801 TTGTATCTTCAATTTGCTCCACTGCTACTTCACGGAGATAAGAT
1 TTGTATCTTCAATTTGCTCCACTGCAACTTCAGGGAAATAAGAT
* ** *
33577845 TTGTAACTTGTAGCTTTAATCCGTTCCACTGCAACTTCA-GGAAATAAGAT
1 TTGT-A----T--CTTCAATTTGCTCCACTGCAACTTCAGGGAAATAAGAT
** * ** * *
33577895 TCACTATCTTCAATCTATTCCATTGCAACTTCAGGGAAATAAGGT
1 T-TGTATCTTCAATTTGCTCCACTGCAACTTCAGGGAAATAAGAT
* * * * * * *
33577940 TCGCTATCTTCAATTTTCTCCATTACAACTTCGGGGAGATAAGTT
1 TTG-TATCTTCAATTTGCTCCACTGCAACTTCAGGGAAATAAGAT
* * * * * * *
33577985 TTGTAGCTTCAATCTACTCTACTGCAACTTTAGAGATATAAGAT
1 TTGTATCTTCAATTTGCTCCACTGCAACTTCAGGGAAATAAGAT
* * *
33578029 TTGTTATCTACGATTTGCTTCACTGCAAACTTCA
1 TTG-TATCTTCAATTTGCTCCACTGC-AACTTCA
33578063 ATCCATCCCA
Statistics
Matches: 200, Mismatches: 50, Indels: 22
0.74 0.18 0.08
Matches are distributed among these distances:
44 95 0.47
45 63 0.31
46 7 0.04
49 1 0.00
50 12 0.06
51 22 0.11
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (44 bp):
TTGTATCTTCAATTTGCTCCACTGCAACTTCAGGGAAATAAGAT
Found at i:33577948 original size:45 final size:45
Alignment explanation
Indices: 33577483--33578029 Score: 156
Period size: 44 Copynumber: 11.8 Consensus size: 45
33577473 TGTAGTTTTC
* ** * * *
33577483 ATCTGTTCCACTGCAACGTTCAGAAAAATAAGATTTG-TAACTTTA
1 ATCTATTCCACTGCAAC-TTCAGGGAAATAAGATTCGCTATCTTCA
** * * *
33577528 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTACCTTGTAGCTTTA
1 ATCTATTCCACTGCAACTTCAGGGAAATAAGATTCG---C---TATCTTCA
** * * * * *
33577579 AAATGTTCCACTGCAACTTTAGGAAAATAAGATTCGCTATGGTAAATTTA
1 ATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGCTA---T--CTTCA
* ** * * * * *
33577629 ATCCAACCCACTGCAATTTCAGGGAGATTAGACTT-G-TAGCTTTA
1 ATCTATTCCACTGCAACTTCAGGGAAATAAGA-TTCGCTATCTTCA
** * ** * *
33577673 ATCTGCTCCGCTGCAACTTCAGGGCGATGAGACTCG-TATCTTCA
1 ATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCA
* * * * * * *
33577717 ATCTACTCCACTGCAACTTCTGGGAGATGAGATTTGTAACTTGTAGCTTTA
1 ATCTATTCCACTGCAACTTCAGGGAAATAAGATTCG---C---TATCTTCA
* * * * *
33577768 ATTTGTTCCACTACAACTTCAGGGAAATAATATTTG-TATCTTCA
1 ATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCA
* ** * * * * * *
33577812 ATTTGCTCCACTGCTACTTCACGGAGATAAGATTTGTAACTTGTAGCTTTA
1 ATCTATTCCACTGCAACTTCAGGGAAATAAGATTCG---C---TATCTTCA
** *
33577863 ATCCGTTCCACTGCAACTTCA-GGAAATAAGATTCACTATCTTCA
1 ATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCA
* *
33577907 ATCTATTCCATTGCAACTTCAGGGAAATAAGGTTCGCTATCTTCA
1 ATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCA
* * * * * * * *
33577952 AT-TTTCTCCATTACAACTTCGGGGAGATAAGTTTTG-TAGCTTCA
1 ATCTAT-TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCA
* * * * *
33577996 ATCTACTCTACTGCAACTTTAGAGATATAAGATT
1 ATCTATTCCACTGCAACTTCAGGGAAATAAGATT
33578030 TGTTATCTAC
Statistics
Matches: 376, Mismatches: 95, Indels: 63
0.70 0.18 0.12
Matches are distributed among these distances:
43 1 0.00
44 171 0.45
45 67 0.18
47 1 0.00
48 1 0.00
49 2 0.01
50 37 0.10
51 96 0.26
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (45 bp):
ATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCA
Found at i:33584482 original size:3 final size:3
Alignment explanation
Indices: 33584474--33584509 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
33584464 AGGAAAGGCA
* *
33584474 AAT AAT AAT GAT AGT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33584510 GAGAACAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:33584607 original size:12 final size:11
Alignment explanation
Indices: 33584573--33584627 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
33584563 TTAAATATGT
33584573 ATAAA-AATAA
1 ATAAATAATAA
* *
33584583 AGAAGTAATAA
1 ATAAATAATAA
33584594 ATAAATAGATAA
1 ATAAATA-ATAA
*
33584606 ATAGATAATAA
1 ATAAATAATAA
33584617 A-AAAGTAATAA
1 ATAAA-TAATAA
33584628 TAATACAGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
10 5 0.14
11 21 0.58
12 10 0.28
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (11 bp):
ATAAATAATAA
Found at i:33584762 original size:4 final size:4
Alignment explanation
Indices: 33584753--33584851 Score: 60
Period size: 4 Copynumber: 24.8 Consensus size: 4
33584743 ATTAAAATAA
* * * ** *
33584753 AAAT AAAT AAAT GAAT -AAT ATAT AAAT AAAT AAGT AAAT AAGC AATT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* ** *
33584800 AAAT GAAT AAAAT AAA- AGGAAT -AAT AAAT AAAT ATGT AAAT AAAA AAAT
1 AAAT AAAT -AAAT AAAT A--AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
33584849 AAA
1 AAA
33584852 AGGAAAGAGT
Statistics
Matches: 71, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
3 7 0.10
4 59 0.83
5 5 0.07
ACGTcount: A:0.68, C:0.01, G:0.07, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:33584783 original size:23 final size:24
Alignment explanation
Indices: 33584727--33584785 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
33584717 GCAATAACAA
*
33584727 ATAAATGAATAAAGGAATTAAAAT
1 ATAAATAAATAAAGGAATTAAAAT
* * *
33584751 AAAAATAAATAAATGAA-TAATAT
1 ATAAATAAATAAAGGAATTAAAAT
33584774 ATAAATAAATAA
1 ATAAATAAATAA
33584786 GTAAATAAGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 16 0.53
24 14 0.47
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (24 bp):
ATAAATAAATAAAGGAATTAAAAT
Found at i:33587149 original size:40 final size:40
Alignment explanation
Indices: 33587088--33587202 Score: 119
Period size: 40 Copynumber: 2.9 Consensus size: 40
33587078 TTTAGAACAA
* * *
33587088 AAGCGCCACAAAAAATCGAGCATTAGCGGCGATTTAGCCA-
1 AAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTA-CCAC
** *
33587128 AAGCGCCGCTAAAGGTAGAGCATCAGCGGCGATTT-CCACC
1 AAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTACCA-C
* *
33587168 AAGCGCCGCTAAAAATAG-GAATTAGCGGCGTTTTA
1 AAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTA
33587203 TATAAAGCGC
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
38 3 0.05
39 13 0.21
40 45 0.74
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.17
Consensus pattern (40 bp):
AAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTACCAC
Found at i:33587329 original size:41 final size:41
Alignment explanation
Indices: 33587260--33587454 Score: 196
Period size: 41 Copynumber: 4.8 Consensus size: 41
33587250 TTTTTAAACC
33587260 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATA
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATA
* ** * * * ***
33587301 TTTAGCGGCGTTTGTATCCGAGCACCGCTAATTCTCTGGCC
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATA
* *
33587342 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAAAGCTCGGATA
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATA
* * ***
33587383 TTT-GCGGCGTTTTTATCTGAA-CGCCGCTAATTCTCTGGCC
1 TTTAGCGGCGTTTTTATCT-AAGCGCCGCTAATGCTCAGATA
* * *
33587423 TTTAGTGGCGTTTTTGTCGAAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAAT
33587455 AGTAACAAAA
Statistics
Matches: 123, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
40 33 0.27
41 90 0.73
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.34
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATA
Found at i:33587437 original size:81 final size:82
Alignment explanation
Indices: 33587258--33587453 Score: 304
Period size: 81 Copynumber: 2.4 Consensus size: 82
33587248 GATTTTTAAA
* *
33587258 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATATTTAGCGGCGTTTGTATCCGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAAAGCTCAGATATTTAGCGGCGTTTGTATCCGAA
33587323 CACCGCTAATTCTCTGG
66 CACCGCTAATTCTCTGG
* * *
33587340 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAAAGCTCGGATATTT-GCGGCGTTTTTATCTGAA
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAAAGCTCAGATATTTAGCGGCGTTTGTATCCGAA
*
33587404 CGCCGCTAATTCTCTGG
66 CACCGCTAATTCTCTGG
* * *
33587421 CCTTTAGTGGCGTTTTTGTCGAAGCGCCGCTAA
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAA
33587454 TAGTAACAAA
Statistics
Matches: 105, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
81 61 0.58
82 44 0.42
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (82 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAAAGCTCAGATATTTAGCGGCGTTTGTATCCGAA
CACCGCTAATTCTCTGG
Found at i:33589177 original size:22 final size:22
Alignment explanation
Indices: 33589146--33589198 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
33589136 TACTCTATTA
* *
33589146 GGGTTTGGGA-TATAAGGTTTAG
1 GGGTTAGGGACTA-AAGATTTAG
*
33589168 GGGTTAGGGACTAGAGATTTAG
1 GGGTTAGGGACTAAAGATTTAG
33589190 GGGTTAGGG
1 GGGTTAGGG
33589199 GTTAAAGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 25 0.93
23 2 0.07
ACGTcount: A:0.23, C:0.02, G:0.45, T:0.30
Consensus pattern (22 bp):
GGGTTAGGGACTAAAGATTTAG
Done.