Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 122 of 335
Found at i:36983478 original size:19 final size:19
Alignment explanation
Indices: 36983400--36983478 Score: 72
Period size: 19 Copynumber: 4.1 Consensus size: 19
36983390 TTCCATTTCA
36983400 TTTCATTTTAATTTA-TAT
1 TTTCATTTTAATTTATTAT
*
36983418 TTTCCATTTTAATTAATTTAT
1 TTT-CATTTTAATTTA-TTAT
* *
36983439 TTATCATTTCAGTTT-TTAT
1 TT-TCATTTTAATTTATTAT
* *
36983458 TTTCATTTAAATTTATAAT
1 TTTCATTTTAATTTATTAT
36983477 TT
1 TT
36983479 ATTTTCATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
18 13 0.27
19 22 0.45
21 13 0.27
22 1 0.02
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTCATTTTAATTTATTAT
Found at i:36983523 original size:5 final size:5
Alignment explanation
Indices: 36983513--36983590 Score: 57
Period size: 5 Copynumber: 14.0 Consensus size: 5
36983503 TTTCATAATA
* *
36983513 TCATT TCATT TCATT TCATAT TCATT ACAAATT ACATT TCATT TCATAT
1 TCATT TCATT TCATT TCAT-T TCATT TC--ATT TCATT TCATT TCAT-T
*
36983562 TCATATT TCATT TAACATT TCATT GCATT
1 TC--ATT TCATT T--CATT TCATT TCATT
36983591 AATTTTTTTC
Statistics
Matches: 62, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
5 39 0.63
6 8 0.13
7 13 0.21
8 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.01, T:0.51
Consensus pattern (5 bp):
TCATT
Found at i:36983573 original size:23 final size:24
Alignment explanation
Indices: 36983501--36983584 Score: 73
Period size: 28 Copynumber: 3.3 Consensus size: 24
36983491 ACTTTTATTC
* *
36983501 CATTTCATAAT-ATCATTTCATTT
1 CATTTCATATTCATAATTTCATTT
*
36983524 CATTTCATATTCATTACAAATTACATTT
1 CATTTCATATTCA-T---AATTTCATTT
36983552 CATTTCATATTCAT-ATTTCATTT
1 CATTTCATATTCATAATTTCATTT
36983575 AACATTTCAT
1 --CATTTCAT
36983585 TGCATTAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
23 18 0.36
24 1 0.02
25 9 0.18
27 1 0.02
28 21 0.42
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (24 bp):
CATTTCATATTCATAATTTCATTT
Found at i:36983690 original size:20 final size:18
Alignment explanation
Indices: 36983665--36983701 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
36983655 TTAGTCTCAT
36983665 TTCAATTTATCTTTTTTCAA
1 TTCAATTT-T-TTTTTTCAA
36983685 TTCAATTTTTTTTTTCA
1 TTCAATTTTTTTTTTCA
36983702 TATTAGAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 1 0.06
20 8 0.47
ACGTcount: A:0.22, C:0.14, G:0.00, T:0.65
Consensus pattern (18 bp):
TTCAATTTTTTTTTTCAA
Found at i:36983772 original size:21 final size:21
Alignment explanation
Indices: 36983730--36983772 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
36983720 TATCAGGGTC
*
36983730 ATTTAAAATTTTTCACATTTT
1 ATTTAAAATTTTTCACAATTT
* **
36983751 ATTTAAATTTTTTGTCAATTT
1 ATTTAAAATTTTTCACAATTT
36983772 A
1 A
36983773 AATATCATTC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTAAAATTTTTCACAATTT
Found at i:36983913 original size:57 final size:58
Alignment explanation
Indices: 36983822--36983932 Score: 154
Period size: 57 Copynumber: 1.9 Consensus size: 58
36983812 TAAAAAAAAT
* *
36983822 TCTCATTTAATTTTTTTTTCATGCTGGTGTCGGCCAATGCCAGCCCA-TTCTCAGGCC
1 TCTCATTTAATTTTTTTTTCATGCTGGTGCCGGCCAATGCCAACCCATTTCTCAGGCC
* * *
36983879 TCTCATTTCACTTTTTTTTT-TTGGTGGTGCCGGCCAATGCCAACCCATTTCTCA
1 TCTCATTT-AATTTTTTTTTCATGCTGGTGCCGGCCAATGCCAACCCATTTCTCA
36983933 TGCTGGCGCA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
57 31 0.66
58 16 0.34
ACGTcount: A:0.15, C:0.28, G:0.16, T:0.41
Consensus pattern (58 bp):
TCTCATTTAATTTTTTTTTCATGCTGGTGCCGGCCAATGCCAACCCATTTCTCAGGCC
Found at i:36984037 original size:49 final size:48
Alignment explanation
Indices: 36983991--36984184 Score: 154
Period size: 48 Copynumber: 4.1 Consensus size: 48
36983981 TTCATTTTCA
36983991 TTTCT-ATTTCATTTAAATTATATTTTTCTCCATTTAAATTTAATTTTT
1 TTTCTCATTTCATTTAAATTATATTTTTCTCCATTTAAATTTAA-TTTT
** * * *
36984039 TTTCTCATTTCATTT-GGTT-TATCTATCTTCCTATTTAAATTTTATTTT
1 TTTCTCATTTCATTTAAATTATATTTTTC-TCC-ATTTAAATTTAATTTT
* * *
36984087 TTTCTCATTTCATTTATATTAT-TTTTT-T-CATTTAAATTTAAATTA
1 TTTCTCATTTCATTTAAATTATATTTTTCTCCATTTAAATTTAATTTT
* * * *
36984132 TCTATC-TTTCCATTTTAATT-TAATTTTTTTCACATTT-AATTTATATTTT
1 TTTCTCATTT-CATTTAAATTAT-ATTTTTCTC-CATTTAAATTTA-ATTTT
36984181 TTTC
1 TTTC
36984185 ATTTAAATTT
Statistics
Matches: 114, Mismatches: 20, Indels: 23
0.73 0.13 0.15
Matches are distributed among these distances:
44 4 0.04
45 25 0.22
46 6 0.05
47 8 0.07
48 35 0.31
49 35 0.31
50 1 0.01
ACGTcount: A:0.24, C:0.12, G:0.01, T:0.63
Consensus pattern (48 bp):
TTTCTCATTTCATTTAAATTATATTTTTCTCCATTTAAATTTAATTTT
Found at i:36984101 original size:21 final size:21
Alignment explanation
Indices: 36984071--36984313 Score: 132
Period size: 21 Copynumber: 10.5 Consensus size: 21
36984061 CTATCTTCCT
*
36984071 ATTTAAATTTTATTTTTTTCTC
1 ATTT-AATTTAATTTTTTTCTC
* *
36984093 ATTTCATTTATATTATTTTTTTC
1 ATTTAATTTA-ATT-TTTTTCTC
36984116 ATTTAAATTTAAATTATCTATCTT-TCC
1 ATTT-AATTT-AATT-T-T-T-TTCT-C
*
36984143 ATTTTAATTTAATTTTTTTCAC
1 A-TTTAATTTAATTTTTTTCTC
36984165 ATTTAATTT-ATATTTTTT-TC
1 ATTTAATTTAAT-TTTTTTCTC
* *
36984185 ATTTAAATTTAATATTTTCCTC
1 ATTT-AATTTAATTTTTTTCTC
* *
36984207 ATTTCATTTAAATTATCTTTATTTTC
1 ATTTAATTT-AA-T-T-TTT-TTCTC
36984233 ATTTAAATTTAATTTTTTTCTC
1 ATTT-AATTTAATTTTTTTCTC
* *
36984255 ATTTCATTTAATTTATCTATCTTCCC
1 ATTTAATTTAA-TT-T-T-T-TTCTC
*
36984281 TTTTTAATTTAATTTTTTTCTC
1 -ATTTAATTTAATTTTTTTCTC
*
36984303 ATTTCATTTAA
1 ATTTAATTTAA
36984314 ATTTAATTTT
Statistics
Matches: 174, Mismatches: 21, Indels: 53
0.70 0.08 0.21
Matches are distributed among these distances:
20 7 0.04
21 46 0.26
22 35 0.20
23 18 0.10
24 13 0.07
25 9 0.05
26 21 0.12
27 22 0.13
28 3 0.02
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTAATTTAATTTTTTTCTC
Found at i:36984240 original size:48 final size:47
Alignment explanation
Indices: 36984164--36984316 Score: 198
Period size: 48 Copynumber: 3.2 Consensus size: 47
36984154 ATTTTTTTCA
* * * *
36984164 CATTTAATTTATATTTTTTTCATTTAAATTTAATATTTTCCTCATTT
1 CATTTAAATTATCTTTTTTTCATTTAAATTTAATTTTTTTCTCATTT
36984211 CATTTAAATTATCTTTATTTTCATTTAAATTTAATTTTTTTCTCATTT
1 CATTTAAATTATCTTT-TTTTCATTTAAATTTAATTTTTTTCTCATTT
* * ** * *
36984259 CATTTAATTTATCTATCTTCCCTTTTTAATTTAATTTTTTTCTCATTT
1 CATTTAAATTATCT-TTTTTTCATTTAAATTTAATTTTTTTCTCATTT
36984307 CATTTAAATT
1 CATTTAAATT
36984317 TAATTTTTTT
Statistics
Matches: 93, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
47 14 0.15
48 78 0.84
49 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.61
Consensus pattern (47 bp):
CATTTAAATTATCTTTTTTTCATTTAAATTTAATTTTTTTCTCATTT
Found at i:36984242 original size:69 final size:69
Alignment explanation
Indices: 36984002--36984317 Score: 222
Period size: 69 Copynumber: 4.5 Consensus size: 69
36983992 TTCTATTTCA
* * * ***
36984002 TTTAAATTATATTTTTCTC-CATTTAAATTTAATTTTTTTTCTCATTT-CATTTGGTTTATCTAT
1 TTTAAATTA-ATTTTTTTCACATTT-AATTT-ATATTTTTT-TCATTTAAATTTAAATTATCTAT
36984065 C-TTCC-T
62 CTTTCCAT
* * *
36984071 ATTTAAATTTTATTTTTTTCTCATTTCATTTATATTATTTTTTTCATTTAAATTTAAATTATCTA
1 -TTTAAA-TTAATTTTTTTCACATTT-AATT-TA-TATTTTTTTCATTTAAATTTAAATTATCTA
36984136 TCTTTCCAT
61 TCTTTCCAT
* * *
36984145 TTTAATTTAATTTTTTTCACATTTAATTTATATTTTTTTCATTTAAATTTAATATTTTC-CTCAT
1 TTTAAATTAATTTTTTTCACATTTAATTTATATTTTTTTCATTTAAATTTAA-ATTATCTATC-T
36984209 TT-CA-
64 TTCCAT
* * *
36984213 TTTAAATT-ATCTTTATTT-TCATTTAAATTTA-ATTTTTTTCTCATTT-CATTTAATTTATCTA
1 TTTAAATTAAT-TTT-TTTCACATTT-AATTTATA-TTTTTT-TCATTTAAATTTAAATTATCTA
* *
36984274 TCTTCCCTT
61 TCTTTCCAT
* * * *
36984283 TTTAATTTAATTTTTTTCTCATTTCATTTAAATTT
1 TTTAAATTAATTTTTTTCACATTTAATTTATATTT
36984318 AATTTTTTTT
Statistics
Matches: 201, Mismatches: 25, Indels: 41
0.75 0.09 0.15
Matches are distributed among these distances:
67 2 0.01
68 22 0.11
69 61 0.30
70 47 0.23
71 22 0.11
72 37 0.18
73 9 0.04
74 1 0.00
ACGTcount: A:0.25, C:0.12, G:0.01, T:0.62
Consensus pattern (69 bp):
TTTAAATTAATTTTTTTCACATTTAATTTATATTTTTTTCATTTAAATTTAAATTATCTATCTTT
CCAT
Found at i:36984336 original size:28 final size:27
Alignment explanation
Indices: 36984181--36984345 Score: 142
Period size: 27 Copynumber: 6.5 Consensus size: 27
36984171 TTTATATTTT
* *
36984181 TTTCATTTAAATTTAATATTTTCCTCA
1 TTTCATTTAAATTTAATTTTTTTCTCA
* *
36984208 TTTCATTTAAA-TT-A--TCTTTAT--
1 TTTCATTTAAATTTAATTTTTTTCTCA
36984229 TTTCATTTAAATTTAATTTTTTTCTCA
1 TTTCATTTAAATTTAATTTTTTTCTCA
* *
36984256 TTTCATTT-AATTT-ATCTATCTTC-C-
1 TTTCATTTAAATTTAAT-TTTTTTCTCA
*
36984280 CTT--TTT-AATTTAATTTTTTTCTCA
1 TTTCATTTAAATTTAATTTTTTTCTCA
36984304 TTTCATTTAAATTTAATTTTTTTTCTC-
1 TTTCATTTAAATTTAA-TTTTTTTCTCA
36984331 TGTTCATTTAAATTT
1 T-TTCATTTAAATTT
36984346 TCTTTCTTTC
Statistics
Matches: 112, Mismatches: 11, Indels: 29
0.74 0.07 0.19
Matches are distributed among these distances:
21 11 0.10
22 15 0.13
23 8 0.07
24 4 0.04
25 9 0.08
26 15 0.13
27 27 0.24
28 23 0.21
ACGTcount: A:0.25, C:0.13, G:0.01, T:0.62
Consensus pattern (27 bp):
TTTCATTTAAATTTAATTTTTTTCTCA
Found at i:36984366 original size:27 final size:24
Alignment explanation
Indices: 36984165--36984375 Score: 96
Period size: 27 Copynumber: 8.5 Consensus size: 24
36984155 TTTTTTTCAC
* *
36984165 ATTTAATTTATATTTTTTTCATTTAA
1 ATTTAATTT-T-TTTCTTTCATTTTA
*
36984191 ATTTAATATTTTCCTCATTTCA-TTTA
1 ATTTAAT-TTTT-TTC-TTTCATTTTA
* * * *
36984217 AATT-ATCTTTAT-TTTCATTTAA
1 ATTTAATTTTTTTCTTTCATTTTA
*
36984239 ATTTAATTTTTTTC--TCA-TTTC
1 ATTTAATTTTTTTCTTTCATTTTA
* * *
36984260 ATTTAATTTATCTATCTTCCCTTTTTA
1 ATTTAATTT-T-TTTCTT-TCATTTTA
*
36984287 ATTTAATTTTTTTCTCATTTCATTTAA
1 ATTTAA-TTTTTT-TC-TTTCATTTTA
* * *
36984314 ATTTAATTTTTTT-TCTC-TGTTC
1 ATTTAATTTTTTTCTTTCATTTTA
36984336 ATTTAAATTTTCTTTCTTTCCATTTTA
1 ATTT-AATTTT-TTTCTTT-CATTTTA
36984363 ATTTACATTTTTT
1 ATTTA-ATTTTTT
36984376 CATATTAATT
Statistics
Matches: 137, Mismatches: 27, Indels: 42
0.67 0.13 0.20
Matches are distributed among these distances:
21 16 0.12
22 16 0.12
23 19 0.14
24 6 0.04
25 6 0.04
26 27 0.20
27 42 0.31
28 5 0.04
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTTAATTTTTTTCTTTCATTTTA
Found at i:36984367 original size:76 final size:76
Alignment explanation
Indices: 36984229--36984375 Score: 219
Period size: 76 Copynumber: 1.9 Consensus size: 76
36984219 TTATCTTTAT
*
36984229 TTTCATTTAAATTTAATTTTTTTCTCATTTCATTTAATTTATCTATCTTCCCTTTTTAATTTA-A
1 TTTCATTTAAATTTAATTTTTTTCTCATTTCATTTAATTTATCTATCTTCCCATTTTAATTTACA
36984293 TTTTTTTCTCA
66 TTTTTTTCTCA
* *
36984304 TTTCATTTAAATTTAATTTTTTTTCTC-TGTTCATTTAAATTT-TCTTTCTTTCCATTTTAATTT
1 TTTCATTTAAATTTAA-TTTTTTTCTCAT-TTCATTT-AATTTATCTATCTTCCCATTTTAATTT
36984367 ACATTTTTT
63 ACATTTTTT
36984376 CATATTAATT
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
75 17 0.26
76 36 0.55
77 12 0.18
ACGTcount: A:0.22, C:0.14, G:0.01, T:0.64
Consensus pattern (76 bp):
TTTCATTTAAATTTAATTTTTTTCTCATTTCATTTAATTTATCTATCTTCCCATTTTAATTTACA
TTTTTTTCTCA
Found at i:36984376 original size:21 final size:20
Alignment explanation
Indices: 36984333--36984386 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
36984323 TTTTTCTCTG
* *
36984333 TTCATTTAAATTTTCTTTCT
1 TTCATTTTAATTTACTTTCT
36984353 TTCCATTTTAATTTACATTT-T
1 TT-CATTTTAATTTAC-TTTCT
*
36984374 TTCATATTAATTT
1 TTCATTTTAATTT
36984387 TTCTCTCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 12 0.41
21 14 0.48
22 3 0.10
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.63
Consensus pattern (20 bp):
TTCATTTTAATTTACTTTCT
Found at i:36987580 original size:16 final size:16
Alignment explanation
Indices: 36987558--36987628 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
36987548 GTTTGGTTCA
*
36987558 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
* **
36987574 TTGTAATTAAATAGAG
1 CTGTAATGGAATAGAG
36987590 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
36987606 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
36987622 CTGTAAT
1 CTGTAAT
36987629 CAGTAATTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.37, C:0.06, G:0.28, T:0.30
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:36987696 original size:44 final size:46
Alignment explanation
Indices: 36987610--36987703 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
36987600 ATAGAGCTGT
36987610 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
* ***
36987656 AATGGAGTAGAGCTGTAAT-AG-AATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
36987700 AATG
1 AATG
36987704 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 24 0.55
45 2 0.05
46 18 0.41
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.34
Consensus pattern (46 bp):
AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
Found at i:36987818 original size:25 final size:25
Alignment explanation
Indices: 36987774--36987824 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
36987764 GTTGATAGAT
36987774 GATTATTGTTATTAAA-TTTTAATAA
1 GATTATTGTTA-TAAATTTTTAATAA
36987799 GATTATTGTTA-AATATTTTTTAATAA
1 GATTATTGTTATAA-A-TTTTTAATAA
36987825 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
23 2 0.09
24 1 0.04
25 11 0.48
26 9 0.39
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (25 bp):
GATTATTGTTATAAATTTTTAATAA
Found at i:36987885 original size:24 final size:21
Alignment explanation
Indices: 36987864--36987922 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
36987854 TAACATAATT
36987864 ATTATTAAATATAATTTAATAA
1 ATTATT-AATATAATTTAATAA
* *
36987886 AATAAT-ATATAATTTAATAA
1 ATTATTAATATAATTTAATAA
36987906 CATTATTAATATAATTT
1 -ATTATTAATATAATTT
36987923 TTAATAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 14 0.45
21 4 0.13
22 13 0.42
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTATTAATATAATTTAATAA
Found at i:36987886 original size:55 final size:54
Alignment explanation
Indices: 36987826--36987946 Score: 127
Period size: 57 Copynumber: 2.2 Consensus size: 54
36987816 TTTTAATAAA
* * *
36987826 AATAAAAATAAATAATTTAATCATATT-TTAACATAATTATTATTAAATATAATTT
1 AATAAAAATAAATAATTTAATAACATTATTAACATAATTATTAAT-AATA-AATTT
* * * *
36987881 AATAAAATAATATATAATTTAATAACATTATTAATATAATTTTTAATAATAATTTT
1 AAT-AAA-AATAAATAATTTAATAACATTATTAACATAATTATTAATAATAAATTT
36987937 AATATAAAAT
1 AATA-AAAAT
36987947 TATTATTATG
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
55 7 0.13
56 12 0.22
57 22 0.40
58 14 0.25
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (54 bp):
AATAAAAATAAATAATTTAATAACATTATTAACATAATTATTAATAATAAATTT
Found at i:36987925 original size:24 final size:24
Alignment explanation
Indices: 36987898--36987943 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
36987888 TAATATATAA
*
36987898 TTTAATAA-CATTATTAATATAATT
1 TTTAATAATAATT-TTAATATAATT
36987922 TTTAATAATAATTTTAATATAA
1 TTTAATAATAATTTTAATATAA
36987944 AATTATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTAATAATAATTTTAATATAATT
Found at i:36990440 original size:39 final size:40
Alignment explanation
Indices: 36990386--36990465 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
36990376 TTAGTTATAC
*
36990386 TGCAGATACTCAAGCAAA-AAGTTATTTTGCCAATTTAGA
1 TGCAGATACTCAAGCAAATAAGTTATTTGGCCAATTTAGA
36990425 TGCAGATACTCAAGCAAATAAGTTATTTGGCCAATTTAGA
1 TGCAGATACTCAAGCAAATAAGTTATTTGGCCAATTTAGA
36990465 T
1 T
36990466 AGAGTTCCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 18 0.46
40 21 0.54
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (40 bp):
TGCAGATACTCAAGCAAATAAGTTATTTGGCCAATTTAGA
Found at i:36994088 original size:19 final size:19
Alignment explanation
Indices: 36994057--36994103 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
36994047 TCATTTTAAT
*
36994057 AATTA-TTTTTAAAT-TTA
1 AATTATTTTTTAAATATCA
36994074 AATTATTTTTATAAATATCA
1 AATTATTTTT-TAAATATCA
36994094 AA-TATTTTTT
1 AATTATTTTTT
36994104 GAATTAGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 5 0.19
18 5 0.19
19 12 0.46
20 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
AATTATTTTTTAAATATCA
Found at i:36994701 original size:30 final size:30
Alignment explanation
Indices: 36994644--36994710 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
36994634 ACTTAACGGC
* *
36994644 TCAATGACTTAAAAAAAAATTTTGAATAAT
1 TCAATGACTTAAAAAAAAATGTCGAATAAT
* * *
36994674 TCAATGACTTAATAAAAACTGTCGAATAGT
1 TCAATGACTTAAAAAAAAATGTCGAATAAT
*
36994704 TTAATGA
1 TCAATGA
36994711 TCATTTTGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.33
Consensus pattern (30 bp):
TCAATGACTTAAAAAAAAATGTCGAATAAT
Found at i:37001607 original size:14 final size:15
Alignment explanation
Indices: 37001583--37001613 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
37001573 ATAGACCAAA
37001583 AAAATATAAAAAAAT
1 AAAATATAAAAAAAT
37001598 AAAA-ATAAAAAAAT
1 AAAATATAAAAAAAT
37001612 AA
1 AA
37001614 TACCTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAATATAAAAAAAT
Found at i:37002218 original size:25 final size:22
Alignment explanation
Indices: 37002175--37002225 Score: 57
Period size: 25 Copynumber: 2.2 Consensus size: 22
37002165 ACTTTTTTCT
*
37002175 TATTATTCTATTTTAATTTTAA
1 TATTATTCTATATTAATTTTAA
*
37002197 TATTATTCATAATATTATATTTTAT
1 TATTATTC-T-ATATTA-ATTTTAA
37002222 TATT
1 TATT
37002226 GTTATTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 8 0.33
23 1 0.04
24 5 0.21
25 10 0.42
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTATTCTATATTAATTTTAA
Found at i:37002411 original size:2 final size:2
Alignment explanation
Indices: 37002404--37002517 Score: 84
Period size: 2 Copynumber: 61.0 Consensus size: 2
37002394 CATATTACGC
*
37002404 AT AT AT AT AT AT AT AT AT AT AT -T A- AT AT CAT AT -T AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT
* * * *
37002444 AT -T TT TT AA AT AT -T AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
37002484 -T AT GT AT AT AT -T TT A- AT AT AT -T AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37002518 TATGTACGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
1 9 0.10
2 79 0.88
3 2 0.02
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (2 bp):
AT
Found at i:37002462 original size:50 final size:48
Alignment explanation
Indices: 37002407--37002517 Score: 152
Period size: 50 Copynumber: 2.3 Consensus size: 48
37002397 ATTACGCATA
*
37002407 TATATATATATATATATATTAATATCATATTATACATATTTTTTAA-ATAT
1 TATATATATATATATATATT--TAT-ATATTATACATATATTTTAATATAT
**
37002457 TATATATATATATATATATTTATATATTATGTATATATTTTAATATAT
1 TATATATATATATATATATTTATATATTATACATATATTTTAATATAT
*
37002505 TATGTATATATAT
1 TATATATATATAT
37002518 TATGTACGTA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
47 17 0.30
48 19 0.34
50 20 0.36
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (48 bp):
TATATATATATATATATATTTATATATTATACATATATTTTAATATAT
Found at i:37002502 original size:27 final size:27
Alignment explanation
Indices: 37002405--37002494 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
37002395 ATATTACGCA
37002405 TATATATATATATATATATATTA-ATAT
1 TATATATATATATATATAT-TTATATAT
* * * *
37002432 CATAT-TATACATAT-TTTTTAAATAT
1 TATATATATATATATATATTTATATAT
37002457 TATATATATATATATATATTTATATAT
1 TATATATATATATATATATTTATATAT
*
37002484 TATGTATATAT
1 TATATATATAT
37002495 TTTAATATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
24 3 0.06
25 10 0.19
26 16 0.31
27 23 0.44
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.53
Consensus pattern (27 bp):
TATATATATATATATATATTTATATAT
Found at i:37002664 original size:24 final size:23
Alignment explanation
Indices: 37002636--37002709 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 23
37002626 ACGTATACGC
*
37002636 TATGTAAATGTTTTAATATTATA
1 TATGTAAATCTTTTAATATTATA
* **
37002659 TCATGTATACATTTTTTATATATTACG
1 T-ATGTA-A-ATCTTTTA-ATATTATA
* *
37002686 TATATATATCTTTTAATATTATA
1 TATGTAAATCTTTTAATATTATA
37002709 T
1 T
37002710 TTTTATTATT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
23 8 0.21
24 12 0.31
25 1 0.03
26 11 0.28
27 7 0.18
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (23 bp):
TATGTAAATCTTTTAATATTATA
Found at i:37002876 original size:21 final size:22
Alignment explanation
Indices: 37002852--37002893 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
37002842 ATATATATAC
37002852 TTTTTATATAT-AATATTATTT
1 TTTTTATATATCAATATTATTT
*
37002873 TTTTTATATATCATTATTATT
1 TTTTTATATATCAATATTATT
37002894 ATACTTATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTTATATATCAATATTATTT
Found at i:37002888 original size:19 final size:18
Alignment explanation
Indices: 37002839--37002890 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
37002829 ATTATACATG
*
37002839 TATATATATA-TACTTTT
1 TATATATATATTATTTTT
37002856 TATATATAATATTATTTTT
1 TATATAT-ATATTATTTTT
*
37002875 TTTATATATCATTATT
1 TATATATAT-ATTATT
37002891 ATTATACTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 7 0.23
18 5 0.17
19 18 0.60
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATATATATTATTTTT
Found at i:37007151 original size:74 final size:74
Alignment explanation
Indices: 37007052--37007193 Score: 212
Period size: 74 Copynumber: 1.9 Consensus size: 74
37007042 TGAAATACTA
* * *
37007052 GATTCTATGCAAAATGCAAAGCAGATTGACTATCACAAAATAAAGGAATAACTTTAGTATGATGA
1 GATTCTATGCAAAATGCAAAACAGATTGACTATCACAAAATAAAGGAATAACTTTAGGATAATGA
37007117 ACAGGGCAT
66 ACAGGGCAT
* * ** *
37007126 GATTCTATTCAATATGCAAAACAGATTGACTATCACAAAATAAATTAATAGCTTTAGGATAATGA
1 GATTCTATGCAAAATGCAAAACAGATTGACTATCACAAAATAAAGGAATAACTTTAGGATAATGA
37007191 ACA
66 ACA
37007194 CCTAAGCTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 60 1.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (74 bp):
GATTCTATGCAAAATGCAAAACAGATTGACTATCACAAAATAAAGGAATAACTTTAGGATAATGA
ACAGGGCAT
Found at i:37007373 original size:42 final size:43
Alignment explanation
Indices: 37007314--37007421 Score: 164
Period size: 42 Copynumber: 2.5 Consensus size: 43
37007304 CGCTATAGGT
* *
37007314 CCCACAAATGCCGCTAAAGGTCTGGGCCTTTAGCAGCGC-TTC
1 CCCACAAACGCCGCTAAAGGTCAGGGCCTTTAGCAGCGCTTTC
** *
37007356 CCCACAAACGCCGCTAAAAATCAGGGCCTTTAGCGGCGCTTTC
1 CCCACAAACGCCGCTAAAGGTCAGGGCCTTTAGCAGCGCTTTC
37007399 CCCACAAACGCCGCTAAAGGTCA
1 CCCACAAACGCCGCTAAAGGTCA
37007422 TAAAATTTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
42 34 0.59
43 24 0.41
ACGTcount: A:0.26, C:0.35, G:0.21, T:0.18
Consensus pattern (43 bp):
CCCACAAACGCCGCTAAAGGTCAGGGCCTTTAGCAGCGCTTTC
Found at i:37008365 original size:21 final size:22
Alignment explanation
Indices: 37008333--37008385 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
37008323 CAACTTTCAG
37008333 ACACCATAAA-TTGCAGCATTTA
1 ACACC-TAAATTTGCAGCATTTA
*
37008355 ACACCTAAATTTTCAGCATTTA
1 ACACCTAAATTTGCAGCATTTA
*
37008377 ACACATAAA
1 ACACCTAAA
37008386 ATGGTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.28
Consensus pattern (22 bp):
ACACCTAAATTTGCAGCATTTA
Found at i:37008809 original size:23 final size:23
Alignment explanation
Indices: 37008781--37009282 Score: 360
Period size: 23 Copynumber: 21.9 Consensus size: 23
37008771 TGCTCAATTG
37008781 CAGCACTTTAACACTTCAATTTA
1 CAGCACTTTAACACTTCAATTTA
* *
37008804 CAGCACTTAAACACTTCAATTTG
1 CAGCACTTTAACACTTCAATTTA
*
37008827 CAGCACTTTAACA-TCTCAATTAA
1 CAGCACTTTAACACT-TCAATTTA
*
37008850 CAACA-TTTATACACCTT-AA-TTA
1 CAGCACTTTA-ACA-CTTCAATTTA
** *
37008872 CAGCGA-TAAAACA-TCTCAATTTC
1 CAGC-ACTTTAACACT-TCAATTTA
* *
37008895 CAGCAAC-TAAACACTTCAATTTG
1 CAGC-ACTTTAACACTTCAATTTA
* * *
37008918 CAGTACTTAAACACTTCAATTTG
1 CAGCACTTTAACACTTCAATTTA
* * *
37008941 CAGTACTTAAACACTCCAATTTA
1 CAGCACTTTAACACTTCAATTTA
* *
37008964 CACCACTCTTAACACTTCAATTTG
1 CAGCACT-TTAACACTTCAATTTA
37008988 CAGCACTTTAACACTTCAATTTA
1 CAGCACTTTAACACTTCAATTTA
*
37009011 CAGCA-TTTAAACACTTCAATTTG
1 CAGCACTTT-AACACTTCAATTTA
* *
37009034 TAGCACTTTAACA-TCTCAATTAA
1 CAGCACTTTAACACT-TCAATTTA
* *
37009057 CAACA-TTTATACACCTT-AA-GTA
1 CAGCACTTTA-ACA-CTTCAATTTA
** * *
37009079 CA--ACGATAAAACATCTCAATTTC
1 CAGCACTTTAACAC-T-TCAATTTA
* *
37009102 CAGCAAC-TAAACACTTCAATTTG
1 CAGC-ACTTTAACACTTCAATTTA
* *
37009125 CAGTACTTAAACACTTCAATTTA
1 CAGCACTTTAACACTTCAATTTA
*
37009148 CAACA-TTTAAGCACTTCAATTTA
1 CAGCACTTTAA-CACTTCAATTTA
* *
37009171 TAGCA-TTTAACACTTCAATTTG
1 CAGCACTTTAACACTTCAATTTA
37009193 CAGCACTTTAACACTTCAATTTA
1 CAGCACTTTAACACTTCAATTTA
*
37009216 CAGCA-TTTAAACACTTCAATTTG
1 CAGCACTTT-AACACTTCAATTTA
* *
37009239 CTGCACTTTAACA-TCTCAATTAA
1 CAGCACTTTAACACT-TCAATTTA
* *
37009262 CAACA-TTTATACACCTCAATT
1 CAGCACTTTA-ACACTTCAATT
37009283 AACATCTCAA
Statistics
Matches: 387, Mismatches: 58, Indels: 68
0.75 0.11 0.13
Matches are distributed among these distances:
19 1 0.00
20 5 0.01
21 4 0.01
22 59 0.15
23 281 0.73
24 29 0.07
25 6 0.02
26 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (23 bp):
CAGCACTTTAACACTTCAATTTA
Found at i:37009133 original size:207 final size:205
Alignment explanation
Indices: 37008774--37009277 Score: 859
Period size: 207 Copynumber: 2.5 Consensus size: 205
37008764 CATAATTTGC
* *
37008774 TCAA-TTGCAGCACTTTAACACTTCAATTTACAGCACTTAAACACTTCAATTTGCAGCACTTTAA
1 TCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGTAGCACTTTAA
* *
37008838 CATCTCAATTAACAACATTTATACACCTTAATTACAGCGATAAAACATCTCAATTTCCAGCAACT
66 CATCTCAATTAACAACATTTATACACCTTAAGTACAACGATAAAACATCTCAATTTCCAGCAACT
* **
37008903 AAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAGTACTTAAACACTCCAATTTACACC
131 AAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACACTTAAACACTCCAATTTACACC
37008968 ACTCTTAACACT
196 A-T-TTAACACT
37008980 TCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGTAGCACTTTAA
1 TCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGTAGCACTTTAA
37009045 CATCTCAATTAACAACATTTATACACCTTAAGTACAACGATAAAACATCTCAATTTCCAGCAACT
66 CATCTCAATTAACAACATTTATACACCTTAAGTACAACGATAAAACATCTCAATTTCCAGCAACT
* * * * *
37009110 AAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAGCACTTCAATTTATAGC
131 AAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACACTTAAACACTCCAATTTACACC
37009175 ATTTAACACT
196 ATTTAACACT
37009185 TCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCT-GCACTTTA
1 TCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTG-TAGCACTTTA
37009249 ACATCTCAATTAACAACATTTATACACCT
65 ACATCTCAATTAACAACATTTATACACCT
37009278 CAATTAACAT
Statistics
Matches: 284, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
205 99 0.35
206 6 0.02
207 179 0.63
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (205 bp):
TCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGTAGCACTTTAA
CATCTCAATTAACAACATTTATACACCTTAAGTACAACGATAAAACATCTCAATTTCCAGCAACT
AAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACACTTAAACACTCCAATTTACACC
ATTTAACACT
Found at i:37009189 original size:91 final size:91
Alignment explanation
Indices: 37008787--37009282 Score: 381
Period size: 91 Copynumber: 5.4 Consensus size: 91
37008777 ATTGCAGCAC
* * **
37008787 TTTAACACTTCAATTTACAGCACTTAAACACTTCAATTTGCAGC-ACTTTAACA-TCTCAATTAA
1 TTTAACACTTCAATTTACAGCA-TTTAACACTTCAATTTGCAGCAACTTAAACACT-TCAATTTG
* * * *
37008850 CAACATTTATACACCTT-AA-TTACAGCGA
64 CAGCACTTAAACA-CTTCAATTTACAAC-A
** * * * *
37008878 TAAAACA-TCTCAATTTCCAGCAACTAAACACTTCAATTTGCAG-TACTTAAACACTTCAATTTG
1 TTTAACACT-TCAATTTACAGC-ATTTAACACTTCAATTTGCAGCAACTTAAACACTTCAATTTG
* * *
37008941 CAGTACTTAAACACTCCAATTTACACCA
64 CAGCACTTAAACACTTCAATTTACAACA
* * *
37008969 CTCTTAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGC-ATTTAAACACTTCAATTT
1 -T-TTAACACTTCAATTTACAGCA-TTTAACACTTCAATTTGCAGCAACTTAAACACTTCAATTT
* * *
37009033 GTAGCACTTTAACA-TCTCAATTAACAACA
63 GCAGCACTTAAACACT-TCAATTTACAACA
* * ** *
37009062 TTTATACACCTT-AA-GTACAACGATAAAACA-TCTCAATTTCCAGCAAC-TAAACACTTCAATT
1 TTTA-ACA-CTTCAATTTACAGC-ATTTAACACT-TCAATTTGCAGCAACTTAAACACTTCAATT
*
37009123 TGCAGTACTTAAACACTTCAATTTACAACA
62 TGCAGCACTTAAACACTTCAATTTACAACA
* * *
37009153 TTTAAGCACTTCAATTTATAGCATTTAACACTTCAATTTGCAGC-ACTTTAACACTTCAATTTAC
1 TTTAA-CACTTCAATTTACAGCATTTAACACTTCAATTTGCAGCAACTTAAACACTTCAATTTGC
* * **
37009217 AGCATTTAAACACTTCAATTTGCTGCA
65 AGCACTTAAACACTTCAATTTACAACA
* * *
37009244 CTTTAACA-TCTCAATTAACAACATTTATACACCTCAATT
1 -TTTAACACT-TCAATTTACAGCATTTA-ACACTTCAATT
37009283 AACATCTCAA
Statistics
Matches: 325, Mismatches: 54, Indels: 51
0.76 0.13 0.12
Matches are distributed among these distances:
90 11 0.03
91 200 0.62
92 40 0.12
93 73 0.22
94 1 0.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.33
Consensus pattern (91 bp):
TTTAACACTTCAATTTACAGCATTTAACACTTCAATTTGCAGCAACTTAAACACTTCAATTTGCA
GCACTTAAACACTTCAATTTACAACA
Found at i:37010459 original size:12 final size:12
Alignment explanation
Indices: 37010444--37010493 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
37010434 ACACACACAT
37010444 ATTAACATCTCA
1 ATTAACATCTCA
*
37010456 ATTAACA--ACA
1 ATTAACATCTCA
* *
37010466 TTTATACACCTCA
1 ATTA-ACATCTCA
37010479 ATTAACATCTCA
1 ATTAACATCTCA
37010491 ATT
1 ATT
37010494 TCCAGCAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
10 5 0.17
11 3 0.10
12 17 0.57
13 5 0.17
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.34
Consensus pattern (12 bp):
ATTAACATCTCA
Found at i:37012346 original size:19 final size:22
Alignment explanation
Indices: 37012322--37012364 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
37012312 AAGTTTTTTA
37012322 TTTTT-AA-ATTTTTA-AATTT
1 TTTTTAAAGATTTTTATAATTT
37012341 TTTTTAAAGATTTTTATAATTT
1 TTTTTAAAGATTTTTATAATTT
37012363 TT
1 TT
37012365 AAATTATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 2 0.10
21 7 0.33
22 7 0.33
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTTAAAGATTTTTATAATTT
Found at i:37012369 original size:8 final size:8
Alignment explanation
Indices: 37012294--37012342 Score: 55
Period size: 8 Copynumber: 6.2 Consensus size: 8
37012284 GACTAAAATA
*
37012294 TTAAATAT
1 TTAAATTT
*
37012302 TAAAATTT
1 TTAAATTT
*
37012310 TTAAGTTT
1 TTAAATTT
*
37012318 TT-TATTT
1 TTAAATTT
37012325 TTAAATTT
1 TTAAATTT
37012333 TTAAATTT
1 TTAAATTT
37012341 TT
1 TT
37012343 TTTAAAGATT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
7 5 0.15
8 28 0.85
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (8 bp):
TTAAATTT
Found at i:37012611 original size:7 final size:7
Alignment explanation
Indices: 37012574--37012681 Score: 65
Period size: 7 Copynumber: 14.9 Consensus size: 7
37012564 TACCCTAAAT
37012574 CCTTAAC
1 CCTTAAC
*
37012581 CCCTAAC
1 CCTTAAC
37012588 CCTTAAC
1 CCTTAAC
* **
37012595 CCATGTC
1 CCTTAAC
37012602 CCTTAAC
1 CCTTAAC
*
37012609 CCTAAAAC
1 CCT-TAAC
*
37012617 CCCTAAC
1 CCTTAAC
*
37012624 ACTTAAC
1 CCTTAAC
*
37012631 TCCTAAAC
1 -CCTTAAC
37012639 CCTTTAA-
1 CC-TTAAC
37012646 CCTATAAAC
1 CCT-T-AAC
*
37012655 CCGTAAC
1 CCTTAAC
37012662 CCTTAAC
1 CCTTAAC
* *
37012669 CCGTAAA
1 CCTTAAC
37012676 CCTTAA
1 CCTTAA
37012682 GCCATAAAAC
Statistics
Matches: 74, Mismatches: 21, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
6 1 0.01
7 55 0.74
8 16 0.22
9 2 0.03
ACGTcount: A:0.33, C:0.40, G:0.03, T:0.24
Consensus pattern (7 bp):
CCTTAAC
Found at i:37012655 original size:38 final size:38
Alignment explanation
Indices: 37012578--37012677 Score: 100
Period size: 38 Copynumber: 2.7 Consensus size: 38
37012568 CTAAATCCTT
* * **
37012578 AACCCCTAACCCTTAACCCAT-GTCCC-TTAACCCTAA
1 AACCCCTAACACTTAACCCGTAAACCCTTTAACCCTAA
37012614 AACCCCTAACACTTAACTCC-TAAACCCTTTAA-CCTATA
1 AACCCCTAACACTTAAC-CCGTAAACCCTTTAACCCTA-A
* *
37012652 AACCCGTAACCCTTAACCCGTAAACC
1 AACCCCTAACACTTAACCCGTAAACC
37012678 TTAAGCCATA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
36 17 0.31
37 11 0.20
38 26 0.48
ACGTcount: A:0.34, C:0.41, G:0.03, T:0.22
Consensus pattern (38 bp):
AACCCCTAACACTTAACCCGTAAACCCTTTAACCCTAA
Found at i:37013335 original size:41 final size:41
Alignment explanation
Indices: 37013290--37013416 Score: 130
Period size: 41 Copynumber: 3.1 Consensus size: 41
37013280 TTCTTTTTTA
* * * *
37013290 GCTCTGTTTTTTAACGGCGTTTTACCAAAAGCGCCTCTAAT
1 GCTCTATTTTTTAGCGGCGTTTTACCAAAAACGCCGCTAAT
* * *
37013331 GCTCTATTTTTTAGCGGCGCTTTACTAAAAACGCCGCTATT
1 GCTCTATTTTTTAGCGGCGTTTTACCAAAAACGCCGCTAAT
* **** *
37013372 GCTC-AATTTTTAGCGGCGTTTTTGGTAAAACGCCGCTATT
1 GCTCTATTTTTTAGCGGCGTTTTACCAAAAACGCCGCTAAT
37013412 GCTCT
1 GCTCT
37013417 GTGTTTTACA
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 34 0.47
41 38 0.53
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (41 bp):
GCTCTATTTTTTAGCGGCGTTTTACCAAAAACGCCGCTAAT
Found at i:37015890 original size:3 final size:3
Alignment explanation
Indices: 37015870--37015912 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
37015860 TTTGAAAATA
*
37015870 ATT ATT AGTT -TT ATTT ATT ATT ATT ATT ATT ATT GTT ATT ATT
1 ATT ATT A-TT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
37015913 GTTACTGCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 28 0.80
4 5 0.14
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:37015913 original size:9 final size:9
Alignment explanation
Indices: 37015887--37015916 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
37015877 GTTTTATTTA
*
37015887 TTATTATTA
1 TTATTATTG
37015896 TTATTATTG
1 TTATTATTG
37015905 TTATTATTG
1 TTATTATTG
37015914 TTA
1 TTA
37015917 CTGCTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (9 bp):
TTATTATTG
Found at i:37025805 original size:41 final size:40
Alignment explanation
Indices: 37025757--37025843 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 40
37025747 TCAAATACAT
*
37025757 TTAAAACAAATATTAAAATAAGAAACAAATAAAAAATTATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAA-TATA
* * * *
37025798 TTAAAACAATTATTAAAACAATACACAAATTAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
*
37025838 ATAAAA
1 TTAAAA
37025844 AGTGATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 9 0.22
41 31 0.77
ACGTcount: A:0.67, C:0.07, G:0.01, T:0.25
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:37037743 original size:24 final size:24
Alignment explanation
Indices: 37037710--37037756 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
37037700 CATAGAGAAT
* *
37037710 TTTGTGTTTACGTTTTGAGGGTTC
1 TTTGTGTTTAAGTTTTCAGGGTTC
*
37037734 TTTGTTTTTAAGTTTTCAGGGTT
1 TTTGTGTTTAAGTTTTCAGGGTT
37037757 TAGTTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.11, C:0.06, G:0.26, T:0.57
Consensus pattern (24 bp):
TTTGTGTTTAAGTTTTCAGGGTTC
Found at i:37039514 original size:15 final size:15
Alignment explanation
Indices: 37039488--37039542 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
37039478 TAACCATTGT
*
37039488 CACCGCCACCACCAC
1 CACCTCCACCACCAC
* *
37039503 CTCCTCCTCCACCAC
1 CACCTCCACCACCAC
* * *
37039518 CACCACCTCCACCTC
1 CACCTCCACCACCAC
37039533 CACCTCCACC
1 CACCTCCACC
37039543 TCTACCTCTA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.20, C:0.67, G:0.02, T:0.11
Consensus pattern (15 bp):
CACCTCCACCACCAC
Found at i:37039519 original size:21 final size:21
Alignment explanation
Indices: 37039493--37039542 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
37039483 ATTGTCACCG
*
37039493 CCACCACCACCTCCTCCTCCA
1 CCACCACCACCTCCACCTCCA
37039514 CCACCACCACCTCCACCTCCA
1 CCACCACCACCTCCACCTCCA
*
37039535 CCTCCACC
1 CCACCACC
37039543 TCTACCTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.68, G:0.00, T:0.12
Consensus pattern (21 bp):
CCACCACCACCTCCACCTCCA
Found at i:37039562 original size:6 final size:6
Alignment explanation
Indices: 37039488--37039560 Score: 62
Period size: 6 Copynumber: 12.7 Consensus size: 6
37039478 TAACCATTGT
* * * *
37039488 CACCGC CACCAC CACCTC CTCCTC CA---C CACCAC CACCTC CACCTC
1 CACCTC CACCTC CACCTC CACCTC CACCTC CACCTC CACCTC CACCTC
* * *
37039533 CACCTC CACCTC TACCTC TACCGC CACC
1 CACCTC CACCTC CACCTC CACCTC CACC
37039561 GCTTCCGTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
3 3 0.05
6 53 0.95
ACGTcount: A:0.19, C:0.64, G:0.03, T:0.14
Consensus pattern (6 bp):
CACCTC
Found at i:37039624 original size:15 final size:15
Alignment explanation
Indices: 37039606--37039668 Score: 72
Period size: 15 Copynumber: 4.2 Consensus size: 15
37039596 CTGAGCCATG
*
37039606 TCCACCTCCACTACC
1 TCCACCTCCACCACC
*
37039621 TCCACCTCCGCCACC
1 TCCACCTCCACCACC
* * *
37039636 TCCTCCTCCTCTACC
1 TCCACCTCCACCACC
*
37039651 TCCGCCTCCACCACC
1 TCCACCTCCACCACC
37039666 TCC
1 TCC
37039669 TACACCATTC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.13, C:0.63, G:0.03, T:0.21
Consensus pattern (15 bp):
TCCACCTCCACCACC
Found at i:37039644 original size:30 final size:30
Alignment explanation
Indices: 37039610--37039669 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
37039600 GCCATGTCCA
*
37039610 CCTCCACTACCTCCACCTCCGCCACCTCCT
1 CCTCCACTACCTCCACCTCCACCACCTCCT
* *
37039640 CCTCCTCTACCTCCGCCTCCACCACCTCCT
1 CCTCCACTACCTCCACCTCCACCACCTCCT
37039670 ACACCATTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.12, C:0.63, G:0.03, T:0.22
Consensus pattern (30 bp):
CCTCCACTACCTCCACCTCCACCACCTCCT
Found at i:37039709 original size:12 final size:12
Alignment explanation
Indices: 37039678--37039719 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
37039668 CTACACCATT
*
37039678 CCCATACCCAGA
1 CCCATATCCAGA
* *
37039690 CCCGTATCCGGA
1 CCCATATCCAGA
37039702 CCCATATCCAGA
1 CCCATATCCAGA
37039714 CCCATA
1 CCCATA
37039720 CCCTTGGCCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.29, C:0.45, G:0.12, T:0.14
Consensus pattern (12 bp):
CCCATATCCAGA
Found at i:37039863 original size:24 final size:24
Alignment explanation
Indices: 37039819--37039865 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
37039809 CGGAACCCCT
**
37039819 TCCAGAACCATACCCTGAACCATA
1 TCCAGAACCATACCCCAAACCATA
37039843 TCCAGAACC-TGACCCCAAACCAT
1 TCCAGAACCAT-ACCCCAAACCAT
37039866 TAGCACCACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.36, C:0.40, G:0.09, T:0.15
Consensus pattern (24 bp):
TCCAGAACCATACCCCAAACCATA
Found at i:37039924 original size:21 final size:21
Alignment explanation
Indices: 37039869--37039918 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
37039859 AAACCATTAG
* *
37039869 CACCACCTCCACCTCCACCAC
1 CACCTCCTCCTCCTCCACCAC
**
37039890 TTCCTCCTCCTCCTCCACCAC
1 CACCTCCTCCTCCTCCACCAC
37039911 CACCTCCT
1 CACCTCCT
37039919 TTTCCTACAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.64, G:0.00, T:0.20
Consensus pattern (21 bp):
CACCTCCTCCTCCTCCACCAC
Found at i:37047052 original size:44 final size:44
Alignment explanation
Indices: 37046882--37047279 Score: 264
Period size: 44 Copynumber: 9.0 Consensus size: 44
37046872 ATTTGTAATT
* * ** * * *
37046882 TGTAGCTTTAATATGTTCCACTATAACTTTAGGGATATAAGATT
1 TGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATC
* * * * * * ** *
37046926 TGTGGCATAAATCTACTCTATTGCAACTTCAGAAAGATAAGATT
1 TGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATC
* * * * * * *
37046970 TCCTATCTTTGATCTACTCCTCTGCAACTTTAGAGAGATAAGATC
1 T-GTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATC
* * * * *
37047015 TGTAACTTTAATCTTCTCCACTGTAACTTCAGGGAGATAAGGTT
1 TGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATC
* ** *
37047059 TATAGCTTTAATCTGC-CCTACTGCAACTTCAGAAAGATAAGATT
1 TGTAGCTTTAATCTGCTCC-ACTGCAACTTCAGGGAGATAAGATC
* * *
37047103 TGCTAACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGA-C
1 TG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATC
* * * * *
37047147 TTGTGGCTTTAATCTGTTCCACTACAACTTCAAGGAAATAAGAT-
1 -TGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATC
* * * * *
37047191 TCGCTATCTTCAGTCTGCTCCACTACAACTTCAGGAAGATAAGA-C
1 T-G-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATC
* * * *
37047236 TTGTGGCTTTAATCTGCTCCACTGTAACTTCAAGGAAATAAGAT
1 -TGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
37047280 TCGTTACGAT
Statistics
Matches: 268, Mismatches: 75, Indels: 21
0.74 0.21 0.06
Matches are distributed among these distances:
43 3 0.01
44 163 0.61
45 99 0.37
46 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (44 bp):
TGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATC
Found at i:37047128 original size:133 final size:134
Alignment explanation
Indices: 37046881--37047265 Score: 359
Period size: 133 Copynumber: 2.9 Consensus size: 134
37046871 AATTTGTAAT
* * * * * * * * * * * *
37046881 TTGTAGCTTTAATATGTTCCACTATAACTTTAGGGATATAAGATTTG-TGGCATAAATCTACTCT
1 TTGTAACTTTAATCTGTTCCACTACAACTTCAAGGAAATAAGATTCGATAGCTTCAATCTGCTCC
* * * * * *
37046945 ATTGCAACTTCAGAAAGATAAGATTTCCTATCTTTGATCTACTCCTCTGCAACTTTAGAGAGATA
66 ACTGCAACTTCAGAAAGATAAGATTTGCTAACTTTAATCTGCTCCACTGCAACTTTAGAGAGATA
37047010 AGA-
131 AGAC
** * * * * *
37047013 TCTGTAACTTTAATCT-TCTCCACTGTAACTTCAGGGAGATAAGGTT-TATAGCTTTAATCTGC-
1 T-TGTAACTTTAATCTGT-TCCACTACAACTTCAAGGAAATAAGATTCGATAGCTTCAATCTGCT
* *
37047075 CCTACTGCAACTTCAGAAAGATAAGATTTGCTAACTTCAATCTGCTCCACTGCAACTTTAGGGAG
64 CC-ACTGCAACTTCAGAAAGATAAGATTTGCTAACTTTAATCTGCTCCACTGCAACTTTAGAGAG
37047140 ATAAGAC
128 ATAAGAC
** * * *
37047147 TTGTGGCTTTAATCTGTTCCACTACAACTTCAAGGAAATAAGATTCGCTATCTTCAGTCTGCTCC
1 TTGTAACTTTAATCTGTTCCACTACAACTTCAAGGAAATAAGATTCGATAGCTTCAATCTGCTCC
* * * ** *
37047212 ACTACAACTTCAGGAAGATAAGACTTG-TGGCTTTAATCTGCTCCACTGTAACTT
66 ACTGCAACTTCAGAAAGATAAGATTTGCTAACTTTAATCTGCTCCACTGCAACTT
37047266 CAAGGAAATA
Statistics
Matches: 206, Mismatches: 39, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
132 3 0.01
133 164 0.80
134 37 0.18
135 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.34
Consensus pattern (134 bp):
TTGTAACTTTAATCTGTTCCACTACAACTTCAAGGAAATAAGATTCGATAGCTTCAATCTGCTCC
ACTGCAACTTCAGAAAGATAAGATTTGCTAACTTTAATCTGCTCCACTGCAACTTTAGAGAGATA
AGAC
Found at i:37047281 original size:89 final size:89
Alignment explanation
Indices: 37047017--37047282 Score: 347
Period size: 89 Copynumber: 3.0 Consensus size: 89
37047007 ATAAGATCTG
* * * ** * *
37047017 TAACTTTAATCTTCTCCACTGTAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTGC-CCTACT
1 TAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTTAATCTGCTCC-ACT
* *
37047081 GCAACTTC-AGAAAGATAAGATTTGC
65 GCAACTTCAAGGAA-ATAAGATTCGC
* * *
37047106 TAACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTGGCTTTAATCTGTTCCACTA
1 TAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTTAATCTGCTCCACTG
37047171 CAACTTCAAGGAAATAAGATTCGC
66 CAACTTCAAGGAAATAAGATTCGC
* * * *
37047195 TATCTTCAGTCTGCTCCACTACAACTTCAGGAAGATAAGACTTGTGGCTTTAATCTGCTCCACTG
1 TAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTTAATCTGCTCCACTG
*
37047260 TAACTTCAAGGAAATAAGATTCG
66 CAACTTCAAGGAAATAAGATTCG
37047283 TTACGATGAC
Statistics
Matches: 155, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
89 149 0.96
90 6 0.04
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (89 bp):
TAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTTAATCTGCTCCACTG
CAACTTCAAGGAAATAAGATTCGC
Found at i:37052116 original size:43 final size:43
Alignment explanation
Indices: 37052055--37052140 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
37052045 CTGACATGAA
37052055 AGTCTTAGATATATGGGGAAAGGTCATCGGTTCCTACTTGACC
1 AGTCTTAGATATATGGGGAAAGGTCATCGGTTCCTACTTGACC
37052098 AGTCTTAGATATATGGGGAAAGGTCATCGGTTCCTACTTGACC
1 AGTCTTAGATATATGGGGAAAGGTCATCGGTTCCTACTTGACC
37052141 TCTTCCCCAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
AGTCTTAGATATATGGGGAAAGGTCATCGGTTCCTACTTGACC
Found at i:37059083 original size:17 final size:17
Alignment explanation
Indices: 37059061--37059093 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37059051 ATGATATTAA
*
37059061 TAATAAAATAAATAAAG
1 TAATAAAAGAAATAAAG
37059078 TAATAAAAGAAATAAA
1 TAATAAAAGAAATAAA
37059094 ATGCGAGGTG
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:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
TAATAAAAGAAATAAAG
Found at i:37062266 original size:29 final size:29
Alignment explanation
Indices: 37062228--37062283 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
37062218 TTCAATTAAA
37062228 TAAAACATTAAAAAATAAAAAAAAATTAT
1 TAAAACATTAAAAAATAAAAAAAAATTAT
* **
37062257 TAAAATATTAAAGTATAAAAAAAAATT
1 TAAAACATTAAAAAATAAAAAAAAATT
37062284 GGTTCAATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (29 bp):
TAAAACATTAAAAAATAAAAAAAAATTAT
Found at i:37062467 original size:21 final size:20
Alignment explanation
Indices: 37062443--37062511 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
37062433 TTTTTATGAT
37062443 TTTTTATAAAATTTTAATATG
1 TTTTTAT-AAATTTTAATATG
37062464 TTTTTATAAATTTTAAATATG
1 TTTTTATAAATTTT-AATATG
* *
37062485 -TTTTATTAATTTT-ATATT
1 TTTTTATAAATTTTAATATG
37062503 TTTTTATAA
1 TTTTTATAA
37062512 CTTATTAGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
18 4 0.09
19 7 0.16
20 19 0.44
21 13 0.30
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTTATAAATTTTAATATG
Found at i:37062524 original size:26 final size:27
Alignment explanation
Indices: 37062487--37062538 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
37062477 TAAATATGTT
*
37062487 TTATTAATTTTA-TATTTTTTTATAAC
1 TTATTAATTTTATTATATTTTTATAAC
37062513 TTATTAGA-TTTATTATATTTTTATAA
1 TTATTA-ATTTTATTATATTTTTATAA
37062539 GGTCATATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (27 bp):
TTATTAATTTTATTATATTTTTATAAC
Found at i:37062606 original size:11 final size:11
Alignment explanation
Indices: 37062583--37062617 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
37062573 TAAATTTATA
37062583 TTTTGATAATT
1 TTTTGATAATT
*
37062594 TTTT-ATGATT
1 TTTTGATAATT
37062604 TTTTGATAATT
1 TTTTGATAATT
37062615 TTT
1 TTT
37062618 CTAAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (11 bp):
TTTTGATAATT
Found at i:37062625 original size:21 final size:21
Alignment explanation
Indices: 37062583--37062627 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
37062573 TAAATTTATA
*
37062583 TTTTGATAATTTTTTATGATT
1 TTTTGATAATTTTTTATAATT
37062604 TTTTGATAATTTTTCTA-AATT
1 TTTTGATAATTTTT-TATAATT
37062625 TTT
1 TTT
37062628 AATCATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (21 bp):
TTTTGATAATTTTTTATAATT
Found at i:37065337 original size:2 final size:2
Alignment explanation
Indices: 37065330--37065363 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
37065320 AACTGTTTTA
37065330 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37065364 TAAGTAAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37065635 original size:2 final size:2
Alignment explanation
Indices: 37065628--37065654 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37065618 TGTCAAAGTT
37065628 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
37065655 GCTTCAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37066286 original size:2 final size:2
Alignment explanation
Indices: 37066279--37066308 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
37066269 TGCATATGTC
37066279 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37066309 TATTGCTAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37071988 original size:15 final size:14
Alignment explanation
Indices: 37071932--37072048 Score: 62
Period size: 15 Copynumber: 8.1 Consensus size: 14
37071922 TTATTATGTT
*
37071932 TCTATTTATATTTA
1 TCTATTTTTATTTA
*
37071946 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
37071960 TACTATTATTATTTA
1 T-CTATTTTTATTTA
37071975 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
* *
37071990 TCTATTTATATTTC
1 TCTATTTTTATTTA
*
37072004 TACTATTATTATATT-
1 T-CTATTTTTAT-TTA
37072019 TCTATTTATTATATT-
1 TCTATTT-TTAT-TTA
* *
37072034 TTTATTTCTATTTA
1 TCTATTTTTATTTA
37072048 T
1 T
37072049 ATACTAATAT
Statistics
Matches: 82, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
12 6 0.07
13 4 0.05
14 24 0.29
15 37 0.45
16 4 0.05
17 7 0.09
ACGTcount: A:0.26, C:0.08, G:0.01, T:0.65
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:37072001 original size:29 final size:28
Alignment explanation
Indices: 37071920--37072027 Score: 82
Period size: 29 Copynumber: 3.8 Consensus size: 28
37071910 TTATCACTAT
37071920 TATTATTATGTT-TCTATTTATATTTAT-
1 TATTATTAT-TTATCTATTTATATTTATC
*
37071947 T-TTGTTATTCTAATACTA-TTATTATTTATC
1 TATTATTATT-T-AT-CTATTTA-TATTTATC
* *
37071977 TAATTTTTATTTATCTATTTATATTTCTAC
1 T-ATTATTATTTATCTATTTATATTTAT-C
37072007 TATTATTATATT-TCTATTTAT
1 TATTATTAT-TTATCTATTTAT
37072028 TATATTTTTA
Statistics
Matches: 66, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
25 1 0.02
26 7 0.11
27 1 0.02
28 4 0.06
29 35 0.53
30 10 0.15
31 1 0.02
32 7 0.11
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (28 bp):
TATTATTATTTATCTATTTATATTTATC
Found at i:37072017 original size:17 final size:15
Alignment explanation
Indices: 37071995--37072040 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
37071985 ATTTATCTAT
37071995 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
37072012 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
37072027 TTATATTTTTATTT
1 TTATATTTCTATTT
37072041 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:37072084 original size:52 final size:54
Alignment explanation
Indices: 37071963--37072084 Score: 125
Period size: 52 Copynumber: 2.4 Consensus size: 54
37071953 ATTCTAATAC
* * *
37071963 TATTATTATTTATC-TA-ATTTTTATTTATCTATTTATATTTCTACTATTATTA
1 TATTATTATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
* *
37072015 TATT-TCTA--TTTATTATATTTTTA-TT-TCTATTTATA-TACTAATATTATTT
1 TATTAT-TATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
37072064 TCATTATTATTTTTCTTATAT
1 T-ATTATTATTTTTCTTATAT
37072085 ATGTTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
49 12 0.21
50 17 0.30
51 6 0.11
52 22 0.39
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (54 bp):
TATTATTATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
Found at i:37074176 original size:19 final size:18
Alignment explanation
Indices: 37074154--37074199 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
37074144 ATTTCTTTCT
37074154 TTTGCATTCATTCCATGCA
1 TTTGCATTCATTCCAT-CA
* *
37074173 TTTGCATAGCATTGCATCA
1 TTTGCAT-TCATTCCATCA
37074192 TTTGCATT
1 TTTGCATT
37074200 AGATTTTCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (18 bp):
TTTGCATTCATTCCATCA
Found at i:37078721 original size:45 final size:45
Alignment explanation
Indices: 37078672--37078881 Score: 175
Period size: 45 Copynumber: 4.7 Consensus size: 45
37078662 AAGTTATAGA
*
37078672 TCTTATCTCCATGTATCGACTATGGAGCAGATCAGAAATGGCGAG
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAG
* * * **
37078717 TCTTATCTCCATGTATCGGTTATGGAGTAGATTTTAGCCA---CGAG
1 TCTTATCTCCATGTATCGGCTATGGAGCAGA--TCAGAAATGGCGAG
* * * * * * **
37078761 TCTTATCTTCTTG-A--AGTTACAGGAAGCAGA-CTAAAAATTAC-AG
1 TCTTATCTCCATGTATCGGCTA-TGG-AGCAGATC-AGAAATGGCGAG
*
37078804 ATCTTATCTCTATGTATCGGCTATGGAGCAGATCAGAAATGGCGAG
1 -TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAG
37078850 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
1 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
37078882 TTTAGCCACC
Statistics
Matches: 126, Mismatches: 25, Indels: 28
0.70 0.14 0.16
Matches are distributed among these distances:
41 6 0.05
42 2 0.02
43 8 0.06
44 26 0.21
45 72 0.57
46 5 0.04
47 7 0.06
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (45 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAG
Found at i:37078721 original size:133 final size:133
Alignment explanation
Indices: 37078584--37078907 Score: 531
Period size: 133 Copynumber: 2.4 Consensus size: 133
37078574 AAATTATAGA
* *
37078584 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTTCCTGAAGTTACA
* * *
37078649 GGAAGCAGACTGAAAGTTATAGATCTTATCTCCATGTATCGACTATGGAGCAGATCAGAAATGGC
66 GGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGACTATGGAGCAGATCAGAAATGGC
37078714 GAG
131 GAG
* * * *
37078717 TCTTATCTCCATGTATCGGTTATGGAGTAGATTTTAGCCACGAGTCTTATCTTCTTGAAGTTACA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTTCCTGAAGTTACA
* *
37078782 GGAAGCAGACTAAAAATTACAGATCTTATCTCTATGTATCGGCTATGGAGCAGATCAGAAATGGC
66 GGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGACTATGGAGCAGATCAGAAATGGC
37078847 GAG
131 GAG
* *
37078850 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTTTCTGA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTTCCTGA
37078908 GGTAGCAAAA
Statistics
Matches: 175, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
133 175 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (133 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTTCCTGAAGTTACA
GGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGACTATGGAGCAGATCAGAAATGGC
GAG
Found at i:37078942 original size:133 final size:132
Alignment explanation
Indices: 37078400--37078945 Score: 482
Period size: 133 Copynumber: 4.1 Consensus size: 132
37078390 CGGTAAAAAT
* * *
37078400 TACAAATCTTATCTCTATGTATCGGCTATGGAGCAGATCAGAAATGGCAAGTCTTATCTCTATGT
1 TACAAGTCTTATCTCTATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGT
* * * * * * * * **
37078465 ATCAGCTATGAAGTAGATTTAAGCCATCGGCCTTATCTCTCTGAGGCAGCAAGAGAGCAGGTTGA
66 ATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTTTCTGAGGTAGCAAGA-AGCAGACTGA
37078530 AGA
130 AGA
* * * * * * * * * ***
37078533 TACGAGCCTTAACCCCCTAAGCAGTAGGGTAATAG-GCTA-A--A-AAAT-TATAGATCTTATCT
1 TACAAGTCTT-A-TCTCTATGTA-TCGGCT-ATGGAGC-AGATCAGAAATGGCGAG-TCTTATCT
* * * * * *
37078592 CCATGTATCGGCTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAGGAAGCAG
60 CCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTTTCTGAGGTAGCAAGAAGCAG
*
37078657 ACTGAAAGT
125 ACTG-AAGA
* * *
37078666 TA-TAGATCTTATCTCCATGTATCGACTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATG
1 TACAAG-TCTTATCTCTATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATG
* * * * * *
37078730 TATCGGTTATGGAGTAGATTTTAGCCACGAGTCTTATC-TTCTTGAAGTTA-CAGGAAGCAGACT
65 TATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTTTC-TG-AGGTAGCAAGAAGCAGACT
* *
37078793 AAAAA
128 GAAGA
37078798 TTAC-AGATCTTATCTCTATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCAT
1 -TACAAG-TCTTATCTCTATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCAT
* **
37078862 GTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTTTCTGAGGTAGCAAAAGAGCAGGTT
64 GTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTTTCTGAGGTAGCAAGA-AGCAGACT
37078927 GAAGA
128 GAAGA
37078932 TACAAGTCTTATCT
1 TACAAGTCTTATCT
37078946 TCATGAAGTT
Statistics
Matches: 323, Mismatches: 68, Indels: 44
0.74 0.16 0.10
Matches are distributed among these distances:
129 4 0.01
130 6 0.02
131 5 0.02
132 21 0.07
133 250 0.77
134 20 0.06
135 6 0.02
136 7 0.02
137 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (132 bp):
TACAAGTCTTATCTCTATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGT
ATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTTTCTGAGGTAGCAAGAAGCAGACTGAA
GA
Found at i:37078988 original size:178 final size:177
Alignment explanation
Indices: 37078759--37079085 Score: 537
Period size: 178 Copynumber: 1.8 Consensus size: 177
37078749 TTTAGCCACG
* * * *
37078759 AGTCTTATCTTCTTGAAGTTACAGGAAGCAGACTAAAAATTACAGATCTTATCTCTATGTATCGG
1 AGTCTTATCTTCATGAAGTTACAGGAAGCAAACTAAAAATTACAGATCTTATCTCCATGTATCGA
* *
37078824 CTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
66 CTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCAAGTATCGGCTATAGAGCAGATTTTAGCC
*
37078889 ACCAGCCTTATCTTTCTGAGGTAGCAAAAGAGCAGGTTGAAGATACA
131 ACCAGCCTTATCTTCCTGAGGTAGCAAAAGAGCAGGTTGAAGATACA
* *
37078936 AGTCTTATCTTCATGAAGTTACAGGAAGCAAACTGAAAATTTACAGATCTTATCTCCATGTATCT
1 AGTCTTATCTTCATGAAGTTACAGGAAGCAAACT-AAAAATTACAGATCTTATCTCCATGTATCG
*
37079001 ACTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCAAGTATTGGCTATAGAGCAGATTTTAGC
65 ACTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCAAGTATCGGCTATAGAGCAGATTTTAGC
* *
37079066 CACTAGTCTTATCTTCCTGA
130 CACCAGCCTTATCTTCCTGA
37079086 AGTTGTAGGA
Statistics
Matches: 137, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
177 32 0.23
178 105 0.77
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (177 bp):
AGTCTTATCTTCATGAAGTTACAGGAAGCAAACTAAAAATTACAGATCTTATCTCCATGTATCGA
CTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCAAGTATCGGCTATAGAGCAGATTTTAGCC
ACCAGCCTTATCTTCCTGAGGTAGCAAAAGAGCAGGTTGAAGATACA
Found at i:37079089 original size:134 final size:134
Alignment explanation
Indices: 37078936--37079192 Score: 388
Period size: 134 Copynumber: 1.9 Consensus size: 134
37078926 TGAAGATACA
* * *
37078936 AGTCTTATCTTCATGAAGTTACAGGAAGCAAACTGAAAATTTACAGATCTTATCTCCATGTATCT
1 AGTCTTATCTTCATGAAGTTACAGGAAGCAAACTAAAAAGTTACAGATCTTATCTCCATGTATCG
*
37079001 ACTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCAAGTATTGGCTATAGAGCAGATTTTAGC
66 ACTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCAAGTATCGGCTATAGAGCAGATTTTAGC
37079066 CACT
131 CACT
* ** *
37079070 AGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTAAAAAGTTACAGATCTTATCTCCATGTATCG
1 AGTCTTATCTTCATGAAGTTACAGGAAGCAAACTAAAAAGTTACAGATCTTATCTCCATGTATCG
* ** * * *
37079135 GCTATGGAGTTGTTCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGA
66 ACTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCAAGTATCGGCTATAGAGCAGA
37079193 CTGAGAAGTA
Statistics
Matches: 109, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
134 109 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (134 bp):
AGTCTTATCTTCATGAAGTTACAGGAAGCAAACTAAAAAGTTACAGATCTTATCTCCATGTATCG
ACTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCAAGTATCGGCTATAGAGCAGATTTTAGC
CACT
Found at i:37079324 original size:88 final size:87
Alignment explanation
Indices: 37079221--37079663 Score: 634
Period size: 88 Copynumber: 5.0 Consensus size: 87
37079211 TCTTAAACAA
* *
37079221 TAGTGGAGCAGATCGAAGACAGCGAGCCTTAACTCCCTAAGCAGTAGAGTAACAGGCTGAAAATT
1 TAGTGGAGCAGATCGAAGACAGTGAGCCTTAAC-CCCTAAGCAGTAGGGTAACAGGCTGAAAATT
*
37079286 ACAGATTTTATCTCCCTAAGCAG
65 ACAGATCTTATCTCCCTAAGCAG
* * *
37079309 TAGTGGAGCAGATCGAAGACAGTAAGCCTTAACCCTTTAAGCAGTAGGGTAACAGACTGAAAATT
1 TAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCC-CTAAGCAGTAGGGTAACAGGCTGAAAATT
*
37079374 ACAGATCTTATCTCCCTAAGCAA
65 ACAGATCTTATCTCCCTAAGCAG
* * *
37079397 TAGTGGAGCAAATCGAAGACAGCGAGCCTTAACTCCCTAAGCAGTAGAGTAACAGGCTGAAAATT
1 TAGTGGAGCAGATCGAAGACAGTGAGCCTTAAC-CCCTAAGCAGTAGGGTAACAGGCTGAAAATT
37079462 ACAGATCTTATCTCCCTAAGCAG
65 ACAGATCTTATCTCCCTAAGCAG
* * *
37079485 TAGTGGAGCAGATCGAAGACAGTAAGCTTTAACCCCTTAAGCAGTAGGGTAACAGACTGAAAATT
1 TAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCC-TAAGCAGTAGGGTAACAGGCTGAAAATT
37079550 ACAGATCTTATCTCCCTAAGCAG
65 ACAGATCTTATCTCCCTAAGCAG
* ** * * * *
37079573 TAGTGGAGCAGATCGAAAATGGTGAGCCTTATCCCCTTAAGCAGTGGGGAAACAAGCTGAAAATT
1 TAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCC-TAAGCAGTAGGGTAACAGGCTGAAAATT
* * *
37079638 ACAAATCTTATCTTCCTCAGCAG
65 ACAGATCTTATCTCCCTAAGCAG
37079661 TAG
1 TAG
37079664 GGAAACAAGC
Statistics
Matches: 319, Mismatches: 33, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
87 5 0.02
88 312 0.98
89 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (87 bp):
TAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTA
CAGATCTTATCTCCCTAAGCAG
Found at i:37079414 original size:176 final size:176
Alignment explanation
Indices: 37079218--37079663 Score: 723
Period size: 176 Copynumber: 2.5 Consensus size: 176
37079208 CTCTCTTAAA
37079218 CAATAGTGGAGCAGATCGAAGACAGCGAGCCTTAACTCCCTAAGCAGTAGAGTAACAGGCTGAAA
1 CAATAGTGGAGCAGATCGAAGACAGCGAGCCTTAACTCCCTAAGCAGTAGAGTAACAGGCTGAAA
* *
37079283 ATTACAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTAAGCCTTAACCCTTTA
66 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTAAGCCTTAACCCCTTA
37079348 AGCAGTAGGGTAACAGACTGAAAATTACAGATCTTATCTCCCTAAG
131 AGCAGTAGGGTAACAGACTGAAAATTACAGATCTTATCTCCCTAAG
*
37079394 CAATAGTGGAGCAAATCGAAGACAGCGAGCCTTAACTCCCTAAGCAGTAGAGTAACAGGCTGAAA
1 CAATAGTGGAGCAGATCGAAGACAGCGAGCCTTAACTCCCTAAGCAGTAGAGTAACAGGCTGAAA
*
37079459 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTAAGCTTTAACCCCTTA
66 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTAAGCCTTAACCCCTTA
37079524 AGCAGTAGGGTAACAGACTGAAAATTACAGATCTTATCTCCCTAAG
131 AGCAGTAGGGTAACAGACTGAAAATTACAGATCTTATCTCCCTAAG
* * ** * * * * * *
37079570 CAGTAGTGGAGCAGATCGAAAATGGTGAGCCTTATC-CCCTTAAGCAGTGGGGAAACAAGCTGAA
1 CAATAGTGGAGCAGATCGAAGACAGCGAGCCTTAACTCCC-TAAGCAGTAGAGTAACAGGCTGAA
* * *
37079634 AATTACAAATCTTATCTTCCTCAGCAGTAG
65 AATTACAGATCTTATCTCCCTAAGCAGTAG
37079664 GGAAACAAGC
Statistics
Matches: 251, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
175 3 0.01
176 248 0.99
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (176 bp):
CAATAGTGGAGCAGATCGAAGACAGCGAGCCTTAACTCCCTAAGCAGTAGAGTAACAGGCTGAAA
ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTAAGCCTTAACCCCTTA
AGCAGTAGGGTAACAGACTGAAAATTACAGATCTTATCTCCCTAAG
Found at i:37079591 original size:44 final size:45
Alignment explanation
Indices: 37079248--37079826 Score: 336
Period size: 44 Copynumber: 13.1 Consensus size: 45
37079238 GACAGCGAGC
* * * *
37079248 CTTAACTCCCTAAGCAGTAGAGTAACAG-GCTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGAGCTGAAAATTACAGAT
* * * *
37079292 TTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGACAGTA-AG-C
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGAGCTGAA-A-ATTACAGAT
* * *
37079336 CTTAAC-CCTTTAAGCAGTAG-GGTAACAGA-CTGAAAATTACAGAT
1 CTTATCTCC-CTAAGCAGTAGTGG-AGCAGAGCTGAAAATTACAGAT
* * * * * *
37079380 CTTATCTCCCTAAGCAATAGTGGAGCAAATC-GAAGA-CAGC-GAGC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGAGCTGAAAATTA-CAGA-T
* * * *
37079424 CTTAACTCCCTAAGCAGTAGAGTAACAG-GCTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGAGCTGAAAATTACAGAT
* * *
37079468 CTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGACAGTA-AGCT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGAGCTGAA-A-ATTACAGAT
* *
37079513 -TTAAC-CCCTTAAGCAGTAG-GGTAACAGA-CTGAAAATTACAGAT
1 CTTATCTCCC-TAAGCAGTAGTGG-AGCAGAGCTGAAAATTACAGAT
* * *
37079556 CTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAAATGGT-GAG-C
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGAGCTGAAAAT--TACAGAT
* * *
37079600 CTTATC-CCCTTAAGCAGT-GGGGAAACA-AGCTGAAAATTACAAAT
1 CTTATCTCCC-TAAGCAGTAGTGG-AGCAGAGCTGAAAATTACAGAT
* * *
37079644 CTTATCTTCCTCAGCAGTAG-GGAAACA-AGCTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGG-AGCAGAGCTGAAAATTACAGAT
** * ** * *
37079688 CTTATCTCCCTAAGCAGTAGCAGAGCAGA-TTGGAAACGGT-GAG-C
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGAGCT-GAAA-ATTACAGAT
* * * *
37079732 CTTATCTCCCTGAGTAATAGTGGAGTAG-GCTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGAGCTGAAAATTACAGAT
* * *
37079776 GTTACCTCCCTAAGCAGTAGTGGAGCAGA-CTGAAGATTAACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGAGCTGAAAATT-ACAGAT
*
37079821 TTTATC
1 CTTATC
37079827 CTCTTTAAGT
Statistics
Matches: 405, Mismatches: 85, Indels: 89
0.70 0.15 0.15
Matches are distributed among these distances:
42 8 0.02
43 37 0.09
44 306 0.76
45 46 0.11
46 8 0.02
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (45 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGAGCTGAAAATTACAGAT
Found at i:37080866 original size:15 final size:14
Alignment explanation
Indices: 37080840--37080910 Score: 63
Period size: 15 Copynumber: 4.9 Consensus size: 14
37080830 TATTCTAATA
*
37080840 CTATTATTATTTAT
1 CTATTTTTATTTAT
37080854 CTAATTTTTATTTAT
1 CT-ATTTTTATTTAT
* *
37080869 CTATTTATATTTCT
1 CTATTTTTATTTAT
*
37080883 ACTATTATTATATT-T
1 -CTATTTTTAT-TTAT
37080898 CTATTTTTTATTT
1 CTA-TTTTTATTT
37080911 CTATTTATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.36
15 28 0.60
16 2 0.04
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.66
Consensus pattern (14 bp):
CTATTTTTATTTAT
Found at i:37080879 original size:14 final size:15
Alignment explanation
Indices: 37080847--37080880 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
37080837 ATACTATTAT
*
37080847 TATTTATCTAATTTT
1 TATTTATCTAATTTA
37080862 TATTTATCT-ATTTA
1 TATTTATCTAATTTA
37080876 TATTT
1 TATTT
37080881 CTACTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTATCTAATTTA
Found at i:37080906 original size:44 final size:42
Alignment explanation
Indices: 37080838--37080920 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 42
37080828 GTTATTCTAA
37080838 TACTATTATTATTTATCTAATTTTTATTTATCTATTTATATTTC
1 TACTATTATTATTTATCTAATTTTTA-TT-TCTATTTATATTTC
*
37080882 TACTATTATTATATT-TCTATTTTTTATTTCTATTTATAT
1 TACTATTATTAT-TTATCTAATTTTTATTTCTATTTATAT
37080921 ACTAATATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
42 11 0.30
43 2 0.05
44 22 0.59
45 2 0.05
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (42 bp):
TACTATTATTATTTATCTAATTTTTATTTCTATTTATATTTC
Found at i:37080947 original size:42 final size:44
Alignment explanation
Indices: 37080841--37080932 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
37080831 ATTCTAATAC
* * *
37080841 TATTATTAT-TTATCTAATTTTTATTTATCTATTTATATTTCTAC
1 TATTATTATATT-TCTATTTTTTATTTATCTATTTATATTACTAA
37080885 TATTATTATATTTCTATTTTTTA-TT-TCTATTTATA-TACTAA
1 TATTATTATATTTCTATTTTTTATTTATCTATTTATATTACTAA
37080926 TATTATT
1 TATTATT
37080933 TTCATTATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
41 11 0.25
42 10 0.23
43 2 0.05
44 19 0.43
45 2 0.05
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (44 bp):
TATTATTATATTTCTATTTTTTATTTATCTATTTATATTACTAA
Found at i:37080990 original size:4 final size:4
Alignment explanation
Indices: 37080981--37081005 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
37080971 ATTAACATTC
37080981 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
37081006 TACTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:37085183 original size:16 final size:16
Alignment explanation
Indices: 37085162--37085193 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
37085152 ATGTTAACAA
37085162 GTAGATACTGTTAGCT
1 GTAGATACTGTTAGCT
37085178 GTAGATACTGTTAGCT
1 GTAGATACTGTTAGCT
37085194 ATATGTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (16 bp):
GTAGATACTGTTAGCT
Found at i:37091856 original size:21 final size:22
Alignment explanation
Indices: 37091820--37091861 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
37091810 TTAAATATTC
*
37091820 AAATTTGTTTAATATTCTCTTG
1 AAATTTGTTCAATATTCTCTTG
37091842 AAATTT-TTCAATATTCTCTT
1 AAATTTGTTCAATATTCTCTT
37091862 TTTCTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.55
Consensus pattern (22 bp):
AAATTTGTTCAATATTCTCTTG
Found at i:37092735 original size:44 final size:47
Alignment explanation
Indices: 37092686--37092780 Score: 135
Period size: 48 Copynumber: 2.1 Consensus size: 47
37092676 ACGTTCAAAC
*
37092686 AAACAAAAGTATAAGA-T-TA-TGCTTGGTTAG-TTGGAAAATTGAAG
1 AAACAAAAGTATAAGATTATACTGCTTGGTT-GTTTGGAAAAGTGAAG
37092730 AAACAAAAGTATAAGATTATACTTGCTTGGTTGTTTGGAAAAGTGAAG
1 AAACAAAAGTATAAGATTATAC-TGCTTGGTTGTTTGGAAAAGTGAAG
37092778 AAA
1 AAA
37092781 TGGAAGAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
44 16 0.36
45 1 0.02
46 2 0.04
47 1 0.02
48 25 0.56
ACGTcount: A:0.43, C:0.05, G:0.22, T:0.29
Consensus pattern (47 bp):
AAACAAAAGTATAAGATTATACTGCTTGGTTGTTTGGAAAAGTGAAG
Found at i:37097502 original size:17 final size:18
Alignment explanation
Indices: 37097471--37097504 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
37097461 GAAAATGTAC
*
37097471 ATAATAAAATGAAAATAT
1 ATAATAAAATAAAAATAT
37097489 ATAA-AAAATAAAAATA
1 ATAATAAAATAAAAATA
37097505 AAAGTTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (18 bp):
ATAATAAAATAAAAATAT
Found at i:37107867 original size:14 final size:14
Alignment explanation
Indices: 37107848--37107874 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37107838 TCGCGGATGA
37107848 TGGTGGTGGTGGTG
1 TGGTGGTGGTGGTG
37107862 TGGTGGTGGTGGT
1 TGGTGGTGGTGGT
37107875 TGTTGTCGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.63, T:0.37
Consensus pattern (14 bp):
TGGTGGTGGTGGTG
Found at i:37107936 original size:24 final size:24
Alignment explanation
Indices: 37107907--37107956 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
37107897 TCTTGAGTCA
37107907 TTCTAGTTGAATTCTCGGTAACAT
1 TTCTAGTTGAATTCTCGGTAACAT
37107931 TTCTAGTTGAATTCTCGGTAACAT
1 TTCTAGTTGAATTCTCGGTAACAT
37107955 TT
1 TT
37107957 GCATGGTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (24 bp):
TTCTAGTTGAATTCTCGGTAACAT
Found at i:37114720 original size:24 final size:23
Alignment explanation
Indices: 37114689--37114735 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
37114679 TTTAATAATT
37114689 ATTTTTA-TTTCTTAAATTTTTAAA
1 ATTTTTATTTTC-T-AATTTTTAAA
37114713 ATTTTTATTTTCTAATTTTTAAA
1 ATTTTTATTTTCTAATTTTTAAA
37114736 GTCAAGATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.45
24 8 0.36
25 4 0.18
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTTTTATTTTCTAATTTTTAAA
Found at i:37116685 original size:46 final size:44
Alignment explanation
Indices: 37116581--37116688 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
37116571 TGTCTTTGAC
** * * *
37116581 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
37116625 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
37116671 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
37116689 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:37118672 original size:35 final size:35
Alignment explanation
Indices: 37118632--37118700 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
37118622 GGAAATGAGA
37118632 AGTCACAAGAGAACGAAACACATTGATCGGAAGTG
1 AGTCACAAGAGAACGAAACACATTGATCGGAAGTG
37118667 AGTCACAAGAGAACGAAACACATTGATCGGAAGT
1 AGTCACAAGAGAACGAAACACATTGATCGGAAGT
37118701 ATCACTTGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.43, C:0.17, G:0.25, T:0.14
Consensus pattern (35 bp):
AGTCACAAGAGAACGAAACACATTGATCGGAAGTG
Found at i:37122879 original size:93 final size:93
Alignment explanation
Indices: 37122767--37122938 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
37122757 GCCCATAAGT
* *
37122767 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
37122832 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
37122860 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
37122925 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
37122939 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:37122934 original size:46 final size:46
Alignment explanation
Indices: 37122759--37122934 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
37122749 TGTAACCCGC
* * *
37122759 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
37122805 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
37122855 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
37122898 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
37122935 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:37125887 original size:16 final size:16
Alignment explanation
Indices: 37125866--37125898 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
37125856 AGTAAGTTCG
37125866 CATAACAGGAAATTAA
1 CATAACAGGAAATTAA
37125882 CATAACAGGAAATTAA
1 CATAACAGGAAATTAA
37125898 C
1 C
37125899 TTACCATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.55, C:0.15, G:0.12, T:0.18
Consensus pattern (16 bp):
CATAACAGGAAATTAA
Found at i:37127144 original size:20 final size:20
Alignment explanation
Indices: 37127103--37127144 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
37127093 AGCTCATGTA
* *
37127103 TTTCATAAAATTTAGAATTT
1 TTTCATAAAATTTACAACTT
*
37127123 TTTCATAAATTTTACAACTT
1 TTTCATAAAATTTACAACTT
37127143 TT
1 TT
37127145 CAATTTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (20 bp):
TTTCATAAAATTTACAACTT
Found at i:37127322 original size:19 final size:19
Alignment explanation
Indices: 37127298--37127336 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
37127288 CAAATTAATC
37127298 CTGGAAATGATTTACTTTT
1 CTGGAAATGATTTACTTTT
37127317 CTGGAAATGATTTACTTTT
1 CTGGAAATGATTTACTTTT
37127336 C
1 C
37127337 CAGTGTTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (19 bp):
CTGGAAATGATTTACTTTT
Found at i:37130402 original size:18 final size:18
Alignment explanation
Indices: 37130364--37130403 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
37130354 TGAATGCGTT
* *
37130364 GGAAGAAGAAGAAACAGA
1 GGAAAAAGAAGAAACAAA
*
37130382 GGAAAAAGAAGAAGCAAA
1 GGAAAAAGAAGAAACAAA
37130400 GGAA
1 GGAA
37130404 TTAGCCGACG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.33, T:0.00
Consensus pattern (18 bp):
GGAAAAAGAAGAAACAAA
Found at i:37131536 original size:56 final size:56
Alignment explanation
Indices: 37131410--37131536 Score: 143
Period size: 56 Copynumber: 2.3 Consensus size: 56
37131400 TTTATACATA
* * * *
37131410 TATATTTTTACATTTTTTATAATTTTCTTATGACTTTATTAAAAAAAATATATTTC
1 TATATTTATATATATTTTATAATTTTCTTATGACTTTATTAAAAAAAATACATTTC
* * *
37131466 TATATTTCTCTATATTTTATAATTTT-TTATGA-TTT-TTAAAAAAAATTACCATTTT
1 TATATTTATATATATTTTATAATTTTCTTATGACTTTATTAAAAAAAA-TA-CATTTC
37131521 TACTATTTATATATAT
1 TA-TATTTATATATAT
37131537 GTTTTTCTTC
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
53 10 0.17
54 5 0.08
55 12 0.20
56 33 0.55
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (56 bp):
TATATTTATATATATTTTATAATTTTCTTATGACTTTATTAAAAAAAATACATTTC
Found at i:37133277 original size:36 final size:35
Alignment explanation
Indices: 37133194--37133279 Score: 88
Period size: 36 Copynumber: 2.4 Consensus size: 35
37133184 ACAAAACGAG
*
37133194 GTTT-AGGATTTAATTGTAGAATAAGAAAATCTGT
1 GTTTAAGGATTAAATTGTAGAATAAGAAAATCTGT
* *
37133228 GTTTGAGGAATTAAATTGTAGAAT-AGTAAAATTTG-
1 GTTTAAGG-ATTAAATTGTAGAATAAG-AAAATCTGT
37133263 GATTTCAAGGATTAAAT
1 G-TTT-AAGGATTAAAT
37133280 CGTAAAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
34 4 0.09
35 6 0.14
36 31 0.70
37 3 0.07
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.37
Consensus pattern (35 bp):
GTTTAAGGATTAAATTGTAGAATAAGAAAATCTGT
Found at i:37143254 original size:22 final size:23
Alignment explanation
Indices: 37143205--37143259 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 23
37143195 TCGCCCCTAA
* *
37143205 AATGA-AAAATTTTCCATTTAAT
1 AATGATAAAATTTTCAAATTAAT
37143227 -AT-ATAAAATTTT-AAATTAAT
1 AATGATAAAATTTTCAAATTAAT
37143247 AATGATAAAATTT
1 AATGATAAAATTT
37143260 ATTTTGGTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 7 0.25
21 12 0.43
22 9 0.32
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (23 bp):
AATGATAAAATTTTCAAATTAAT
Found at i:37144774 original size:2 final size:2
Alignment explanation
Indices: 37144767--37144794 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
37144757 GTCAATTGCA
37144767 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37144795 TTGTTACGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37145528 original size:22 final size:22
Alignment explanation
Indices: 37145500--37145546 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
37145490 CGAATTATGC
*
37145500 TGGTAAAATAAGAAAATAATTA
1 TGGTAAAATAAGAAAACAATTA
*
37145522 TGGTAAAATAAGACAACAATTA
1 TGGTAAAATAAGAAAACAATTA
37145544 TGG
1 TGG
37145547 ATTAAAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.04, G:0.17, T:0.26
Consensus pattern (22 bp):
TGGTAAAATAAGAAAACAATTA
Found at i:37147241 original size:6 final size:6
Alignment explanation
Indices: 37147230--37147324 Score: 109
Period size: 6 Copynumber: 15.8 Consensus size: 6
37147220 TCCGCCCCCA
* * * * *
37147230 CCGCCT CCGCCT CGGCCT CTGCCT CGGCCT CCGCCT CCACCT CTGCCT
1 CCGCCT CCGCCT CCGCCT CCGCCT CCGCCT CCGCCT CCGCCT CCGCCT
* * * *
37147278 CTGTCT CCGTCT CCGTCT CCGCCT CCGCCT CCGCCT CCGCCT CCGCC
1 CCGCCT CCGCCT CCGCCT CCGCCT CCGCCT CCGCCT CCGCCT CCGCC
37147325 ATCATTTGCC
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 79 1.00
ACGTcount: A:0.01, C:0.59, G:0.18, T:0.22
Consensus pattern (6 bp):
CCGCCT
Found at i:37149816 original size:15 final size:14
Alignment explanation
Indices: 37149798--37149828 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
37149788 TTAAAACTAT
37149798 AAAAATAAAAAATAA
1 AAAAATAAAAAA-AA
37149813 AAAAATAAAAAAAA
1 AAAAATAAAAAAAA
37149827 AA
1 AA
37149829 CTTAGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (14 bp):
AAAAATAAAAAAAA
Found at i:37151170 original size:27 final size:28
Alignment explanation
Indices: 37151095--37151158 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
37151085 AATATTCAAC
*
37151095 ATAAA-TAAAATATAAA-C-AATTTGAA
1 ATAAAGTAATATATAAAGCAAATTTGAA
*
37151120 ATAAAGTAATATATAAAGCAAATTTTAA
1 ATAAAGTAATATATAAAGCAAATTTGAA
37151148 ATAAA-TAATAT
1 ATAAAGTAATAT
37151159 GTTAAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 5 0.15
26 10 0.29
27 7 0.21
28 12 0.35
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (28 bp):
ATAAAGTAATATATAAAGCAAATTTGAA
Found at i:37151326 original size:2 final size:2
Alignment explanation
Indices: 37151319--37151345 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37151309 ATCCAAAATA
37151319 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
37151346 ATTTTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37151801 original size:27 final size:27
Alignment explanation
Indices: 37151745--37151801 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
37151735 ATTAATATAT
** * *
37151745 AAATATAAATAGAAGTATAATGAATGA
1 AAATATAAATAGAAACATAATAAATAA
37151772 AAATAT-AATAGAAACATAAATAAATAA
1 AAATATAAATAGAAACAT-AATAAATAA
37151799 AAA
1 AAA
37151802 AAATTAGAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.23
Consensus pattern (27 bp):
AAATATAAATAGAAACATAATAAATAA
Found at i:37151856 original size:3 final size:3
Alignment explanation
Indices: 37151850--37151881 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
37151840 AATAATAATA
37151850 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
37151882 AAATAAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:37152810 original size:21 final size:20
Alignment explanation
Indices: 37152786--37152827 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
37152776 AAAAGAAAAG
37152786 AAAGAAAGTAAAAAAAAATAA
1 AAAGAAAG-AAAAAAAAATAA
*
37152807 AAAGAAAGAAAAATAAATAA
1 AAAGAAAGAAAAAAAAATAA
37152827 A
1 A
37152828 TAGCGGTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (20 bp):
AAAGAAAGAAAAAAAAATAA
Found at i:37154353 original size:27 final size:26
Alignment explanation
Indices: 37154322--37154375 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 26
37154312 AAACATAGAT
*
37154322 CAAGCTAGAACAACCTAACATCCAGAC
1 CAAGCTAGAACAACCCAACATCC-GAC
37154349 CAAGCTAGAACAACCCAACATCCGAC
1 CAAGCTAGAACAACCCAACATCCGAC
37154375 C
1 C
37154376 TCTTACATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.43, C:0.37, G:0.11, T:0.09
Consensus pattern (26 bp):
CAAGCTAGAACAACCCAACATCCGAC
Found at i:37156710 original size:18 final size:18
Alignment explanation
Indices: 37156689--37156744 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
37156679 GGCCCGCCCG
37156689 TGTGGGTCCACACGCCTA
1 TGTGGGTCCACACGCCTA
*
37156707 TGTGGG----CTCGCACT-
1 TGTGGGTCCACACGC-CTA
*
37156721 TGTGGGTCCACACGCCCA
1 TGTGGGTCCACACGCCTA
37156739 TGTGGG
1 TGTGGG
37156745 CTTACACATG
Statistics
Matches: 29, Mismatches: 3, Indels: 12
0.66 0.07 0.27
Matches are distributed among these distances:
14 10 0.34
15 2 0.07
17 1 0.03
18 16 0.55
ACGTcount: A:0.12, C:0.30, G:0.34, T:0.23
Consensus pattern (18 bp):
TGTGGGTCCACACGCCTA
Found at i:37156728 original size:32 final size:32
Alignment explanation
Indices: 37156666--37156796 Score: 158
Period size: 32 Copynumber: 4.1 Consensus size: 32
37156656 ACAATGGGCT
* * * *
37156666 CACACGCCCATAT-GGCCCGCCCGTGTGGGTC
1 CACACGCCCATGTGGGCTCGCACATGTGGGTC
* *
37156697 CACACGCCTATGTGGGCTCGCACTTGTGGGTC
1 CACACGCCCATGTGGGCTCGCACATGTGGGTC
**
37156729 CACACGCCCATGTGGGCTTACACATGTGGGTC
1 CACACGCCCATGTGGGCTCGCACATGTGGGTC
*
37156761 CACACGCCCATGTAGGC-CTGCACATGTGGGTC
1 CACACGCCCATGTGGGCTC-GCACATGTGGGTC
37156793 CACA
1 CACA
37156797 AGCTGATGTG
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
31 11 0.13
32 75 0.87
ACGTcount: A:0.17, C:0.35, G:0.28, T:0.20
Consensus pattern (32 bp):
CACACGCCCATGTGGGCTCGCACATGTGGGTC
Found at i:37158932 original size:35 final size:35
Alignment explanation
Indices: 37158871--37159035 Score: 156
Period size: 35 Copynumber: 4.7 Consensus size: 35
37158861 TTCCTCATTG
* *
37158871 TAATACCATACCTACATTTTACAACTCGGTATAGGA
1 TAATACCATACCTACGTTTTACAACTCAGTATA-GA
* *
37158907 -AATGCCATACCTACGTTTCT-TAACTCAGTATAGA
1 TAATACCATACCTACGTTT-TACAACTCAGTATAGA
* * * *
37158941 TAATACCATACCTACGTATCACAACTCAGTATGGT
1 TAATACCATACCTACGTTTTACAACTCAGTATAGA
* * * *
37158976 TAATACC-TACCTACATTTCACAACGCAGTATGGA
1 TAATACCATACCTACGTTTTACAACTCAGTATAGA
* * *
37159010 TGATACCATACCTACATTTCACAACT
1 TAATACCATACCTACGTTTTACAACT
37159036 TTGCCATGGA
Statistics
Matches: 109, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
34 31 0.28
35 77 0.71
36 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (35 bp):
TAATACCATACCTACGTTTTACAACTCAGTATAGA
Found at i:37159020 original size:69 final size:70
Alignment explanation
Indices: 37158871--37159035 Score: 199
Period size: 69 Copynumber: 2.4 Consensus size: 70
37158861 TTCCTCATTG
* * * * ** *
37158871 TAATACCATACCTACATTTTACAACTCGGTATAGGAAATGCCATACCTACGTTTCTTAACTCAGT
1 TAATACCATACCTACATTTCACAACTCAGTATAGGAAATACCATACCTACATTTCACAACGCAGT
37158936 ATAGA
66 ATAGA
* * *
37158941 TAATACCATACCTACGTATCACAACTCAGTAT-GGTTAATACC-TACCTACATTTCACAACGCAG
1 TAATACCATACCTACATTTCACAACTCAGTATAGG-AAATACCATACCTACATTTCACAACGCAG
*
37159004 TATGGA
65 TATAGA
*
37159010 TGATACCATACCTACATTTCACAACT
1 TAATACCATACCTACATTTCACAACT
37159036 TTGCCATGGA
Statistics
Matches: 80, Mismatches: 14, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
69 47 0.59
70 33 0.41
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (70 bp):
TAATACCATACCTACATTTCACAACTCAGTATAGGAAATACCATACCTACATTTCACAACGCAGT
ATAGA
Found at i:37164522 original size:19 final size:20
Alignment explanation
Indices: 37164485--37164522 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
37164475 CAATAAATAA
* *
37164485 AATTTTACATTGAATATTTC
1 AATTTTACATTCAACATTTC
37164505 AATTTT-CATTCAACATTT
1 AATTTTACATTCAACATTT
37164523 GCCTAAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.34, C:0.13, G:0.03, T:0.50
Consensus pattern (20 bp):
AATTTTACATTCAACATTTC
Found at i:37168458 original size:300 final size:304
Alignment explanation
Indices: 37168027--37168583 Score: 752
Period size: 300 Copynumber: 1.8 Consensus size: 304
37168017 CTTAAATAAT
* * *
37168027 AGTATAGATATACAATTGATATAGGTAATAAAGTGTGCATAATAAAATTAAATTTTTTAAAAAAT
1 AGTATAGATATACAATTGAGAGAGGTAAAAAAGTGTGCATAATAAAATTAAATTTTTT-AAAAAT
*
37168092 ATCAAAATAAAGCTTTAGTTGAATGATAAGTTAAAAGTTTTATTAATGCAATTAATGTAGGTTCA
65 ATCAAAATAAAGCTTTAGTTGAATGATAAATTAAAAGTTTTATTAATGCAATTAATGTAGGTTCA
** ** * * *
37168157 AATTCCATTTTATGCATATTTTTA-TTATT-ATTTTA-AAGTAAAA-TATTAAAATACCCTCGAA
130 AATTCCATAATAAACATATTTTTATTTATTCATTTTATAA-TAAAAGAACTAAAATACACTCGAA
* * *
37168218 TAATATAATTTGTTTTAATTATGAAAGGACATTTTAATAATTTTTCTAACCAAGTTGGTGACCGC
194 TAATATAACTTGTTTTAATTACGAAAAGACATTTTAATAATTTTTCTAACCAAGTTGGTGACCGC
37168283 TTGACTTGTGACACCAACTTTGTCAAGGCATAAATAATAATATAGA
259 TTGACTTGTGACACCAACTTTGTCAAGGCATAAATAATAATATAGA
* *
37168329 AGTATAGTTATACAATTGAGGGAGGTAAAAAAGTGTGCATAATAAAA-TAATATTTTTT-AAAAT
1 AGTATAGATATACAATTGAGAGAGGTAAAAAAGTGTGCATAATAAAATTAA-ATTTTTTAAAAAT
* * *
37168392 ATCAAAATAAAGCTTTAGTTGAGTGGTAAATT-AAAGATTTTATTAATGCAATTGATGT-GAGTT
65 ATCAAAATAAAGCTTTAGTTGAATGATAAATTAAAAG-TTTTATTAATGCAATTAATGTAG-GTT
*
37168455 CAAATTCCATAATAAACATATTTTTATTTATTCTTTTTATTTTAATAAAAGAACTAAAATACACT
128 CAAATTCCATAATAAACATATTTTTATTTATTCATTTTA---TAATAAAAGAACTAAAATACACT
*** ** *
37168520 CGAATAATATAACTTGTTTTAATTACGAAAATTTATTTTCGTAATTTTTCTAACCGAGTTGGTG
190 CGAATAATATAACTTGTTTTAATTACGAAAAGACATTTTAATAATTTTTCTAACCAAGTTGGTG
37168584 CCTAATTGAC
Statistics
Matches: 219, Mismatches: 26, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
299 5 0.02
300 79 0.36
301 8 0.04
302 54 0.25
305 5 0.02
306 68 0.31
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (304 bp):
AGTATAGATATACAATTGAGAGAGGTAAAAAAGTGTGCATAATAAAATTAAATTTTTTAAAAATA
TCAAAATAAAGCTTTAGTTGAATGATAAATTAAAAGTTTTATTAATGCAATTAATGTAGGTTCAA
ATTCCATAATAAACATATTTTTATTTATTCATTTTATAATAAAAGAACTAAAATACACTCGAATA
ATATAACTTGTTTTAATTACGAAAAGACATTTTAATAATTTTTCTAACCAAGTTGGTGACCGCTT
GACTTGTGACACCAACTTTGTCAAGGCATAAATAATAATATAGA
Done.