Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 19 of 362
Found at i:5774108 original size:7 final size:8
Alignment explanation
Indices: 5774081--5774105 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
5774071 GGTAATCTTT
5774081 AATTTTAA
1 AATTTTAA
5774089 AATTTTAA
1 AATTTTAA
5774097 AATTTTAA
1 AATTTTAA
5774105 A
1 A
5774106 TTTACTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AATTTTAA
Found at i:5782841 original size:14 final size:14
Alignment explanation
Indices: 5782812--5782847 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
5782802 TTTTTTAAAG
5782812 TTTTAAA-TATTAT
1 TTTTAAATTATTAT
*
5782825 TTTTAAATTATTTT
1 TTTTAAATTATTAT
5782839 TTTTAAATT
1 TTTTAAATT
5782848 TTAAATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTAAATTATTAT
Found at i:5782844 original size:35 final size:35
Alignment explanation
Indices: 5782788--5782937 Score: 153
Period size: 36 Copynumber: 4.2 Consensus size: 35
5782778 ATTTGAAATG
*
5782788 TTTTATAATATATATTTTTTAAAGTTTTAAATAT-TAT
1 TTTTA-AAT-TATTTTTTTTAAA-TTTTAAATATATAT
*
5782825 TTTTAAATTATTTTTTTTAAATTTTAAATGTATAT
1 TTTTAAATTATTTTTTTTAAATTTTAAATATATAT
* * *
5782860 TTTTGAAATTATTTCTTATAAATTTTAAAAATATAT
1 TTTT-AAATTATTTTTTTTAAATTTTAAATATATAT
* * * *
5782896 ATTTGAAATCA-TTTTTTAAAATATTAAATAT-TAT
1 -TTTTAAATTATTTTTTTTAAATTTTAAATATATAT
5782930 TTTTAAAT
1 TTTTAAAT
5782938 ACTGAATATA
Statistics
Matches: 96, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
33 7 0.07
34 12 0.12
35 34 0.35
36 35 0.36
37 8 0.08
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (35 bp):
TTTTAAATTATTTTTTTTAAATTTTAAATATATAT
Found at i:5782849 original size:21 final size:22
Alignment explanation
Indices: 5782825--5782869 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
5782815 TAAATATTAT
* *
5782825 TTTTAAAT-TATTTTTTTTAAA
1 TTTTAAATGTATATTTTTGAAA
5782846 TTTTAAATGTATATTTTTGAAA
1 TTTTAAATGTATATTTTTGAAA
5782868 TT
1 TT
5782870 ATTTCTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
TTTTAAATGTATATTTTTGAAA
Found at i:5782934 original size:21 final size:20
Alignment explanation
Indices: 5782908--5782961 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
5782898 TTGAAATCAT
5782908 TTTTTAAAATATTAAATATTA
1 TTTTTAAAATATTAAATA-TA
* *
5782929 TTTTT-AAATACTGAATATA
1 TTTTTAAAATATTAAATATA
5782948 TTTTTAATAATATT
1 TTTTTAA-AATATT
5782962 TAAACATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 7 0.25
20 11 0.39
21 10 0.36
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTTTAAAATATTAAATATA
Found at i:5783035 original size:14 final size:15
Alignment explanation
Indices: 5783016--5783044 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5783006 ATCTTTAAAA
5783016 ATAA-TTAAAAAATT
1 ATAATTTAAAAAATT
5783030 ATAATTTAAAAAATT
1 ATAATTTAAAAAATT
5783045 CTGAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATTTAAAAAATT
Found at i:5783190 original size:29 final size:29
Alignment explanation
Indices: 5783157--5783220 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
5783147 TAATTTGTTT
* * *
5783157 TTTTTTTTTACTTTTTTTTAACTTTTGTC
1 TTTTTTTTTAATTTTTTTTAACTTTTATA
* *
5783186 TTTTTCTTTAATTTTTTTTAAGTTTTATA
1 TTTTTTTTTAATTTTTTTTAACTTTTATA
5783215 TTTTTT
1 TTTTTT
5783221 CTTATTCTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (29 bp):
TTTTTTTTTAATTTTTTTTAACTTTTATA
Found at i:5783298 original size:23 final size:21
Alignment explanation
Indices: 5783267--5783342 Score: 75
Period size: 22 Copynumber: 3.6 Consensus size: 21
5783257 AAAAAAATTA
*
5783267 AAAT-TATATTTGAAATGTTTT
1 AAATATATATTTGAAA-ATTTT
*
5783288 ATAATATATATTTTAAAATTTT
1 A-AATATATATTTGAAAATTTT
* *
5783310 AAATATTATTTTTTAAAATTTT
1 AAATA-TATATTTGAAAATTTT
5783332 AAATAT-TATTT
1 AAATATATATTT
5783343 TTAAAAAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
20 4 0.08
21 6 0.12
22 28 0.58
23 10 0.21
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
AAATATATATTTGAAAATTTT
Found at i:5783314 original size:21 final size:21
Alignment explanation
Indices: 5783267--5783367 Score: 91
Period size: 21 Copynumber: 4.7 Consensus size: 21
5783257 AAAAAAATTA
* *
5783267 AAAT-TATATTTGAAATGTTTT
1 AAATATATATTTTAAA-ATTTT
5783288 ATAATATATATTTTAAAATTTT
1 A-AATATATATTTTAAAATTTT
*
5783310 AAATATTATTTTTTAAAATTTT
1 AAATA-TATATTTTAAAATTTT
**
5783332 AAATAT-TATTTTTAAAAAATT
1 AAATATATA-TTTTAAAATTTT
5783353 AAATATAGT-TTTTAA
1 AAATATA-TATTTTAA
5783368 TAATATGAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.01
21 28 0.41
22 28 0.41
23 11 0.16
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (21 bp):
AAATATATATTTTAAAATTTT
Found at i:5783323 original size:22 final size:22
Alignment explanation
Indices: 5783284--5783381 Score: 103
Period size: 22 Copynumber: 4.5 Consensus size: 22
5783274 ATTTGAAATG
*
5783284 TTTTATAATA-TATATTTTAAAA
1 TTTTA-AATATTATTTTTTAAAA
5783306 TTTTAAATATTATTTTTTAAAA
1 TTTTAAATATTATTTTTTAAAA
5783328 TTTTAAATATTA-TTTTTAAAA
1 TTTTAAATATTATTTTTTAAAA
** *
5783349 AATTAAATA-TAGTTTTTAATAA
1 TTTTAAATATTATTTTTTAA-AA
* *
5783371 TATGAAATATT
1 TTTTAAATATT
5783382 TAAACATTTA
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
20 2 0.03
21 27 0.40
22 37 0.55
23 1 0.01
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTTAAATATTATTTTTTAAAA
Found at i:5783345 original size:43 final size:44
Alignment explanation
Indices: 5783284--5783381 Score: 112
Period size: 43 Copynumber: 2.2 Consensus size: 44
5783274 ATTTGAAATG
** *
5783284 TTTTATAATA-TATATTTTAAAATTTTAAATATTATTTTTTAA-AA
1 TTTTA-AATATTATATTTTAAAAAATTAAATA-TAGTTTTTAATAA
5783328 TTTTAAATATTAT-TTTTAAAAAATTAAATATAGTTTTTAATAA
1 TTTTAAATATTATATTTTAAAAAATTAAATATAGTTTTTAATAA
* *
5783371 TATGAAATATT
1 TTTTAAATATT
5783382 TAAACATTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 9 0.19
43 30 0.64
44 8 0.17
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (44 bp):
TTTTAAATATTATATTTTAAAAAATTAAATATAGTTTTTAATAA
Found at i:5783482 original size:21 final size:21
Alignment explanation
Indices: 5783440--5783482 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
5783430 TTTTAATAAT
* * **
5783440 ATAAAACATTTAAAATTTTTA
1 ATAAAAAATTAAAAATGGTTA
5783461 ATAAAAAATTAAAAATGGTTA
1 ATAAAAAATTAAAAATGGTTA
5783482 A
1 A
5783483 ATATATTTAA
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:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (21 bp):
ATAAAAAATTAAAAATGGTTA
Found at i:5783592 original size:13 final size:14
Alignment explanation
Indices: 5783566--5783599 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
5783556 AAACCTTTTT
*
5783566 AATTTTTTTATAAA
1 AATTTTATTATAAA
5783580 AATTTTATT-TAAA
1 AATTTTATTATAAA
5783593 AATTTTA
1 AATTTTA
5783600 ATGTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATTTTATTATAAA
Found at i:5783662 original size:21 final size:20
Alignment explanation
Indices: 5783615--5783664 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
5783605 TAAATATTAT
* *
5783615 TAAAAAATATATTTAATATT
1 TAAAAAATATATTTAAAATA
5783635 TAAAAAATAATATTTAAAATA
1 TAAAAAAT-ATATTTAAAATA
5783656 TAGAAAAAT
1 TA-AAAAAT
5783665 TAATTTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 8 0.31
21 12 0.46
22 6 0.23
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
TAAAAAATATATTTAAAATA
Found at i:5783711 original size:35 final size:34
Alignment explanation
Indices: 5783632--5783781 Score: 167
Period size: 35 Copynumber: 4.3 Consensus size: 34
5783622 TATATTTAAT
* * *
5783632 ATTTAAAAAATAATATTTAAAATATAGAAAAATTA
1 ATTT-AAAAATAATATTTAAAATTTATAAAAAATA
* *
5783667 ATTTCAAAAATACATTTTTAAAATTTATAATAAATA
1 ATTT-AAAAATA-ATATTTAAAATTTATAAAAAATA
*
5783703 ATTTAAAAATATATATTTAAAATTT-TAAAAAAAA
1 ATTTAAAAATA-ATATTTAAAATTTATAAAAAATA
* *
5783737 ATTTTAAAATAATATTTAAAATTTTTAAAAAATA
1 ATTTAAAAATAATATTTAAAATTTATAAAAAATA
*
5783771 ATATTTAAAAT
1 AT-TTAAAAAT
5783782 TTTAAAAAAT
Statistics
Matches: 100, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
33 13 0.13
34 27 0.27
35 38 0.38
36 22 0.22
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (34 bp):
ATTTAAAAATAATATTTAAAATTTATAAAAAATA
Found at i:5783726 original size:21 final size:20
Alignment explanation
Indices: 5783702--5783746 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
5783692 TATAATAAAT
* *
5783702 AATTTAAAAATATATATTTAA
1 AATTTAAAAAAAAAT-TTTAA
5783723 AATTTTAAAAAAAAATTTTAA
1 AA-TTTAAAAAAAAATTTTAA
5783744 AAT
1 AAT
5783747 AATATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
20 1 0.05
21 9 0.43
22 11 0.52
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTTAAAAAAAAATTTTAA
Found at i:5783768 original size:23 final size:22
Alignment explanation
Indices: 5783734--5783804 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 22
5783724 ATTTTAAAAA
5783734 AAAATTTT--AAAATAATATTT
1 AAAATTTTAAAAAATAATATTT
5783754 AAAATTTTTAAAAAATAATATTT
1 AAAA-TTTTAAAAAATAATATTT
5783777 AAAATTTTAAAAAATATATATTAT
1 AAAATTTTAAAAAATA-ATATT-T
5783801 AAAA
1 AAAA
5783805 CATTTCAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.09
21 4 0.09
22 12 0.26
23 21 0.46
24 5 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTTTAAAAAATAATATTT
Found at i:5783768 original size:92 final size:89
Alignment explanation
Indices: 5783605--5783804 Score: 226
Period size: 92 Copynumber: 2.2 Consensus size: 89
5783595 TTTTAATGTT
* * *
5783605 TAAATATTATTAAAAAATATATTTAATATTTAAAAAATAATATTTAAAATATAGAAAAATTAATT
1 TAAATAATATTAAAAAATATATTTAAAATTTAAAAAAAAATATTTAAAATATAGAAAAATT-ATT
* *
5783670 TCAAAAATACATTTTTAAAATTTATAA
65 TAAAAAATA-ATATTTAAAATTT-TAA
**
5783697 TAAATAAT-TTAAAAATATATATTTAAAATTTTAAAAAAAAAT-TTTAAAATAATATTTAAAATT
1 TAAATAATATTAAAAA-ATATATTTAAAA-TTTAAAAAAAAATATTTAAAAT-ATA-GAAAAATT
5783760 -TTTAAAAAATAATATTTAAAATTTTAA
62 ATTTAAAAAATAATATTTAAAATTTTAA
* *
5783787 AAAATATATATTATAAAA
1 TAAATA-ATATTAAAAAA
5783805 CATTTCAAAT
Statistics
Matches: 93, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
90 8 0.09
91 22 0.24
92 42 0.45
93 15 0.16
94 6 0.06
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.41
Consensus pattern (89 bp):
TAAATAATATTAAAAAATATATTTAAAATTTAAAAAAAAATATTTAAAATATAGAAAAATTATTT
AAAAAATAATATTTAAAATTTTAA
Found at i:5783795 original size:21 final size:21
Alignment explanation
Indices: 5783734--5783795 Score: 90
Period size: 21 Copynumber: 2.9 Consensus size: 21
5783724 ATTTTAAAAA
*
5783734 AAAATTTTAAAATA-ATATTT
1 AAAATTTTAAAAAATATATTT
5783754 AAAATTTTTAAAAAATAATATTT
1 AAAA-TTTTAAAAAAT-ATATTT
5783777 AAAATTTTAAAAAATATAT
1 AAAATTTTAAAAAATATAT
5783796 ATTATAAAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
20 4 0.11
21 13 0.34
22 11 0.29
23 10 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAATTTTAAAAAATATATTT
Found at i:5783815 original size:56 final size:57
Alignment explanation
Indices: 5783707--5783818 Score: 156
Period size: 56 Copynumber: 2.0 Consensus size: 57
5783697 TAAATAATTT
* *
5783707 AAAAATATATATTTAAAATTTTAAAAAAAAATTTTAAAATAATATTTAAAATTTTTA
1 AAAAATATATATTTAAAATTTTAAAAAAAAATATTAAAATAACATTTAAAATTTTTA
* * *
5783764 AAAAATA-ATATTTAAAATTTTAAAAAATATATATTATAA-AACATTTCAAATTTTT
1 AAAAATATATATTTAAAATTTTAAAAAA-AAATATTAAAATAACATTTAAAATTTTT
5783819 TTAAAATTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
56 34 0.69
57 15 0.31
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (57 bp):
AAAAATATATATTTAAAATTTTAAAAAAAAATATTAAAATAACATTTAAAATTTTTA
Found at i:5783844 original size:14 final size:13
Alignment explanation
Indices: 5783821--5783868 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
5783811 AAATTTTTTT
*
5783821 AAAATTAATAACAA
1 AAAATAAATAA-AA
*
5783835 AAAATAAATAAAT
1 AAAATAAATAAAA
5783848 AAAATAAAATAAGAA
1 AAAAT-AAATAA-AA
5783863 AAAATA
1 AAAATA
5783869 TAAAACTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 6 0.21
14 17 0.59
15 6 0.21
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (13 bp):
AAAATAAATAAAA
Found at i:5783848 original size:18 final size:18
Alignment explanation
Indices: 5783822--5783859 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
5783812 AATTTTTTTA
*
5783822 AAATTAATAACAA-AAAAT
1 AAATAAATAA-AATAAAAT
5783840 AAATAAATAAAATAAAAT
1 AAATAAATAAAATAAAAT
5783858 AA
1 AA
5783860 GAAAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (18 bp):
AAATAAATAAAATAAAAT
Found at i:5788988 original size:25 final size:25
Alignment explanation
Indices: 5788943--5789002 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
5788933 TAATAATAAG
* *
5788943 AATAATA-TAAATAATAGTAAATAT
1 AATAATATTAAATAACAGTAAAAAT
* *
5788967 AATAATATTAAGTAACATTAAAAAT
1 AATAATATTAAATAACAGTAAAAAT
5788992 AATTAAT-TTAA
1 AA-TAATATTAA
5789003 TAATAAAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 7 0.23
25 19 0.63
26 4 0.13
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (25 bp):
AATAATATTAAATAACAGTAAAAAT
Found at i:5789603 original size:23 final size:21
Alignment explanation
Indices: 5789560--5789603 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
5789550 CAGGAAAATG
5789560 TAATTTTTCTTTTTATTTTTT
1 TAATTTTTCTTTTTATTTTTT
*
5789581 TAATTATTTGTTTTATATTTTTT
1 TAATT-TTTCTTTT-TATTTTTT
5789604 ATGTTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 7 0.35
23 8 0.40
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (21 bp):
TAATTTTTCTTTTTATTTTTT
Found at i:5789998 original size:13 final size:14
Alignment explanation
Indices: 5789972--5789998 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5789962 GGTGGTGGCA
5789972 GAGGCAAGTGGGGG
1 GAGGCAAGTGGGGG
5789986 GAGGCAAGTGGGG
1 GAGGCAAGTGGGG
5789999 AGCTAGGGTT
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:0.22, C:0.07, G:0.63, T:0.07
Consensus pattern (14 bp):
GAGGCAAGTGGGGG
Found at i:5790936 original size:14 final size:14
Alignment explanation
Indices: 5790917--5790951 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
5790907 GTTGATTTTT
*
5790917 TTGAAAAGCAGAAA
1 TTGAAAAGAAGAAA
5790931 TTGAAAAGAAGAAA
1 TTGAAAAGAAGAAA
5790945 TTGAAAA
1 TTGAAAA
5790952 TTCCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.03, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAGAAGAAA
Found at i:5791064 original size:73 final size:72
Alignment explanation
Indices: 5790931--5791174 Score: 258
Period size: 73 Copynumber: 3.3 Consensus size: 72
5790921 AAAGCAGAAA
* *
5790931 TTGAAAAGAAGAAATTGAAAATT-CCTCAGCGTG-CCATGAGGCTCAACTCATCTCTCGCAATAT
1 TTGAAAA-CAGAAATTG-AAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATAT
5790994 GAGTTAATTT
63 GAGTTAATTT
* *
5791004 TTGACAAACAGAAGTTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
1 TTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
5791069 GTTGATTTTTTTT
65 GTT-A----ATTT
* * * * *
5791082 TTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTAGCAATATGA
1 TTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
5791147 ATTGATTT
65 GTTAATTT
*
5791155 TTGAAAAACATAAATTGAAA
1 TTG-AAAACAGAAATTGAAA
5791175 AACAGAATTT
Statistics
Matches: 144, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
72 5 0.03
73 68 0.47
74 9 0.06
77 2 0.01
78 60 0.42
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (72 bp):
TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTAATTT
Found at i:5791174 original size:14 final size:14
Alignment explanation
Indices: 5791155--5791189 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
5791145 GAATTGATTT
*
5791155 TTGAAAAACATAAA
1 TTGAAAAACAGAAA
*
5791169 TTGAAAAACAGAAT
1 TTGAAAAACAGAAA
5791183 TTGAAAA
1 TTGAAAA
5791190 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.06, G:0.11, T:0.23
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:5791226 original size:238 final size:236
Alignment explanation
Indices: 5790803--5791388 Score: 795
Period size: 238 Copynumber: 2.5 Consensus size: 236
5790793 GTGACCCGAT
* * *
5790803 GCTCAACTCACTTCTCACAATATGAGTTGATTTTTTTTTGAAAAAAAAGAAACTG-AAATACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTG-AAAAAAAGAAATTGAAAATACCTC
* * * *
5790867 AGTATGTGAGCTGGGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAAT
65 A--ACGTGA-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAAT
* *
5790932 TGAAAAGAAGAAATTGAAAATTCCTCAGCGTGCCATGAGGCTCAACTCATCTCTCGCAATATGAG
125 TGAAAAGAAGAAATTGAAAATACCTCAGCGTGCCATGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
5790997 TTAATTTTTGACAAACAGAAGTTGAAATTACCTCAGCGTGTCCTAAG
190 TTAATTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGGCCTAAG
* *
5791044 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGATAGAAATTGAAAATACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTTGAAAAAAAGAAATTGAAAATACCTC
* * * *
5791109 AACGTGTCTTGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGAAAAACATAAATTGAA
65 AACGTGAC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
*
5791174 AA-ACAGAATTTGAAAATACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTT
129 AAGA-AGAAATTGAAAATACCTCAGCGTG-CCATGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
5791237 GATTTTTGACAAATAGAAATTGAAAATACCTCAGCGTGGCCTGAG
192 AATTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGGCCTAAG
* * * *
5791282 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAAACAGGAATTAAAAATACCACA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAAAAGAAATTGAAAATACCTCA
*
5791345 GCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
66 ACGTGA-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
5791389 GATTTTTTTT
Statistics
Matches: 308, Mismatches: 31, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
235 66 0.21
236 1 0.00
237 1 0.00
238 144 0.47
239 3 0.01
240 34 0.11
241 39 0.13
242 20 0.06
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (236 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAAAAGAAATTGAAAATACCTCA
ACGTGACTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAA
GAAGAAATTGAAAATACCTCAGCGTGCCATGAGGCTCAACTCACCTCTCGCAATATGAGTTAATT
TTTGACAAACAGAAATTGAAAATACCTCAGCGTGGCCTAAG
Found at i:5791229 original size:87 final size:87
Alignment explanation
Indices: 5791082--5791262 Score: 272
Period size: 87 Copynumber: 2.1 Consensus size: 87
5791072 GATTTTTTTT
* * *
5791082 TTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTAGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGA
*
5791147 ATTGATTTTTGAAAAACATAAA
66 ATTGATTTTTGAAAAACAGAAA
* * *
5791169 TTGAAAAACAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGA
* * *
5791234 GTTGATTTTTGACAAATAGAAA
66 ATTGATTTTTGAAAAACAGAAA
5791256 TTGAAAA
1 TTGAAAA
5791263 TACCTCAGCG
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (87 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGA
ATTGATTTTTGAAAAACAGAAA
Found at i:5791302 original size:73 final size:73
Alignment explanation
Indices: 5791169--5791388 Score: 350
Period size: 73 Copynumber: 3.0 Consensus size: 73
5791159 AAAACATAAA
* *
5791169 TTGAAAAACAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
5791234 GTTGATTT
66 GTTGATTT
* * *
5791242 TTGACAAATAGAAATTGAAAATACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
5791307 GTTGATTTTT
66 GTTGA--TTT
* * *
5791317 TTGAAAAACAGGAATTAAAAATACCACAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
5791382 GTTGATT
66 GTTGATT
5791389 GATTTTTTTT
Statistics
Matches: 135, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
73 68 0.50
75 67 0.50
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (73 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:5791362 original size:75 final size:75
Alignment explanation
Indices: 5791169--5791388 Score: 347
Period size: 75 Copynumber: 3.0 Consensus size: 75
5791159 AAAACATAAA
*
5791169 TTGAAAAACA-GAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGGAA-TTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
5791233 AGTTGA--TTT
65 AGTTGATTTTT
* * * *
5791242 TTGACAAATAGAAATTGAAAATACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGGAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
5791307 GTTGATTTTT
66 GTTGATTTTT
* *
5791317 TTGAAAAACAGGAATTAAAAATACCACAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGGAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
5791382 GTTGATT
66 GTTGATT
5791389 GATTTTTTTT
Statistics
Matches: 134, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
73 63 0.47
74 2 0.01
75 69 0.51
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (75 bp):
TTGAAAAACAGGAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:5791446 original size:80 final size:78
Alignment explanation
Indices: 5790931--5791424 Score: 244
Period size: 73 Copynumber: 6.4 Consensus size: 78
5790921 AAAGCAGAAA
* * *
5790931 TTGAAAAGA-AGAAATTGAAAATTCCTCAGCGTG-CCATGAGGCTCAACTCATCTCTCGCAATAT
1 TTGAAAA-ACAGAAATAGAAAATACCTCAGCGTGACC-TGAGGCTCAACTCACCTCTCGCAATAT
*
5790994 GA---GTT-A-ATTT
64 GAGTTGTTGATTTTT
* * * * * *
5791004 TTGACAAACAGAAGTTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATAGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
*
5791069 GTTGATT-TTTTTT
66 GTTG-TTGATTTTT
* * * * * * *
5791082 TTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTAGCAATATGA
1 TTGAAAAACAGAAATAGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
*
5791147 ---ATTGA--TTT
66 GTTGTTGATTTTT
* * ** *** * * * *
5791155 TTGAAAAACATAAATTGAAAA-A-CAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTC
1 TTGAAAAACAGAAATAGAAAATACCTCAGCGTG-----ACCT--GAG-G--CTCA-ACTCACCTC
* * *
5791218 AC-C--TCTCGCAATATGAGTTGA--TTT
55 TCGCAATAT-G-AGT-T--GTTGATTTTT
* * * *
5791242 TTGACAAATAGAAATTGAAAATACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATAGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
5791307 ---GTTGATTTTT
66 GTTGTTGATTTTT
* *
5791317 TTGAAAAACAGGAATTA-AAAATACCACAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACA-GAAATAGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
5791381 AGTTGATTGATTTTTT
65 AGTTG-TTGA-TTTTT
***
5791397 TTGAGTGACAGAAATAGAAAATACCTCA
1 TTGAAAAACAGAAATAGAAAATACCTCA
5791425 ATGTTTCTTG
Statistics
Matches: 318, Mismatches: 62, Indels: 75
0.70 0.14 0.16
Matches are distributed among these distances:
71 5 0.02
72 2 0.01
73 80 0.25
74 4 0.01
75 57 0.18
76 7 0.02
77 2 0.01
78 70 0.22
79 17 0.05
80 24 0.08
81 8 0.03
82 9 0.03
84 3 0.01
87 25 0.08
88 1 0.00
89 4 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (78 bp):
TTGAAAAACAGAAATAGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGTTGATTTTT
Found at i:5801245 original size:11 final size:11
Alignment explanation
Indices: 5801229--5801261 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
5801219 CCTTCCCCCC
5801229 CTCCCTTCTCT
1 CTCCCTTCTCT
5801240 CTCCCTTCTCT
1 CTCCCTTCTCT
5801251 CTTCCC-TCTCT
1 C-TCCCTTCTCT
5801262 TTTTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:5801750 original size:3 final size:3
Alignment explanation
Indices: 5801742--5801771 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
5801732 TTTGTATTTC
*
5801742 ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5801772 GTACATTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:5801861 original size:126 final size:127
Alignment explanation
Indices: 5801731--5801980 Score: 310
Period size: 126 Copynumber: 2.0 Consensus size: 127
5801721 ATATTACATT
* * * * * *
5801731 TTTTGTATTTCATTATTATTATTGTTATTATTATTATTATTGTACATTAGTGTATA-TCTTCATG
1 TTTTGTATTTCAATATTATTATTATTATTATTATTATCATT-AACATTACTATATATTCTT-AT-
* * **
5801795 T-ATGTATATAT-ATGTAGTAATGTTTTT-ATTACTTTATTTTAATATTTTTTTATTATAATAGC
63 TAATGTATATATAATATAGTAATGTTTTTAATGACTTTATTTTAATATCATTTTATTATAATAGC
*
5801857 TTTTGTATTTCAATATTATTATTATTTTTATTATTATCATTAACATTACTATATATTCTTATTAG
1 TTTTGTATTTCAATATTATTATTATTATTATTATTATCATTAACATTACTATATATTCTTATTA-
* *
5801922 ATGTATATATACATATATTACTGTTTTTAATGACTTTATTTTAATATCATTTTATTATA
65 ATGTATATATA-ATATAGTAATGTTTTTAATGACTTTATTTTAATATCATTTTATTATA
5801981 TTTACTTTTT
Statistics
Matches: 105, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
124 1 0.01
125 13 0.12
126 51 0.49
128 13 0.12
129 27 0.26
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (127 bp):
TTTTGTATTTCAATATTATTATTATTATTATTATTATCATTAACATTACTATATATTCTTATTAA
TGTATATATAATATAGTAATGTTTTTAATGACTTTATTTTAATATCATTTTATTATAATAGC
Found at i:5802003 original size:129 final size:127
Alignment explanation
Indices: 5801713--5802021 Score: 288
Period size: 126 Copynumber: 2.4 Consensus size: 127
5801703 TTTTTGTTTC
* * *
5801713 TTTATTAAATATTACATTTTTTGTATTTCATTATTATTATTGTTATTATTATTATTATTGTACAT
1 TTTATTATAT-TTAC-TTTTTTGTATTT-ATTATTATTATTGTTATTATTATTATCATTGAACAT
* * * * **
5801778 TAGTGTATATCTTCATGTATGTATATATATGTAGTAATGTTTTTATTACTTTATTTTAATATTTT
63 TACTATATATCTTCATGTATGTATATATATATAGTAATGTTTTTATGACTTTATTTTAATATCAT
* * * *
5801843 TTTATTATA-ATAGC--TTTTGTATTTCAATATTATTATTATTTTTATTATTATCATT-AACATT
1 TTTATTATATTTA-CTTTTTTGTATTT-ATTATTATTATTGTTATTATTATTATCATTGAACATT
* *
5801904 ACTATATATTCTT-AT-TAGATGTATATATACATATATTACTGTTTTTAATGACTTTATTTTAAT
64 ACTATATA-TCTTCATGT--ATGTATATAT--ATATAGTAATGTTTTT-ATGACTTTATTTTAAT
5801967 ATCAT
123 ATCAT
**
5801972 TTTATTATATTTACTTTTTTTGTATTGTATTACATGGTTATTGTTATTAT
1 TTTATTATATTTAC-TTTTTTGTATT-TATT--ATTATTATTGTTATTAT
5802022 ATTTATTAGT
Statistics
Matches: 144, Mismatches: 21, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
124 1 0.01
125 13 0.09
126 51 0.35
128 15 0.10
129 29 0.20
130 10 0.07
132 11 0.08
133 1 0.01
134 13 0.09
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.58
Consensus pattern (127 bp):
TTTATTATATTTACTTTTTTGTATTTATTATTATTATTGTTATTATTATTATCATTGAACATTAC
TATATATCTTCATGTATGTATATATATATAGTAATGTTTTTATGACTTTATTTTAATATCAT
Found at i:5806370 original size:11 final size:10
Alignment explanation
Indices: 5806316--5806381 Score: 78
Period size: 10 Copynumber: 6.3 Consensus size: 10
5806306 AACAGTCATG
*
5806316 AAAAGAAAAAG
1 AAAA-AAAAAC
*
5806327 AAAAGAAAAC
1 AAAAAAAAAC
5806337 AAAAAAAAAC
1 AAAAAAAAAC
5806347 AAAAAAAAGAC
1 AAAAAAAA-AC
5806358 AAGAAAAAAAC
1 AA-AAAAAAAC
*
5806369 AAAAAAAATC
1 AAAAAAAAAC
5806379 AAA
1 AAA
5806382 TGCTAGAAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
10 31 0.63
11 12 0.24
12 6 0.12
ACGTcount: A:0.83, C:0.08, G:0.08, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:5808626 original size:73 final size:73
Alignment explanation
Indices: 5808538--5808931 Score: 549
Period size: 73 Copynumber: 5.4 Consensus size: 73
5808528 CATGTTTTGG
5808538 TTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTCAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
5808603 TTTCTGCTT
65 TTTCTGCTT
* *
5808612 TTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGATGTAATTTCAAT
1 TTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAAT
*
5808677 TTTTG-TT
66 TTCTGCTT
* * * *
5808684 TTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAAT
1 TTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAAT
*
5808749 TTTTGCTT
66 TTCTGCTT
** * *
5808757 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 TTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAAT
*
5808822 TTCTGTTT
66 TTCTGCTT
** * * *
5808830 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCTGAGGTATTTTCA
1 TTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA--AGACACGTTGAGGTAATTTCA
* *
5808895 AATTCTAC-T
64 ATTTCTGCTT
5808904 TTCAAAAAAATCAACTCATATTGCGAGA
1 TTC--AAAAATCAACTCATATTGCGAGA
5808932 GGTGGGTTGA
Statistics
Matches: 292, Mismatches: 23, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
72 68 0.23
73 167 0.57
74 11 0.04
75 23 0.08
76 23 0.08
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (73 bp):
TTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAAT
TTCTGCTT
Found at i:5808795 original size:145 final size:146
Alignment explanation
Indices: 5808542--5809882 Score: 635
Period size: 145 Copynumber: 9.2 Consensus size: 146
5808532 TTTTGGTTCA
* *
5808542 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
* ** * *
5808607 TGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGATGTAATT
66 TGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATT
*
5808672 TCAATTTTTG-TTTTC
131 TCAATTTCTGTTTTTC
* *
5808687 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
*
5808752 TGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
66 TGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATT
5808817 TCAATTTCTGTTTTTC
131 TCAATTTCTGTTTTTC
* ** * * *
5808833 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCTGAGGTATTTTCAAAT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACA--TTGAGGTATTTTCAATT
* * * ** *** *
5808898 TCTAC-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTA-A-TTTCT-ACG
64 TCTGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAAGACACGCTGAGG
* ***
5808959 T--TTTCTAA-ATC---AACTC
126 TAATTTC-AATTTCTGTTTTTC
* * * * ** * * ** * ** * * ** *
5808975 -ATATT--GCT-AGA--G-GTGAGTTGAGCCTCAG-GACACG-CTGAGGTAATTTCAATTTC--T
1 AAAATTCAACTCATATTGCGAGAAATGAG-TTGAGCCTCAAGACACA-TTGAGGT-ATTTTCAAT
* * **** ** *
5809029 GT-TGTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTA
63 TTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA
5809093 ATTTCAATTTCTG-TTTTC
128 ATTTCAATTTCTGTTTTTC
* * ** * *
5809111 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAAT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACACAT--TGAGGTATTTTCAAT
* *
5809175 TTCTG-TTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTC-AG--A---T----
63 TTCTGCTTTT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG
* * *
5809229 TACA---CACTGT-GGTATTTT-
126 TA-ATTTCAATTTCTGT-TTTTC
* * ** * **
5809247 -AATTTCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACA--TTGAGGTATTTTC----
* *
5809311 AAGCCTTTTGATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
60 -A--------ATTTCTGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
* * *
5809376 GTCACAC-GAGGTATTTTC-ATTTCTG-TTTTC
114 GACACGCTGAGGTAATTTCAATTTCTGTTTTTC
** ** * ** * * ** * * * * ***
5809406 ATTATT--A-TGTTTTTGAAAGAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-AGACAC
1 AAAATTCAACTCATATTGCGAG-A--AA-TGA-GTT--GAG-CCTCA----AGACACATTGAGGT
* * **
5809467 ATTGAGGT-AATTTCAATTTCTGTTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
54 ATT---TTCAATTTC---TGCT-TTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
5809531 CAAGACACGTTGAGGTAATTTCAATTTCTG-TTTTC
111 CAAGACACGCTGAGGTAATTTCAATTTCTGTTTTTC
* *
5809566 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
* ** ** *
5809631 TGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTT
66 TGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATT
* * *
5809696 TTAATTTTTTGCTTTTC
131 TCAA-TTTCTGTTTTTC
* ** * ** *
5809713 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
* ** * * *
5809778 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTT
66 TGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATT
* **
5809843 TCAAATTCT-ACTTTC
131 TCAATTTCTGTTTTTC
*
5809858 AAAAAAATCAACTCATATTGCGAGA
1 --AAAATTCAACTCATATTGCGAGA
5809883 GGTGGGTTGA
Statistics
Matches: 893, Mismatches: 199, Indels: 206
0.69 0.15 0.16
Matches are distributed among these distances:
129 1 0.00
130 33 0.04
131 3 0.00
132 4 0.00
133 6 0.01
134 13 0.01
135 60 0.07
136 12 0.01
137 7 0.01
138 4 0.00
139 5 0.01
140 3 0.00
141 3 0.00
142 8 0.01
143 9 0.01
144 7 0.01
145 196 0.22
146 67 0.08
147 157 0.18
148 63 0.07
149 77 0.09
150 7 0.01
151 4 0.00
152 6 0.01
155 7 0.01
156 3 0.00
157 11 0.01
158 48 0.05
159 18 0.02
160 22 0.02
161 2 0.00
162 4 0.00
163 8 0.01
164 3 0.00
165 2 0.00
166 5 0.01
169 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (146 bp):
AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
TGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATT
TCAATTTCTGTTTTTC
Found at i:5809052 original size:130 final size:135
Alignment explanation
Indices: 5808800--5809818 Score: 480
Period size: 147 Copynumber: 7.0 Consensus size: 135
5808790 TGAGCCTCAG
*
5808800 GACACGCTGAGGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 GACACGCT-AGGTAATTTC-A-TACTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* ** *
5808865 AGCCTCAGGACACACGCTGAGGTATTTTCAAATTCTACTTTCAAAAAAATCAACTCATATTGCGA
62 AGCCTCAGG-CACACGCTGAGGTATTTTCAATTTCTGTTTTAAAAAAAATCAACTCATATTGCGA
5808930 GAGGTGGGTT
126 GAGGTGGGTT
** * *
5808940 GA-AC-CT-TTTAATTTC-TAC-GTTTTC-TAAATCAACTCATATTGCTAGAGGTGAGTTGAGCC
1 GACACGCTAGGTAATTTCATACTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
5808999 TCAGG-ACACGCTGAGGTAATTTCAATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAA
66 TCAGGCACACGCTGAGGTATTTTCAATTTCTGTT-TT-AAAAAAAATCAACTCATATTGCGAG--
* *
5809063 ATGAGTTGAGCCTCAG
127 A-G-G-TG-G-GT--T
* *
5809079 GACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGA
1 GACACGCT-AGGTAATTTC-A-TACTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
5809144 GCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTTTTAAAAAAAATCAACTCATATTGCGA
63 GCCTCAGG--CACACGCTGAGGTATTTTCAATTTCTGTTTTAAAAAAAATCAACTCATATTGCGA
*
5809208 GAGGTGAGTT
126 GAGGTGGGTT
* * ** ** *
5809218 G--A-GCT---TCAGATTACACACTGTGGTATTTTAATTTCAACTCATATTACGAGAGGTGAGTT
1 GACACGCTAGGT-A-ATTTCATACTGT--T-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
* *
5809277 GAGCCTCAGGACACACGCCGAGGTATTTTCAATTAAGCCTTTTGATTTCTGTTTTTCAAAAAAAT
61 GAGCCTCAGG-CACACGCTGAGGTATTTTC-----A--------ATTTCTG-TTTTAAAAAAAAT
*
5809342 CAACTCATATTGCGAGAGGTGAGTT
111 CAACTCATATTGCGAGAGGTGGGTT
* * * *
5809367 GAGCCTCAGGTCACACGAGGTATTTTCATTTCTGTTTTCATTATTATGTTTTTGAAAGAATCAAC
1 --G----A---CACGCTAGGTAATTTCA-TACTGTTTTC---------------AAA-AATCAAC
** * ** * *
5809432 TCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACACATTGAGGTAATTTCAATTTCTG-TTT-CA
40 TCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTCAATTTCTGTTTTAAA
* * *
5809494 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
105 AAAAATCAACTCATATTGCGAG--A-G-G-TG-G-GT--T
* * * **
5809534 GACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGA
1 GACACGCT-AGGTAATTTC-A-TACTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * * * *
5809599 GCCTCAAG-ACACGTTGAGGTATTTTCAATTTTTGCTTTT--CAAAATTCAACTCATATTGCGAG
63 GCCTCAGGCACACGCTGAGGTATTTTCAATTTCTG-TTTTAAAAAAAATCAACTCATATTGCGAG
* *
5809661 AAATGAGTTGAGCCTCAA
127 --A-G-G-TG-G-GT--T
** * * **
5809679 GACACATTGAGGTATTTTTAATTTTTTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
1 GACACGCT-AGGTA-ATTTCA--TACTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
* **
5809744 GAGCCTCAGG-ACACGCTGAGGTAATTTCAATTTCTGTTTT-TCAAAAATCAACTCATATTGCGA
61 GAGCCTCAGGCACACGCTGAGGTATTTTCAATTTCTGTTTTAAAAAAAATCAACTCATATTGCGA
*
5809807 GAGGTGAGTT
126 GAGGTGGGTT
5809817 GA
1 GA
5809819 GCCTCGGGGC
Statistics
Matches: 704, Mismatches: 83, Indels: 186
0.72 0.09 0.19
Matches are distributed among these distances:
128 24 0.03
129 2 0.00
130 62 0.09
131 5 0.01
132 7 0.01
133 5 0.01
134 6 0.01
135 54 0.08
136 13 0.02
137 2 0.00
138 4 0.01
139 5 0.01
140 6 0.01
141 3 0.00
142 2 0.00
143 10 0.01
144 62 0.09
145 59 0.08
146 18 0.03
147 95 0.13
148 66 0.09
149 39 0.06
150 26 0.04
151 1 0.00
158 25 0.04
159 12 0.02
160 16 0.02
161 11 0.02
162 5 0.01
163 7 0.01
164 1 0.00
165 2 0.00
169 1 0.00
174 14 0.02
175 2 0.00
176 32 0.05
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (135 bp):
GACACGCTAGGTAATTTCATACTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TCAGGCACACGCTGAGGTATTTTCAATTTCTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGT
GGGTT
Found at i:5809179 original size:74 final size:73
Alignment explanation
Indices: 5808965--5809226 Score: 375
Period size: 76 Copynumber: 3.5 Consensus size: 73
5808955 TACGTTTTCT
*
5808965 AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
5809030 TTGTTAAAAAA
66 TT-TT--AAAA
**
5809041 AAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
*
5809106 TTTT-CAA
66 TTTTAAAA
* * *
5809113 AAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTT
5809177 CTGTTTTAAAAA
63 CTGTTTT-AAAA
*
5809189 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
5809227 ATTACACACT
Statistics
Matches: 168, Mismatches: 12, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
71 2 0.01
72 35 0.21
74 28 0.17
75 2 0.01
76 100 0.60
77 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (73 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
TTTTAAAA
Found at i:5809302 original size:59 final size:60
Alignment explanation
Indices: 5809192--5809310 Score: 161
Period size: 59 Copynumber: 2.0 Consensus size: 60
5809182 TTAAAAAAAA
* * * * *
5809192 TCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACACACTGTGGTATTTT-AATT
1 TCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGATCACACACCGAGGTATTTTCAATT
*
5809251 TCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGA-CACACGCCGAGGTATTTTCAATT
1 TCAACTCATATTACGAGAGGTGAGTTGAGCCTCA-GATCACACACCGAGGTATTTTCAATT
5809311 AAGCCTTTTG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
59 46 0.88
60 6 0.12
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (60 bp):
TCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGATCACACACCGAGGTATTTTCAATT
Found at i:5809455 original size:86 final size:86
Alignment explanation
Indices: 5809251--5809491 Score: 270
Period size: 86 Copynumber: 2.7 Consensus size: 86
5809241 TATTTTAATT
* * **
5809251 TCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATTAAGCC
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACA--CCGAGGTATTTTCATTTCTG--
* *
5809316 TTTTGATTTCTGTTTTTCAAAAAAA
62 TTTTCATTTATGTTTTTCAAAAAAA
*
5809341 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA-CGAGGTATTTTCATTTCTGTTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCGAGGTATTTTCATTTCTGTTTT
* *
5809405 CATTATTATGTTTTT-GAAAGAA
66 CA-T-TTATGTTTTTCAAAAAAA
** * ** *
5809427 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCGAGGTATTTTC-ATTTCTGTTT
5809492 CAAAAATTCA
Statistics
Matches: 132, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
85 5 0.04
86 43 0.33
87 35 0.27
88 10 0.08
90 39 0.30
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (86 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCGAGGTATTTTCATTTCTGTTTT
CATTTATGTTTTTCAAAAAAA
Found at i:5809680 original size:73 final size:73
Alignment explanation
Indices: 5809416--5809882 Score: 636
Period size: 73 Copynumber: 6.4 Consensus size: 73
5809406 ATTATTATGT
* *
5809416 TTTTGAAAGAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTC
1 TTTTCAAA-AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
5809481 AATTTCTG-
65 AATTTCTGC
5809489 -TTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
1 TTTTCAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
5809553 AATTTCTG-
65 AATTTCTGC
* *
5809561 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
*
5809626 ATTTTTGC
66 ATTTCTGC
* * * *
5809634 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTTA
1 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
*
5809699 ATTTTTTGC
66 A-TTTCTGC
** * *
5809708 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
*
5809773 ATTTCTGT
66 ATTTCTGC
** ** * ** *
5809781 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
* *
5809846 AATTCTAC
66 ATTTCTGC
5809854 -TTTCAAAAAAATCAACTCATATTGCGAGA
1 TTTTC--AAAAATCAACTCATATTGCGAGA
5809883 GGTGGGTTGA
Statistics
Matches: 364, Mismatches: 24, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
71 2 0.01
72 131 0.36
73 143 0.39
74 88 0.24
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (73 bp):
TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTCTGC
Found at i:5809757 original size:147 final size:145
Alignment explanation
Indices: 5809416--5809882 Score: 643
Period size: 147 Copynumber: 3.2 Consensus size: 145
5809406 ATTATTATGT
* *
5809416 TTTTGAAAGAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTC
1 TTTTCAAA-AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
5809481 AATTTCTG-TTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
65 AATTTCTGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
*
5809545 GTAATTTCAATTTCTG-
129 GTATTTTCAATTTCTGC
* *
5809561 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
* *
5809626 ATTTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
66 ATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
* *
5809691 TATTTTTAATTTTTTGC
130 TATTTTCAA-TTTCTGC
** * *
5809708 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
* ** ** * **
5809773 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGG
66 ATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
* *
5809838 TATTTTCAAATTCTAC
130 TATTTTCAATTTCTGC
5809854 -TTTCAAAAAAATCAACTCATATTGCGAGA
1 TTTTC--AAAAATCAACTCATATTGCGAGA
5809883 GGTGGGTTGA
Statistics
Matches: 286, Mismatches: 30, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
144 60 0.21
145 69 0.24
146 13 0.05
147 144 0.50
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (145 bp):
TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
ATTTTCAATTTCTGC
Found at i:5810236 original size:217 final size:217
Alignment explanation
Indices: 5809860--5810253 Score: 585
Period size: 217 Copynumber: 1.8 Consensus size: 217
5809850 CTACTTTCAA
*
5809860 AAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCT
1 AAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACT
* * * * ** * * * ***
5809925 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCATGCTGAGGTATTTTCAATTTTTTGTGTGTTTT
66 CATATTGCGAGAGGTGAGTTGAACATCAGAACACGCTGAGGTAATTTCAATTTTCTGTGTGTAAA
** * * *
5809990 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAAAAT
131 AAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTTTCAAAAT
5810055 CTGTTTGGCAAATTCTGTTTTC
196 CTGTTTGGCAAATTCTGTTTTC
5810077 AAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACT
1 AAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACT
5810142 CATATTGCGAGAGGTGAGTTGAACATCAGAACACGCTGAGGTAATTTCAA-TTTCTGT-TGTCAA
66 CATATTGCGAGAGGTGAGTTGAACATCAGAACACGCTGAGGTAATTTCAATTTTCTGTGTGT--A
*
5810205 AAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGTTCACATG
129 AAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGGTCACATG
5810254 TTGAGATATC
Statistics
Matches: 156, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
215 3 0.02
216 6 0.04
217 147 0.94
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (217 bp):
AAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACT
CATATTGCGAGAGGTGAGTTGAACATCAGAACACGCTGAGGTAATTTCAATTTTCTGTGTGTAAA
AAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTTTCAAAAT
CTGTTTGGCAAATTCTGTTTTC
Found at i:5810867 original size:13 final size:13
Alignment explanation
Indices: 5810849--5810874 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5810839 GGGCCACCCC
5810849 CAAAACCCAATAA
1 CAAAACCCAATAA
5810862 CAAAACCCAATAA
1 CAAAACCCAATAA
5810875 ACCAAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
CAAAACCCAATAA
Found at i:5811570 original size:16 final size:16
Alignment explanation
Indices: 5811546--5811588 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
5811536 ATTAAAACCT
*
5811546 AAAAGAAAATACAAAA
1 AAAATAAAATACAAAA
* *
5811562 AAAATAAAAAATAAAA
1 AAAATAAAATACAAAA
5811578 AAAATATAAAT
1 AAAATA-AAAT
5811589 TTTTACCTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (16 bp):
AAAATAAAATACAAAA
Found at i:5811574 original size:18 final size:18
Alignment explanation
Indices: 5811551--5811587 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
5811541 AACCTAAAAG
5811551 AAAATACAAAAAAA-ATAA
1 AAAATA-AAAAAAATATAA
5811569 AAAATAAAAAAAATATAA
1 AAAATAAAAAAAATATAA
5811587 A
1 A
5811588 TTTTTACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAATAAAAAAAATATAA
Found at i:5811689 original size:11 final size:11
Alignment explanation
Indices: 5811673--5811705 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
5811663 CCCTTCCCCC
5811673 CTCCCTTCTCT
1 CTCCCTTCTCT
5811684 CTCCCTTCTCT
1 CTCCCTTCTCT
*
5811695 CTTCCTTCTCT
1 CTCCCTTCTCT
5811706 TCTTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:5812194 original size:3 final size:3
Alignment explanation
Indices: 5812186--5812216 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
5812176 TGTATTTCAA
*
5812186 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
5812217 GTACATTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:5817502 original size:25 final size:25
Alignment explanation
Indices: 5817457--5817516 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
5817447 TAATAATAAG
* *
5817457 AATAATA-TAAATAATAGTAAATAT
1 AATAATATTAAATAACAGTAAAAAT
* *
5817481 AATAATATTAAGTAACATTAAAAAT
1 AATAATATTAAATAACAGTAAAAAT
5817506 AATTAAT-TTAA
1 AA-TAATATTAA
5817517 TAATAAAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 7 0.23
25 19 0.63
26 4 0.13
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (25 bp):
AATAATATTAAATAACAGTAAAAAT
Found at i:5820946 original size:15 final size:14
Alignment explanation
Indices: 5820914--5820952 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
5820904 TATTTTCGTG
5820914 TTCTTGTTTCTTTTT
1 TTCTT-TTTCTTTTT
5820929 TTCTTTTTCTTTTCT
1 TTCTTTTTCTTTT-T
5820944 TTCTATTTT
1 TTCT-TTTT
5820953 TGAATCTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.36
15 10 0.45
16 4 0.18
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (14 bp):
TTCTTTTTCTTTTT
Found at i:5821845 original size:18 final size:17
Alignment explanation
Indices: 5821815--5821862 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
5821805 TTTTATTTAT
*
5821815 TTATTTAAATTTATGTTA
1 TTATTTATATTTATG-TA
5821833 TTACTTTAT-TTTATGTA
1 TTA-TTTATATTTATGTA
5821850 TTATTTATATTTA
1 TTATTTATATTTA
5821863 CATTTACGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 5 0.19
17 9 0.33
18 9 0.33
19 4 0.15
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (17 bp):
TTATTTATATTTATGTA
Found at i:5821851 original size:17 final size:18
Alignment explanation
Indices: 5821806--5821862 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
5821796 TGTATCTAAT
*
5821806 TTTAT-TTATTTATTTAAA
1 TTTATGTTA-TTATTTATA
5821824 TTTATGTTATTACTTTAT-
1 TTTATGTTATTA-TTTATA
5821842 TTTATG-TATTATTTATA
1 TTTATGTTATTATTTATA
5821859 TTTA
1 TTTA
5821863 CATTTACGCA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
16 5 0.14
17 9 0.26
18 14 0.40
19 7 0.20
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (18 bp):
TTTATGTTATTATTTATA
Found at i:5821933 original size:22 final size:21
Alignment explanation
Indices: 5821894--5821944 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
5821884 ATTTTATATA
*
5821894 TATTATTTTCATTTGCATC-T
1 TATTATTATCATTTGCATCTT
5821914 TACTTATTATCATTTTGCATCTT
1 TA-TTATTATCA-TTTGCATCTT
5821937 TATTATTA
1 TATTATTA
5821945 CTATTATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 2 0.07
21 8 0.30
22 14 0.52
23 3 0.11
ACGTcount: A:0.24, C:0.14, G:0.04, T:0.59
Consensus pattern (21 bp):
TATTATTATCATTTGCATCTT
Found at i:5821942 original size:3 final size:3
Alignment explanation
Indices: 5821936--5821969 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
5821926 TTTTGCATCT
*
5821936 TTA TTA TTA CTA TTA TTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
5821970 CCACCACTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:5821954 original size:16 final size:16
Alignment explanation
Indices: 5821935--5821968 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
5821925 ATTTTGCATC
5821935 TTTATTATTACTATTA
1 TTTATTATTACTATTA
*
5821951 TTTATTATTATTATTA
1 TTTATTATTACTATTA
5821967 TT
1 TT
5821969 ACCACCACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTATTACTATTA
Found at i:5822165 original size:20 final size:21
Alignment explanation
Indices: 5822137--5822175 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
5822127 TCCTTTTTAT
*
5822137 TACTATTACTAC-ATTATTTC
1 TACTATTACAACTATTATTTC
*
5822157 TACTTTTACAACTATTATT
1 TACTATTACAACTATTATT
5822176 ATTATCATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (21 bp):
TACTATTACAACTATTATTTC
Found at i:5822221 original size:25 final size:25
Alignment explanation
Indices: 5822193--5822241 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
5822183 TTACTATTAC
*
5822193 ATTATTA-GCTTATTATTTCTTTATT
1 ATTATTATCCTTA-TATTTCTTTATT
*
5822218 ATTATTATCCTTATATTTTTTTAT
1 ATTATTATCCTTATATTTCTTTAT
5822242 CTTTTGTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.65
Consensus pattern (25 bp):
ATTATTATCCTTATATTTCTTTATT
Found at i:5822362 original size:25 final size:23
Alignment explanation
Indices: 5822333--5822391 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
5822323 TTTTACTTAT
5822333 TCTTATTATTCTTGT-TTATTTTTA
1 TCTTATTATT-TT-TATTATTTTTA
*
5822357 TCCTTATCATTTTTATTATTTTTA
1 T-CTTATTATTTTTATTATTTTTA
5822381 TC-TATTATTTT
1 TCTTATTATTTT
5822392 GCTCTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 8 0.26
23 2 0.06
24 13 0.42
25 8 0.26
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (23 bp):
TCTTATTATTTTTATTATTTTTA
Found at i:5832759 original size:177 final size:177
Alignment explanation
Indices: 5832456--5832850 Score: 621
Period size: 177 Copynumber: 2.2 Consensus size: 177
5832446 AGGTTTAATT
* * * *
5832456 TACAGACCTTAACCCCCTAAGCAGTAGGGTAATAGGTTAAAAATTACGGATTTTGTCTCCCTGAA
1 TACAGACCTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAAAATTACAGATTTCGTCTCCCTGAA
* * *
5832521 GTTGCAGTGGAACAGATCAAATCCAGCGAATCCTGCATTCCTGAAGTCTCAGTGGAGCAGACTGA
66 GTTGCAGTGGAACAGATCAAATCCAGCGAATCCTGCATTCCTGAAGTCTCAGCGAAGCAGACCGA
*
5832586 AGTTACAAGTCTCATCTCCTTGAAGTCGCAATAGAGCAGACTAAATG
131 AGTTACAAATCTCATCTCCTTGAAGTCGCAATAGAGCAGACTAAATG
*
5832633 TACAGACCTTAAACCCCTAAGCAGTAGGGTAATAGGCTGAAAATTACAGATTTCGTCTCCCTGAA
1 TACAGACCTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAAAATTACAGATTTCGTCTCCCTGAA
* *
5832698 GTTGCAGTGGAACAGATCAAATCTAGTGAATCCTGTC-TTCCTGAAGTCTCAGCGAAGCAGACCG
66 GTTGCAGTGGAACAGATCAAATCCAGCGAATCCTG-CATTCCTGAAGTCTCAGCGAAGCAGACCG
* * * *
5832762 AAGTTACAAATCTCATCTCCTTGGAGTCGCAGTGGAGCAGACTAAATT
130 AAGTTACAAATCTCATCTCCTTGAAGTCGCAATAGAGCAGACTAAATG
* *
5832810 TACAGACTTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAA
1 TACAGACCTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAA
5832851 TTCAAAAGGC
Statistics
Matches: 199, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
177 198 0.99
178 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (177 bp):
TACAGACCTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAAAATTACAGATTTCGTCTCCCTGAA
GTTGCAGTGGAACAGATCAAATCCAGCGAATCCTGCATTCCTGAAGTCTCAGCGAAGCAGACCGA
AGTTACAAATCTCATCTCCTTGAAGTCGCAATAGAGCAGACTAAATG
Found at i:5833239 original size:45 final size:46
Alignment explanation
Indices: 5833087--5833239 Score: 138
Period size: 44 Copynumber: 3.4 Consensus size: 46
5833077 AGCTTTAACC
* * *
5833087 CCCTAAGCAGTAGGGTAACAAGCTGAAGTTTAT-AGATATT-ATCG
1 CCCTAAGCAGTAGGGTAACAAGCTGAAGTTCATAAGATCTTAAACG
* * * * * * * * *
5833131 CCCTAAGCAGTAAGGAAAC-AGATCGAAG-GC-GACGAGCTTTAACT
1 CCCTAAGCAGTAGGGTAACAAGCT-GAAGTTCATAAGATCTTAAACG
*
5833175 CCCTAAGCAGTAGGGTAACAAGCTGATGTTCATAAGATCTTAAAC-
1 CCCTAAGCAGTAGGGTAACAAGCTGAAGTTCATAAGATCTTAAACG
5833220 CCCTAAGCAGTAGGGTAACA
1 CCCTAAGCAGTAGGGTAACA
5833240 GAGTAAATTG
Statistics
Matches: 83, Mismatches: 20, Indels: 11
0.73 0.18 0.10
Matches are distributed among these distances:
43 7 0.08
44 43 0.52
45 24 0.29
46 9 0.11
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (46 bp):
CCCTAAGCAGTAGGGTAACAAGCTGAAGTTCATAAGATCTTAAACG
Found at i:5833310 original size:87 final size:85
Alignment explanation
Indices: 5833213--5833414 Score: 223
Period size: 87 Copynumber: 2.3 Consensus size: 85
5833203 TTCATAAGAT
* ***
5833213 CTTAAACCCCTAAGCAGTAGGGTAACAGAG-TAAATTGT-AGATCTTATTTCCCTAAGCCG-TAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAG-GTTAAATT-TAAGATC-TAAACCCCTAAGCCGTTAG
* *
5833275 TGGAGCAGATCGAA-GATTGACAAAC
63 -GAAACAGATC-AATGA-TGACAAAC
* * *
5833300 CTTAACCCCCTAAACAGTAGGGTAACTGGTTAAATTTACAGATCTAAACCCCTAAGCGGTTAGGA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAATTTA-AGATCTAAACCCCTAAGCCGTTAGGA
*
5833365 AACAGATCAATGATGACAAGC
65 AACAGATCAATGATGACAAAC
5833386 CTTAACCCCCTAAGCAGTAGGGTAACAGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGG
5833415 CTGAAAATCA
Statistics
Matches: 98, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
86 38 0.39
87 52 0.53
88 8 0.08
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (85 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAATTTAAGATCTAAACCCCTAAGCCGTTAGGAA
ACAGATCAATGATGACAAAC
Found at i:5834216 original size:15 final size:14
Alignment explanation
Indices: 5834184--5834222 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
5834174 TATTTTCGTG
5834184 TTCTTGTTTCTTTTT
1 TTCTT-TTTCTTTTT
5834199 TTCTTTTTCTTTTCT
1 TTCTTTTTCTTTT-T
5834214 TTCTATTTT
1 TTCT-TTTT
5834223 TGAATCTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.36
15 10 0.45
16 4 0.18
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (14 bp):
TTCTTTTTCTTTTT
Found at i:5835136 original size:18 final size:18
Alignment explanation
Indices: 5835082--5835142 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
5835072 ATTGTATCTA
*
5835082 ATTTTATTTATT-TATTT
1 ATTTTATGTATTATATTT
* *
5835099 AAATTTATGTGATTA-CTTT
1 -ATTTTATGT-ATTATATTT
5835118 ATTTTATGTATTATATTT
1 ATTTTATGTATTATATTT
5835136 ATATTTA
1 AT-TTTA
5835143 CATTTACGCA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 4 0.12
18 20 0.59
19 10 0.29
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (18 bp):
ATTTTATGTATTATATTT
Found at i:5835215 original size:21 final size:22
Alignment explanation
Indices: 5835191--5835240 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
5835181 TTTATATATA
*
5835191 TTATTTTCA-TTTGCATCTTAC
1 TTATTATCATTTTGCATCTTAC
**
5835212 TTATTATCATTTTGCATCTTTT
1 TTATTATCATTTTGCATCTTAC
5835234 TTATTAT
1 TTATTAT
5835241 TATTATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.20, C:0.14, G:0.04, T:0.62
Consensus pattern (22 bp):
TTATTATCATTTTGCATCTTAC
Found at i:5835242 original size:3 final size:3
Alignment explanation
Indices: 5835234--5835288 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
5835224 TGCATCTTTT
5835234 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5835282 TTA TTA T
1 TTA TTA T
5835289 CTTAGCATTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:5835344 original size:13 final size:13
Alignment explanation
Indices: 5835326--5835360 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
5835316 TCGTTATCAT
5835326 TATATTATATATA
1 TATATTATATATA
5835339 TATATTATATATA
1 TATATTATATATA
5835352 TATA-TATAT
1 TATATTATAT
5835361 TTTAGGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATTATATATA
Found at i:5835370 original size:17 final size:17
Alignment explanation
Indices: 5835332--5835373 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
5835322 TCATTATATT
*
5835332 ATATATATATATTATAT
1 ATATATATATATTATAG
*
5835349 ATATATATATATTTTAG
1 ATATATATATATTATAG
*
5835366 GTATATAT
1 ATATATAT
5835374 TGTTATTGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (17 bp):
ATATATATATATTATAG
Found at i:5835373 original size:2 final size:2
Alignment explanation
Indices: 5835326--5835360 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
5835316 TCGTTATCAT
5835326 TA TA T- TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5835361 TTTAGGTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:5835471 original size:21 final size:21
Alignment explanation
Indices: 5835449--5835489 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
5835439 TGTCAATATA
5835449 TTTATTATTTTTCTTTTATTAT
1 TTTA-TATTTTTCTTTTATTAT
*
5835471 TTTATATTTTTTTTTTATT
1 TTTATATTTTTCTTTTATT
5835490 TAGGTTTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTATATTTTTCTTTTATTAT
Found at i:5837309 original size:18 final size:19
Alignment explanation
Indices: 5837288--5837328 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
5837278 ATTTATAAAA
* *
5837288 AAATTCT-GAAATATATAT
1 AAATTCTGGAAAAACATAT
5837306 AAA-TCTGGAAAAACATAT
1 AAATTCTGGAAAAACATAT
5837324 AAATT
1 AAATT
5837329 ATAAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 3 0.16
18 15 0.79
19 1 0.05
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (19 bp):
AAATTCTGGAAAAACATAT
Found at i:5837574 original size:18 final size:21
Alignment explanation
Indices: 5837546--5837589 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
5837536 TTTTTAAAAA
5837546 TTTTATAATATT-TTTCAA-T
1 TTTTATAATATTATTTCAACT
*
5837565 TTTTAT-ATATTATTTGAACT
1 TTTTATAATATTATTTCAACT
5837585 TTTTA
1 TTTTA
5837590 AAATTCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 5 0.23
19 11 0.50
20 6 0.27
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTATAATATTATTTCAACT
Found at i:5837769 original size:17 final size:17
Alignment explanation
Indices: 5837723--5837766 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
5837713 TGACCTCAGA
*
5837723 CCCAAACCTAACAGAAG
1 CCCAAACCCAACAGAAG
5837740 CCCAAACCCAACAGAAG
1 CCCAAACCCAACAGAAG
5837757 CCC-AACCCAA
1 CCCAAACCCAA
5837767 ACACAAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 7 0.27
17 19 0.73
ACGTcount: A:0.45, C:0.43, G:0.09, T:0.02
Consensus pattern (17 bp):
CCCAAACCCAACAGAAG
Found at i:5839148 original size:33 final size:35
Alignment explanation
Indices: 5839067--5839152 Score: 88
Period size: 33 Copynumber: 2.5 Consensus size: 35
5839057 ACGCATATAT
* *
5839067 ATATATCAATATTATATTATGTATATTTTTTCTTTTA
1 ATATATCTATA-TATATTATGTATA-TTATTCTTTTA
* *
5839104 A-ACACTATATATATATTATGTATA-TATT-TTTTA
1 ATATA-TCTATATATATTATGTATATTATTCTTTTA
5839137 ATATATCTATATATAT
1 ATATATCTATATATAT
5839153 ACTATGCACA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
33 16 0.39
34 5 0.12
36 15 0.37
37 5 0.12
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (35 bp):
ATATATCTATATATATTATGTATATTATTCTTTTA
Found at i:5839609 original size:19 final size:19
Alignment explanation
Indices: 5839585--5839640 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
5839575 GTTATACATG
5839585 TATATATATATGTATATTT
1 TATATATATATGTATATTT
*
5839604 TATATATAGA-GTATTATTT
1 TATATATATATGTA-TATTT
5839623 T-TATATATCAT-TATATTT
1 TATATATAT-ATGTATATTT
5839641 ATTATTATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 14 0.44
19 18 0.56
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (19 bp):
TATATATATATGTATATTT
Found at i:5844327 original size:14 final size:14
Alignment explanation
Indices: 5844291--5844332 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
5844281 CTAAATCATA
5844291 ATTTTAGTAAAAT-
1 ATTTTAGTAAAATC
5844304 ATTTTAGTAAAATC
1 ATTTTAGTAAAATC
*
5844318 ATTTTGGTAAAATC
1 ATTTTAGTAAAATC
5844332 A
1 A
5844333 AGATTAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 13 0.48
14 14 0.52
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (14 bp):
ATTTTAGTAAAATC
Found at i:5845460 original size:22 final size:22
Alignment explanation
Indices: 5845432--5845477 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
5845422 GGTGACTCAA
5845432 AATAAAAACACTCTAAAAATTG
1 AATAAAAACACTCTAAAAATTG
5845454 AATAAAAACACTCTAAAAATTG
1 AATAAAAACACTCTAAAAATTG
5845476 AA
1 AA
5845478 ACGAAATTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.61, C:0.13, G:0.04, T:0.22
Consensus pattern (22 bp):
AATAAAAACACTCTAAAAATTG
Found at i:5850859 original size:24 final size:26
Alignment explanation
Indices: 5850813--5850870 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 26
5850803 TTAATAAATT
* *
5850813 AAAACATTATATTGAAAATAATGAAA
1 AAAATATTAGATTGAAAATAATGAAA
5850839 AAAATATTAGATT-AAAA-AATGAAA
1 AAAATATTAGATTGAAAATAATGAAA
*
5850863 AAGATATT
1 AAAATATT
5850871 TTCTATAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 14 0.48
25 4 0.14
26 11 0.38
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.28
Consensus pattern (26 bp):
AAAATATTAGATTGAAAATAATGAAA
Found at i:5851780 original size:17 final size:18
Alignment explanation
Indices: 5851744--5851794 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
5851734 TAGGGGTGTG
*
5851744 CAAAATTCGGGTAAAACCGA
1 CAAAATTC-GGT-TAACCGA
5851764 -AAAATTCGGTTAACCGA
1 CAAAATTCGGTTAACCGA
*
5851781 CAGAATTCGGTTAA
1 CAAAATTCGGTTAA
5851795 TCGGTCGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 6 0.21
18 15 0.54
19 7 0.25
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.22
Consensus pattern (18 bp):
CAAAATTCGGTTAACCGA
Found at i:5852019 original size:13 final size:13
Alignment explanation
Indices: 5852001--5852025 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5851991 CAAGTACCCA
5852001 ACCCAACCCAATT
1 ACCCAACCCAATT
5852014 ACCCAACCCAAT
1 ACCCAACCCAAT
5852026 CATAAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:5852063 original size:5 final size:6
Alignment explanation
Indices: 5852050--5852090 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
5852040 ATAATTTAAT
*
5852050 AAATAA AAATAA AAATTTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
5852091 ATATATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:5852078 original size:20 final size:21
Alignment explanation
Indices: 5852042--5852085 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
5852032 AATGACAAAT
5852042 AATTTAATAAATAAAAATAAA
1 AATTTAATAAATAAAAATAAA
*
5852063 AATTTAA-AACTAAAAATAAA
1 AATTTAATAAATAAAAATAAA
5852083 AAT
1 AAT
5852086 AAAAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AATTTAATAAATAAAAATAAA
Found at i:5852091 original size:20 final size:20
Alignment explanation
Indices: 5852053--5852091 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5852043 ATTTAATAAA
**
5852053 TAAAAATAAAAATTTAAAAC
1 TAAAAATAAAAATAAAAAAC
5852073 TAAAAATAAAAATAAAAAA
1 TAAAAATAAAAATAAAAAA
5852092 TATATATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:5852100 original size:13 final size:13
Alignment explanation
Indices: 5852050--5852093 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
5852040 ATAATTTAAT
5852050 AAATAAAAATAAA
1 AAATAAAAATAAA
* *
5852063 AATTTAAAACT-AA
1 AA-ATAAAAATAAA
5852076 AAATAAAAATAAA
1 AAATAAAAATAAA
5852089 AAATA
1 AAATA
5852094 TATATAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 6 0.24
13 13 0.52
14 6 0.24
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAAAATAAA
Found at i:5852126 original size:9 final size:9
Alignment explanation
Indices: 5852112--5852197 Score: 118
Period size: 9 Copynumber: 9.6 Consensus size: 9
5852102 TTTATACAAA
5852112 TAATTCGGT
1 TAATTCGGT
5852121 TAATTCGGT
1 TAATTCGGT
*
5852130 TAATTCAGT
1 TAATTCGGT
* *
5852139 TAATTTGGG
1 TAATTCGGT
*
5852148 TAATTCGGG
1 TAATTCGGT
5852157 TAATTCGGT
1 TAATTCGGT
*
5852166 TAATTCGAT
1 TAATTCGGT
*
5852175 TAATTTGGT
1 TAATTCGGT
5852184 TAATTCGGT
1 TAATTCGGT
5852193 TAATT
1 TAATT
5852198 TTATACTTAT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 67 1.00
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (9 bp):
TAATTCGGT
Found at i:5853788 original size:16 final size:17
Alignment explanation
Indices: 5853769--5853800 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
5853759 CTATTTTCAT
5853769 GTATTATTT-TTTTTAC
1 GTATTATTTATTTTTAC
5853785 GTATTATTTATTTTTA
1 GTATTATTTATTTTTA
5853801 AAAGTTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.69
Consensus pattern (17 bp):
GTATTATTTATTTTTAC
Found at i:5857437 original size:3 final size:3
Alignment explanation
Indices: 5857429--5857454 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5857419 GCCCCATCTC
5857429 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
5857455 CTTTCTCTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:5860068 original size:21 final size:22
Alignment explanation
Indices: 5860042--5860088 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
5860032 CTCTGCTCAA
*
5860042 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
5860063 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
5860085 ACTC
1 ACTC
5860089 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:5871156 original size:52 final size:52
Alignment explanation
Indices: 5871060--5871158 Score: 119
Period size: 52 Copynumber: 1.9 Consensus size: 52
5871050 ATGTTATTTG
* * * *
5871060 TTATATATTTCTTTTACTATTTCATGTATATGTTTTTTAAATACCATAATAT
1 TTATATATTTCTTTTACTATCTCACGTATATATTTTATAAATACCATAATAT
* **
5871112 TTATAT-TTTTTTTGTACTATCTCACGTATATATTTTATCCATACCAT
1 TTATATATTTCTTT-TACTATCTCACGTATATATTTTATAAATACCAT
5871159 TATGAAGAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
51 6 0.15
52 33 0.85
ACGTcount: A:0.28, C:0.13, G:0.04, T:0.55
Consensus pattern (52 bp):
TTATATATTTCTTTTACTATCTCACGTATATATTTTATAAATACCATAATAT
Found at i:5882777 original size:14 final size:14
Alignment explanation
Indices: 5882744--5882786 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
5882734 AATATTTTTC
*
5882744 GGAAAATGATTTCCT
1 GGAAAATGATTT-AT
*
5882759 GGAAAATAATTTAT
1 GGAAAATGATTTAT
5882773 GGAAAATGATTTAT
1 GGAAAATGATTTAT
5882787 TTTTCTGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.35
Consensus pattern (14 bp):
GGAAAATGATTTAT
Found at i:5883268 original size:22 final size:22
Alignment explanation
Indices: 5883243--5883328 Score: 88
Period size: 22 Copynumber: 4.0 Consensus size: 22
5883233 ATCCAAGTGC
5883243 ATAACTAATATTACACCACATG
1 ATAACTAATATTACACCACATG
* *
5883265 ATAACTAATATTACAGCACATT
1 ATAACTAATATTACACCACATG
* **
5883287 ATAAC-AACATT-GTCCA-AGTG
1 ATAACTAATATTACACCACA-TG
5883307 CATAACTAATATTACACCACAT
1 -ATAACTAATATTACACCACAT
5883329 TATCAATATC
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
19 1 0.02
20 3 0.06
21 10 0.20
22 30 0.61
23 4 0.08
24 1 0.02
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (22 bp):
ATAACTAATATTACACCACATG
Found at i:5884319 original size:32 final size:32
Alignment explanation
Indices: 5884273--5884333 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
5884263 TGTCAATCAT
5884273 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
5884305 TTCAATATCTAACAAGCTTGAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
5884334 CAATATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:5884340 original size:27 final size:30
Alignment explanation
Indices: 5884273--5884346 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
5884263 TGTCAATCAT
*
5884273 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
5884305 TTCAATATCTAACAAGCTTGAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
5884333 -TCAATATCTAACAA
1 TTCAATATCTAACAA
5884347 AATCAAGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.35
28 2 0.05
29 2 0.05
32 22 0.55
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:5895243 original size:27 final size:28
Alignment explanation
Indices: 5895140--5895252 Score: 88
Period size: 28 Copynumber: 3.9 Consensus size: 28
5895130 CTATTCAGAA
* *
5895140 ATCAGTGTTAA-CTGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCCATAGCCCAT
* *
5895167 ATCAATATTAATCTGGGCCATAGCCCCT
1 ATCAGTATTAATCTGGGCCATAGCCCAT
**
5895195 -TACAGTAACAGAGTATACTGGGCC-TAGCCCAT
1 AT-CAGT-A-TTA--AT-CTGGGCCATAGCCCAT
*
5895227 ATCAGTATTAATCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCCATAGCCC
5895253 TATACAAGTC
Statistics
Matches: 67, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
27 17 0.25
28 25 0.37
29 1 0.01
30 2 0.03
31 1 0.01
32 13 0.19
33 8 0.12
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (28 bp):
ATCAGTATTAATCTGGGCCATAGCCCAT
Found at i:5907604 original size:38 final size:38
Alignment explanation
Indices: 5907546--5907622 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
5907536 ATCATCAAGG
* * *
5907546 TTGGATCCATTGAGGTGTTTAATTGGGTAGAAAACAAA
1 TTGGATCCATTAAGGCGTTTAATTAGGTAGAAAACAAA
5907584 TTGGATCCATTAAGGCGTTTAATTAGGTAGAAAACAAA
1 TTGGATCCATTAAGGCGTTTAATTAGGTAGAAAACAAA
5907622 T
1 T
5907623 GTTTGAGACC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.31
Consensus pattern (38 bp):
TTGGATCCATTAAGGCGTTTAATTAGGTAGAAAACAAA
Found at i:5916363 original size:36 final size:36
Alignment explanation
Indices: 5916311--5916383 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
5916301 TGATTTTCCA
* *
5916311 TCTTCAAAAGAAGCGAATAGCTTTGTGCTTTGGTGG
1 TCTTAAAAAGAAGCGAATAGCCTTGTGCTTTGGTGG
5916347 TCTTAAAAAGAAGCGAATAGCCTTGTGCTTTGGTGG
1 TCTTAAAAAGAAGCGAATAGCCTTGTGCTTTGGTGG
5916383 T
1 T
5916384 TTACATCTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (36 bp):
TCTTAAAAAGAAGCGAATAGCCTTGTGCTTTGGTGG
Found at i:5927987 original size:19 final size:18
Alignment explanation
Indices: 5927963--5928010 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
5927953 ACGTAAAAAG
5927963 TAAAAAGTAAAAGATGAAA
1 TAAAAA-TAAAAGATGAAA
5927982 TAAAAATAAAAAGATGAAA
1 TAAAAAT-AAAAGATGAAA
*
5928001 TGAAAATAAA
1 TAAAAATAAA
5928011 TAACAAAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (18 bp):
TAAAAATAAAAGATGAAA
Found at i:5928932 original size:16 final size:16
Alignment explanation
Indices: 5928902--5928949 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
5928892 GAAAATTAAT
5928902 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
5928917 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
5928934 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
5928949 A
1 A
5928950 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:5928948 original size:11 final size:11
Alignment explanation
Indices: 5928893--5928963 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
5928883 ATAGCTTAAG
*
5928893 AAAATTAATAT
1 AAAATTAAAAT
5928904 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
5928916 AATAA-T-AATT
1 AA-AATTAAAAT
*
5928926 AAAAAT-AAAT
1 AAAATTAAAAT
5928936 AAAATTAAAAT
1 AAAATTAAAAT
*
5928947 AAACTTAAAAT
1 AAAATTAAAAT
*
5928958 AGAATT
1 AAAATT
5928964 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:5933184 original size:19 final size:18
Alignment explanation
Indices: 5933160--5933207 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
5933150 ACGTAAAAAG
5933160 TAAAAAGTAAAAGATGAAA
1 TAAAAA-TAAAAGATGAAA
5933179 TAAAAATAAAAAGATGAAA
1 TAAAAAT-AAAAGATGAAA
*
5933198 TGAAAATAAA
1 TAAAAATAAA
5933208 TAACAAAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (18 bp):
TAAAAATAAAAGATGAAA
Found at i:5934129 original size:16 final size:16
Alignment explanation
Indices: 5934099--5934146 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
5934089 GAAAATTAAT
5934099 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
5934114 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
5934131 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
5934146 A
1 A
5934147 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:5934145 original size:11 final size:11
Alignment explanation
Indices: 5934090--5934160 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
5934080 ATAGCTTAAG
*
5934090 AAAATTAATAT
1 AAAATTAAAAT
5934101 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
5934113 AATAA-T-AATT
1 AA-AATTAAAAT
*
5934123 AAAAAT-AAAT
1 AAAATTAAAAT
5934133 AAAATTAAAAT
1 AAAATTAAAAT
*
5934144 AAACTTAAAAT
1 AAAATTAAAAT
*
5934155 AGAATT
1 AAAATT
5934161 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:5936509 original size:14 final size:14
Alignment explanation
Indices: 5936458--5936517 Score: 61
Period size: 14 Copynumber: 4.2 Consensus size: 14
5936448 AAGTTTGAAT
5936458 AAAATATTAAAATTA
1 AAAAT-TTAAAATTA
*
5936473 ATAAATTT-AAATTC
1 A-AAATTTAAAATTA
*
5936487 AGAATTTAAAA-TA
1 AAAATTTAAAATTA
5936500 AAAATATTAAAATTA
1 AAAAT-TTAAAATTA
5936515 AAA
1 AAA
5936518 GTGTGTTATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 10 0.27
14 15 0.41
15 8 0.22
16 4 0.11
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (14 bp):
AAAATTTAAAATTA
Found at i:5936637 original size:15 final size:14
Alignment explanation
Indices: 5936596--5936647 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
5936586 CATGAGACCT
*
5936596 TATAATATAATATA
1 TATAATATAATTTA
5936610 TATATATATAATTTA
1 TATA-ATATAATTTA
*
5936625 TATAATATGAATTCA
1 TATAATAT-AATTTA
*
5936640 CATAATAT
1 TATAATAT
5936648 TTACAGTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
14 8 0.24
15 25 0.76
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (14 bp):
TATAATATAATTTA
Found at i:5942903 original size:14 final size:14
Alignment explanation
Indices: 5942884--5942929 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
5942874 CCATTGTTGA
5942884 AAATTTTTAAATTT
1 AAATTTTTAAATTT
* **
5942898 AAATTTTGAAAAAT
1 AAATTTTTAAATTT
5942912 AAATTTTTAAATATT
1 AAATTTTTAAAT-TT
5942927 AAA
1 AAA
5942930 ATTCAAAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
14 21 0.84
15 4 0.16
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (14 bp):
AAATTTTTAAATTT
Found at i:5942937 original size:28 final size:28
Alignment explanation
Indices: 5942884--5942937 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
5942874 CCATTGTTGA
* *
5942884 AAATTTTTAAATTTAAATTTTGAAAAAT
1 AAATTTTTAAATTTAAATATTCAAAAAT
5942912 AAATTTTTAAATATTAAA-ATTCAAAA
1 AAATTTTTAAAT-TTAAATATTCAAAA
5942938 TTTTGGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (28 bp):
AAATTTTTAAATTTAAATATTCAAAAAT
Found at i:5942997 original size:14 final size:14
Alignment explanation
Indices: 5942978--5943009 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
5942968 ATTTTAACAT
5942978 TTTATTTAATTTAA
1 TTTATTTAATTTAA
*
5942992 TTTATTTAATTTAT
1 TTTATTTAATTTAA
5943006 TTTA
1 TTTA
5943010 ATGTTTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTTAATTTAA
Found at i:5943953 original size:13 final size:13
Alignment explanation
Indices: 5943918--5943957 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 13
5943908 AAAATTTTTA
5943918 ATTTTAAGAAAAAT
1 ATTTTAA-AAAAAT
5943932 ATTTGTAAAAAAAT
1 ATTT-TAAAAAAAT
5943946 ATTTTAAAAAAA
1 ATTTTAAAAAAA
5943958 ATCGACTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.32
14 14 0.56
15 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (13 bp):
ATTTTAAAAAAAT
Found at i:5943999 original size:8 final size:8
Alignment explanation
Indices: 5943988--5944015 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
5943978 TTTATTTAAT
5943988 TTTTTATA
1 TTTTTATA
5943996 TTTTTATA
1 TTTTTATA
5944004 TTTTTATA
1 TTTTTATA
5944012 TTTT
1 TTTT
5944016 CAAATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTATA
Found at i:5944022 original size:16 final size:16
Alignment explanation
Indices: 5943988--5944023 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
5943978 TTTATTTAAT
* *
5943988 TTTTTATATTTTTATA
1 TTTTTATATTTTCAAA
5944004 TTTTTATATTTTCAAA
1 TTTTTATATTTTCAAA
5944020 TTTT
1 TTTT
5944024 AATAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTATATTTTCAAA
Found at i:5950720 original size:51 final size:51
Alignment explanation
Indices: 5950644--5950757 Score: 192
Period size: 51 Copynumber: 2.2 Consensus size: 51
5950634 AGTGACAATC
* *
5950644 GACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
* *
5950695 GACAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCTGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
5950746 GACAAGTGATAA
1 GACAAGTGATAA
5950758 ATGTGTTCAG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (51 bp):
GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
Found at i:5951826 original size:13 final size:13
Alignment explanation
Indices: 5951810--5951837 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5951800 ATAAATAAAT
5951810 TATTAATTAAAAA
1 TATTAATTAAAAA
5951823 TATTAATTAAAAA
1 TATTAATTAAAAA
5951836 TA
1 TA
5951838 AAATAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:5954978 original size:22 final size:21
Alignment explanation
Indices: 5954944--5954998 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
5954934 TGTTATTAAA
*
5954944 TTTTAATAAAATATTAAATATAT
1 TTTTAAT-TAATATTAAATAT-T
**
5954967 TTTTAATTAATATTTTATATT
1 TTTTAATTAATATTAAATATT
5954988 TTTTAAATTAA
1 TTTT-AATTAA
5954999 AAACTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.18
22 16 0.57
23 7 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTAATTAATATTAAATATT
Found at i:5968793 original size:22 final size:22
Alignment explanation
Indices: 5968708--5968779 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 22
5968698 TATAGTATTT
* *
5968708 TAAATATAAAATATTTATTTTTACA
1 TAAAAATAAAAT-TTTA--TTTAAA
* *
5968733 TAAAAATTTAAATTTAAATTTAAA
1 TAAAAA-TAAAATTT-TATTTAAA
5968757 TAAAAATAAAATTTTATTTAAA
1 TAAAAATAAAATTTTATTTAAA
5968779 T
1 T
5968780 TAAATAATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
22 8 0.21
23 7 0.18
24 11 0.28
25 7 0.18
26 6 0.15
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (22 bp):
TAAAAATAAAATTTTATTTAAA
Found at i:5969144 original size:14 final size:14
Alignment explanation
Indices: 5969101--5969144 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 14
5969091 TAAAATGGTA
5969101 AAATTTTAATTTA-
1 AAATTTTAATTTAT
5969114 AATATTTTATAATTTAT
1 AA-A-TTT-TAATTTAT
5969131 AAATTTTAATTTAT
1 AAATTTTAATTTAT
5969145 TAATGATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 2 0.07
14 9 0.33
15 6 0.22
16 8 0.30
17 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AAATTTTAATTTAT
Found at i:5974372 original size:23 final size:23
Alignment explanation
Indices: 5974328--5974377 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 23
5974318 ATTAAACTGA
5974328 AAAATTCATCCGTACAATTGCA-T
1 AAAATTCA-CCGTACAATTGCACT
5974351 AAAATTCA-CGTATCAATGTGCACT
1 AAAATTCACCGTA-CAAT-TGCACT
5974375 AAA
1 AAA
5974378 TGAAGGGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.17
22 4 0.17
23 12 0.50
24 4 0.17
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (23 bp):
AAAATTCACCGTACAATTGCACT
Found at i:5989260 original size:20 final size:20
Alignment explanation
Indices: 5989223--5989276 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
5989213 TTAAAGCTAG
5989223 AGAAAAAG-A-AAAAAAAGA
1 AGAAAAAGAAGAAAAAAAGA
* * *
5989241 AGAAGAAGAGGAAAATAAGA
1 AGAAAAAGAAGAAAAAAAGA
5989261 AGAAAAAGAAGAAAAA
1 AGAAAAAGAAGAAAAA
5989277 TTGTTATGCC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
18 7 0.25
20 21 0.75
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (20 bp):
AGAAAAAGAAGAAAAAAAGA
Done.