Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, whole genome shotgun sequence
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: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 20 of 402
Found at i:4604091 original size:22 final size:22
Alignment explanation
Indices: 4604017--4604091 Score: 80
Period size: 22 Copynumber: 3.2 Consensus size: 22
4604007 GTATTTCTTA
*
4604017 TTTTATTTTATTTTCATTTATTTAT
1 TTTTATTTTGTTTT--TTTATTT-T
4604042 TTTTATCTTTGTTTTTATT-TTTT
1 TTTTAT-TTTGTTTTT-TTATTTT
4604065 TTTTATTTTGTTTTTTTATTTT
1 TTTTATTTTGTTTTTTTATTTT
*
4604087 CTTTA
1 TTTTA
4604092 AATAAAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
21 2 0.04
22 17 0.38
23 7 0.16
24 4 0.09
25 8 0.18
26 7 0.16
ACGTcount: A:0.13, C:0.04, G:0.03, T:0.80
Consensus pattern (22 bp):
TTTTATTTTGTTTTTTTATTTT
Found at i:4604179 original size:60 final size:58
Alignment explanation
Indices: 4604099--4604262 Score: 170
Period size: 60 Copynumber: 2.8 Consensus size: 58
4604089 TTAAATAAAA
* * * * * *
4604099 TTCTAAAAAAAAAATTTTGAGGAGAAGATGAAAGTATTAATTTTTCTCGA-AAATAATTTTT
1 TTCT-AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAGAAATAA---TT
* **
4604160 TTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATGAA-TTTTCTTTAGAAATAATT
1 TTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAGAAATAATT
*
4604217 TTCTAAAAAAGGTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTT
1 TTCTAAAAAA--TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTT
4604263 TTTTAACAAA
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
57 12 0.13
59 34 0.38
60 39 0.44
61 4 0.04
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.40
Consensus pattern (58 bp):
TTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAGAAATAATT
Found at i:4607020 original size:12 final size:12
Alignment explanation
Indices: 4607003--4607027 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4606993 ATTGTTGGTT
4607003 TTTTTTTTTTCC
1 TTTTTTTTTTCC
4607015 TTTTTTTTTTCC
1 TTTTTTTTTTCC
4607027 T
1 T
4607028 CTGGTGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTTCC
Found at i:4607959 original size:15 final size:15
Alignment explanation
Indices: 4607941--4607970 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4607931 CTATAATACG
*
4607941 AATTTGTATTAGTAT
1 AATTAGTATTAGTAT
4607956 AATTAGTATTAGTAT
1 AATTAGTATTAGTAT
4607971 TTTCATTACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (15 bp):
AATTAGTATTAGTAT
Found at i:4608842 original size:17 final size:19
Alignment explanation
Indices: 4608800--4608845 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 19
4608790 CCCATTATAA
4608800 AATAATTATTTTACTTCACTT
1 AATAATT-TTTTACTTCAC-T
4608821 AATAATTTTTTACTT-A-T
1 AATAATTTTTTACTTCACT
4608838 AATAATTT
1 AATAATTT
4608846 ACATTAGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.36
19 1 0.04
20 8 0.32
21 7 0.28
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (19 bp):
AATAATTTTTTACTTCACT
Found at i:4608843 original size:20 final size:21
Alignment explanation
Indices: 4608794--4608843 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
4608784 TCTTTTCCCA
4608794 TTATAA-AATAATTATTTTAC
1 TTATAATAATAATTATTTTAC
4608814 TTCACT--TAATAATT-TTTTAC
1 TT-A-TAATAATAATTATTTTAC
4608834 TTATAATAAT
1 TTATAATAAT
4608844 TTACATTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
18 1 0.04
19 1 0.04
20 14 0.56
21 8 0.32
22 1 0.04
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATAATAATAATTATTTTAC
Found at i:4627355 original size:21 final size:20
Alignment explanation
Indices: 4627331--4627391 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 20
4627321 TTTAAGTCGT
4627331 TATTTATGTTTTTTTATATTA
1 TATTTAT-TTTTTTTATATTA
*
4627352 TATTTACATTTTATTATTGTATTA
1 TATTT--ATTTT-TT-TTATATTA
*
4627376 TATTTATTTTTATTAT
1 TATTTATTTTTTTTAT
4627392 TTTTTAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
20 3 0.09
21 6 0.18
22 8 0.24
23 4 0.12
24 12 0.36
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (20 bp):
TATTTATTTTTTTTATATTA
Found at i:4627378 original size:24 final size:23
Alignment explanation
Indices: 4627347--4627392 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
4627337 TGTTTTTTTA
4627347 TATTATATTTACATTTTATTATTG
1 TATTATATTTA-ATTTTATTATTG
*
4627371 TATTATATTTATTTTTATTATT
1 TATTATATTTAATTTTATTATT
4627393 TTTTAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
TATTATATTTAATTTTATTATTG
Found at i:4631302 original size:24 final size:25
Alignment explanation
Indices: 4631241--4631308 Score: 76
Period size: 23 Copynumber: 2.9 Consensus size: 25
4631231 ATTATTAAGG
4631241 ATATT-AAATTAA-AAATTATATATA
1 ATATTAAAATTAATAAATTAT-TATA
*
4631265 ATA--AAAATT-TTAAATTATT-TA
1 ATATTAAAATTAATAAATTATTATA
4631286 ATATTAAAATTAATAAATTATTA
1 ATATTAAAATTAATAAATTATTA
4631309 AAAATTATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
21 5 0.14
22 1 0.03
23 18 0.50
24 12 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
ATATTAAAATTAATAAATTATTATA
Found at i:4631314 original size:18 final size:17
Alignment explanation
Indices: 4631242--4631325 Score: 65
Period size: 16 Copynumber: 5.2 Consensus size: 17
4631232 TTATTAAGGA
4631242 TATT-AAATTAA-AAAT
1 TATTAAAATTAATAAAT
*
4631257 TATATATAA-TAA-AAAT
1 TAT-TAAAATTAATAAAT
* *
4631273 T-TT-AAATTATTTAA-
1 TATTAAAATTAATAAAT
4631287 TATTAAAATTAATAAAT
1 TATTAAAATTAATAAAT
*
4631304 TATTAAAAATTATTAAAT
1 TATT-AAAATTAATAAAT
4631322 TATT
1 TATT
4631326 TTAATATCAA
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
13 2 0.04
14 4 0.07
15 8 0.15
16 18 0.33
17 6 0.11
18 16 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TATTAAAATTAATAAAT
Found at i:4631321 original size:8 final size:8
Alignment explanation
Indices: 4631269--4631325 Score: 55
Period size: 8 Copynumber: 7.0 Consensus size: 8
4631259 TATATAATAA
4631269 AAATT-TT
1 AAATTATT
4631276 AAATTATT
1 AAATTATT
*
4631284 TAA-TATT
1 AAATTATT
*
4631291 AAAATTAAT
1 -AAATTATT
4631300 AAATTATT
1 AAATTATT
4631308 AAAAATTATT
1 --AAATTATT
4631318 AAATTATT
1 AAATTATT
4631326 TTAATATCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
7 9 0.22
8 21 0.51
9 3 0.07
10 8 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
AAATTATT
Found at i:4631352 original size:41 final size:40
Alignment explanation
Indices: 4631244--4631354 Score: 113
Period size: 41 Copynumber: 2.8 Consensus size: 40
4631234 ATTAAGGATA
* *
4631244 TTAA-ATTAAAAATT-ATATATAATAAAAATTTTAAATTAT
1 TTAATATT-AAAATTAATAAATTATAAAAATTTTAAATTAT
4631283 TTAATATTAAAATTAATAAATTATTAAAAATTATTAAATTATT
1 TTAATATTAAAATTAATAAATTA-TAAAAATT-TTAAATTA-T
* *
4631326 TTAATA-TCAAA-TAATAATTTTATAAAAAT
1 TTAATATTAAAATTAATAA-ATTATAAAAAT
4631355 AAGTAAAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
39 10 0.16
40 9 0.15
41 21 0.34
42 15 0.24
43 7 0.11
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (40 bp):
TTAATATTAAAATTAATAAATTATAAAAATTTTAAATTAT
Found at i:4633677 original size:31 final size:31
Alignment explanation
Indices: 4633636--4633729 Score: 93
Period size: 31 Copynumber: 3.0 Consensus size: 31
4633626 CCTTGATGGA
* *
4633636 TTTTTAAGATTTCGAGGTTTTAAGGTTTGGG
1 TTTTTAAGATTTCAAGATTTTAAGGTTTGGG
* * *
4633667 TTTTTGAGATTTTAAGATTTTAAGGTTTGAATGA
1 TTTTTAAGATTTCAAGATTTTAAGGTTTG---GG
*
4633701 TTTTTAAG-TTTCAA-ATTTTAGGGTTTGGG
1 TTTTTAAGATTTCAAGATTTTAAGGTTTGGG
4633730 ATTCTGAATT
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
29 1 0.02
31 25 0.49
32 12 0.24
33 5 0.10
34 8 0.16
ACGTcount: A:0.23, C:0.02, G:0.24, T:0.50
Consensus pattern (31 bp):
TTTTTAAGATTTCAAGATTTTAAGGTTTGGG
Found at i:4633757 original size:16 final size:16
Alignment explanation
Indices: 4633736--4633781 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
4633726 TGGGATTCTG
*
4633736 AATTTTAGGGTTTTTA
1 AATTTTAGGGTTTTGA
*
4633752 AATTTTAAGGTTTTGA
1 AATTTTAGGGTTTTGA
*
4633768 AATTTTAGGATTTT
1 AATTTTAGGGTTTT
4633782 AAAGGTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.54
Consensus pattern (16 bp):
AATTTTAGGGTTTTGA
Found at i:4633765 original size:8 final size:8
Alignment explanation
Indices: 4633754--4634004 Score: 89
Period size: 8 Copynumber: 31.5 Consensus size: 8
4633744 GGTTTTTAAA
4633754 TTTTAAGG
1 TTTTAAGG
*
4633762 TTTTGAA-A
1 TTTT-AAGG
4633770 TTTT-AGG
1 TTTTAAGG
4633777 ATTTTAAAGG
1 -TTTT-AAGG
4633787 TATTT--GG
1 T-TTTAAGG
4633794 TTTTAAGG
1 TTTTAAGG
*
4633802 -TTTAAAG
1 TTTTAAGG
4633809 TTTT--GG
1 TTTTAAGG
* *
4633815 AGTTTAGGG
1 -TTTTAAGG
*
4633824 TTTTGA-G
1 TTTTAAGG
4633831 TTTTAAGG
1 TTTTAAGG
*
4633839 TTTTAAAG
1 TTTTAAGG
4633847 -TTTAAGG
1 TTTTAAGG
4633854 -TTTAGAGG
1 TTTTA-AGG
4633862 TTTT-AGTG
1 TTTTAAG-G
**
4633870 TTTGGAGG
1 TTTTAAGG
*
4633878 TGTTTAGGG
1 T-TTTAAGG
*
4633887 TTTAAAGG
1 TTTTAAGG
*
4633895 GTTTAAGG
1 TTTTAAGG
*
4633903 TTTTGAGG
1 TTTTAAGG
*
4633911 -TTTAGGG
1 TTTTAAGG
* **
4633918 TTTAAAAA
1 TTTTAAGG
*
4633926 TCTTAAGG
1 TTTTAAGG
4633934 TTTTAAGGG
1 TTTTAA-GG
4633943 TTTTAAGG
1 TTTTAAGG
* *
4633951 TTTCGATGG
1 TTT-TAAGG
*
4633960 CTTTAAGGG
1 TTTTAA-GG
*
4633969 TTTCGAAGG
1 TTT-TAAGG
4633978 -TTTAAGG
1 TTTTAAGG
*
4633985 TTTGAAAGG
1 TTT-TAAGG
4633994 TTTT-AGG
1 TTTTAAGG
4634001 TTTT
1 TTTT
4634005 TGAGAGTTTA
Statistics
Matches: 176, Mismatches: 42, Indels: 51
0.65 0.16 0.19
Matches are distributed among these distances:
6 5 0.03
7 46 0.26
8 76 0.43
9 41 0.23
10 8 0.05
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.46
Consensus pattern (8 bp):
TTTTAAGG
Found at i:4633819 original size:15 final size:14
Alignment explanation
Indices: 4633801--4633856 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 14
4633791 TGGTTTTAAG
*
4633801 GTTTAAAGTTTTGGA
1 GTTTAAGGTTTT-GA
*
4633816 GTTTAGGGTTTTGA
1 GTTTAAGGTTTTGA
*
4633830 GTTTTAAGGTTTTAAA
1 G-TTTAAGGTTTT-GA
4633846 GTTTAAGGTTT
1 GTTTAAGGTTT
4633857 AGAGGTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
14 3 0.09
15 30 0.86
16 2 0.06
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (14 bp):
GTTTAAGGTTTTGA
Found at i:4633889 original size:33 final size:31
Alignment explanation
Indices: 4633792--4633923 Score: 92
Period size: 30 Copynumber: 4.3 Consensus size: 31
4633782 AAAGGTATTT
* *
4633792 GGTTTTAA-GGTTTAAAGTTTTGGA-GTTTAG
1 GGTTTAAAGGGTTT-AAGGTTTGGAGGTTTAG
** * ** * *
4633822 GGTTTTGA-GTTTTAAGGTTTTAAAGTTTAA
1 GGTTTAAAGGGTTTAAGGTTTGGAGGTTTAG
* *
4633852 GGTTTAGA-GGTTTTAGTGTTTGGAGGTGTTTAG
1 GGTTTAAAGGGTTTAAG-GTTTGGA-G-GTTTAG
*
4633885 GGTTTAAAGGGTTTAAGGTTTTGAGGTTTAG
1 GGTTTAAAGGGTTTAAGGTTTGGAGGTTTAG
4633916 GGTTTAAA
1 GGTTTAAA
4633924 AATCTTAAGG
Statistics
Matches: 81, Mismatches: 16, Indels: 9
0.76 0.15 0.08
Matches are distributed among these distances:
29 7 0.09
30 29 0.36
31 19 0.23
32 1 0.01
33 18 0.22
34 7 0.09
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (31 bp):
GGTTTAAAGGGTTTAAGGTTTGGAGGTTTAG
Found at i:4636526 original size:34 final size:35
Alignment explanation
Indices: 4636488--4636553 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 35
4636478 AATAACAATG
* *
4636488 ATTGAACCATGAGTCAAATAATAAA-ATAACCGAA
1 ATTGAACCATAAGTCAAAGAATAAAGATAACCGAA
* *
4636522 ATTGAATCGTAAGTCAAAGAATAAAGATAACC
1 ATTGAACCATAAGTCAAAGAATAAAGATAACC
4636554 AGAACTGAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 21 0.78
35 6 0.22
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.21
Consensus pattern (35 bp):
ATTGAACCATAAGTCAAAGAATAAAGATAACCGAA
Found at i:4636678 original size:35 final size:35
Alignment explanation
Indices: 4636637--4636725 Score: 99
Period size: 36 Copynumber: 2.5 Consensus size: 35
4636627 AATAATCCAC
* * *
4636637 AAGTCAACGAATAAAGATGATC-TGATCTAAACTGT
1 AAGTCAAAGAATAAAGATGATCGGGAT-TAAACTAT
* *
4636672 AGGTCAAAAAATAAAAGATGATCGGGATTAAACTAT
1 AAGTCAAAGAAT-AAAGATGATCGGGATTAAACTAT
*
4636708 AAGTCAAAGGATAAAGAT
1 AAGTCAAAGAATAAAGAT
4636726 AATTGAAACC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
35 15 0.34
36 26 0.59
37 3 0.07
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.22
Consensus pattern (35 bp):
AAGTCAAAGAATAAAGATGATCGGGATTAAACTAT
Found at i:4637057 original size:106 final size:105
Alignment explanation
Indices: 4636864--4637076 Score: 275
Period size: 106 Copynumber: 2.0 Consensus size: 105
4636854 AGGGGTGAAA
* * *
4636864 ATGATCAAGATTGAACCACAAGTTGGGAAATAAAAATGATCACGACTGAACCATGAATCAAAAGA
1 ATGATCAAGATTGAACCACAAGTTGAGAAATAAAAATGATCAAGACTAAACCATGAATCAAAAGA
* * * *
4636929 TAAAAATGATTGAGGCTTAACCATAAGTCAAAGAATAAAG
66 TAAAAATGACTAAGACTGAACCATAAGTCAAAGAATAAAG
* * ** * *
4636969 ATGATCAGGATTGAGCTGCAAGTTGAGAAATAAAAAATGATCAAGATTAAACTAT-AAGTCAAAA
1 ATGATCAAGATTGAACCACAAGTTGAGAAAT-AAAAATGATCAAGACTAAACCATGAA-TCAAAA
*
4637033 GATATAAATGACTAAGACTGAACCATAAGTCAAAGAATAAAG
64 GATAAAAATGACTAAGACTGAACCATAAGTCAAAGAATAAAG
4637075 AT
1 AT
4637077 AACTAGGGTT
Statistics
Matches: 92, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
105 28 0.30
106 64 0.70
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (105 bp):
ATGATCAAGATTGAACCACAAGTTGAGAAATAAAAATGATCAAGACTAAACCATGAATCAAAAGA
TAAAAATGACTAAGACTGAACCATAAGTCAAAGAATAAAG
Found at i:4637320 original size:28 final size:28
Alignment explanation
Indices: 4637235--4637370 Score: 105
Period size: 28 Copynumber: 4.8 Consensus size: 28
4637225 AAAACCTAGA
* *
4637235 CTTAAATCTGAATATCAACTAAATTGGG
1 CTTAAATCTGAGTACCAACTAAATTGGG
* * *
4637263 CCTAAATCTAAGTACCATCTAAACTT-GG
1 CTTAAATCTGAGTACCAACTAAA-TTGGG
* *
4637291 CTTAAATCTGAGTGCCATCTAAATTGGG
1 CTTAAATCTGAGTACCAACTAAATTGGG
* * * * **
4637319 CTTCAAAT-TCATGTGCCAGCTAAACTGAA
1 CTT-AAATCTGA-GTACCAACTAAATTGGG
*
4637348 CTTAAATCTTAGTACCAACTAAA
1 CTTAAATCTGAGTACCAACTAAA
4637371 CTAGACTAAG
Statistics
Matches: 87, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
27 2 0.02
28 61 0.70
29 24 0.28
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (28 bp):
CTTAAATCTGAGTACCAACTAAATTGGG
Found at i:4637370 original size:57 final size:56
Alignment explanation
Indices: 4637218--4637370 Score: 148
Period size: 57 Copynumber: 2.7 Consensus size: 56
4637208 AAAATTTGTA
* * * *
4637218 TACCAGCAAAACCTAGACTTAAATCTGAATATCAACTAAATTGGGCCTAAATCTAAG
1 TACCAGCTAAA-CTTGACTTAAATCTGAGTACCAACTAAATTGGGCCTAAATCTAAG
* * * * * *
4637275 TACCATCTAAACTTGGCTTAAATCTGAGTGCCATCTAAATTGGGCTTCAAAT-TCATG
1 TACCAGCTAAACTTGACTTAAATCTGAGTACCAACTAAATTGGGCCT-AAATCT-AAG
* *
4637332 TGCCAGCTAAAC-TGAACTTAAATCTTAGTACCAACTAAA
1 TACCAGCTAAACTTG-ACTTAAATCTGAGTACCAACTAAA
4637371 CTAGACTAAG
Statistics
Matches: 77, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
56 32 0.42
57 45 0.58
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (56 bp):
TACCAGCTAAACTTGACTTAAATCTGAGTACCAACTAAATTGGGCCTAAATCTAAG
Found at i:4638630 original size:231 final size:231
Alignment explanation
Indices: 4638226--4638693 Score: 758
Period size: 231 Copynumber: 2.0 Consensus size: 231
4638216 AACGTAAATG
* * * * * *
4638226 CAAACACCAATGTATAATGATGGTGATGTAGATGCGCGTTAAAAGATGCAAATGATAAAAAATAC
1 CAAACACCAATGTATAACGATAGTGATGCAGATGAGCATTAAAAGATACAAATGATAAAAAATAC
* *
4638291 CTTTCTTCAAAATTTTTCCTTTCCAATTCTATTTATTCCCCGTTATCCACCAAATCGAATCTTTC
66 CTTTCTTCAAAATTTTTCCTTCCCAATTCTATTTATTCCCCGTTATCCACCAAATCAAATCTTTC
*
4638356 AACTTTTTTCTAAAATGATTCAAACTTATCATTTTCCTATCTTTTCACTTGTTTTCATTTTAGTT
131 AACTTTTTTCTAAAAGGATTCAAACTTATCATTTTCCTATCTTTTCACTTGTTTTCATTTTAGTT
*
4638421 TTT-ATGGAATTTTTGCTCTTCTTTTTTTTTTTTTTA
196 TTTCA-GGAATTTATGCTCTTCTTTTTTTTTTTTTTA
* * * *
4638457 CAAACACCATTGTATAACGATAGTGATGCAGATGAGCATTAAAAGATACTATTGCTAAAAAATAC
1 CAAACACCAATGTATAACGATAGTGATGCAGATGAGCATTAAAAGATACAAATGATAAAAAATAC
*
4638522 CTTTCTTCAAAATTTTTCCTTCCCAATTCTATTTATTCCCTGTTATCCACCAAATCAAATCTTTC
66 CTTTCTTCAAAATTTTTCCTTCCCAATTCTATTTATTCCCCGTTATCCACCAAATCAAATCTTTC
* *
4638587 AACTTTTTTCTAAAAGGATTCAAACTTATCATTTTCTTATCTTTTCACTTGTTTTCATTTTATTT
131 AACTTTTTTCTAAAAGGATTCAAACTTATCATTTTCCTATCTTTTCACTTGTTTTCATTTTAGTT
*
4638652 TTTCAGGAATTTATGCTCTTTTTTTTTTTTTTTTTA
196 TTTCAGGAATTTATGCTCTTCTTTTTTTTTTTTTTA
4638688 CAAACA
1 CAAACA
4638694 TGTTCTATCA
Statistics
Matches: 218, Mismatches: 18, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
231 217 1.00
232 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (231 bp):
CAAACACCAATGTATAACGATAGTGATGCAGATGAGCATTAAAAGATACAAATGATAAAAAATAC
CTTTCTTCAAAATTTTTCCTTCCCAATTCTATTTATTCCCCGTTATCCACCAAATCAAATCTTTC
AACTTTTTTCTAAAAGGATTCAAACTTATCATTTTCCTATCTTTTCACTTGTTTTCATTTTAGTT
TTTCAGGAATTTATGCTCTTCTTTTTTTTTTTTTTA
Found at i:4639957 original size:14 final size:13
Alignment explanation
Indices: 4639938--4639974 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
4639928 TATTGCTTTA
*
4639938 TTTTTTTTCTGGCC
1 TTTTTTTTCT-ACC
4639952 TTTTTTTTCTACC
1 TTTTTTTTCTACC
4639965 TTTTTTTTCT
1 TTTTTTTTCT
4639975 TACATTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.03, C:0.19, G:0.05, T:0.73
Consensus pattern (13 bp):
TTTTTTTTCTACC
Found at i:4640436 original size:9 final size:9
Alignment explanation
Indices: 4640415--4640446 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
4640405 TTACAAATTT
4640415 TGTTTTTT-
1 TGTTTTTTA
4640423 T-TTTTTTA
1 TGTTTTTTA
4640431 TGTTTTTTA
1 TGTTTTTTA
4640440 TGTTTTT
1 TGTTTTT
4640447 GATTAGATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 6 0.27
8 2 0.09
9 14 0.64
ACGTcount: A:0.06, C:0.00, G:0.09, T:0.84
Consensus pattern (9 bp):
TGTTTTTTA
Found at i:4642327 original size:38 final size:37
Alignment explanation
Indices: 4642233--4642352 Score: 93
Period size: 40 Copynumber: 3.1 Consensus size: 37
4642223 TGAGTGCATG
* *
4642233 TACTATCTATTAAGATGTGCATGAGAT-AGAAT-ATA-AA
1 TACTATCTATTAATATGT--ATGAGATGA-AATGATATAT
4642270 TACTATCTAGTTAAGATATGTATGAGATGAAATGCATATAT
1 TACTATCTA-TT-A-ATATGTATGAGATGAAATG-ATATAT
* *
4642311 TACTATCTATTAATATGCACATGAAATGAAATGTATATAT
1 TACTATCTATTAATATG--TATGAGATGAAATG-ATATAT
4642351 TA
1 TA
4642353 TCTTATTTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 15
0.78 0.06 0.17
Matches are distributed among these distances:
37 9 0.13
38 17 0.25
39 3 0.04
40 30 0.43
41 10 0.14
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (37 bp):
TACTATCTATTAATATGTATGAGATGAAATGATATAT
Found at i:4643505 original size:13 final size:13
Alignment explanation
Indices: 4643487--4643512 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4643477 CTATTTTTCA
4643487 AAAAAATTAAAAT
1 AAAAAATTAAAAT
4643500 AAAAAATTAAAAT
1 AAAAAATTAAAAT
4643513 TAAATACCAA
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAAAATTAAAAT
Found at i:4644845 original size:15 final size:15
Alignment explanation
Indices: 4644825--4644872 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
4644815 TTAGGGTTTG
*
4644825 GGGTTCTAGATTTTA
1 GGGTTCTAAATTTTA
4644840 GGGTTCTAAATTTTA
1 GGGTTCTAAATTTTA
* *
4644855 AGGTTTTGAAATTTTA
1 GGGTTCT-AAATTTTA
4644871 GG
1 GG
4644873 ATTTTAAGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 19 0.68
16 9 0.32
ACGTcount: A:0.25, C:0.04, G:0.25, T:0.46
Consensus pattern (15 bp):
GGGTTCTAAATTTTA
Found at i:4644922 original size:15 final size:16
Alignment explanation
Indices: 4644898--4644967 Score: 85
Period size: 15 Copynumber: 4.6 Consensus size: 16
4644888 GGTTTTAGCA
*
4644898 TTTAGCGTTTTGGAGT
1 TTTAGGGTTTTGGAGT
4644914 TTTA-GGTTTT-GAGT
1 TTTAGGGTTTTGGAGT
* *
4644928 TTTATGGTTTTAGA-T
1 TTTAGGGTTTTGGAGT
4644943 TTTAGGGTTTTGGAG-
1 TTTAGGGTTTTGGAGT
4644958 TTTAGGGTTT
1 TTTAGGGTTT
4644968 GAAAAGTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
14 8 0.17
15 34 0.71
16 6 0.12
ACGTcount: A:0.14, C:0.01, G:0.30, T:0.54
Consensus pattern (16 bp):
TTTAGGGTTTTGGAGT
Found at i:4644947 original size:45 final size:44
Alignment explanation
Indices: 4644885--4644969 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 44
4644875 TTTAAGGGTC
*
4644885 TATGGTTTTAGCATTTAGCGTTTTGGAGTTTTAGGTTTTGAGTTT
1 TATGGTTTTAGCATTTAGCGTTTTGGAG-TTTAGGGTTTGAGTTT
*
4644930 TATGGTTTTAG-ATTTTAGGGTTTTGGAGTTTAGGGTTTGA
1 TATGGTTTTAGCA-TTTAGCGTTTTGGAGTTTAGGGTTTGA
4644970 AAAGTTTAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
44 12 0.32
45 25 0.68
ACGTcount: A:0.16, C:0.02, G:0.29, T:0.52
Consensus pattern (44 bp):
TATGGTTTTAGCATTTAGCGTTTTGGAGTTTAGGGTTTGAGTTT
Found at i:4645667 original size:9 final size:9
Alignment explanation
Indices: 4645649--4645697 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
4645639 AATCATTTTC
4645649 ATTTTTATT
1 ATTTTTATT
*
4645658 ATTGTTATT
1 ATTTTTATT
4645667 ATTTTTAGTT
1 ATTTTTA-TT
4645677 A-TTTT-TT
1 ATTTTTATT
4645684 ATTTTATATT
1 ATTTT-TATT
4645694 ATTT
1 ATTT
4645698 AATAAGGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
7 3 0.09
8 3 0.09
9 19 0.56
10 9 0.26
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (9 bp):
ATTTTTATT
Found at i:4645671 original size:17 final size:16
Alignment explanation
Indices: 4645644--4645697 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 16
4645634 TTTGAAATCA
*
4645644 TTTTCATTTTTATTAT
1 TTTTTATTTTTATTAT
4645660 TGTTATTATTTTTAGTTAT
1 T-TT-TTATTTTTA-TTAT
4645679 TTTTTATTTTATATTAT
1 TTTTTATTTT-TATTAT
4645696 TT
1 TT
4645698 AATAAGGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
16 1 0.03
17 15 0.45
18 12 0.36
19 5 0.15
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (16 bp):
TTTTTATTTTTATTAT
Found at i:4645906 original size:13 final size:15
Alignment explanation
Indices: 4645875--4645911 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
4645865 ACTCAAAAAG
4645875 ATAAAAA-TAATATT
1 ATAAAAATTAATATT
4645889 ATAAAAATTAA-ATT
1 ATAAAAATTAATATT
4645903 -TAAAAATTA
1 ATAAAAATTA
4645912 CAAAAAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.41
14 10 0.45
15 3 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAAAAATTAATATT
Found at i:4652156 original size:6 final size:6
Alignment explanation
Indices: 4652145--4652170 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4652135 GCATAGGTGA
4652145 CTCTGG CTCTGG CTCTGG CTCTGG CT
1 CTCTGG CTCTGG CTCTGG CTCTGG CT
4652171 AGTAGTTCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.35, G:0.31, T:0.35
Consensus pattern (6 bp):
CTCTGG
Found at i:4658343 original size:41 final size:41
Alignment explanation
Indices: 4658266--4658345 Score: 97
Period size: 41 Copynumber: 2.0 Consensus size: 41
4658256 TCCTAAAGCC
* * ** * **
4658266 TGAAGTCAACCTAATTAACTGCCCAGGAGAGGATTGTGACG
1 TGAAGTCAACCTAATCAACTACCCAACACAACATTGTGACG
4658307 TGAAGTCAACCTAATCAACTACCCAACACAACATTGTGA
1 TGAAGTCAACCTAATCAACTACCCAACACAACATTGTGA
4658346 GGTCACTTCA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (41 bp):
TGAAGTCAACCTAATCAACTACCCAACACAACATTGTGACG
Found at i:4670500 original size:110 final size:105
Alignment explanation
Indices: 4670315--4670533 Score: 384
Period size: 110 Copynumber: 2.0 Consensus size: 105
4670305 AAATTATAGC
*
4670315 TAAAGTTGGAAATCTCAGGATTTGGATTCATGAATGAATGAATTTGTTCCAATGAGAACACAGTA
1 TAAAGTTGGAAATCTCAGGATTTGGATTCATGAATGAATGAATGTGTTCCAATGAGAACACAGTA
4670380 ACATATCATTGGGAAGAGTTTGGGTGTCACCCTACATACT
66 ACATATCATTGGGAAGAGTTTGGGTGTCACCCTACATACT
4670420 TAAAGTTGGAAATCTCAGGATTTGGATTCATGAATGAGTCATTTGAATGTGTTCCAATGAGAACA
1 TAAAGTTGGAAATCTCAGGATTTGGATTCATGAATGA---A--TGAATGTGTTCCAATGAGAACA
4670485 CAGTAACATATCATTGGGAAGAGTTTGGGTGTCACCCTACATACT
61 CAGTAACATATCATTGGGAAGAGTTTGGGTGTCACCCTACATACT
4670530 TAAA
1 TAAA
4670534 CCAAATTACT
Statistics
Matches: 108, Mismatches: 1, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
105 37 0.34
108 1 0.01
110 70 0.65
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (105 bp):
TAAAGTTGGAAATCTCAGGATTTGGATTCATGAATGAATGAATGTGTTCCAATGAGAACACAGTA
ACATATCATTGGGAAGAGTTTGGGTGTCACCCTACATACT
Found at i:4671335 original size:22 final size:22
Alignment explanation
Indices: 4671307--4671348 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4671297 TTTAAAACTC
*
4671307 GTTTGTTTATTATTCATTTACT
1 GTTTGTTTACTATTCATTTACT
*
4671329 GTTTGTTTGCTATTCATTTA
1 GTTTGTTTACTATTCATTTA
4671349 TTATAATACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.10, G:0.12, T:0.62
Consensus pattern (22 bp):
GTTTGTTTACTATTCATTTACT
Found at i:4671454 original size:15 final size:15
Alignment explanation
Indices: 4671431--4671479 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
4671421 GGTTTGTTTA
*
4671431 TGTTCGTTTAAGGTT
1 TGTTTGTTTAAGGTT
*
4671446 TGTTTGTTTAA-ATT
1 TGTTTGTTTAAGGTT
* *
4671460 TGTTTGATTATGGTT
1 TGTTTGTTTAAGGTT
4671475 TGTTT
1 TGTTT
4671480 ATTGTTCATG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.14, C:0.02, G:0.22, T:0.61
Consensus pattern (15 bp):
TGTTTGTTTAAGGTT
Found at i:4671524 original size:12 final size:12
Alignment explanation
Indices: 4671504--4671537 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4671494 GTTCATTTAT
*
4671504 ATATGTTCGTGA
1 ATATATTCGTGA
4671516 ATATATTCGTGA
1 ATATATTCGTGA
*
4671528 ACATATTCGT
1 ATATATTCGT
4671538 TTAATGTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (12 bp):
ATATATTCGTGA
Found at i:4672077 original size:2 final size:2
Alignment explanation
Indices: 4672070--4672103 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4672060 AATATCACTA
4672070 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
4672104 TCTACTACTC
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:4673232 original size:18 final size:18
Alignment explanation
Indices: 4673209--4673258 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
4673199 GCCATTTTCC
4673209 TCTTCTTCCTCTTCTCCA
1 TCTTCTTCCTCTTCTCCA
* *
4673227 TCTTCTTCCCCATCTCCA
1 TCTTCTTCCTCTTCTCCA
*
4673245 T-TTCCTCCTTCTTC
1 TCTTCTTCC-TCTTC
4673259 AGTTCCCTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.06, C:0.46, G:0.00, T:0.48
Consensus pattern (18 bp):
TCTTCTTCCTCTTCTCCA
Found at i:4679459 original size:30 final size:29
Alignment explanation
Indices: 4679406--4679469 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
4679396 TAACATGATT
* * *
4679406 AAATATGA-TTAATTTATTATTTAAACAA
1 AAATATCATTTAAATTAGTATTTAAACAA
*
4679434 AATATATCATTTAAATTAGTATTTAAATAA
1 AA-ATATCATTTAAATTAGTATTTAAACAA
4679464 AAATAT
1 AAATAT
4679470 TTAAAAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 2 0.07
29 9 0.30
30 19 0.63
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (29 bp):
AAATATCATTTAAATTAGTATTTAAACAA
Found at i:4683778 original size:4 final size:4
Alignment explanation
Indices: 4683765--4683805 Score: 59
Period size: 4 Copynumber: 10.5 Consensus size: 4
4683755 TTCATTTAGT
4683765 TTTA -TTA TTTA TTTA TTTA TTTA TTT- TCTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TT
4683806 GATTAAATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 4 0.12
4 29 0.85
5 1 0.03
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:4683917 original size:60 final size:57
Alignment explanation
Indices: 4683860--4684404 Score: 434
Period size: 58 Copynumber: 9.2 Consensus size: 57
4683850 TTTTCAATGA
** *
4683860 TTTTTTTAAAACAAAAATTTTTTAAAAATATTTTTGGAGAAAAGTTAAAAGTATCAAT
1 TTTTTTTAAAACAAAAATTTTAAAAAAATATTTTT-GAGAAAAGTTGAAAGTATCAAT
* * *
4683918 TTTCTTTAAAACTAAAAACTTCAAAAAATATATTTTTGAGAAAAAGTTGAAAGTATCAAT
1 TTTTTTTAAAAC-AAAAATTTTAAAAAA-ATATTTTTGAG-AAAAGTTGAAAGTATCAAT
* * ** *
4683978 TTTTCTTAAAAATAAAAACTTCAAAAAACATATATTTTTGAGAAAAAAATTGAAAGTATCAAT
1 TTTT-TTTAAAACAAAAA-TTTTAAAAA-A-ATATTTTTGAG--AAAAGTTGAAAGTATCAAT
* ** * * *
4684041 TTTTCTTAAAGTAAAAACTTCAAAAAAATATTTTTGAGAAAAAATTGAAAGTATCAAT
1 TTTTTTTAAAACAAAAATTTTAAAAAAATATTTTTGAG-AAAAGTTGAAAGTATCAAT
* * *
4684099 TTTTCTTGAAAA-TAAAATTTTCAAAAAAGTATTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTT-TTTAAAACAAAAATTTT-AAAAAAATATTTTTGA-GAAAAGTTGAAAGTATCAAT
* * * * * * *
4684158 TTTTCTTAAAA-TAAATTTTTAAAAAAAGCATTTTTAAGGAAAAATTGAAAGTGTCAAT
1 TTTTTTTAAAACAAAAATTTTAAAAAAA-TATTTTTGA-GAAAAGTTGAAAGTATCAAT
* * **
4684216 TTTTCTTAAAA-ATAAAATTATCAAAAAAATATTTTAAAG-AAAGTTGAAAGTATCAAT
1 TTTTTTTAAAACA-AAAATT-TTAAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAAT
* * * *
4684273 TTTCTTTGAAAA-TAAAATTTTCAAAAAAAAGATTTTTGAGAAAAAGTTGAAAGTATCGAT
1 TTT-TTTTAAAACAAAAATTTT--AAAAAAATATTTTTGAG-AAAAGTTGAAAGTATCAAT
* * * * * ***
4684333 TTTCCTTGAAAATAAAGATTTCAAAAATGGATTTTTGAAAGAAAAGTTGAAAGTATCAATT
1 TTT-TTTTAAAACAAAAATTTTAAAAAAATATTTTTG--AGAAAAGTTGAAAGTATCAA-T
4684394 TTTTTTTAAAA
1 TTTTTTTAAAA
4684405 TAGAGATGTC
Statistics
Matches: 406, Mismatches: 59, Indels: 42
0.80 0.12 0.08
Matches are distributed among these distances:
56 1 0.00
57 31 0.08
58 112 0.28
59 91 0.22
60 95 0.23
61 30 0.07
62 23 0.06
63 23 0.06
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.37
Consensus pattern (57 bp):
TTTTTTTAAAACAAAAATTTTAAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAAT
Found at i:4684004 original size:117 final size:115
Alignment explanation
Indices: 4683883--4684398 Score: 569
Period size: 117 Copynumber: 4.4 Consensus size: 115
4683873 AAAATTTTTT
*
4683883 AAAAATATTTTTGGAGAAAAGTTAAAAGTATCAATTTTCTTTAAAACTAAAAACTTCAAAAAATA
1 AAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTT-TTTAAAA-TAAAAACTTCAAAAAA-A
*
4683948 TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAACTTCAAA
63 TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTTC--A
* * *
4684003 AAACATATATTTTTGAGAAAAAAATTGAAAGTATCAATTTTTCTTAAAGTAAAAACTTCAAAAAA
1 AAA-A-ATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTT-TTAAAATAAAAACTTCAAAAAA
* * *
4684068 ATATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTCA
62 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTTCA
** *
4684122 AAAAAGTATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAT-AAATTTTTAAAAAAA
1 AAAAA-TATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTT-TTAAAATAAAAACTTCAAAAAAA
* * *
4684185 GCATTTTTAAGGAAAAA-TTGAAAGTGTCAATTTTTCTTAAAAAT-AAAATTATCA
63 -TATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATT-TCA
** **
4684239 AAAAA-ATATTTTAAAG-AAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAATTTTCAAAAAAA
1 AAAAATAT-TTTTGGAGAAAAGTTGAAAGTATCAATTTT-TTT-AAAATAAAAACTTC-AAAAAA
* * * * *
4684302 AGATTTTTGAGAAAAAGTTGAAAGTATCGATTTTCCTTGAAAATAAAGATTTC-
62 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTTCA
*
4684355 AAAAATGGATTTTTGAAAGAAAAGTTGAAAGTATCAATTTTTTT
1 AAAAAT--ATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTTTT
4684399 TTAAAATAGA
Statistics
Matches: 345, Mismatches: 29, Indels: 45
0.82 0.07 0.11
Matches are distributed among these distances:
115 25 0.07
116 41 0.12
117 110 0.32
118 30 0.09
119 12 0.03
120 24 0.07
121 50 0.14
122 26 0.08
123 27 0.08
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (115 bp):
AAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTTTAAAATAAAAACTTCAAAAAAATAT
TTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTTCA
Found at i:4684405 original size:60 final size:59
Alignment explanation
Indices: 4683883--4684406 Score: 538
Period size: 60 Copynumber: 8.8 Consensus size: 59
4683873 AAAATTTTTT
* * *
4683883 AAAAATATTTTTG-GAGAAAAGTTAAAAGTATCAA-TTTTCTTTAAAACTAAAAACTTCAA
1 AAAAATATTTTTGAAAGAAAAGTTGAAAGTATCAATTTTTCTTTAAAA-T-AAAATTTCAA
* * *
4683942 AAAATATATTTTTGAGA-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAACTTCAAA
1 AAAA-ATATTTTTGAAAGAAAAGTTGAAAGTATCAATTTTTCTTTAAAAT-AAAATTTC-AA
* * *
4684003 AAACATATATTTTTGAGAA-AAAAATTGAAAGTATCAATTTTTC-TTAAAGTAAAAACTTCAA
1 AAA-A-ATATTTTTGA-AAGAAAAGTTGAAAGTATCAATTTTTCTTTAAAAT-AAAATTTCAA
*
4684064 AAAAATATTTTTGAGAA-AAAA-TTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTCAA
1 AAAAATATTTTTGA-AAGAAAAGTTGAAAGTATCAATTTTTCTTTAAAATAAAA-TTTCAA
* * * *
4684123 AAAAGTATTTTTG-AGGAAAAGTTGAAAGTATCAATTTTTC-TTAAAATAAATTTTTAA
1 AAAAATATTTTTGAAAGAAAAGTTGAAAGTATCAATTTTTCTTTAAAATAAAATTTCAA
* * * * *
4684180 AAAAAGCATTTTT-AAGGAAAAATTGAAAGTGTCAATTTTTCTTAAAAATAAAATTATCAA
1 AAAAA-TATTTTTGAAAGAAAAGTTGAAAGTATCAATTTTTCTTTAAAATAAAATT-TCAA
4684240 AAAAATA-TTTT-AAAG-AAAGTTGAAAGTATCAA-TTTTCTTTGAAAATAAAATTTTCAAA
1 AAAAATATTTTTGAAAGAAAAGTTGAAAGTATCAATTTTTCTTT-AAAATAAAA-TTTC-AA
* * * * *
4684298 AAAAAGATTTTTGAGA-AAAAGTTGAAAGTATCGATTTTCCTTGAAAATAAAGATTTCAA
1 AAAAATATTTTTGAAAGAAAAGTTGAAAGTATCAATTTTTCTTTAAAATAAA-ATTTCAA
*** *
4684357 AAATGGATTTTTGAAAGAAAAGTTGAAAGTATCAATTTTTTTTTAAAATA
1 AAAAATATTTTTGAAAGAAAAGTTGAAAGTATCAATTTTTCTTTAAAATA
4684407 GAGATGTCAA
Statistics
Matches: 404, Mismatches: 38, Indels: 45
0.83 0.08 0.09
Matches are distributed among these distances:
56 7 0.02
57 36 0.09
58 84 0.21
59 93 0.23
60 104 0.26
61 30 0.07
62 26 0.06
63 24 0.06
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (59 bp):
AAAAATATTTTTGAAAGAAAAGTTGAAAGTATCAATTTTTCTTTAAAATAAAATTTCAA
Found at i:4686773 original size:42 final size:42
Alignment explanation
Indices: 4686714--4686797 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
4686704 TTAGGGTAAA
4686714 ACAGTTCATTCCTATGACACATAAACTTCATCAACCAAATTT
1 ACAGTTCATTCCTATGACACATAAACTTCATCAACCAAATTT
4686756 ACAGTTCATTCCTATGACACATAAACTTCATCAACCAAATTT
1 ACAGTTCATTCCTATGACACATAAACTTCATCAACCAAATTT
4686798 TTCTTACAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (42 bp):
ACAGTTCATTCCTATGACACATAAACTTCATCAACCAAATTT
Found at i:4689958 original size:85 final size:85
Alignment explanation
Indices: 4689828--4690054 Score: 316
Period size: 85 Copynumber: 2.7 Consensus size: 85
4689818 TTAGTCCAAT
*
4689828 ATTTCAGACTTCGATTCAGTCCATGTTA-TTTGTTTTAGATCTCGACCTATGCCAGATCTTTCTT
1 ATTTCAGACTTCGATTCAGTCCAGGTTATTTTGTTTTAGATCTCGACCTATGCCAGATCTTTCTT
*
4689892 TGACTTGGTCCAAGTTATTC
66 TGACTCGGTCCAAGTTATTC
* * * * *
4689912 ATTTCAGGCTTCGATTCAATCCAGGTCATTTTGTTTTAAATCTCGACCTATGCCAGATCTTTTTT
1 ATTTCAGACTTCGATTCAGTCCAGGTTATTTTGTTTTAGATCTCGACCTATGCCAGATCTTTCTT
*
4689977 TGACTCGGTCTAAGTTATTC
66 TGACTCGGTCCAAGTTATTC
* * *
4689997 ATTTCAAACTT-TAGTTCAGTCTAGGTTATTTTGTTTTAGATCTC-AGCCTATGCCAGAT
1 ATTTCAGACTTCGA-TTCAGTCCAGGTTATTTTGTTTTAGATCTCGA-CCTATGCCAGAT
4690055 TTATTTTTAC
Statistics
Matches: 125, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
84 26 0.21
85 99 0.79
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.43
Consensus pattern (85 bp):
ATTTCAGACTTCGATTCAGTCCAGGTTATTTTGTTTTAGATCTCGACCTATGCCAGATCTTTCTT
TGACTCGGTCCAAGTTATTC
Found at i:4690240 original size:85 final size:84
Alignment explanation
Indices: 4690090--4690360 Score: 260
Period size: 85 Copynumber: 3.2 Consensus size: 84
4690080 GATTCAGTCT
* * * * * * *
4690090 AGGTCATTTTGTTTTAGATCTTGACCTATGCTAGATCTTTCTTTGAC-TCGATCTAAATTACTCA
1 AGGTCATTTTGTTTTAGATTTTGACCTATGATAGATCTTTTTTTG-CTTAGTTC-AGATTATTCA
* * **
4690154 TTTTAGACTTTG-GTTCAGTTT
64 TTTCAGACTTTGATTTCA-TCC
* *
4690175 AGGTCATTTTGTTTTAGATTTTGGCATATGATAGATCTTTTTTTCGCTTAGTTCAGATTATTCAT
1 AGGTCATTTTGTTTTAGATTTTGACCTATGATAGATCTTTTTTT-GCTTAGTTCAGATTATTCAT
*
4690240 TTCAGATTTTGATTTCATCC
65 TTCAGACTTTGATTTCATCC
* * * * * * *
4690260 AGATCATTTTATTTTTGGATTTTAACCTAT-ACTAGATCCTTTTTTGGTTTAGTCCAGATTATTC
1 AGGTCATTTT-GTTTTAGATTTTGACCTATGA-TAGAT-CTTTTTTTGCTTAGTTCAGATTATTC
*
4690324 ATTTCAGACTTCGATTTCATCC
63 ATTTCAGACTTTGATTTCATCC
4690346 AGGTCATTTTGTTTT
1 AGGTCATTTTGTTTT
4690361 CGGGTTTTGA
Statistics
Matches: 153, Mismatches: 27, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
85 73 0.48
86 73 0.48
87 7 0.05
ACGTcount: A:0.21, C:0.15, G:0.14, T:0.49
Consensus pattern (84 bp):
AGGTCATTTTGTTTTAGATTTTGACCTATGATAGATCTTTTTTTGCTTAGTTCAGATTATTCATT
TCAGACTTTGATTTCATCC
Found at i:4690383 original size:86 final size:85
Alignment explanation
Indices: 4690175--4690389 Score: 236
Period size: 86 Copynumber: 2.5 Consensus size: 85
4690165 GGTTCAGTTT
* * * *
4690175 AGGTCATTTTGTTTTAGATTTTGGCATATGAT-AGATCTTTTTTTCGCTTAGTTCAGATTATTCA
1 AGGTCATTTTGTTTTGGATTTTGACATATG-TCAGATCCTTTTTTCGCTTAGTCCAGATTATTCA
* *
4690239 TTTCAGATTTTGATTTCATCC
65 TTTCAGACTTCGATTTCATCC
* * * * * * *
4690260 AGATCATTTTATTTTTGGATTTTAACCTAT-ACTAGATCCTTTTTTGGTTTAGTCCAGATTATTC
1 AGGTCATTTT-GTTTTGGATTTTGACATATGTC-AGATCCTTTTTTCGCTTAGTCCAGATTATTC
4690324 ATTTCAGACTTCGATTTCATCC
64 ATTTCAGACTTCGATTTCATCC
* * *
4690346 AGGTCATTTTGTTTTCGGGTTTTGACTTATGTCAGATCCATTTT
1 AGGTCATTTTGTTTT-GGATTTTGACATATGTCAGATCCTTTTT
4690390 CGGGTCATTC
Statistics
Matches: 105, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
85 13 0.12
86 91 0.87
87 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (85 bp):
AGGTCATTTTGTTTTGGATTTTGACATATGTCAGATCCTTTTTTCGCTTAGTCCAGATTATTCAT
TTCAGACTTCGATTTCATCC
Found at i:4691504 original size:60 final size:60
Alignment explanation
Indices: 4691418--4691845 Score: 479
Period size: 60 Copynumber: 7.3 Consensus size: 60
4691408 ATTTTCAATG
* *
4691418 ATTTTT-TT-AAAATAAAAA-TTCTAAAAAAATATTTTTGAAGAAAAGTCGAAAGTATCA
1 ATTTTTCTTAAAAATAAAAACTTCAAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCA
* * *
4691475 ATTTTCCTTAAAACTAAAAACTTC--AAAAAATATTTTTG-AGAAAAAGTTGAAAATATCA
1 ATTTTTCTTAAAAATAAAAACTTCAAAAAAAATATTTTTGAAG-AAAAGTTGAAAGTATCA
** * *
4691533 ATTTTTCTTAAAAATAAAAACTTCAAAAATTTATATTTTTGAGGAAAAATTGAAAGTATCA
1 ATTTTTCTTAAAAATAAAAACTTCAAAAA-AAATATTTTTGAAGAAAAGTTGAAAGTATCA
* *
4691594 ATTTTTCTTAAAAATAAAAACTTCAAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTTCTTAAAAATAAAAACTTCAAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCA
*
4691654 ATTTTTCTT-AAAATAAAAACTTC-AAAAAAATA--TTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTTCTTAAAAATAAAAACTTCAAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCA
* ** * ** *
4691710 ATTTTCCTTAAAAATAAAATTTTCAAAAATAGCA-TTTTGAAGGAAAAGTTGAAAATATCA
1 ATTTTTCTTAAAAATAAAAACTTCAAAAAAAATATTTTTGAA-GAAAAGTTGAAAGTATCA
** * *
4691770 A-TTTTCAAAGAAAAT-AAAATTCTCAAGAAAAATATTTTT-AAGGAAAAGTTGAAAGTATCA
1 ATTTTTCTTA-AAAATAAAAACT-TCAAAAAAAATATTTTTGAA-GAAAAGTTGAAAGTATCA
* *
4691830 ATTTTTTTTGAAAATA
1 ATTTTTCTTAAAAATA
4691846 GAGATGTCAA
Statistics
Matches: 317, Mismatches: 37, Indels: 30
0.83 0.10 0.08
Matches are distributed among these distances:
56 32 0.10
57 19 0.06
58 67 0.21
59 38 0.12
60 99 0.31
61 61 0.19
62 1 0.00
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (60 bp):
ATTTTTCTTAAAAATAAAAACTTCAAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCA
Found at i:4691562 original size:34 final size:34
Alignment explanation
Indices: 4691524--4691622 Score: 86
Period size: 29 Copynumber: 3.1 Consensus size: 34
4691514 GAAAAAGTTG
4691524 AAAATATCAATTTTTCTTAAAAATAAAAACTTCA
1 AAAATATCAATTTTTCTTAAAAATAAAAACTTCA
* * * ** *
4691558 AAAAT-T-TATATTT-TT--GAGGAAAAA-TT-G
1 AAAATATCAATTTTTCTTAAAAATAAAAACTTCA
*
4691585 AAAGTATCAATTTTTCTTAAAAATAAAAACTTCA
1 AAAATATCAATTTTTCTTAAAAATAAAAACTTCA
4691619 AAAA
1 AAAA
4691623 AAATGTTTTT
Statistics
Matches: 44, Mismatches: 14, Indels: 14
0.61 0.19 0.19
Matches are distributed among these distances:
27 4 0.09
28 3 0.07
29 11 0.25
30 2 0.05
31 2 0.05
32 11 0.25
33 3 0.07
34 8 0.18
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.35
Consensus pattern (34 bp):
AAAATATCAATTTTTCTTAAAAATAAAAACTTCA
Found at i:4691826 original size:176 final size:175
Alignment explanation
Indices: 4691426--4691890 Score: 554
Period size: 176 Copynumber: 2.6 Consensus size: 175
4691416 TGATTTTTTT
* *
4691426 AAAATAAAAATTCT-AAAAAAATATTTTTGAA-GAAAAGTCGAAAGTATCAATTTTCCTTAAAAC
1 AAAAT-AAAATTCTCAAAAAAATATTTTT-AAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAA-
* * * *
4691489 TAAAAACTTCAAAAAATATTTTTGAGAAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAAAAC
63 TAAAAACTTCAAAAAA-ATATTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAAC
* * **
4691554 TTCAAAAATTTATATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTA
127 TTCAAAAA-TTACATTTTTGAGGAAAAATTGAAAATATCAATTTTTCAAA
* * *
4691604 AAAATAAAAACTTC-AAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAT
1 AAAAT-AAAA-TTCTCAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAT
**
4691668 AAAAACTTCAAAAAAATATTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTT
64 AAAAACTTCAAAAAAATATTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAACTT
*
4691733 CAAAAA-TAGCA-TTTTGAAGGAAAAGTTGAAAATATCAA-TTTTCAAA
129 CAAAAATTA-CATTTTTG-AGGAAAAATTGAAAATATCAATTTTTCAAA
*
4691779 GAAAATAAAATTCTCAAGAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTTTTGAAAA
1 -AAAATAAAATTCTCAA-AAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAA
* * *
4691844 TAGAGA-TGTC---AAAATACTTTAAGGAAAAGTTGAAAGTATCAATTTTC
63 TAAAAACT-TCAAAAAAATA-TTTGAGGAAAAGTTGAAAGTATCAATTTTC
4691891 TTGTATAAAA
Statistics
Matches: 254, Mismatches: 22, Indels: 25
0.84 0.07 0.08
Matches are distributed among these distances:
174 9 0.04
175 48 0.19
176 65 0.26
177 60 0.24
178 27 0.11
179 45 0.18
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (175 bp):
AAAATAAAATTCTCAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATAA
AAACTTCAAAAAAATATTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAACTTCA
AAAATTACATTTTTGAGGAAAAATTGAAAATATCAATTTTTCAAA
Found at i:4691833 original size:27 final size:27
Alignment explanation
Indices: 4691803--4691889 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
4691793 CAAGAAAAAT
4691803 ATTTTTAAGGAAAAGTTGAAAGTATCA
1 ATTTTTAAGGAAAAGTTGAAAGTATCA
*** * * *
4691830 ATTTTTTTTGAAAA-TAGAGATGTCA-AA
1 ATTTTTAAGGAAAAGTTGA-AAGT-ATCA
*
4691857 ATACTTTAAGGAAAAGTTGAAAGTATCA
1 AT-TTTTAAGGAAAAGTTGAAAGTATCA
4691885 ATTTT
1 ATTTT
4691890 CTTGTATAAA
Statistics
Matches: 41, Mismatches: 14, Indels: 10
0.63 0.22 0.15
Matches are distributed among these distances:
26 3 0.07
27 20 0.49
28 15 0.37
29 3 0.07
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.37
Consensus pattern (27 bp):
ATTTTTAAGGAAAAGTTGAAAGTATCA
Found at i:4691867 original size:55 final size:56
Alignment explanation
Indices: 4691457--4691890 Score: 309
Period size: 60 Copynumber: 7.4 Consensus size: 56
4691447 TATTTTTGAA
* * ** *
4691457 GAAAAGTCGAAAGTATCAATTTTCCTT-AAAACTAAAAACTTCAAAAAATATTTTTGAG
1 GAAAAGTTGAAAGTATCAATTTTCCTTGAAAA-T-AAAATTTC-AAAAATAGCTTTAAG
* * * * * ** *
4691515 AAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAAAACTTCAAAAATTTATATTTTTGAG
1 GAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAATTTC-AAAA---ATAGCTTTAAG
* * * * * * *
4691576 GAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAAAACTTCAAAAAAAATGTTTTTGAG
1 GAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAATTTC-AAAAATA-G-CTTTAAG
* * * ** *
4691636 GAAAAGTTGAAAGTATCAATTTTTCTT-AAAATAAAAACTTCAAAAAAATATTTGAG
1 GAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAATTTCAAAAATAGCTTTAAG
*
4691692 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTCAAAAATAGCATTTTGAAG
1 GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAA-TTTCAAAAATAGC--TTT-AAG
* *** **
4691752 GAAAAGTTGAAAATATCAATTTTCAAAGAAAATAAAATTCTCAAGAAAAATATTTTTAAG
1 GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATT-TC---AAAAATAGCTTTAAG
** * *
4691812 GAAAAGTTGAAAGTATCAATTTTTTTTGAAAATAGAGATGTC-AAAATA-CTTTAAG
1 GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATA-AAATTTCAAAAATAGCTTTAAG
4691867 GAAAAGTTGAAAGTATCAATTTTC
1 GAAAAGTTGAAAGTATCAATTTTC
4691891 TTGTATAAAA
Statistics
Matches: 326, Mismatches: 34, Indels: 35
0.83 0.09 0.09
Matches are distributed among these distances:
55 29 0.09
56 42 0.13
57 14 0.04
58 47 0.14
59 23 0.07
60 103 0.32
61 61 0.19
63 7 0.02
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.33
Consensus pattern (56 bp):
GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCAAAAATAGCTTTAAG
Found at i:4693849 original size:13 final size:13
Alignment explanation
Indices: 4693827--4693869 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
4693817 AGAAATGATT
4693827 AAAT-AAAAATTA
1 AAATCAAAAATTA
*
4693839 AAATCAAAAATCA
1 AAATCAAAAATTA
*
4693852 AAACCAATAAATTA
1 AAATCAA-AAATTA
4693866 AAAT
1 AAAT
4693870 ATCTTGTTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 4 0.16
13 13 0.52
14 8 0.32
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATCAAAAATTA
Found at i:4693933 original size:12 final size:13
Alignment explanation
Indices: 4693912--4693958 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
4693902 GAAAAAAAAA
4693912 ATAA-ATTTTTAT
1 ATAATATTTTTAT
4693924 AT-ATATTTTTAT
1 ATAATATTTTTAT
4693936 ATAGATATTTTTAAT
1 ATA-ATATTTTT-AT
*
4693951 AAAATATT
1 ATAATATT
4693959 AATAAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 1 0.03
12 12 0.40
14 13 0.43
15 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
ATAATATTTTTAT
Found at i:4694191 original size:49 final size:51
Alignment explanation
Indices: 4694131--4694232 Score: 156
Period size: 49 Copynumber: 2.0 Consensus size: 51
4694121 CAAATTTCAC
*
4694131 CTAAAAATTTTATATAAATTTTGTCCCAAACGTGA-ATGATAA-C-CTCTAT
1 CTAAAAATTTTATATAAATTTCGTCCCAAACGT-ACATGATAAGCTCTCTAT
*
4694180 CTAAAAATTTTATATAAATTTCGTCCTAAACGTACATGATAAGCTCTCTAT
1 CTAAAAATTTTATATAAATTTCGTCCCAAACGTACATGATAAGCTCTCTAT
4694231 CT
1 CT
4694233 GGACGCTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
48 1 0.02
49 38 0.79
50 1 0.02
51 8 0.17
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (51 bp):
CTAAAAATTTTATATAAATTTCGTCCCAAACGTACATGATAAGCTCTCTAT
Found at i:4695074 original size:20 final size:20
Alignment explanation
Indices: 4695045--4695082 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4695035 TTTTTTAGAA
4695045 AATTTATTAATTGTTTTATT
1 AATTTATTAATTGTTTTATT
* *
4695065 AATTTTTTAATTTTTTTA
1 AATTTATTAATTGTTTTA
4695083 ATTTAAATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
AATTTATTAATTGTTTTATT
Found at i:4695563 original size:17 final size:17
Alignment explanation
Indices: 4695541--4695575 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4695531 ATCAAAAACT
4695541 TTTATTATATT-TTATTA
1 TTTATTAT-TTATTATTA
4695558 TTTATTATTTATTATTA
1 TTTATTATTTATTATTA
4695575 T
1 T
4695576 AAAACAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATTATTTATTATTA
Found at i:4696638 original size:11 final size:10
Alignment explanation
Indices: 4696611--4696670 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
4696601 TCAAATAAGG
*
4696611 AAGAAGAAAA
1 AAGAAAAAAA
* *
4696621 AGGAAAAAGA
1 AAGAAAAAAA
4696631 AAGAAAAAAA
1 AAGAAAAAAA
*
4696641 AAGAAAATAA
1 AAGAAAAAAA
*
4696651 TAGAAAAATAGA
1 AAGAAAAA-A-A
4696663 AAGAAAAA
1 AAGAAAAA
4696671 TAATAAATAA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
10 30 0.77
11 1 0.03
12 8 0.21
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:4696682 original size:22 final size:22
Alignment explanation
Indices: 4696632--4696675 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
4696622 GGAAAAAGAA
4696632 AGAAAAA-A-AAAGAAAATAAT
1 AGAAAAATAGAAAGAAAATAAT
4696652 AGAAAAATAGAAAGAAAAATAAT
1 AGAAAAATAGAAAG-AAAATAAT
4696675 A
1 A
4696676 AATAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 1 0.05
22 4 0.19
23 9 0.43
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (22 bp):
AGAAAAATAGAAAGAAAATAAT
Found at i:4697074 original size:50 final size:50
Alignment explanation
Indices: 4696862--4697428 Score: 534
Period size: 49 Copynumber: 11.8 Consensus size: 50
4696852 TTGAAAATTT
* * *
4696862 AAAAGGCTCCTCTGAGTAGAGGCTCAACAACTTTAAAAAAT-TCATCTT-A
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTT-AAAAATCTCATCTTGA
* * * * *
4696911 AAAAAGCTCATCTAAGTA-AAGCTTAACAACTTTAAAAATC-CATCTTAA
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
* *
4696959 AAAAAGTTCCTCTAAGCAGAGGCTC-A-AACTTT--AAAT-T--TTTTG-
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
*
4697001 AAAAAGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
* * * * * *
4697051 AAAAAGCTCTTCTCAGTAAAGGCTCAACAA-TTTTAAAATCTTATCTTGA
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
* * * *
4697100 AAAAAGCTCCTCTTAGCAGAGGCTCGATAACTTT-AAAATCTTATCTTGA
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
* * * *
4697149 AAAAAGCTCCTCTAAACAAAGGCTCAACATCTTT-AAAAT-T--T-TT-T
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
*
4697193 AAAAAGCTCATCTCAA-CAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
1 AAAAAGCTCCTCT-AAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
** * * * * * *
4697243 AAAGGGCTCATCTCAGCAAAAGCTCAATATCTTT-AAAATCTCATCTTGA
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
* * * *
4697292 AAATAAGCTTCTCTCAGTAGAGGCTCAACAACTTT-AAAATCTCATTTTGA
1 AAA-AAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
* * ** **
4697342 AAAAAGTTCTTCTAAATAGAGATTCAACAACTTTAAAAATCTCATCTTG-
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
*
4697391 TAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAA
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAA
4697429 TTTCATTTGT
Statistics
Matches: 425, Mismatches: 70, Indels: 46
0.79 0.13 0.09
Matches are distributed among these distances:
42 23 0.05
43 4 0.01
44 34 0.08
45 13 0.03
46 6 0.01
47 19 0.04
48 32 0.08
49 188 0.44
50 106 0.25
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (50 bp):
AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
Found at i:4698252 original size:17 final size:18
Alignment explanation
Indices: 4698214--4698252 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4698204 AGTCATTATT
*
4698214 TTTTATTTTTTGACTTTT
1 TTTTATTTTTTGACTTTA
*
4698232 TTTTATTTTTT-TCTTTA
1 TTTTATTTTTTGACTTTA
4698249 TTTT
1 TTTT
4698253 CAAGTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.10, C:0.05, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTATTTTTTGACTTTA
Found at i:4709681 original size:7 final size:7
Alignment explanation
Indices: 4709671--4709700 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
4709661 TTTATTATAT
4709671 TTTATTA
1 TTTATTA
4709678 TTTATTA
1 TTTATTA
*
4709685 TTAATTA
1 TTTATTA
4709692 TTTATTA
1 TTTATTA
4709699 TT
1 TT
4709701 ATAAAATAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTATTA
Found at i:4709691 original size:14 final size:14
Alignment explanation
Indices: 4709662--4709701 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
4709652 ATCAAAAATT
4709662 TTATTATATT-TT-A
1 TTATT-TATTATTAA
4709675 TTATTTATTATTAA
1 TTATTTATTATTAA
4709689 TTATTTATTATTA
1 TTATTTATTATTA
4709702 TAAAATAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 4 0.16
13 7 0.28
14 14 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATTTATTATTAA
Found at i:4710747 original size:12 final size:12
Alignment explanation
Indices: 4710730--4710769 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
4710720 CGTAAATCGG
4710730 ATAAAGAAAAAA
1 ATAAAGAAAAAA
*
4710742 ATAAAGAAATAA
1 ATAAAGAAAAAA
* *
4710754 AGAAAGAAAATA
1 ATAAAGAAAAAA
4710766 ATAA
1 ATAA
4710770 TAATAATAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (12 bp):
ATAAAGAAAAAA
Found at i:4710770 original size:3 final size:3
Alignment explanation
Indices: 4710762--4710793 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
4710752 AAAGAAAGAA
*
4710762 AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4710794 AAAAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4711684 original size:21 final size:20
Alignment explanation
Indices: 4711660--4711711 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
4711650 TTATTTTTAT
4711660 TTTAAAAAATATTAATATAAA
1 TTTAAAAAATATT-ATATAAA
*
4711681 TTTATAAAAA-ATTATATTAA
1 TTTA-AAAAATATTATATAAA
*
4711701 TGTAAAAAATA
1 TTTAAAAAATA
4711712 AATAATAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 5 0.19
20 10 0.37
21 7 0.26
22 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TTTAAAAAATATTATATAAA
Found at i:4711750 original size:7 final size:6
Alignment explanation
Indices: 4711723--4711748 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4711713 ATAATAAGAA
4711723 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
4711749 TAAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:4718629 original size:18 final size:19
Alignment explanation
Indices: 4718591--4718630 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
4718581 TTTTTCAAAT
* *
4718591 TTTGAGATTGAAAGAAGAA
1 TTTGAGATTGAAAAAAAAA
4718610 TTTGAGA-TGAAAAAAAAA
1 TTTGAGATTGAAAAAAAAA
4718628 TTT
1 TTT
4718631 TATAGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (19 bp):
TTTGAGATTGAAAAAAAAA
Found at i:4727586 original size:26 final size:27
Alignment explanation
Indices: 4727557--4727614 Score: 64
Period size: 30 Copynumber: 2.1 Consensus size: 27
4727547 TATTTTTATC
4727557 TAATCA-AAAGTTTAATTGAATGAAAA
1 TAATCATAAAGTTTAATTGAATGAAAA
* *
4727583 TAATTATTTGAAATTTTAATTGAATGAAAA
1 TAATCA--T-AAAGTTTAATTGAATGAAAA
4727613 TA
1 TA
4727615 GATATTTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 5 0.19
30 21 0.81
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (27 bp):
TAATCATAAAGTTTAATTGAATGAAAA
Found at i:4733811 original size:10 final size:10
Alignment explanation
Indices: 4733784--4733821 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
4733774 TAAATAATAA
*
4733784 TAATTTAATG
1 TAATTTATTG
4733794 TAATTTATTG
1 TAATTTATTG
4733804 TAATTTATT-
1 TAATTTATTG
4733813 TATATTTAT
1 TA-ATTTAT
4733822 GAATAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 2 0.08
10 24 0.92
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (10 bp):
TAATTTATTG
Found at i:4747179 original size:2 final size:2
Alignment explanation
Indices: 4747172--4747211 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4747162 TCATATTGTT
4747172 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4747212 ATCTCTTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4748552 original size:17 final size:19
Alignment explanation
Indices: 4748527--4748566 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
4748517 TTGATCGAAG
*
4748527 TAAACTTTTAAAC-T-TGT
1 TAAAATTTTAAACATATGT
4748544 TAAAATTTTAAACATATGT
1 TAAAATTTTAAACATATGT
4748563 TAAA
1 TAAA
4748567 CAAACTATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 12 0.60
18 1 0.05
19 7 0.35
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (19 bp):
TAAAATTTTAAACATATGT
Found at i:4748634 original size:3 final size:3
Alignment explanation
Indices: 4748626--4748651 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4748616 CATTCTCAAA
4748626 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
4748652 AAGGAAAATG
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4757750 original size:19 final size:19
Alignment explanation
Indices: 4757694--4757751 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 19
4757684 AATAATTGAT
* *
4757694 ATAAAAATAAAATAATTTA
1 ATAAAATTAAAAAAATTTA
*
4757713 ATAATAATTATATATAAATTTA
1 ATAA-AATTA-A-AAAAATTTA
4757735 ATAAAATTAAAAAAATT
1 ATAAAATTAAAAAAATT
4757752 ATTTTATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 10 0.31
20 5 0.16
21 6 0.19
22 11 0.34
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
ATAAAATTAAAAAAATTTA
Found at i:4761472 original size:9 final size:9
Alignment explanation
Indices: 4761433--4761476 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
4761423 ACAAATCTAA
4761433 AAAAATTCT
1 AAAAATTCT
4761442 AAAGGAATTCT
1 AAA--AATTCT
*
4761453 AAAAGTT-T
1 AAAAATTCT
4761461 AAAAATTCT
1 AAAAATTCT
4761470 AAAAATT
1 AAAAATT
4761477 TTTTAAACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 7 0.23
9 14 0.47
11 9 0.30
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.32
Consensus pattern (9 bp):
AAAAATTCT
Found at i:4761483 original size:20 final size:21
Alignment explanation
Indices: 4761458--4761497 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
4761448 ATTCTAAAAG
*
4761458 TTTAAAAATTCTAA-AAATTT
1 TTTAAAAATTATAACAAATTT
*
4761478 TTTAAACATTATAACAAATT
1 TTTAAAAATTATAACAAATT
4761498 AAAAAATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTAAAAATTATAACAAATTT
Found at i:4761572 original size:27 final size:29
Alignment explanation
Indices: 4761542--4761601 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
4761532 AGATAATTTT
*
4761542 AAAAATTCAAA-AAA-AAAATTTTTATTA
1 AAAAATTCAAACAAATAAAATTTTTAATA
*
4761569 AAAAATTCAAACAAATTAAATTTTTAATA
1 AAAAATTCAAACAAATAAAATTTTTAATA
4761598 AAAA
1 AAAA
4761602 TTAAATTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 11 0.38
28 3 0.10
29 15 0.52
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (29 bp):
AAAAATTCAAACAAATAAAATTTTTAATA
Found at i:4761783 original size:32 final size:32
Alignment explanation
Indices: 4761747--4761807 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
4761737 AATACAAAGT
4761747 AAAAAAACTTAAAATTTTCAAAAA-AAAAATCC
1 AAAAAAACTTAAAA-TTTCAAAAATAAAAATCC
** *
4761779 AAAAAATTTTGAAATTTCAAAAATAAAAA
1 AAAAAAACTTAAAATTTCAAAAATAAAAA
4761808 AAATAAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 9 0.36
32 16 0.64
ACGTcount: A:0.66, C:0.08, G:0.02, T:0.25
Consensus pattern (32 bp):
AAAAAAACTTAAAATTTCAAAAATAAAAATCC
Found at i:4761858 original size:20 final size:21
Alignment explanation
Indices: 4761833--4761883 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
4761823 ATTAAAAAAT
4761833 AAATTTTTATAATTTTTT-AA
1 AAATTTTTATAATTTTTTCAA
* *
4761853 AAATTTTTAGATTTTTTTCAA
1 AAATTTTTATAATTTTTTCAA
*
4761874 AAAATTTTAT
1 AAATTTTTAT
4761884 TTTTTATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
AAATTTTTATAATTTTTTCAA
Found at i:4761910 original size:22 final size:21
Alignment explanation
Indices: 4761845--4761911 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
4761835 ATTTTTATAA
4761845 TTTTTTAAAAATTTTTA-GATT
1 TTTTTTAAAAATTTTTATG-TT
* * *
4761866 TTTTTCAAAAAATTTTATTTT
1 TTTTTTAAAAATTTTTATGTT
*
4761887 TTATTTTAAATATTTTTATGTT
1 TT-TTTTAAAAATTTTTATGTT
4761909 TTT
1 TTT
4761912 GTATTTATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 20 0.54
22 17 0.46
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (21 bp):
TTTTTTAAAAATTTTTATGTT
Found at i:4763266 original size:24 final size:23
Alignment explanation
Indices: 4763192--4763266 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 23
4763182 ATGTTCAAAA
**
4763192 ATTTTTAAAAAATTTTAAAATCTT
1 ATTTTTAAAATTTTTTAAAAT-TT
** * *
4763216 ATTTTTAAAATTTTTCGGACATCT
1 ATTTTTAAAATTTTT-TAAAATTT
4763240 ATTTTTAAAATTTTTTAAAAGTTT
1 ATTTTTAAAATTTTTTAAAA-TTT
4763264 ATT
1 ATT
4763267 GAAATTCATT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
23 2 0.05
24 34 0.87
25 3 0.08
ACGTcount: A:0.37, C:0.05, G:0.04, T:0.53
Consensus pattern (23 bp):
ATTTTTAAAATTTTTTAAAATTT
Found at i:4764257 original size:10 final size:10
Alignment explanation
Indices: 4764242--4764326 Score: 73
Period size: 10 Copynumber: 8.3 Consensus size: 10
4764232 AAATTTAAAA
*
4764242 AAAAAATTAT
1 AAAAAATTCT
4764252 AAAAAACTT-T
1 AAAAAA-TTCT
*
4764262 CAAAAATTCT
1 AAAAAATTCT
4764272 AAAAAAATTCT
1 -AAAAAATTCT
4764283 AAAAAATTCT
1 AAAAAATTCT
** *
4764293 AAAATTTTTT
1 AAAAAATTCT
* *
4764303 TAAAATTTCT
1 AAAAAATTCT
4764313 AAAAAATTTCT
1 AAAAAA-TTCT
4764324 AAA
1 AAA
4764327 CTTCTTTAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
9 2 0.03
10 41 0.67
11 18 0.30
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAAAATTCT
Found at i:4764287 original size:41 final size:41
Alignment explanation
Indices: 4764242--4764326 Score: 107
Period size: 41 Copynumber: 2.1 Consensus size: 41
4764232 AAATTTAAAA
4764242 AAAAAATTATAAAAAACTTTCAAAAATTCTAAAAAAATTCT
1 AAAAAATTATAAAAAACTTTCAAAAATTCTAAAAAAATTCT
* *** * * *
4764283 AAAAAATTCTAAAATTTTTTTAAAATTTCTAAAAAATTTCT
1 AAAAAATTATAAAAAACTTTCAAAAATTCTAAAAAAATTCT
4764324 AAA
1 AAA
4764327 CTTCTTTAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.35
Consensus pattern (41 bp):
AAAAAATTATAAAAAACTTTCAAAAATTCTAAAAAAATTCT
Found at i:4764318 original size:11 final size:11
Alignment explanation
Indices: 4764241--4764326 Score: 67
Period size: 11 Copynumber: 8.3 Consensus size: 11
4764231 TAAATTTAAA
* *
4764241 AAAAAAATTAT
1 AAAAAATTTCT
4764252 AAAAAACTTTC-
1 AAAAAA-TTTCT
4764263 -AAAAA-TTCT
1 AAAAAATTTCT
*
4764272 AAAAAAATTCT
1 AAAAAATTTCT
4764283 AAAAAA-TTCT
1 AAAAAATTTCT
*
4764293 --AAAATTTTT
1 AAAAAATTTCT
**
4764302 TTAAAATTTCT
1 AAAAAATTTCT
4764313 AAAAAATTTCT
1 AAAAAATTTCT
4764324 AAA
1 AAA
4764327 CTTCTTTAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
8 7 0.11
9 3 0.05
10 14 0.23
11 36 0.58
12 2 0.03
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAAAATTTCT
Found at i:4764326 original size:20 final size:20
Alignment explanation
Indices: 4764243--4764326 Score: 89
Period size: 20 Copynumber: 4.2 Consensus size: 20
4764233 AATTTAAAAA
*
4764243 AAAAATTATAAAAAACTTTC-
1 AAAAATTCTAAAAAA-TTTCT
*
4764263 AAAAATTCTAAAAAAATTCT
1 AAAAATTCTAAAAAATTTCT
** *
4764283 AAAAAATTCTAAAATTTTTTT
1 -AAAAATTCTAAAAAATTTCT
*
4764304 AAAATTTCTAAAAAATTTCT
1 AAAAATTCTAAAAAATTTCT
4764324 AAA
1 AAA
4764327 CTTCTTTAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
19 3 0.06
20 33 0.63
21 16 0.31
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAATTCTAAAAAATTTCT
Found at i:4764335 original size:30 final size:30
Alignment explanation
Indices: 4764243--4764339 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
4764233 AATTTAAAAA
* * **
4764243 AAAAATTATAAAAAACTTTCAAAAATTCTAA
1 AAAAATTCTAAAAAA-TTTCTAAAATTCTTT
*
4764274 AAAAATTCTAAAAAA-TTCTAAAATTTTTTT
1 AAAAATTCTAAAAAATTTCTAAAA-TTCTTT
* *
4764304 AAAATTTCTAAAAAATTTCTAAACTTCTTT
1 AAAAATTCTAAAAAATTTCTAAAATTCTTT
4764334 AAAAAT
1 AAAAAT
4764340 ATTTAAAATA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
29 7 0.13
30 27 0.49
31 21 0.38
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (30 bp):
AAAAATTCTAAAAAATTTCTAAAATTCTTT
Found at i:4764357 original size:16 final size:15
Alignment explanation
Indices: 4764336--4764367 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
4764326 ACTTCTTTAA
4764336 AAATATTTAAAATATT
1 AAATATTTAAAA-ATT
4764352 AAATATTTAAAAATT
1 AAATATTTAAAAATT
4764367 A
1 A
4764368 TAAAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATATTTAAAAATT
Found at i:4764406 original size:18 final size:17
Alignment explanation
Indices: 4764359--4764434 Score: 61
Period size: 18 Copynumber: 4.5 Consensus size: 17
4764349 ATTAAATATT
4764359 TAAAAATTATAAAATTAA
1 TAAAAATTA-AAAATTAA
**
4764377 TATAACTTTAAAAATTAA
1 TA-AAAATTAAAAATTAA
*
4764395 TAAAAATATAAAAA--AT
1 TAAAAAT-TAAAAATTAA
4764411 TAAAAA--AAAAATGTAA
1 TAAAAATTAAAAAT-TAA
4764427 TAAAAATT
1 TAAAAATT
4764435 CAATTTTCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
13 5 0.11
16 14 0.31
17 3 0.07
18 18 0.40
19 5 0.11
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (17 bp):
TAAAAATTAAAAATTAA
Found at i:4764413 original size:26 final size:25
Alignment explanation
Indices: 4764331--4764416 Score: 75
Period size: 26 Copynumber: 3.3 Consensus size: 25
4764321 TCTAAACTTC
* *
4764331 TTTAAAAA-TATTTAAAATATTAAATA
1 TTTAAAAATTA-TAAAAATA-TAAAAA
* * *
4764357 TTTAAAAATTATAAAATTAATATAAC
1 TTTAAAAATTATAAAAAT-ATAAAAA
4764383 TTTAAAAATTAATAAAAATATAAAAA
1 TTTAAAAATT-ATAAAAATATAAAAA
*
4764409 ATTAAAAA
1 TTTAAAAA
4764417 AAAAATGTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
26 38 0.79
27 10 0.21
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (25 bp):
TTTAAAAATTATAAAAATATAAAAA
Found at i:4764537 original size:28 final size:27
Alignment explanation
Indices: 4764506--4764574 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 27
4764496 AAAATATTTG
* *
4764506 AAAATATTAAAATATATAAAAAGCTTTCAA
1 AAAATTTTAAAATATA-AAAAAGC-TGC-A
*
4764536 AAAATTTTAAAATATAAAAAATCTGC-
1 AAAATTTTAAAATATAAAAAAGCTGCA
4764562 AAAATTTTAAAAT
1 AAAATTTTAAAAT
4764575 TTTTTAGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 13 0.36
28 2 0.06
29 6 0.17
30 15 0.42
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (27 bp):
AAAATTTTAAAATATAAAAAAGCTGCA
Found at i:4764658 original size:20 final size:22
Alignment explanation
Indices: 4764615--4764658 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
4764605 TAAAACTTTT
* *
4764615 AAAACATTAAAATATTCTTTAA
1 AAAACATTAAAATATTCATAAA
4764637 AAAAC-TTAAAA-ATTCATAAA
1 AAAACATTAAAATATTCATAAA
4764657 AA
1 AA
4764659 TAAAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 6 0.30
22 5 0.25
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAACATTAAAATATTCATAAA
Found at i:4764789 original size:17 final size:17
Alignment explanation
Indices: 4764758--4764807 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
4764748 AAAAAAATTT
**
4764758 AGATTTTTTTTATTTTA
1 AGATTTTTTAAATTTTA
4764775 A-ATATTTTTAAATTTTA
1 AGAT-TTTTTAAATTTTA
4764792 AGATTTTTTAAATTTT
1 AGATTTTTTAAATTTT
4764808 TAAAAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 2 0.07
17 25 0.86
18 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (17 bp):
AGATTTTTTAAATTTTA
Found at i:4764800 original size:10 final size:9
Alignment explanation
Indices: 4764770--4764873 Score: 56
Period size: 10 Copynumber: 11.4 Consensus size: 9
4764760 ATTTTTTTTA
4764770 TTTTAAATAT
1 TTTTAAAT-T
4764780 TTTTAAA--
1 TTTTAAATT
4764787 TTTTAAGATT
1 TTTTAA-ATT
4764797 TTTTAAA-T
1 TTTTAAATT
4764805 TTTTAAA--
1 TTTTAAATT
** *
4764812 AATTATATT
1 TTTTAAATT
4764821 TTGATTAAATT
1 TT--TTAAATT
* *
4764832 TTATATATT
1 TTTTAAATT
*
4764841 TTTTAATTT
1 TTTTAAATT
4764850 TTTTAGAATT
1 TTTTA-AATT
*
4764860 TTTGAAATT
1 TTTTAAATT
4764869 GTTTT
1 -TTTT
4764874 GGTTTCTATT
Statistics
Matches: 71, Mismatches: 14, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
7 10 0.14
8 9 0.13
9 21 0.30
10 23 0.32
11 8 0.11
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.62
Consensus pattern (9 bp):
TTTTAAATT
Found at i:4764846 original size:18 final size:18
Alignment explanation
Indices: 4764769--4764850 Score: 53
Period size: 17 Copynumber: 4.3 Consensus size: 18
4764759 GATTTTTTTT
*
4764769 ATTTTAAATA-TTTTTAA
1 ATTTTATATATTTTTTAA
*
4764786 ATTTTA-AGATTTTTTAA
1 ATTTTATATATTTTTTAA
4764803 ATTTTTAAAAATTATATTTTGATTAA
1 A-TTTT----A-TATATTTT--TTAA
4764829 ATTTTATATATTTTTT-A
1 ATTTTATATATTTTTTAA
4764846 ATTTT
1 ATTTT
4764851 TTTAGAATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 20
0.71 0.03 0.27
Matches are distributed among these distances:
16 2 0.04
17 20 0.38
18 6 0.11
20 8 0.15
21 1 0.02
22 1 0.02
24 6 0.11
25 4 0.08
26 5 0.09
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
ATTTTATATATTTTTTAA
Found at i:4765019 original size:20 final size:20
Alignment explanation
Indices: 4764995--4765033 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4764985 ATTTTTATTT
*
4764995 ATTTTTTG-TATTTTTTTAA
1 ATTTTTTGAAATTTTTTTAA
4765014 ATTTTTTGAAATTTTTTTAA
1 ATTTTTTGAAATTTTTTTAA
4765034 TACTTACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (20 bp):
ATTTTTTGAAATTTTTTTAA
Found at i:4765031 original size:11 final size:10
Alignment explanation
Indices: 4765004--4765033 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
4764994 TATTTTTTGT
4765004 ATTTTTTTAA
1 ATTTTTTTAA
*
4765014 ATTTTTTGAA
1 ATTTTTTTAA
4765024 ATTTTTTTAA
1 ATTTTTTTAA
4765034 TACTTACATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (10 bp):
ATTTTTTTAA
Found at i:4765962 original size:21 final size:21
Alignment explanation
Indices: 4765938--4765980 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4765928 TAAAATAATA
4765938 ATAAAAATAAAATTAATTATT
1 ATAAAAATAAAATTAATTATT
* *
4765959 ATAACAATAAGATTAATTATT
1 ATAAAAATAAAATTAATTATT
4765980 A
1 A
4765981 CAAGAATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATAAAAATAAAATTAATTATT
Found at i:4766149 original size:8 final size:8
Alignment explanation
Indices: 4766138--4766167 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
4766128 AAATTAATAA
*
4766138 TATTTTTT
1 TATTATTT
4766146 TATTATTT
1 TATTATTT
4766154 TATTATTT
1 TATTATTT
4766162 TATTAT
1 TATTAT
4766168 GTAATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TATTATTT
Found at i:4767276 original size:34 final size:33
Alignment explanation
Indices: 4767238--4767338 Score: 89
Period size: 34 Copynumber: 3.0 Consensus size: 33
4767228 TCGGTAAATT
4767238 TTATAATTTTTTAAAAATATATTTATGAAAAGTC
1 TTATAATTTTTTAAAAATATATTT-TGAAAAGTC
* * * *
4767272 TTATAACTTTTTAGAAATAGATTGTTGAAAAATC
1 TTATAATTTTTTAAAAATATATT-TTGAAAAGTC
**
4767306 --ATAATATTTCTCGAAAATATATTTCTGAAAAGT
1 TTATAAT-TTT-TTAAAAATATATTT-TGAAAAGT
4767339 TATAACACTT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
32 4 0.08
33 4 0.08
34 44 0.83
35 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (33 bp):
TTATAATTTTTTAAAAATATATTTTGAAAAGTC
Found at i:4767354 original size:34 final size:32
Alignment explanation
Indices: 4767251--4767364 Score: 104
Period size: 34 Copynumber: 3.4 Consensus size: 32
4767241 TAATTTTTTA
* *
4767251 AAAATATATTTATGAAAAGTCTTATAACTTTTTAG
1 AAAATATATTT-TGAAAAG--TTATAACATTTTCG
* * * *
4767286 -AAATAGATTGTTGAAAAATCATAATATTTCTCG
1 AAAATATATT-TTGAAAAGTTATAACATTT-TCG
4767319 AAAATATATTTCTGAAAAGTTATAACACTTTTCG
1 AAAATATATTT-TGAAAAGTTATAACA-TTTTCG
4767353 AAAATATATTTT
1 AAAATATATTTT
4767365 CGAGGATGTA
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
32 8 0.12
33 4 0.06
34 48 0.75
35 4 0.06
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (32 bp):
AAAATATATTTTGAAAAGTTATAACATTTTCG
Found at i:4768409 original size:19 final size:19
Alignment explanation
Indices: 4768381--4768421 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
4768371 TTTTTGTCTC
*
4768381 TTTTATTA-TTTATTTGTT
1 TTTTATTATTTTAGTTGTT
4768399 TTTTGATTATTTTAGTTGTT
1 TTTT-ATTATTTTAGTTGTT
4768419 TTT
1 TTT
4768422 ATTTAAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 4 0.20
20 12 0.60
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.76
Consensus pattern (19 bp):
TTTTATTATTTTAGTTGTT
Found at i:4768482 original size:12 final size:11
Alignment explanation
Indices: 4768449--4768499 Score: 57
Period size: 12 Copynumber: 4.4 Consensus size: 11
4768439 TAACATCATT
4768449 ATAATTATTTA
1 ATAATTATTTA
*
4768460 ATAAATCATTTA
1 AT-AATTATTTA
4768472 TATAATTATTTA
1 -ATAATTATTTA
*
4768484 ATAAATTAATTA
1 AT-AATTATTTA
4768496 ATAA
1 ATAA
4768500 ATAGCTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 6 0.18
12 26 0.76
13 2 0.06
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (11 bp):
ATAATTATTTA
Found at i:4768583 original size:18 final size:19
Alignment explanation
Indices: 4768548--4768585 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
4768538 GTAAAACATT
4768548 ATTATTAATTTTTAATAAA
1 ATTATTAATTTTTAATAAA
4768567 ATTATT-ATTTGTT-ATAAA
1 ATTATTAATTT-TTAATAAA
4768585 A
1 A
4768586 ATTAACTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTATTAATTTTTAATAAA
Found at i:4770118 original size:55 final size:55
Alignment explanation
Indices: 4770057--4770211 Score: 174
Period size: 53 Copynumber: 2.9 Consensus size: 55
4770047 AAAAAGATAG
* *
4770057 TGATTATAAATTTTATTTTTAATCAAAGATTATGTTTTTATTTTTATAAATATAA
1 TGATTATAAATTTTATTTTTAATCAAAGATTATGTTTTTACTTTCATAAATATAA
* * * *
4770112 TGATTATAAA--ATATTTTTAATTAAAGATTATGTTTCTACTTTCATAAATGTAA
1 TGATTATAAATTTTATTTTTAATCAAAGATTATGTTTTTACTTTCATAAATATAA
* * * *
4770165 TGATTGT-TATTATT-TTTTTCAATCAAAAATTATATTTTTACTTTCAT
1 TGATTATAAATT-TTATTTTT-AATCAAAGATTATGTTTTTACTTTCAT
4770212 GAACGTAGTA
Statistics
Matches: 83, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
52 1 0.01
53 43 0.52
54 5 0.06
55 34 0.41
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.53
Consensus pattern (55 bp):
TGATTATAAATTTTATTTTTAATCAAAGATTATGTTTTTACTTTCATAAATATAA
Found at i:4773125 original size:20 final size:21
Alignment explanation
Indices: 4773097--4773136 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
4773087 GTATCTTATA
* *
4773097 TATTTAATAA-ATTAATTTTT
1 TATTAAATAATATAAATTTTT
4773117 TATTAAATAATATAAATTTT
1 TATTAAATAATATAAATTTT
4773137 ATTTTGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTAAATAATATAAATTTTT
Found at i:4787240 original size:17 final size:17
Alignment explanation
Indices: 4787218--4787259 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
4787208 TATTTAATAT
* *
4787218 ATATAATTTAGATTAAA
1 ATATAAATTAAATTAAA
4787235 ATATAAATTAAATT-AA
1 ATATAAATTAAATTAAA
4787251 AT-TAAATTA
1 ATATAAATTA
4787260 TATGTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 7 0.30
16 4 0.17
17 12 0.52
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
ATATAAATTAAATTAAA
Found at i:4787256 original size:22 final size:22
Alignment explanation
Indices: 4787193--4787261 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
4787183 TTATTTGATT
**
4787193 TAAATTAAATTTAAATATTTAATA
1 TAAATTAAA-TTAAAT-TAAAATA
* * *
4787217 TATA-TAATTTAGATTAAAATA
1 TAAATTAAATTAAATTAAAATA
*
4787238 TAAATTAAATTAAATTAAATTA
1 TAAATTAAATTAAATTAAAATA
4787260 TA
1 TA
4787262 TGTTTTAAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
21 8 0.23
22 21 0.60
23 3 0.09
24 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (22 bp):
TAAATTAAATTAAATTAAAATA
Found at i:4787348 original size:12 final size:12
Alignment explanation
Indices: 4787314--4787352 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
4787304 AATTTATTTA
4787314 AATATATAAAA-
1 AATATATAAAAT
4787325 AATTATATTAAAAT
1 AA-TATA-TAAAAT
4787339 AATATATAAAAT
1 AATATATAAAAT
4787351 AA
1 AA
4787353 AAAATTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.08
12 12 0.48
13 9 0.36
14 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AATATATAAAAT
Found at i:4787810 original size:22 final size:22
Alignment explanation
Indices: 4787775--4787816 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4787765 AATAGAACCC
* *
4787775 AAAAAAAGAGATTTATTTTTTT
1 AAAAAAAGAAATTTACTTTTTT
*
4787797 AAAAAATGAAATTTACTTTT
1 AAAAAAAGAAATTTACTTTT
4787817 GGGGCAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (22 bp):
AAAAAAAGAAATTTACTTTTTT
Found at i:4800803 original size:29 final size:29
Alignment explanation
Indices: 4800761--4800817 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
4800751 GTTGGGGAGA
4800761 TAAGATGTTACAGAAAAGGAATATCTAAC
1 TAAGATGTTACAGAAAAGGAATATCTAAC
*
4800790 TAAGATTTTACAGAAAAGGAATATCTAA
1 TAAGATGTTACAGAAAAGGAATATCTAA
4800818 ATACTATGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.26
Consensus pattern (29 bp):
TAAGATGTTACAGAAAAGGAATATCTAAC
Found at i:4803886 original size:19 final size:19
Alignment explanation
Indices: 4803847--4803886 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4803837 CTGTTCCTAG
* * *
4803847 AGTTTGTTTTTCTGTATAA
1 AGTTTATTTTTCTCTACAA
4803866 AGTTTATTTTTCTCTACAA
1 AGTTTATTTTTCTCTACAA
4803885 AG
1 AG
4803887 AGTTCATAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (19 bp):
AGTTTATTTTTCTCTACAA
Found at i:4807790 original size:15 final size:15
Alignment explanation
Indices: 4807770--4807803 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4807760 GATAAAAATA
4807770 TTATA-TTTAATAATT
1 TTATATTTTAAT-ATT
4807785 TTATATTTTAATATT
1 TTATATTTTAATATT
4807800 TTAT
1 TTAT
4807804 TATTCAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATATTTTAATATT
Found at i:4807807 original size:16 final size:17
Alignment explanation
Indices: 4807768--4807807 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
4807758 ATGATAAAAA
4807768 TATTATATTTAATAATTT
1 TATTAT-TTTAATAATTT
4807786 TA-TATTTTAAT-ATTT
1 TATTATTTTAATAATTT
4807801 TATTATT
1 TATTATT
4807808 CAAATTATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 6 0.29
16 10 0.48
17 3 0.14
18 2 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTATTTTAATAATTT
Found at i:4808625 original size:16 final size:16
Alignment explanation
Indices: 4808606--4808640 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4808596 TTTAATGATC
*
4808606 TATTAACTGATTAAAA
1 TATTAACTGATAAAAA
*
4808622 TATTAATTGATAAAAA
1 TATTAACTGATAAAAA
4808638 TAT
1 TAT
4808641 ATTGTTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (16 bp):
TATTAACTGATAAAAA
Found at i:4819320 original size:30 final size:30
Alignment explanation
Indices: 4819284--4819345 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
4819274 TGAAATTAAT
* * * *
4819284 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATGATTATATAAATATAAATAATTA
*
4819314 AAAATATGATTATATAAATATATATAATTA
1 AAAATATGATTATATAAATATAAATAATTA
4819344 AA
1 AA
4819346 TAAATAATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (30 bp):
AAAATATGATTATATAAATATAAATAATTA
Found at i:4819338 original size:18 final size:18
Alignment explanation
Indices: 4819317--4819351 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4819307 ATATTTAAAA
* *
4819317 ATATGATTATATAAATAT
1 ATATAATTAAATAAATAT
4819335 ATATAATTAAATAAATA
1 ATATAATTAAATAAATA
4819352 ATTAAAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
ATATAATTAAATAAATAT
Found at i:4820126 original size:13 final size:14
Alignment explanation
Indices: 4820099--4820132 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
4820089 AAATTTTGAT
4820099 ATATTTTTAGATAA
1 ATATTTTTAGATAA
4820113 ATATTTTTAG-TAA
1 ATATTTTTAGATAA
*
4820126 AAATTTT
1 ATATTTT
4820133 GATAGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (14 bp):
ATATTTTTAGATAA
Done.