Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 146 of 185
Found at i:45080122 original size:30 final size:30
Alignment explanation
Indices: 45080062--45080127 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
45080052 TCAAATTTAC
45080062 TATTAAAATAAAATTTAAATATTAAATAATT
1 TATTAAAATAAAATTT-AATATTAAATAATT
45080093 TATTAAAATTAATAATTT-ATATT-AATAATT
1 TATTAAAA-TAA-AATTTAATATTAAATAATT
45080123 TATTA
1 TATTA
45080128 TATGACTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
30 12 0.36
31 13 0.39
32 3 0.09
33 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
TATTAAAATAAAATTTAATATTAAATAATT
Found at i:45093860 original size:189 final size:189
Alignment explanation
Indices: 45093530--45093913 Score: 556
Period size: 189 Copynumber: 2.0 Consensus size: 189
45093520 GATTCTGAGC
* * *
45093530 TTAACTCATGATTTTGGTTATAATGCTTAGCTGACAAGAGATTGAAAGCTTTGATGTTCAGAAAA
1 TTAACTCATGATTTGGGTTATAATGCTTAGCTGACAAGAGATTGAAAGCTTTGACGTTCAAAAAA
* * * *
45093595 GCTAAGTAGATGAGAAGGCAAAGAAGTGTCAAGTGAGTTTCTGCACACTATCCCTAAAATGCTAA
66 GCTAAGGAGAGGAGAAGGCAAAGAAGTGTCAAATGAGTTTCTGCACACTATACCTAAAATGCTAA
* *
45093660 GTATATTTAAGATCATATAGATATATGAGTAACCACCATTTTAGTTCTATAAGCATGAA
131 GTACATTTAAGATCATACAGATATATGAGTAACCACCATTTTAGTTCTATAAGCATGAA
* *
45093719 TTAACTTATGATTTGGGTTATAATGCTTAGCTGCCAAGAGATT-AGAAGCTTTGACGTTCAAAAA
1 TTAACTCATGATTTGGGTTATAATGCTTAGCTGACAAGAGATTGA-AAGCTTTGACGTTCAAAAA
* * * **
45093783 AGCTAAGCGA-AGGAGGAGGCAAGGAAGTGTCAAATGAGTTTCTGCACACTATACTTGGAATGCT
65 AGCTAAG-GAGAGGAGAAGGCAAAGAAGTGTCAAATGAGTTTCTGCACACTATACCTAAAATGCT
* * * *
45093847 AAGTACGTTTAAGATCGTACAGATATATGAGTATCCACCATTTTAGTTCTGTAAGCATGAA
129 AAGTACATTTAAGATCATACAGATATATGAGTAACCACCATTTTAGTTCTATAAGCATGAA
45093908 TTAACT
1 TTAACT
45093914 ACTATTTCAT
Statistics
Matches: 173, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
188 1 0.01
189 171 0.99
190 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.31
Consensus pattern (189 bp):
TTAACTCATGATTTGGGTTATAATGCTTAGCTGACAAGAGATTGAAAGCTTTGACGTTCAAAAAA
GCTAAGGAGAGGAGAAGGCAAAGAAGTGTCAAATGAGTTTCTGCACACTATACCTAAAATGCTAA
GTACATTTAAGATCATACAGATATATGAGTAACCACCATTTTAGTTCTATAAGCATGAA
Found at i:45097863 original size:7 final size:7
Alignment explanation
Indices: 45097851--45097876 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
45097841 CCAGTAAATG
45097851 TTAATAA
1 TTAATAA
45097858 TTAATAA
1 TTAATAA
45097865 TTAATAA
1 TTAATAA
45097872 TTAAT
1 TTAAT
45097877 GACTCAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TTAATAA
Found at i:45100048 original size:13 final size:11
Alignment explanation
Indices: 45100020--45100129 Score: 81
Period size: 11 Copynumber: 10.4 Consensus size: 11
45100010 TATTTTTTAA
45100020 TTTTAAAATAT
1 TTTTAAAATAT
45100031 TTTTAAAATAT
1 TTTTAAAATAT
* *
45100042 TTTT---TTAA
1 TTTTAAAATAT
45100050 TTTTAAAATAT
1 TTTTAAAATAT
45100061 TTTTAAAATACT
1 TTTTAAAATA-T
** *
45100073 TTTT--TTTAA
1 TTTTAAAATAT
45100082 TTTTAAAATAT
1 TTTTAAAATAT
45100093 TTTTAAAATAAT
1 TTTTAAAAT-AT
**
45100105 TTTT-TTA-AT
1 TTTTAAAATAT
45100114 TTTTAAAATAAT
1 TTTTAAAAT-AT
45100126 TTTT
1 TTTT
45100130 GGTATTTATT
Statistics
Matches: 75, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
8 6 0.08
9 10 0.13
10 3 0.04
11 39 0.52
12 17 0.23
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:45100066 original size:62 final size:65
Alignment explanation
Indices: 45100003--45100129 Score: 215
Period size: 62 Copynumber: 2.0 Consensus size: 65
45099993 AAATTAATTT
*
45100003 AAATATTTATTTTTTAATTTTAAAATATTTTTAAAAT-ATTTTTTTAA-TTTTAAAAT-ATTTTT
1 AAATACTT-TTTTTTAATTTTAAAATATTTTTAAAATAATTTTTTTAATTTTTAAAATAATTTTT
45100065 A
65 A
45100066 AAATACTTTTTTTTAATTTTAAAATATTTTTAAAATAATTTTTTTAATTTTTAAAATAATTTTT
1 AAATACTTTTTTTTAATTTTAAAATATTTTTAAAATAATTTTTTTAATTTTTAAAATAATTTTT
45100130 GGTATTTATT
Statistics
Matches: 60, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
62 28 0.47
63 17 0.28
64 9 0.15
65 6 0.10
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (65 bp):
AAATACTTTTTTTTAATTTTAAAATATTTTTAAAATAATTTTTTTAATTTTTAAAATAATTTTTA
Found at i:45100082 original size:32 final size:31
Alignment explanation
Indices: 45100003--45100129 Score: 193
Period size: 32 Copynumber: 4.0 Consensus size: 31
45099993 AAATTAATTT
45100003 AAATATTTATTTTTTAATTTTAAAATATTTTTA
1 AAATA-TT-TTTTTTAATTTTAAAATATTTTTA
45100036 AAATA-TTTTTTTAATTTTAAAATATTTTTA
1 AAATATTTTTTTTAATTTTAAAATATTTTTA
45100066 AAATACTTTTTTTTAATTTTAAAATATTTTTA
1 AAATA-TTTTTTTTAATTTTAAAATATTTTTA
*
45100098 AAATAATTTTTTTAATTTTTAAAATAATTTTT
1 AAATATTTTTTTTAA-TTTTAAAAT-ATTTTT
45100130 GGTATTTATT
Statistics
Matches: 89, Mismatches: 1, Indels: 8
0.91 0.01 0.08
Matches are distributed among these distances:
30 29 0.33
31 10 0.11
32 39 0.44
33 11 0.12
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (31 bp):
AAATATTTTTTTTAATTTTAAAATATTTTTA
Found at i:45100141 original size:22 final size:20
Alignment explanation
Indices: 45100090--45100143 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
45100080 AATTTTAAAA
*
45100090 TATTTTTAAAATAATTTTTT
1 TATTTTTAAAATAATTTTTG
45100110 TAATTTTTAAAATAATTTTTGG
1 T-ATTTTTAAAATAATTTTT-G
45100132 TATTTATTAAAA
1 TATTT-TTAAAA
45100144 AAATGGGTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 1 0.03
21 22 0.73
22 7 0.23
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTG
Found at i:45103092 original size:3 final size:3
Alignment explanation
Indices: 45103084--45103108 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
45103074 CATATAAATT
45103084 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
45103109 CAAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:45105928 original size:36 final size:36
Alignment explanation
Indices: 45105881--45105953 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
45105871 GGGCTAATAA
45105881 TATTTTTTTTAATACAAGAATGAATTGATTCTAAAC
1 TATTTTTTTTAATACAAGAATGAATTGATTCTAAAC
45105917 TATTTTTTTTAATACAAGAATGAATTGATTCTAAAC
1 TATTTTTTTTAATACAAGAATGAATTGATTCTAAAC
45105953 T
1 T
45105954 TAGACTAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.45
Consensus pattern (36 bp):
TATTTTTTTTAATACAAGAATGAATTGATTCTAAAC
Found at i:45107003 original size:19 final size:18
Alignment explanation
Indices: 45106970--45107008 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
45106960 TGTAATTATT
*
45106970 AGAATAAACACAAATTAAA
1 AGAATAAAAACAAA-TAAA
*
45106989 AGAATAAAAATAAATAAA
1 AGAATAAAAACAAATAAA
45107007 AG
1 AG
45107009 CCTGAAAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.72, C:0.05, G:0.08, T:0.15
Consensus pattern (18 bp):
AGAATAAAAACAAATAAA
Found at i:45125378 original size:15 final size:15
Alignment explanation
Indices: 45125353--45125387 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
45125343 AACTCTATTT
*
45125353 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
45125367 TAATTAATATTAAGA
1 TAATTAATATTAAGA
45125382 TAATTA
1 TAATTA
45125388 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:45131861 original size:4 final size:4
Alignment explanation
Indices: 45131848--45131917 Score: 56
Period size: 4 Copynumber: 17.5 Consensus size: 4
45131838 CAACCCAATT
* * * *
45131848 TTTA -TTA TTTA TTTA TTTA -TTA TTTT TTTCT TTTC TTTA TTTA TTAA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT-A TTTA TTTA TTTA TTTA
45131895 TTTA TTTTA TTT- TATTA TTTA TT
1 TTTA -TTTA TTTA T-TTA TTTA TT
45131918 ACTTATTTGG
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
3 7 0.13
4 39 0.71
5 9 0.16
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:45131897 original size:25 final size:25
Alignment explanation
Indices: 45131844--45131918 Score: 84
Period size: 24 Copynumber: 3.0 Consensus size: 25
45131834 GAGGCAACCC
*
45131844 AATTT-TTATTATTTATTTATTTATT
1 AATTTATT-TTATTTTTTTATTTATT
*
45131869 -ATTT-TTTTCTTTTCTTTATTTATT
1 AATTTATTTTATTTT-TTTATTTATT
*
45131893 AATTTATTTTATTTTATTATTTATT
1 AATTTATTTTATTTTTTTATTTATT
45131918 A
1 A
45131919 CTTATTTGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
23 5 0.12
24 16 0.37
25 14 0.33
26 8 0.19
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (25 bp):
AATTTATTTTATTTTTTTATTTATT
Found at i:45131903 original size:17 final size:17
Alignment explanation
Indices: 45131847--45131917 Score: 58
Period size: 17 Copynumber: 4.1 Consensus size: 17
45131837 GCAACCCAAT
*
45131847 TTTTATTAT-TTATTTA
1 TTTTATTTTATTATTTA
* *
45131863 TTTATTATTTTTTTCTTT-
1 -TT-TTATTTTATTATTTA
45131881 TCTTTA-TTTATTAATTTA
1 T-TTTATTTTATT-ATTTA
45131899 TTTTATTTTATTATTTA
1 TTTTATTTTATTATTTA
45131916 TT
1 TT
45131918 ACTTATTTGG
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
16 5 0.11
17 20 0.45
18 14 0.32
19 5 0.11
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTTATTATTTA
Found at i:45131924 original size:32 final size:32
Alignment explanation
Indices: 45131845--45131924 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
45131835 AGGCAACCCA
* *
45131845 ATTTTTATTATTTATTTATTTATTATTTTTTT
1 ATTTTTATTATTTATTAATTTATTATTATTTT
*
45131877 CTTTTCT-TTATTTATTAATTTATT-TTATTTT
1 ATTTT-TATTATTTATTAATTTATTATTATTTT
*
45131908 ATTATTTATTACTTATT
1 ATT-TTTATTATTTATT
45131925 TGGATATTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
31 9 0.22
32 30 0.75
33 1 0.03
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (32 bp):
ATTTTTATTATTTATTAATTTATTATTATTTT
Found at i:45132934 original size:101 final size:100
Alignment explanation
Indices: 45132745--45132935 Score: 235
Period size: 101 Copynumber: 1.9 Consensus size: 100
45132735 AAGAACATGT
* *
45132745 TGGGCTGAGTAACCGGGGTGGAGTGCTTGGCTGTCATCTCTCTTCGCATCAAAAGGTTCGATGTG
1 TGGGCTGAGTAACCGGGGTGGAGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGTTCGATATG
* ** *
45132810 TTCTTAAGTAAAACTTATAATAAATTAGGAGTCTAC
66 TCCAAAAGTAAAAC-AATAATAAATTAGGAGTCTAC
* **
45132846 TGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTATCATCTCTCTTCGTGTCAAAAGGTTCAGTATA
1 TGGGCTGAGTAACCGGGGTGGAGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGTTC-G-ATA
45132911 T-TCCAAAAGCATAAAA-AAT-ATAAAT
64 TGTCCAAAAG--TAAAACAATAATAAAT
45132936 AATAAATAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
101 61 0.79
102 8 0.10
103 3 0.04
104 5 0.06
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (100 bp):
TGGGCTGAGTAACCGGGGTGGAGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGTTCGATATG
TCCAAAAGTAAAACAATAATAAATTAGGAGTCTAC
Found at i:45132944 original size:20 final size:21
Alignment explanation
Indices: 45132923--45132972 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 21
45132913 CCAAAAGCAT
45132923 AAAAAATATAAAT-AATAAATA
1 AAAAAATA-AAATAAATAAATA
45132944 AATATAAATCAAAATAAATAAATA
1 AA-A-AAAT-AAAATAAATAAATA
45132968 AAAAA
1 AAAAA
45132973 GAAAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
21 2 0.08
22 3 0.12
23 9 0.36
24 11 0.44
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAAAATAAAATAAATAAATA
Found at i:45132952 original size:10 final size:10
Alignment explanation
Indices: 45132930--45132967 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
45132920 CATAAAAAAT
45132930 ATAAATAATAA
1 ATAAAT-ATAA
45132941 ATAAATATAA
1 ATAAATATAA
45132951 ATCAAA-ATAA
1 AT-AAATATAA
45132961 ATAAATA
1 ATAAATA
45132968 AAAAAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 3 0.12
10 13 0.52
11 9 0.36
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (10 bp):
ATAAATATAA
Found at i:45132977 original size:20 final size:20
Alignment explanation
Indices: 45132936--45132983 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
45132926 AAATATAAAT
* *
45132936 AATAAATAAATATAAATCAA
1 AATAAATAAATAAAAAACAA
*
45132956 AATAAATAAATAAAAAAGAA
1 AATAAATAAATAAAAAACAA
*
45132976 AAAAAATA
1 AATAAATA
45132984 TAATTTGGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (20 bp):
AATAAATAAATAAAAAACAA
Found at i:45132981 original size:24 final size:24
Alignment explanation
Indices: 45132923--45132983 Score: 61
Period size: 27 Copynumber: 2.4 Consensus size: 24
45132913 CCAAAAGCAT
* *
45132923 AAAAAATATAAATAATAAATAAAT
1 AAAAAAAATAAATAATAAATAAAG
45132947 ATAAATCAAAATAAATAAATAAA-AAAG
1 A-AAA--AAAATAAAT-AATAAATAAAG
45132974 AAAAAAAATA
1 AAAAAAAATA
45132984 TAATTTGGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
24 7 0.23
25 3 0.10
26 3 0.10
27 12 0.39
28 6 0.19
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (24 bp):
AAAAAAAATAAATAATAAATAAAG
Found at i:45133501 original size:15 final size:15
Alignment explanation
Indices: 45133476--45133510 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
45133466 AACTCTATTT
*
45133476 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
45133490 TAATTAATATTAAGA
1 TAATTAATATTAAGA
45133505 TAATTA
1 TAATTA
45133511 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:45138799 original size:5 final size:5
Alignment explanation
Indices: 45138791--45138829 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
45138781 TATTGTTTAT
45138791 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATT
45138830 GACACTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:45142257 original size:13 final size:13
Alignment explanation
Indices: 45142239--45142302 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
45142229 AGTTCTTTAT
45142239 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
45142252 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
45142265 TG-TTGTGAACAAAG
1 TGCTTTTG-A-AAAG
* *
45142279 TGTTTTTGAGAAG
1 TGCTTTTGAAAAG
45142292 TGCTTTT-AAAA
1 TGCTTTTGAAAA
45142303 ATTTTGAGTG
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
12 7 0.17
13 24 0.59
14 6 0.15
15 4 0.10
ACGTcount: A:0.30, C:0.06, G:0.25, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:45142556 original size:19 final size:18
Alignment explanation
Indices: 45142532--45142579 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
45142522 AATTATTTAT
45142532 TAAATTTAATTAGAATATA
1 TAAATTTAATTA-AATATA
* *
45142551 TAAATTATATTTAAATATT
1 TAAATT-TAATTAAATATA
*
45142570 TAAATATAAT
1 TAAATTTAAT
45142580 AATTAAATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 3 0.12
19 16 0.67
20 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TAAATTTAATTAAATATA
Found at i:45144446 original size:71 final size:73
Alignment explanation
Indices: 45144357--45144530 Score: 187
Period size: 71 Copynumber: 2.4 Consensus size: 73
45144347 AAAATCACAT
* * *
45144357 ATAAAAAACTATTGATAAAACTAATTTAGTA-AAAAATAAGTAGAATATAAATTCAATGA-AGAA
1 ATAAAAAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAAT-ATACAA
*
45144420 AGACC-AAC
65 AAACCAAAC
* * * * *
45144428 ATAAACAACTTTTAATAAAACTAGA-TTA-CACATAAATAAGTAGAACATAAATTCAATATCCAA
1 ATAAAAAACTATTGATAAAACTA-ATTTAGCACAAAAATAAGTAGAACATAAATTCAATATACAA
45144491 AAACCAAAC
65 AAACCAAAC
* * *
45144500 ATAAATAACTGTTGATAAAACTAGTTTAGCA
1 ATAAAAAACTATTGATAAAACTAATTTAGCA
45144531 TTATTGTTTA
Statistics
Matches: 84, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
70 2 0.02
71 53 0.63
72 27 0.32
73 2 0.02
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (73 bp):
ATAAAAAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATACAAA
AACCAAAC
Found at i:45146016 original size:15 final size:15
Alignment explanation
Indices: 45145996--45146029 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
45145986 AAGTTTTTAG
45145996 TTAATATTTAAGTAA
1 TTAATATTTAAGTAA
*
45146011 TTAATATTTATGTAA
1 TTAATATTTAAGTAA
45146026 TTAA
1 TTAA
45146030 AAATAGTCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (15 bp):
TTAATATTTAAGTAA
Found at i:45146022 original size:132 final size:132
Alignment explanation
Indices: 45145876--45146305 Score: 765
Period size: 132 Copynumber: 3.3 Consensus size: 132
45145866 CACAAGTTTT
* *
45145876 TAATTAATATTTATGTAATTAAAAATAGTCTCTTTAAGATGATTATTAATTATTATTATTTCTAC
1 TAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTATTGCTAC
*
45145941 TGAAAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACAAAGTTTTTAGTTAATATTTA
66 TGAAAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACAAAGTTTTTAATTAATATTTA
*
45146006 AG
131 TG
45146008 TAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTATTGCTAC
1 TAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTATTGCTAC
*
45146073 TGACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACAAAGTTTTTAATTAATATTTA
66 TGAAAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACAAAGTTTTTAATTAATATTTA
45146138 TG
131 TG
*
45146140 TAATTAATATTTATGTAATTAAAAATGGTCCCTTTAAGATGATTATTAATTATTATTATTGCTAC
1 TAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTATTGCTAC
* *
45146205 T-AACAAAATTTTACATTCTTTTACATTCTTATCTGTAATTTTACAAAG-TTTTAAATAATATTT
66 TGAA-AAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACAAAGTTTTTAATTAATATTT
45146268 ATG
130 ATG
45146271 TAATTAATATTTATGTAATTAAAAATAGTCCCTTT
1 TAATTAATATTTATGTAATTAAAAATAGTCCCTTT
45146306 TTCTGTAACG
Statistics
Matches: 287, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
131 52 0.18
132 235 0.82
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.49
Consensus pattern (132 bp):
TAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTATTGCTAC
TGAAAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACAAAGTTTTTAATTAATATTTA
TG
Found at i:45146145 original size:15 final size:15
Alignment explanation
Indices: 45146125--45146161 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
45146115 ACAAAGTTTT
45146125 TAATTAATATTTATG
1 TAATTAATATTTATG
45146140 TAATTAATATTTATG
1 TAATTAATATTTATG
45146155 TAATTAA
1 TAATTAA
45146162 AAATGGTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (15 bp):
TAATTAATATTTATG
Found at i:45146280 original size:15 final size:15
Alignment explanation
Indices: 45146260--45146292 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
45146250 AAGTTTTAAA
45146260 TAATATTTATGTAAT
1 TAATATTTATGTAAT
45146275 TAATATTTATGTAAT
1 TAATATTTATGTAAT
45146290 TAA
1 TAA
45146293 AAATAGTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (15 bp):
TAATATTTATGTAAT
Found at i:45148279 original size:25 final size:25
Alignment explanation
Indices: 45148250--45148353 Score: 172
Period size: 25 Copynumber: 4.2 Consensus size: 25
45148240 AGAGGAACAA
45148250 AGCACCAGCAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
45148275 AGCACCAGCAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
* *
45148300 AGCACCAGTAGAAGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
* *
45148325 AGCACCAGCAGAGGATCAATGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
45148350 AGCA
1 AGCA
45148354 GAGGAACAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 73 1.00
ACGTcount: A:0.47, C:0.27, G:0.23, T:0.03
Consensus pattern (25 bp):
AGCACCAGCAGAGGAACAAAGAACC
Found at i:45148303 original size:19 final size:19
Alignment explanation
Indices: 45148240--45148278 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
45148230 GTGGTGGAGA
*
45148240 AGAGGAACAAAGCACCAGC
1 AGAGGAACAAAGAACCAGC
45148259 AGAGGAACAAAGAACCAGC
1 AGAGGAACAAAGAACCAGC
45148278 A
1 A
45148279 CCAGCAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.23, G:0.26, T:0.00
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:45151218 original size:90 final size:90
Alignment explanation
Indices: 45150928--45151220 Score: 295
Period size: 90 Copynumber: 3.3 Consensus size: 90
45150918 CATTGGGTTC
* * * * * * * *
45150928 TGGATAAACCACAAAAGTTGCAGTTTAATATGCTGTCAGATGGTTGTGAGTGTACAACATATTTT
1 TGGATAAACCACCAATGTTGTAGGTTAATACGCTGTCAGATGGTTGTGAATGCACAACATATTTG
* * *
45150993 CAAATGAGAGCTGTCAG-AATATGG
66 CAAATAAGAGCTGCCAGAAATTTGG
* * * * *
45151017 ATGGATAAACCACCAATATTGTAGGTTAATAGGTTGTCAGATGGTTGTGAATACACAACGTATTT
1 -TGGATAAACCACCAATGTTGTAGGTTAATACGCTGTCAGATGGTTGTGAATGCACAACATATTT
* * * * *
45151082 GCAAATAAGAGCTACTAAAAAATGGG
65 GCAAATAAGAGCTGCCAGAAATTTGG
* * * * * *
45151108 TGGATGAGCCACCAATGTTGTAGGTTAATACACTGCCAGATGGTTGTGAATGGACAACATAATTG
1 TGGATAAACCACCAATGTTGTAGGTTAATACGCTGTCAGATGGTTGTGAATGCACAACATATTTG
45151173 CAAATAAGAGCTGCCAGATAATTTGG
66 CAAATAAGAGCTGCCAGA-AATTTGG
45151199 -GGATAAACCACCAGA-GTTGTAG
1 TGGATAAACCACCA-ATGTTGTAG
45151221 ATTTATTAAT
Statistics
Matches: 162, Mismatches: 38, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
90 152 0.94
91 10 0.06
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (90 bp):
TGGATAAACCACCAATGTTGTAGGTTAATACGCTGTCAGATGGTTGTGAATGCACAACATATTTG
CAAATAAGAGCTGCCAGAAATTTGG
Found at i:45155008 original size:34 final size:34
Alignment explanation
Indices: 45154965--45155060 Score: 147
Period size: 34 Copynumber: 2.8 Consensus size: 34
45154955 ATCTAATGCT
*
45154965 CAAATCAATTCGGCAATATATATGTATACATATA
1 CAAATCAATTCAGCAATATATATGTATACATATA
*
45154999 CAAATCAATTCAACAATATATATGTATACATATA
1 CAAATCAATTCAGCAATATATATGTATACATATA
* * *
45155033 CAAATCAATTCAGTAATCTATATATATA
1 CAAATCAATTCAGCAATATATATGTATA
45155061 TTTAAATCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (34 bp):
CAAATCAATTCAGCAATATATATGTATACATATA
Found at i:45161268 original size:18 final size:17
Alignment explanation
Indices: 45161245--45161297 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 17
45161235 ATATATTATG
*
45161245 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
45161263 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
45161280 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
45161298 TTAATAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 5 0.15
18 28 0.85
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:45161499 original size:39 final size:41
Alignment explanation
Indices: 45161445--45161550 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 41
45161435 TTTCCTTATG
* *
45161445 CTATTACACCTCTATTCCATTCAACAAAACACAAGAA-TA-
1 CTATTACGCCTCTATTCCATTCAACAAAACAAAAGAATTAC
*
45161484 CTATTACGCCTCTATTCCATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTC---T--ATTCCATTCAACAAAACAAAAGAATTAC
45161530 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
45161551 ACGCACCTAT
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
39 11 0.19
41 8 0.14
42 1 0.02
43 1 0.02
44 22 0.39
45 2 0.04
46 12 0.21
ACGTcount: A:0.36, C:0.30, G:0.04, T:0.30
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACAAAACAAAAGAATTAC
Found at i:45161525 original size:44 final size:46
Alignment explanation
Indices: 45161458--45161550 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 46
45161448 TTACACCTCT
*
45161458 ATTCCATTCAACAAAACACAAGAA-TA-CTATTACGCCTCTATTCC
1 ATTCCATTCAACAAAACAAAAGAATTACCTATTACGCCTCTATTCC
*
45161502 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
1 ATTCCATTCAACAAAACAAAAGAATTACCTATTACGCCTCTATTCC
45161548 ATT
1 ATT
45161551 ACGCACCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 22 0.49
45 2 0.04
46 21 0.47
ACGTcount: A:0.38, C:0.29, G:0.04, T:0.29
Consensus pattern (46 bp):
ATTCCATTCAACAAAACAAAAGAATTACCTATTACGCCTCTATTCC
Found at i:45161553 original size:16 final size:16
Alignment explanation
Indices: 45161532--45161584 Score: 81
Period size: 16 Copynumber: 3.3 Consensus size: 16
45161522 AGAATTACCT
45161532 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
45161548 ATTACGCAC-CTATTCC
1 ATTACGC-CTCTATTCC
*
45161564 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
45161580 ATTAC
1 ATTAC
45161585 AGCGAACCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
15 1 0.03
16 32 0.94
17 1 0.03
ACGTcount: A:0.25, C:0.36, G:0.04, T:0.36
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:45163025 original size:4 final size:4
Alignment explanation
Indices: 45163018--45163057 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
45163008 TGCATGCATG
45163018 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
45163058 ACTATTAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:45165140 original size:22 final size:21
Alignment explanation
Indices: 45165105--45165162 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
45165095 TAAGGGCATC
* *
45165105 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
45165126 TACAAAATCATATCTTCTAATAT
1 TAC-AAATCATATC-TCTAAGAT
* *
45165149 TGCAGATCATATCT
1 TACAAATCATATCT
45165163 AAGATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:45165981 original size:132 final size:131
Alignment explanation
Indices: 45165595--45166008 Score: 528
Period size: 131 Copynumber: 3.1 Consensus size: 131
45165585 AATTGGTAAT
* *
45165595 TTCAACCTGCTCCACTG-TAACTTCAGGGAGATAAGG-TTGGTGGCTTAAATCTGCTTCCCTACT
1 TTCAACCTACTCCACTGCT-AC-TCAGGGAGAT-AGGACTGGTGGCTTAAATCTGCTTCCCTACT
* * * * * *
45165658 ACTTCGGGAAGATAAGACTCATCGTCTTTGATCTGATCCACTGCTTCTTAGGGAGACAGGATATA
63 ACTT-GGGAAGATAAGATTCGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTA
45165723 CAATC
127 CAATC
* * * *
45165728 TTCAACCTACTCCACTACTGCTCAGGGAGGTAGGACTAGTGGCTTAAATCTGCTT-CCTACTATC
1 TTCAACCTACTCCACTGCTACTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTA-C
** * * * *
45165792 TCAGGAAGATAAGATTCGTCGTCTTCGATCTACTCCACTACTGTTTCGGGAGACAGGATCTACAA
65 TTGGGAAGATAAGATTCGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
*
45165857 TT
130 TC
* * *
45165859 TTCAACCTACTCCACTGCTACTCAGAGAGATAGGACTGGTGGCTTAAATCTGATTCCCTACGACC
1 TTCAACCTACTCCACTGCTACTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTA-C
* * *
45165924 TTGGGAAGATAAGATTCGTCATCTTTGATCTGCTCCACTACTGCTAAGGGAGACAGGACCTACAA
65 TTGGGAAGATAAGATTCGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
45165989 TC
130 TC
45165991 TTCAACCTACTCCACTGC
1 TTCAACCTACTCCACTGC
45166009 AAACTTAGAG
Statistics
Matches: 240, Mismatches: 37, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
131 112 0.47
132 111 0.46
133 16 0.07
134 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (131 bp):
TTCAACCTACTCCACTGCTACTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACT
TGGGAAGATAAGATTCGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAAT
C
Found at i:45166121 original size:89 final size:89
Alignment explanation
Indices: 45166005--45166381 Score: 447
Period size: 89 Copynumber: 4.2 Consensus size: 89
45165995 ACCTACTCCA
* * * * *
45166005 CTGCAAACTTAGAGAGGCAAGGTTGGTGTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAG
1 CTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGATTTGCTTCACTGCCAATACAGGAAGACAAG
* **
45166070 ATCTGCTGTTTTCAGTCTGCTCTG
66 ATCTGCTATCGTCAGTCTGCTCTG
* * * * *
45166094 CTGCAAACTTAGGGAGGTAAGGCTGGTGTCTTCGATTTGTTTCGCTGCCAATACAGGAAGACAAG
1 CTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGATTTGCTTCACTGCCAATACAGGAAGACAAG
* *
45166159 ATCTGCTATCTTCAGTCTGTTTCT-
66 ATCTGCTATCGTCAGTCTG-CTCTG
* * *
45166183 CTACAAACTCAGGGAGGCAAGGCTGGT-TTCTTCGATTGGCTTCGCTGCCAATACAGGAAGACAA
1 CTGCAAACTCAGGGAGGCAAGGCTGGTGTT-TTCGATTTGCTTCACTGCCAATACAGGAAGACAA
*
45166247 GATCTGCTATCGTCAGTCTGCT-TCA
65 GATCTGCTATCGTCAGTCTGCTCT-G
* * * *
45166272 CTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTT-GATTTGATTCACTTCCAATACGGGAAGATAA
1 CTGCAAACTCAGGGAGGCAAGGCTGGTGT-TTTCGATTTGCTTCACTGCCAATACAGGAAGACAA
* * *
45166336 TATTTGCTATCGTCAGTCTGCTCCG
65 GATCTGCTATCGTCAGTCTGCTCTG
*
45166361 CTGTAAACTCAGGGAGGCAAG
1 CTGCAAACTCAGGGAGGCAAG
45166382 ACTTATAACT
Statistics
Matches: 250, Mismatches: 31, Indels: 14
0.85 0.11 0.05
Matches are distributed among these distances:
87 1 0.00
88 2 0.01
89 240 0.96
90 6 0.02
91 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (89 bp):
CTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGATTTGCTTCACTGCCAATACAGGAAGACAAG
ATCTGCTATCGTCAGTCTGCTCTG
Found at i:45166180 original size:45 final size:45
Alignment explanation
Indices: 45166040--45166275 Score: 139
Period size: 45 Copynumber: 5.3 Consensus size: 45
45166030 GTGTTTTCGA
* * * *
45166040 TCTGCTTCACTGCCAGTACAGGAAGACAAGATCTGCTGTTTTCAG
1 TCTGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAG
* ** * * *
45166085 TCTGC-TCTGCTG-CAA-ACTTAGGGAGGTAAG-GCTGGTGTCTTC-G
1 TCTGCTTC-GCTGCCAATAC--AGGAAGACAAGATCTGCTATCTTCAG
* *
45166128 ATTTGTTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAG
1 -TCTGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAG
* * * * * * * * *
45166174 TCTGTTTCTCTACAAACT-CAGGGAGGCAAG-GCTGGTTTCTTC-G
1 TCTGCTTCGCTGCCAA-TACAGGAAGACAAGATCTGCTATCTTCAG
*
45166217 AT-TGGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCGTCAG
1 -TCT-GCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAG
*
45166263 TCTGCTTCACTGC
1 TCTGCTTCGCTGC
45166276 AAACTCAGGG
Statistics
Matches: 139, Mismatches: 36, Indels: 32
0.67 0.17 0.15
Matches are distributed among these distances:
43 6 0.04
44 57 0.41
45 70 0.50
46 6 0.04
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (45 bp):
TCTGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAG
Found at i:45166455 original size:44 final size:44
Alignment explanation
Indices: 45166394--45166920 Score: 334
Period size: 44 Copynumber: 11.8 Consensus size: 44
45166384 TTATAACTTC
* * * * *
45166394 AATCCGCTCCAATGCAACTTTAGGGAGATAGGATTATTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTT
* * * * **
45166438 AATCTGTTCTACTGCAACTTCAGAGAGATAAG---ATTCGCCAT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTT
* * *
45166479 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A--T-TAGCTTT
* * ** *
45166530 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ATTAGCTTT
* * * * * * *
45166575 AGTCTGCTCCATTGCAACTTTAAGGAGATAAGACTT-GTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTATTAGCTTT
* * *
45166619 AATCCGTTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTT
* * **
45166663 AATCTGCTCCACTGTAACTTCAGGGAGATAAG---ATTCGCCAT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTT
* * * *
45166704 GATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A--T-TAGCTTT
*** * * * ** * *
45166755 AATCCATTCCACTTCAACTTTAGGGAAATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ATTAGCTTT
* * *
45166800 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TCA-CTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTT
* * *
45166842 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTT
* * *
45166886 AATCTGTTCCACTACAACTTCAGGGAAATAAGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
45166921 CGCCATCTTC
Statistics
Matches: 366, Mismatches: 93, Indels: 48
0.72 0.18 0.09
Matches are distributed among these distances:
41 69 0.19
42 34 0.09
43 4 0.01
44 124 0.34
45 65 0.18
46 2 0.01
48 4 0.01
49 2 0.01
50 2 0.01
51 60 0.16
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTT
Found at i:45166741 original size:225 final size:224
Alignment explanation
Indices: 45166326--45166926 Score: 891
Period size: 225 Copynumber: 2.7 Consensus size: 224
45166316 CTTCCAATAC
* * * * * * **
45166326 GGGAAGATAATATTTGCTATCGTCAGTCTGCTCCGCTGTAAAC-TCAGGGAGGCAAGACTTATAA
1 GGGAA-ATAAGATTCGCTATCTTCAGTCTGCTCCACTG-CAACTTCAAGGAGATAAGACTT-TAA
* * *
45166390 CTTCAATCCGCTCCAATGCAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGTTCTACTGCAA
63 CTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGTTCCACTGCAA
* *
45166455 CTTCAGAGAGATAAGATTCGCCATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGAT
128 CTTCAGGGAGATAAGATTCGCCATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGAT
**
45166520 TTATAGCTTTAATCTGTTCCACTGCAACTTCA
193 TTATAGCTTTAATCCATTCCACTGCAACTTCA
* * *
45166552 GGGAAATAAGATTCGCTATCTTTAGTCTGCTCCATTGCAACTTTAAGGAGATAAGACTTGTAACT
1 GGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTT-TAACT
* * * *
45166617 TCAATCCGTTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTGCTCCACTGTAACT
65 TCAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGTTCCACTGCAACT
45166682 TCAGGGAGATAAGATTCGCCATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGATTT
130 TCAGGGAGATAAGATTCGCCATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGATTT
* *
45166747 ATAGCTTTAATCCATTCCACTTCAACTTTA
195 ATAGCTTTAATCCATTCCACTGCAACTTCA
* *
45166777 GGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC-TTCACTT
1 GGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTTAACTT
* *
45166841 TAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGTTCCACTACAACTT
66 CAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGTTCCACTGCAACTT
*
45166906 CAGGGAAATAAGATTCGCCAT
131 CAGGGAGATAAGATTCGCCAT
45166927 CTTCTTCAAT
Statistics
Matches: 337, Mismatches: 37, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
223 84 0.25
224 4 0.01
225 244 0.72
226 5 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (224 bp):
GGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTTAACTT
CAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGTTCCACTGCAACTT
CAGGGAGATAAGATTCGCCATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGATTTA
TAGCTTTAATCCATTCCACTGCAACTTCA
Found at i:45172316 original size:23 final size:23
Alignment explanation
Indices: 45172269--45172318 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
45172259 TGTTTTAAGT
*
45172269 TTTATATGTATTATTATTTGAAA
1 TTTATATGTATCATTATTTGAAA
45172292 TTTATTATGTATCATTATTT-AAA
1 TTTA-TATGTATCATTATTTGAAA
45172315 TTTA
1 TTTA
45172319 GCATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (23 bp):
TTTATATGTATCATTATTTGAAA
Found at i:45177018 original size:23 final size:22
Alignment explanation
Indices: 45176975--45177032 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
45176965 TAAGGGCATC
* *
45176975 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
45176996 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
45177019 TGCATATCATATCT
1 TACAAATCATATCT
45177033 AAGATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:45177026 original size:17 final size:17
Alignment explanation
Indices: 45177004--45177047 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 17
45176994 ATTACAAAAT
45177004 CATATCTTCTAAGATTG
1 CATATCTTCTAAGATTG
45177021 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTG
*
45177040 TATATCTT
1 CATATCTT
45177048 TAAAGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.29
18 2 0.08
19 15 0.62
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (17 bp):
CATATCTTCTAAGATTG
Found at i:45179521 original size:20 final size:22
Alignment explanation
Indices: 45179484--45179523 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
45179474 TGGTATTATT
*
45179484 TTATATTATGTTATTTTATATA
1 TTATATTATGTTAATTTATATA
45179506 TTAT-TTATG-TAATTTATA
1 TTATATTATGTTAATTTATA
45179524 ACATATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 5 0.29
22 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
TTATATTATGTTAATTTATATA
Found at i:45179653 original size:16 final size:16
Alignment explanation
Indices: 45179634--45179683 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
45179624 AAATTTTAAT
45179634 AAATTAAAAATATATA
1 AAATTAAAAATATATA
*
45179650 AAATTATTAAATAT-T-
1 AAATTA-AAAATATATA
45179665 AAATTAAAAATATATA
1 AAATTAAAAATATATA
45179681 AAA
1 AAA
45179684 ATATTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 6 0.21
15 7 0.24
16 10 0.34
17 6 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATTAAAAATATATA
Found at i:45179668 original size:24 final size:25
Alignment explanation
Indices: 45179619--45179683 Score: 67
Period size: 31 Copynumber: 2.3 Consensus size: 25
45179609 TGAAGACTAC
45179619 ATATAAAATTTTAATAAATTAAAAAT
1 ATATAAAATTTTAATAAATT-AAAAT
45179645 ATATAAAATTATTAAATATTAAATTAAAAAT
1 ATATAAAATT-TT--A-A-TAAATT-AAAAT
45179676 ATATAAAA
1 ATATAAAA
45179684 ATATTTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
26 10 0.29
27 2 0.06
29 1 0.03
30 1 0.03
31 20 0.59
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
ATATAAAATTTTAATAAATTAAAAT
Found at i:45179682 original size:15 final size:15
Alignment explanation
Indices: 45179632--45179682 Score: 68
Period size: 15 Copynumber: 3.3 Consensus size: 15
45179622 TAAAATTTTA
45179632 ATAAATTAAAAATAT
1 ATAAATTAAAAATAT
*
45179647 ATAAAATTATTAAATAT
1 AT-AAATTA-AAAATAT
45179664 -TAAATTAAAAATAT
1 ATAAATTAAAAATAT
45179678 ATAAA
1 ATAAA
45179683 AATATTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 6 0.19
15 12 0.39
16 7 0.23
17 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAAATTAAAAATAT
Found at i:45184238 original size:17 final size:16
Alignment explanation
Indices: 45184216--45184254 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
45184206 ACAAAATCCA
45184216 AATTTATTTCCCAATTT
1 AATTTATTT-CCAATTT
45184233 AATTTAATTTCCAATTT
1 AATTT-ATTTCCAATTT
45184250 -ATTTA
1 AATTTA
45184255 ATTTTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 4 0.19
17 12 0.57
18 4 0.19
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTTATTTCCAATTT
Found at i:45185185 original size:18 final size:20
Alignment explanation
Indices: 45185162--45185203 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
45185152 TGACTAATGA
45185162 CTTACCAATG-TAT-GATAC
1 CTTACCAATGATATCGATAC
*
45185180 CTTACCAATGATATCGATAT
1 CTTACCAATGATATCGATAC
45185200 CTTA
1 CTTA
45185204 AGTCAAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 3 0.14
20 8 0.38
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (20 bp):
CTTACCAATGATATCGATAC
Found at i:45194523 original size:12 final size:13
Alignment explanation
Indices: 45194494--45194523 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
45194484 TAGAGTTTTT
45194494 TTTTTACTTTTAA
1 TTTTTACTTTTAA
45194507 TTTTT-CTTTTAA
1 TTTTTACTTTTAA
45194519 TTTTT
1 TTTTT
45194524 TTCACTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTACTTTTAA
Found at i:45194547 original size:27 final size:28
Alignment explanation
Indices: 45194491--45194548 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
45194481 TTTTAGAGTT
* *
45194491 TTTTTTTTACTTTTAATTTTTCTTTTAA
1 TTTTTTTCACTTTTAATTTTTCTTTGAA
*
45194519 TTTTTTTCACTTTT-CTTCTTTC-TTGAA
1 TTTTTTTCACTTTTAATT-TTTCTTTGAA
45194546 TTT
1 TTT
45194549 AGTATATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.72
Consensus pattern (28 bp):
TTTTTTTCACTTTTAATTTTTCTTTGAA
Found at i:45194762 original size:5 final size:5
Alignment explanation
Indices: 45194754--45194778 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
45194744 AAATTAAATG
45194754 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
45194779 TATCATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:45194855 original size:24 final size:24
Alignment explanation
Indices: 45194808--45194871 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
45194798 ATTAATTTGT
* *
45194808 GTTTCAAATATTAATGTGTATGAG
1 GTTTTAAATATTAATGGGTATGAG
* *
45194832 GTTTTAAATTTTAATGGGTTTGAG
1 GTTTTAAATATTAATGGGTATGAG
*
45194856 CTTTTAAGAGTATTAA
1 GTTTTAA-A-TATTAA
45194872 ATTTAAATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 26 0.81
25 1 0.03
26 5 0.16
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.45
Consensus pattern (24 bp):
GTTTTAAATATTAATGGGTATGAG
Found at i:45197239 original size:14 final size:14
Alignment explanation
Indices: 45197203--45197236 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
45197193 TCATCATTTG
*
45197203 CCTATAACAAAAAC
1 CCTATAACCAAAAC
45197217 CCTATAACCAAAAC
1 CCTATAACCAAAAC
45197231 CC-ATAA
1 CCTATAA
45197237 ACCCATATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:45198124 original size:24 final size:24
Alignment explanation
Indices: 45198092--45198137 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
45198082 TTGAATAATT
45198092 AATTCAATTTT-CAACTTCGAGTCA
1 AATTCAATTTTACAA-TTCGAGTCA
*
45198116 AATTGAATTTTACAATTCGAGT
1 AATTCAATTTTACAATTCGAGT
45198138 TCGAATAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (24 bp):
AATTCAATTTTACAATTCGAGTCA
Found at i:45202492 original size:11 final size:11
Alignment explanation
Indices: 45202476--45202544 Score: 67
Period size: 11 Copynumber: 6.5 Consensus size: 11
45202466 TAATTTTTAA
45202476 TTTTAAAATAT
1 TTTTAAAATAT
45202487 TTTTAAAATACT
1 TTTTAAAATA-T
* *
45202499 TTTT-TATTAT
1 TTTTAAAATAT
45202509 TTTT---A-AT
1 TTTTAAAATAT
45202516 TTTTAAAATAT
1 TTTTAAAATAT
45202527 TTTTAAAATACT
1 TTTTAAAATA-T
45202539 TTTTAA
1 TTTTAA
45202545 TTTTTTTAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
7 6 0.12
10 6 0.12
11 25 0.51
12 12 0.24
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:45202517 original size:29 final size:30
Alignment explanation
Indices: 45202485--45202584 Score: 93
Period size: 29 Copynumber: 3.4 Consensus size: 30
45202475 ATTTTAAAAT
* *
45202485 ATTTTTAAAATACTTTTT-TATTA-TTTTTA
1 ATTTTTAAAATA-TTTTTAAAATACTTTTTA
45202514 ATTTTTAAAATATTTTTAAAATACTTTTTA
1 ATTTTTAAAATATTTTTAAAATACTTTTTA
* *
45202544 ATTTTT---TTAATTTTAAAATACTTTTTTTA
1 ATTTTTAAAATATTTTTAAAATAC--TTTTTA
*
45202573 ATTTTAAAAATA
1 ATTTTTAAAATA
45202585 AATTTTTAGT
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
27 13 0.22
28 5 0.09
29 26 0.45
30 12 0.21
32 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (30 bp):
ATTTTTAAAATATTTTTAAAATACTTTTTA
Found at i:45202527 original size:21 final size:20
Alignment explanation
Indices: 45202503--45202584 Score: 64
Period size: 20 Copynumber: 4.1 Consensus size: 20
45202493 AATACTTTTT
45202503 TATTATTTTTAATTTTTAAAA
1 TATT-TTTTTAATTTTTAAAA
** *
45202524 TATTTTTAAAATACTTTT--TA
1 TATTTTTTTAAT--TTTTAAAA
45202544 -ATTTTTTTAA-TTTTAAAA
1 TATTTTTTTAATTTTTAAAA
*
45202562 TACTTTTTTTAATTTTAAAAA
1 TA-TTTTTTTAATTTTTAAAA
45202583 TA
1 TA
45202585 AATTTTTAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
16 4 0.09
18 1 0.02
19 9 0.19
20 16 0.34
21 13 0.28
22 4 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTTTTAATTTTTAAAA
Found at i:45202527 original size:40 final size:39
Alignment explanation
Indices: 45202468--45202569 Score: 170
Period size: 40 Copynumber: 2.6 Consensus size: 39
45202458 TATATTTTTA
*
45202468 ATTTTTAATTTTAAAATATTTTTAAAATACTTTTTTATT
1 ATTTTTAATTTTAAAATATTTTTAAAATACTTTTTAATT
45202507 ATTTTTAATTTTTAAAATATTTTTAAAATACTTTTTAATT
1 ATTTTTAA-TTTTAAAATATTTTTAAAATACTTTTTAATT
45202547 -TTTTTAATTTTAAAATACTTTTT
1 ATTTTTAATTTTAAAATA-TTTTT
45202570 TTAATTTTAA
Statistics
Matches: 60, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
38 10 0.17
39 20 0.33
40 30 0.50
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (39 bp):
ATTTTTAATTTTAAAATATTTTTAAAATACTTTTTAATT
Found at i:45202590 original size:21 final size:20
Alignment explanation
Indices: 45202546--45202591 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
45202536 ACTTTTTAAT
**
45202546 TTTTTTAATTTTAAAATACT
1 TTTTTTAATTTTAAAATAAA
45202566 TTTTTTAATTTTAAAAATAAA
1 TTTTTTAATTTT-AAAATAAA
45202587 TTTTT
1 TTTTT
45202592 AGTATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTTAATTTTAAAATAAA
Found at i:45208023 original size:20 final size:21
Alignment explanation
Indices: 45207976--45208036 Score: 95
Period size: 21 Copynumber: 2.8 Consensus size: 21
45207966 TCCAACCATA
45207976 TGTTTTGAAGAAGAAAAATGG
1 TGTTTTGAAGAAGAAAAATGG
45207997 TGTTTTGAAGAAGAAAAATGG
1 TGTTTTGAAGAAGAAAAATGG
*
45208018 TGTTTGGCAAGAGAGAAAA
1 TGTTTTG-AAGA-AGAAAA
45208037 TGAGAGAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
21 27 0.73
22 4 0.11
23 6 0.16
ACGTcount: A:0.43, C:0.02, G:0.30, T:0.26
Consensus pattern (21 bp):
TGTTTTGAAGAAGAAAAATGG
Found at i:45213918 original size:13 final size:13
Alignment explanation
Indices: 45213900--45213924 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45213890 ACAATTTAAT
45213900 AATTTTAAATAAA
1 AATTTTAAATAAA
45213913 AATTTTAAATAA
1 AATTTTAAATAA
45213925 TTTAATAATA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTTTAAATAAA
Found at i:45216102 original size:22 final size:22
Alignment explanation
Indices: 45216077--45216121 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
45216067 TTGAAAGATA
45216077 AAAGAGATTAGAATAATCCTGG
1 AAAGAGATTAGAATAATCCTGG
45216099 AAAGAGATTAGAATAATCCTGG
1 AAAGAGATTAGAATAATCCTGG
45216121 A
1 A
45216122 TTTTATGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.22
Consensus pattern (22 bp):
AAAGAGATTAGAATAATCCTGG
Found at i:45225764 original size:71 final size:72
Alignment explanation
Indices: 45225623--45225774 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
45225613 TCATTGGTGG
*
45225623 TGCTAAGTGCGACATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGACATCCACCATATCTTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
45225688 GAGGGGT
66 AAGGGGT
* ***
45225695 TGCTAAGTGCGATATCCATTGTATCTTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGACATCCACCATATCTTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
45225759 AAGGGGT
66 AAGGGGT
45225766 TGCTAAGTG
1 TGCTAAGTG
45225775 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
71 44 0.59
72 30 0.41
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGACATCCACCATATCTTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
AAGGGGT
Found at i:45228002 original size:40 final size:40
Alignment explanation
Indices: 45227944--45228023 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
45227934 CCAGCCACCG
45227944 GACCCAAGCTATAAGATGTTATAACAATAAATCGAAACAT
1 GACCCAAGCTATAAGATGTTATAACAATAAATCGAAACAT
* *
45227984 GACCCAAGCTATAGGATGTTATAACAATAAATCGGAACAT
1 GACCCAAGCTATAAGATGTTATAACAATAAATCGAAACAT
45228024 TCACAAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (40 bp):
GACCCAAGCTATAAGATGTTATAACAATAAATCGAAACAT
Found at i:45230575 original size:13 final size:13
Alignment explanation
Indices: 45230557--45230581 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45230547 ATAGTAACTC
45230557 TAAAAATATTTAA
1 TAAAAATATTTAA
45230570 TAAAAATATTTA
1 TAAAAATATTTA
45230582 CTGGCTTGGT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAAATATTTAA
Found at i:45232446 original size:31 final size:31
Alignment explanation
Indices: 45232411--45232485 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 31
45232401 CATTTAATCT
* * **
45232411 CCTTTTAAAAAGAA-TCTAATTTGATTATCAA
1 CCTTTTAAAAA-AAGTCAAATTCGACCATCAA
45232442 CCTTTTTAAAAAAAGTCAAATTCGACCATCAA
1 CC-TTTTAAAAAAAGTCAAATTCGACCATCAA
*
45232474 TCTTTTAAAAAA
1 CCTTTTAAAAAA
45232486 GAGTTGAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
31 14 0.38
32 23 0.62
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (31 bp):
CCTTTTAAAAAAAGTCAAATTCGACCATCAA
Found at i:45232644 original size:21 final size:19
Alignment explanation
Indices: 45232620--45232658 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
45232610 ATATATTGAA
45232620 TTTTGAATTATTTTATTATAT
1 TTTTGAA-TATTTT-TTATAT
*
45232641 TTTTTAATATTTTTTATA
1 TTTTGAATATTTTTTATA
45232659 ATTATTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTGAATATTTTTTATAT
Found at i:45233383 original size:7 final size:7
Alignment explanation
Indices: 45233371--45233395 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
45233361 CCAAACTAAA
45233371 AAATTTT
1 AAATTTT
45233378 AAATTTT
1 AAATTTT
45233385 AAATTTT
1 AAATTTT
45233392 AAAT
1 AAAT
45233396 AATTAATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AAATTTT
Found at i:45241134 original size:12 final size:11
Alignment explanation
Indices: 45241102--45241132 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
45241092 ATTAAGTAAA
45241102 TAAATAAATAT
1 TAAATAAATAT
45241113 TAAATGAAATAT
1 TAAAT-AAATAT
45241125 TAAATAAA
1 TAAATAAA
45241133 ATTTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (11 bp):
TAAATAAATAT
Found at i:45246326 original size:22 final size:22
Alignment explanation
Indices: 45246301--45246342 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
45246291 ATTAAAAATT
*
45246301 AAATTGAATAAAATTATATTTA
1 AAATTGAATAAAATAATATTTA
* *
45246323 AAATTTAATAACATAATATT
1 AAATTGAATAAAATAATATT
45246343 GTCTTATTAT
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:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATTGAATAAAATAATATTTA
Found at i:45260787 original size:18 final size:18
Alignment explanation
Indices: 45260764--45260799 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
45260754 AGATAAAACG
45260764 CATCTTGATGGTTCAACC
1 CATCTTGATGGTTCAACC
45260782 CATCTTGATGGTTCAACC
1 CATCTTGATGGTTCAACC
45260800 AATGGTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (18 bp):
CATCTTGATGGTTCAACC
Found at i:45262050 original size:42 final size:42
Alignment explanation
Indices: 45261991--45262073 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
45261981 CTGAACTTTA
45261991 CCGAGAGATAACAGTTGCTGGATTTTGTGACCACATTCAACG
1 CCGAGAGATAACAGTTGCTGGATTTTGTGACCACATTCAACG
* * *
45262033 CCGAGAGATACCAGTTGCTGGATTTTGTGGCTACATTCAAC
1 CCGAGAGATAACAGTTGCTGGATTTTGTGACCACATTCAAC
45262074 AATGACAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (42 bp):
CCGAGAGATAACAGTTGCTGGATTTTGTGACCACATTCAACG
Found at i:45267014 original size:57 final size:57
Alignment explanation
Indices: 45266945--45267057 Score: 226
Period size: 57 Copynumber: 2.0 Consensus size: 57
45266935 ATACTTGATT
45266945 TATTTCAATCACAACAAGAACCTGACAATAGTGTGAATACTTATATCTCAAGATTCC
1 TATTTCAATCACAACAAGAACCTGACAATAGTGTGAATACTTATATCTCAAGATTCC
45267002 TATTTCAATCACAACAAGAACCTGACAATAGTGTGAATACTTATATCTCAAGATTC
1 TATTTCAATCACAACAAGAACCTGACAATAGTGTGAATACTTATATCTCAAGATTC
45267058 GTGAGGAAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (57 bp):
TATTTCAATCACAACAAGAACCTGACAATAGTGTGAATACTTATATCTCAAGATTCC
Found at i:45281684 original size:44 final size:42
Alignment explanation
Indices: 45281621--45281760 Score: 140
Period size: 43 Copynumber: 3.5 Consensus size: 42
45281611 AGTGATTCGG
45281621 GGAATCAGCACTTAGCAACCCCTTTTTACATTCAAGGATATGGT
1 GGAATCAGCACTTAGCAACCCC--TTTACATTCAAGGATATGGT
45281665 GGAATCAGCACTTAGCAA--CC---AC---C-AGTGAT-TCGG-
1 GGAATCAGCACTTAGCAACCCCTTTACATTCAAG-GATAT-GGT
* *
45281698 GGAATCAACACTTAACAACCCCTTTCACATTCAAGGATATGGT
1 GGAATCAGCACTTAGCAACCCCTTT-ACATTCAAGGATATGGT
45281741 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
45281761 ACCAAAGAGT
Statistics
Matches: 78, Mismatches: 4, Indels: 29
0.70 0.04 0.26
Matches are distributed among these distances:
33 19 0.24
34 6 0.08
35 2 0.03
37 2 0.03
39 2 0.03
42 8 0.10
43 21 0.27
44 18 0.23
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCTTTACATTCAAGGATATGGT
Found at i:45281717 original size:77 final size:77
Alignment explanation
Indices: 45281585--45281797 Score: 356
Period size: 76 Copynumber: 2.8 Consensus size: 77
45281575 AACCGTTATC
* *
45281585 GGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTTTAC
1 GGTGGAATCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTTCAC
45281650 ATTCAAGGATAT
66 ATTCAAGGATAT
* *
45281662 GGTGGAATCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAACACTTAACAACCCC-TTTCAC
1 GGTGGAATCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTTCAC
45281726 ATTCAAGGATAT
66 ATTCAAGGATAT
** *
45281738 GGTGGAATCAGCACTTAGCAACCACCAAAGAGTCGGGGAATCAGCACTTAGCAACCCCTT
1 GGTGGAATCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTT
45281798 GGGGAATCAG
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
76 70 0.56
77 56 0.44
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (77 bp):
GGTGGAATCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTTCAC
ATTCAAGGATAT
Found at i:45281801 original size:26 final size:26
Alignment explanation
Indices: 45281772--45281821 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
45281762 CCAAAGAGTC
45281772 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACTTAGCAACCCCTT
45281798 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
45281822 CTTGTTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.32, G:0.24, T:0.16
Consensus pattern (26 bp):
GGGGAATCAGCACTTAGCAACCCCTT
Found at i:45283395 original size:46 final size:46
Alignment explanation
Indices: 45283317--45283501 Score: 334
Period size: 46 Copynumber: 4.0 Consensus size: 46
45283307 ACAATGCTAT
* * *
45283317 AACTTAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
45283363 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
45283409 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
45283455 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
45283501 A
1 A
45283502 TTTTGCCATG
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 135 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:45287052 original size:25 final size:25
Alignment explanation
Indices: 45287018--45287089 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
45287008 AGTCCTCTCT
* *
45287018 CGAGCCATATAATGGGAAGCTTATC
1 CGAGCTATATAACGGGAAGCTTATC
45287043 CGAGCTATATAACGGGAAGCTTATC
1 CGAGCTATATAACGGGAAGCTTATC
45287068 C-AGGCTATATAACGGGAAGCTT
1 CGA-GCTATATAACGGGAAGCTT
45287090 GAGAGAGGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 43 0.98
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (25 bp):
CGAGCTATATAACGGGAAGCTTATC
Found at i:45287453 original size:21 final size:21
Alignment explanation
Indices: 45287427--45287468 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45287417 CAAACTTAAC
45287427 TCAATTTAATAAAATTCACAT
1 TCAATTTAATAAAATTCACAT
* **
45287448 TCAATTTCATCCAATTCACAT
1 TCAATTTAATAAAATTCACAT
45287469 ATTATGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.38
Consensus pattern (21 bp):
TCAATTTAATAAAATTCACAT
Found at i:45287936 original size:68 final size:66
Alignment explanation
Indices: 45287836--45287969 Score: 232
Period size: 68 Copynumber: 2.0 Consensus size: 66
45287826 TTACGATATG
*
45287836 AGAAATATAAAAATTACTAAAAACTACGATCTGGGATAAGAGAATACTTACCAAATTAAGCTAAA
1 AGAAATATAAAAATTACTAAAAACTACAATCTGGGATAA-A-AATACTTACCAAATTAAGCTAAA
45287901 TAA
64 TAA
*
45287904 AGAAATATAAAAATTACTAAAAATTACAATCTGGGATAAAAATACTTACCAAATTAAGCTAAATA
1 AGAAATATAAAAATTACTAAAAACTACAATCTGGGATAAAAATACTTACCAAATTAAGCTAAATA
45287969 A
66 A
45287970 TCTTGCTTGA
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
66 26 0.41
67 1 0.02
68 37 0.58
ACGTcount: A:0.54, C:0.11, G:0.10, T:0.25
Consensus pattern (66 bp):
AGAAATATAAAAATTACTAAAAACTACAATCTGGGATAAAAATACTTACCAAATTAAGCTAAATA
A
Found at i:45297600 original size:88 final size:88
Alignment explanation
Indices: 45297493--45297776 Score: 311
Period size: 88 Copynumber: 3.2 Consensus size: 88
45297483 TTGTATATTC
* *
45297493 GATCTACTTCACCACCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTTGCTACCAATAT
1 GATCTACTTCA-CGCCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATAT
* *
45297558 AAGAAGACAGGACCCACTATCTTT
65 AGGAAGACAGGACTCACTATCTTT
* *** * ** * * * * * * *
45297582 GATCTACTTCATGCCAGTACATGAAGACACGATCTGTTTTCTTCGA-CCTACTCCACCACCAGTA
1 GATCTACTTCACGCCAGTATGGGAAGATAAAATATG-TATATTCGATCC-ACTTCGCTACCAATA
* * ** *
45297646 TAGGGAGACAAGA-TCTGTTTCTTT
64 TAGGAAGACAGGACTCACTATCTTT
45297670 GATCTACTTCACGCCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATATA
1 GATCTACTTCACGCCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATATA
*
45297735 GGAAGACAGGACTTACTATCTTT
66 GGAAGACAGGACTCACTATCTTT
45297758 GATCTACTTCACGCCAGTA
1 GATCTACTTCACGCCAGTA
45297777 CATGAAGACA
Statistics
Matches: 148, Mismatches: 43, Indels: 9
0.74 0.22 0.05
Matches are distributed among these distances:
87 29 0.20
88 81 0.55
89 38 0.26
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (88 bp):
GATCTACTTCACGCCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATATA
GGAAGACAGGACTCACTATCTTT
Found at i:45297765 original size:176 final size:177
Alignment explanation
Indices: 45297493--45297869 Score: 657
Period size: 176 Copynumber: 2.1 Consensus size: 177
45297483 TTGTATATTC
*
45297493 GATCTACTTCACCACCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTTGCTACCAATAT
1 GATCTACTTCACCACCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATAT
*
45297558 AAGAAGACAGGACCCACTATCTTTGATCTACTTCATGCCAGTACATGAAGACACGATCTGTTTTC
66 AAGAAGACAGGACCCACTATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTC
45297623 TTCGACCTACTCCACCACCAGTATAGGGAGACAAGATCTGTTTCTTT
131 TTCGACCTACTCCACCACCAGTATAGGGAGACAAGATCTGTTTCTTT
*
45297670 GATCTACTTCA-CGCCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATAT
1 GATCTACTTCACCACCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATAT
* **
45297734 AGGAAGACAGGACTTACTATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTC
66 AAGAAGACAGGACCCACTATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTC
*
45297799 TTCGACCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTT
131 TTCGACCTACTCCACCACCAGTATAGGGAGACAAGATCTGTTTCTTT
* * *
45297846 GATCTGCTTCGCCACCAGCATGGG
1 GATCTACTTCACCACCAGTATGGG
45297870 GAGGCAAGAT
Statistics
Matches: 188, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
176 167 0.89
177 21 0.11
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (177 bp):
GATCTACTTCACCACCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATAT
AAGAAGACAGGACCCACTATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTC
TTCGACCTACTCCACCACCAGTATAGGGAGACAAGATCTGTTTCTTT
Found at i:45297845 original size:88 final size:88
Alignment explanation
Indices: 45297577--45297855 Score: 332
Period size: 88 Copynumber: 3.2 Consensus size: 88
45297567 GGACCCACTA
*
45297577 TCTTTGATCTACTTCATGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCACC
45297642 AGTATAGGGAGACAAGATCTGTT
66 AGTATAGGGAGACAAGATCTGTT
*** * ** * * * * * *
45297665 TCTTTGATCTACTTCACGCCAGTATGGGAAGATAAAATATG-TATATTCGATCC-ACTTCGCTAC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGA-CCTACTCCACCAC
* * *
45297728 CAATATAGGAAGACAGGA-CT-TACT
65 CAGTATAGGGAGACAAGATCTGT--T
45297752 ATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCAC
1 -TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCAC
*
45297817 CAGTATGGGGAGACAAGATCTGTT
65 CAGTATAGGGAGACAAGATCTGTT
*
45297841 TCTTTGATCTGCTTC
1 TCTTTGATCTACTTC
45297856 GCCACCAGCA
Statistics
Matches: 150, Mismatches: 33, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
85 1 0.01
86 2 0.01
87 30 0.20
88 85 0.57
89 29 0.19
90 2 0.01
91 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (88 bp):
TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCACC
AGTATAGGGAGACAAGATCTGTT
Found at i:45297862 original size:44 final size:43
Alignment explanation
Indices: 45297577--45297882 Score: 175
Period size: 44 Copynumber: 7.0 Consensus size: 43
45297567 GGACCCACTA
*** * * *
45297577 TCTTTGATCTACTTCATGCCAGTACATGAAGACACGATCTGTTT
1 TCTTTGATCTACTTCCCACCAGTATAGGAAGACAAGATCTG-TT
* * * *
45297621 TCTTCGACCTACTCCACCACCAGTATAGGGAGACAAGATCTGTT
1 TCTTTGATCTACTTC-CCACCAGTATAGGAAGACAAGATCTGTT
* * * * * * *
45297665 TCTTTGATCTACTTCACGCCAGTATGGGAAGATAAAATATGTA
1 TCTTTGATCTACTTCCCACCAGTATAGGAAGACAAGATCTGTT
* * * * * *
45297708 TATTCGATCCACTTCGCTACCAATATAGGAAGACAGGA-CT-TACT
1 TCTTTGATCTACTTC-CCACCAGTATAGGAAGACAAGATCTGT--T
* * * * *
45297752 ATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTT
1 -TCTTTGATCTACTTCCCACCAGTATAGGAAGACAAGATCTG-TT
* * * * *
45297797 TCTTCGACCTACTCCACCACCAGTATGGGGAGACAAGATCTGTT
1 TCTTTGATCTACTTC-CCACCAGTATAGGAAGACAAGATCTGTT
* * * * *
45297841 TCTTTGATCTGCTTCGCCACCAGCATGGGGAGGCAAGATCTG
1 TCTTTGATCTACTTC-CCACCAGTATAGGAAGACAAGATCTG
45297883 ATATCTTCCA
Statistics
Matches: 192, Mismatches: 61, Indels: 18
0.71 0.23 0.07
Matches are distributed among these distances:
42 1 0.01
43 33 0.17
44 104 0.54
45 53 0.28
47 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (43 bp):
TCTTTGATCTACTTCCCACCAGTATAGGAAGACAAGATCTGTT
Found at i:45312209 original size:75 final size:74
Alignment explanation
Indices: 45312080--45312224 Score: 218
Period size: 75 Copynumber: 1.9 Consensus size: 74
45312070 ATCGGATTTG
* *
45312080 AAAAAGGGATCATGCCCAGTAAGTTAGGACACAATATTTTCTTAATTCCTGAGATCGTTTAAAAC
1 AAAAAGGGATCATGCCCAGTAAGTTAGGACACAATATCTTCTTAATTCCCGAGATCGTTTAAAAC
45312145 TTGAGAAAA
66 TTGAGAAAA
* ** * *
45312154 AAAAAGGGGATCATGCCTAGTAAGTTAGGACATGATCTCTTCTTGATTCCCGAGATCGTTTAAAA
1 AAAAA-GGGATCATGCCCAGTAAGTTAGGACACAATATCTTCTTAATTCCCGAGATCGTTTAAAA
45312219 CTTGAG
65 CTTGAG
45312225 TTTGAAAAGA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
74 5 0.08
75 58 0.92
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (74 bp):
AAAAAGGGATCATGCCCAGTAAGTTAGGACACAATATCTTCTTAATTCCCGAGATCGTTTAAAAC
TTGAGAAAA
Found at i:45312518 original size:13 final size:13
Alignment explanation
Indices: 45312500--45312536 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
45312490 GTAAATAAAT
45312500 AAATGAATAAAGA
1 AAATGAATAAAGA
45312513 AAATGAATAAAGA
1 AAATGAATAAAGA
45312526 AAATGAATAAA
1 AAATGAATAAA
45312537 AATATAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (13 bp):
AAATGAATAAAGA
Found at i:45312567 original size:14 final size:14
Alignment explanation
Indices: 45312548--45312580 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
45312538 ATATAAAAAG
45312548 ATATATAAGTATGT
1 ATATATAAGTATGT
*
45312562 ATATATATGTATGT
1 ATATATAAGTATGT
45312576 ATATA
1 ATATA
45312581 AATAAGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (14 bp):
ATATATAAGTATGT
Found at i:45312974 original size:3 final size:3
Alignment explanation
Indices: 45312968--45313056 Score: 101
Period size: 3 Copynumber: 29.3 Consensus size: 3
45312958 TAATATTATC
* * *
45312968 AAT AAT AAT AGT AAT AAT AAA AAT ACT AAT AAT AAT GGAAGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT --AA-T AAT AAT
*
45313016 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AA- AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
45313057 TTTATTAATT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
2 4 0.05
3 65 0.88
4 2 0.03
5 2 0.03
6 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:45314419 original size:19 final size:19
Alignment explanation
Indices: 45314395--45314431 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
45314385 CTCTGTCGCC
45314395 GGATTAGGATTACGGAGTA
1 GGATTAGGATTACGGAGTA
45314414 GGATTAGGATTACGGAGT
1 GGATTAGGATTACGGAGT
45314432 GTTACAAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.38, T:0.27
Consensus pattern (19 bp):
GGATTAGGATTACGGAGTA
Found at i:45324417 original size:60 final size:60
Alignment explanation
Indices: 45324324--45324457 Score: 268
Period size: 60 Copynumber: 2.2 Consensus size: 60
45324314 CTATCTTTTT
45324324 CTTCTTATTATCGTGCCAAGTTGCTTCTAATACCCTAAACTCAGCAGTGGCCCATGTCAA
1 CTTCTTATTATCGTGCCAAGTTGCTTCTAATACCCTAAACTCAGCAGTGGCCCATGTCAA
45324384 CTTCTTATTATCGTGCCAAGTTGCTTCTAATACCCTAAACTCAGCAGTGGCCCATGTCAA
1 CTTCTTATTATCGTGCCAAGTTGCTTCTAATACCCTAAACTCAGCAGTGGCCCATGTCAA
45324444 CTTCTTATTATCGT
1 CTTCTTATTATCGT
45324458 TTTTAAATTT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 74 1.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (60 bp):
CTTCTTATTATCGTGCCAAGTTGCTTCTAATACCCTAAACTCAGCAGTGGCCCATGTCAA
Found at i:45328091 original size:31 final size:30
Alignment explanation
Indices: 45328060--45328117 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
45328050 CCACTCAACT
45328060 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
45328090 TTTTGCATAATTACATTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
45328118 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:45329394 original size:27 final size:27
Alignment explanation
Indices: 45329364--45329436 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
45329354 TGTCTTGAAT
45329364 TTGTTAGATATTGATTATGTTTTAAGC
1 TTGTTAGATATTGATTATGTTTTAAGC
*
45329391 TTGTTATATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTTAAGC
*
45329423 TTGTTGGATATTGA
1 TTGTTAGATATTGA
45329437 AATGATTGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
27 13 0.34
32 25 0.66
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.53
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTTAAGC
Found at i:45329416 original size:32 final size:32
Alignment explanation
Indices: 45329377--45329437 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
45329367 TTAGATATTG
*
45329377 ATTATGTTTTAAGCTTGTTATATATTGAATTT
1 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
*
45329409 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTAGATATTGAA
45329438 ATGATTGACA
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:0.28, C:0.03, G:0.16, T:0.52
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTAGATATTGAATTT
Found at i:45330635 original size:18 final size:18
Alignment explanation
Indices: 45330614--45330658 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
45330604 ACAATTTAAA
45330614 ATATAAATTTAATAATAT
1 ATATAAATTTAATAATAT
*
45330632 ATATGTAAATTTATTAATAT
1 ATA--TAAATTTAATAATAT
*
45330652 ATGTAAA
1 ATATAAA
45330659 AACAACTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 7 0.30
20 16 0.70
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (18 bp):
ATATAAATTTAATAATAT
Found at i:45330762 original size:19 final size:20
Alignment explanation
Indices: 45330738--45330779 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
45330728 TAAACACCAA
*
45330738 AAAAGTAAATTA-TTTCCAG
1 AAAAGTAAATCATTTTCCAG
45330757 AAAAGTAAATCATTTTCCAG
1 AAAAGTAAATCATTTTCCAG
45330777 AAA
1 AAA
45330780 TCATTTTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.29
Consensus pattern (20 bp):
AAAAGTAAATCATTTTCCAG
Found at i:45330782 original size:14 final size:14
Alignment explanation
Indices: 45330763--45330800 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
45330753 CCAGAAAAGT
45330763 AAATCATTTTCCAG
1 AAATCATTTTCCAG
45330777 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
45330791 AAAACATTTT
1 AAATCATTTT
45330801 ACTGGCAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:45344125 original size:17 final size:17
Alignment explanation
Indices: 45344103--45344138 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
45344093 CGATTGCATG
45344103 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
45344120 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
45344137 TT
1 TT
45344139 CCCTTTGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTCTATTGCTGTTTAT
Found at i:45344922 original size:23 final size:23
Alignment explanation
Indices: 45344879--45344974 Score: 142
Period size: 23 Copynumber: 4.2 Consensus size: 23
45344869 TTGTTTTGAT
45344879 ATTGTTCTTGATTTGT-T-CTGGAA
1 ATTGTT-TTGA-TTGTCTGCTGGAA
45344902 ATTGTTTTGATTGTCTGCTGGAA
1 ATTGTTTTGATTGTCTGCTGGAA
* *
45344925 ATTGTTATGATTGTCTACTGGAA
1 ATTGTTTTGATTGTCTGCTGGAA
45344948 ATTGTTTTGATTGTCTGCTGGAA
1 ATTGTTTTGATTGTCTGCTGGAA
45344971 ATTG
1 ATTG
45344975 AATTTGTTTA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
21 4 0.06
22 5 0.07
23 58 0.87
ACGTcount: A:0.20, C:0.08, G:0.24, T:0.48
Consensus pattern (23 bp):
ATTGTTTTGATTGTCTGCTGGAA
Found at i:45346204 original size:25 final size:25
Alignment explanation
Indices: 45346170--45346372 Score: 199
Period size: 25 Copynumber: 8.3 Consensus size: 25
45346160 TACATCAATA
*
45346170 ATTAAAATAAGGACTTTAATATTTC
1 ATTAAAATAAGGACTTTAATATTTT
* *
45346195 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
45346218 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
45346243 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
*
45346266 ATTAAATTAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
45346291 ATTAAAATAAGGAC--TAATCAATAT
1 ATTAAAATAAGGACTTTAAT-ATTTT
45346315 -TTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
45346339 ATTAAAAATCAAGAAATTTAATATTTT
1 ATT-AAAAT-AAGGACTTTAATATTTT
*
45346366 AATAAAA
1 ATTAAAA
45346373 AAAATTAAAT
Statistics
Matches: 147, Mismatches: 17, Indels: 27
0.77 0.09 0.14
Matches are distributed among these distances:
23 54 0.37
24 10 0.07
25 57 0.39
26 9 0.06
27 17 0.12
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.37
Consensus pattern (25 bp):
ATTAAAATAAGGACTTTAATATTTT
Found at i:45346218 original size:48 final size:48
Alignment explanation
Indices: 45346163--45346345 Score: 339
Period size: 48 Copynumber: 3.8 Consensus size: 48
45346153 AAATAATTAC
*
45346163 ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
45346211 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
45346259 ATCAATAATTAAATTAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
45346307 ATCAATATTTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
45346346 ATCAAGAAAT
Statistics
Matches: 131, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 131 1.00
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.37
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:45346382 original size:27 final size:27
Alignment explanation
Indices: 45346328--45346386 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
45346318 AAATAAGGAC
* *
45346328 TTTAATATTTTATTAAAAATCAAGAAA
1 TTTAATATTTTAATAAAAATAAAGAAA
*
45346355 TTTAATATTTTAATAAAAA-AAATTAAA
1 TTTAATATTTTAATAAAAATAAA-GAAA
45346382 TTTAA
1 TTTAA
45346387 AATGTGGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (27 bp):
TTTAATATTTTAATAAAAATAAAGAAA
Found at i:45350109 original size:92 final size:91
Alignment explanation
Indices: 45349952--45350160 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
45349942 TTGATTTTAG
* * *
45349952 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
45350017 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
45350044 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
45350108 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
45350136 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
45350161 GTTACAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:45350123 original size:24 final size:25
Alignment explanation
Indices: 45350088--45350135 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
45350078 TTATGAAATT
45350088 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
45350112 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
45350136 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:45350289 original size:66 final size:63
Alignment explanation
Indices: 45350214--45350544 Score: 247
Period size: 66 Copynumber: 5.4 Consensus size: 63
45350204 AAATATATTT
45350214 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
45350279 G
63 G
* * * * **
45350280 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
45350334 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
45350398 AG
62 AG
* * * * **
45350400 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
45350454 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
45350518 AG
62 AG
*
45350520 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
45350545 AAATTATATA
Statistics
Matches: 203, Mismatches: 29, Indels: 67
0.68 0.10 0.22
Matches are distributed among these distances:
53 10 0.05
54 26 0.13
55 10 0.05
56 8 0.04
57 6 0.03
58 2 0.01
59 20 0.10
60 16 0.08
61 20 0.10
62 2 0.01
63 6 0.03
64 8 0.04
65 14 0.07
66 45 0.22
67 10 0.05
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:45350314 original size:120 final size:120
Alignment explanation
Indices: 45350176--45350588 Score: 742
Period size: 120 Copynumber: 3.4 Consensus size: 120
45350166 AATTATTTTA
* * *
45350176 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
*
45350238 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
45350296 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
45350361 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
45350416 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
45350481 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
45350536 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
45350589 TAAATATGAT
Statistics
Matches: 286, Mismatches: 4, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
119 6 0.02
120 278 0.97
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:45350336 original size:15 final size:15
Alignment explanation
Indices: 45350301--45350352 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
45350291 TTAAGAATTT
*
45350301 TATTAAATTAT-ATA
1 TATTTAATTATAATA
45350315 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
45350329 TATTTAATAATAAT-
1 TATTTAATTATAATA
45350343 TATGTTAATT
1 TAT-TTAATT
45350353 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:45350456 original size:15 final size:15
Alignment explanation
Indices: 45350421--45350472 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
45350411 TTAAGAATTT
*
45350421 TATTAAATTAT-ATA
1 TATTTAATTATAATA
45350435 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
45350449 TATTTAATAATAAT-
1 TATTTAATTATAATA
45350463 TATGTTAATT
1 TAT-TTAATT
45350473 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:45350571 original size:16 final size:16
Alignment explanation
Indices: 45350550--45350591 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
45350540 TTATTAAATT
*
45350550 ATATATTTTAATTATA
1 ATATATTTTAATAATA
45350566 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
45350581 AT-TATGTTTAA
1 ATATAT-TTTAA
45350592 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:45350576 original size:15 final size:15
Alignment explanation
Indices: 45350541--45350582 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45350531 TTAAGAATTT
*
45350541 TATTAAATTAT-ATA
1 TATTTAATTATAATA
45350555 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
45350569 TATTTAATAATAAT
1 TATTTAATTATAAT
45350583 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:45350704 original size:157 final size:157
Alignment explanation
Indices: 45350525--45350841 Score: 580
Period size: 157 Copynumber: 2.0 Consensus size: 157
45350515 ATAAGAATAT
* *
45350525 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAAGTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
45350590 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
45350655 TAATAATCTACCAAAACAAATTTCTGC
131 TAATAATCTACCAAAACAAATTTATGC
45350682 TAATTATTAAGAAGTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAAGTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
45350747 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
* *
45350812 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATCTACCAAAACAAATTTATGC
45350839 TAA
1 TAA
45350842 GGGTATTCTA
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAAGTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATCTACCAAAACAAATTTATGC
Found at i:45351011 original size:16 final size:16
Alignment explanation
Indices: 45350964--45351014 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
45350954 GATTTGCTAT
* *
45350964 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
45350980 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45350996 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45351012 TAC
1 TAC
45351015 TGCGAACCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:45354076 original size:94 final size:94
Alignment explanation
Indices: 45353942--45354172 Score: 282
Period size: 94 Copynumber: 2.5 Consensus size: 94
45353932 TTAGTGTCAC
* * * **
45353942 AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGTTGTTGTAGTTTCCTTCCGACC
1 AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGTTTCAATCCGACC
* * * *
45354007 CACTACAACTTTAGGGGTATATGATTTGT
66 CACTACAACTTAAGAGGTATAGGATTTAT
* * *
45354036 AGTTTCATCTTACTCTATTGCAACTTCAAGGAGATAAGATTTACTATGGTAGTTTCAATCCGACC
1 AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGTTTCAATCCGACC
* * *
45354101 CACTGCAAGTTAAGAGGTATAGGGTTTAT
66 CACTACAACTTAAGAGGTATAGGATTTAT
* * * * *
45354130 AGCTTCATCTTGCTCCAATGCATCTTTAGGGAGATAAGATTTG
1 AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTG
45354173 ATATTATAAC
Statistics
Matches: 114, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
94 114 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (94 bp):
AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGTTTCAATCCGACC
CACTACAACTTAAGAGGTATAGGATTTAT
Found at i:45354211 original size:50 final size:51
Alignment explanation
Indices: 45354142--45354312 Score: 132
Period size: 44 Copynumber: 3.6 Consensus size: 51
45354132 CTTCATCTTG
* * *
45354142 CTCCAATGCATCTTTAGGGAGATAAGATTTGATATTATAACTTTGATTTGA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGATATTATAACTTTGATTTGA
* * * *
45354193 -TCCATTGCAACTTCAGGGATAT-AG----GAT-TTATAGC-TTCATCTT-A
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGATATTATAACTTTGAT-TTGA
* * * *
45354236 CTCCACTACATCTTCAGAGAGATAAGATTTGATATTATAATTTTGA---GA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGATATTATAACTTTGATTTGA
* *
45354284 TTCCACTGCAACTTCAGGGACATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
45354313 CGCCATTCTA
Statistics
Matches: 91, Mismatches: 19, Indels: 23
0.68 0.14 0.17
Matches are distributed among these distances:
43 5 0.05
44 25 0.27
45 5 0.05
48 25 0.27
49 5 0.05
50 23 0.25
51 3 0.03
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (51 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGATATTATAACTTTGATTTGA
Found at i:45354223 original size:94 final size:92
Alignment explanation
Indices: 45354100--45354312 Score: 268
Period size: 94 Copynumber: 2.3 Consensus size: 92
45354090 TCAATCCGAC
* * * * * * *
45354100 CCACTGCAAGTTAAGAGG-TATAGGGTTTATAGCTTCATCTTGCTCCAATGCATCTTTAGGGAGA
1 CCACTGCAACTTCAG-GGATATAGGATTTATAGCTTCATCTTACTCCAATACATCTTCAGAGAGA
45354164 TAAGATTTGATATTATAACTTTGATTTGA-T
65 TAAGATTTGATATTATAACTTTGA---GATT
* *
45354194 CCATTGCAACTTCAGGGATATAGGATTTATAGCTTCATCTTACTCCACTACATCTTCAGAGAGAT
1 CCACTGCAACTTCAGGGATATAGGATTTATAGCTTCATCTTACTCCAATACATCTTCAGAGAGAT
*
45354259 AAGATTTGATATTATAATTTTGAGATT
66 AAGATTTGATATTATAACTTTGAGATT
* *
45354286 CCACTGCAACTTCAGGGACATAAGATT
1 CCACTGCAACTTCAGGGATATAGGATT
45354313 CGCCATTCTA
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
91 2 0.02
92 25 0.24
93 2 0.02
94 75 0.72
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (92 bp):
CCACTGCAACTTCAGGGATATAGGATTTATAGCTTCATCTTACTCCAATACATCTTCAGAGAGAT
AAGATTTGATATTATAACTTTGAGATT
Found at i:45354568 original size:44 final size:44
Alignment explanation
Indices: 45354496--45354931 Score: 206
Period size: 44 Copynumber: 9.4 Consensus size: 44
45354486 AGATTCGCCA
* *
45354496 TTGTAGATTCAATCTGACCCACTACAACTTCAGGGGTATAGGAT
1 TTGTAGCTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGAT
* *
45354540 TTGTAGCTTCAATCTG-CTCCATTGCAACTTCAGGGAG-ATAAGAT
1 TTGTAGCTTCAATCTGAC-CCACTGCAACTTCAGGG-GTATAGGAT
* *
45354584 TCGCAATGGTAACTTCAATTTGACCCACTGCAACTTCAGGGGTATAGGAT
1 T-----T-GTAGCTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGAT
* * * *
45354634 TTGTAGCTTCAATCT-ACTCTACTGCAACTTCAGGGAAATAATATTTGCT
1 TTGTAGCTTCAATCTGAC-CCACTGCAACTTCAGGG--GT-ATA--GGAT
* * * * * *
45354683 ATGGTAGATTTAAT-TTATCCCACTGTAACTTCAAGGGTATAGGAT
1 -TTGTAGCTTCAATCTGA-CCCACTGCAACTTCAGGGGTATAGGAT
* * * *
45354728 TTATGGCTTCAATCTG-CTCCACTGCAACTTTAGGGAGT-TAAGATT
1 TTGTAGCTTCAATCTGAC-CCACTGCAACTTCAGGG-GTATAGGA-T
* * * * *
45354773 CGCTATGGTAGATTTAAT-TCGACCCACTGTAACTTTAGGGGTATATGAT
1 ---T-T-GTAGCTTCAATCT-GACCCACTGCAACTTCAGGGGTATAGGAT
* * * *
45354822 TTTTAGCTTCAATCTG-CTCCACTACAACTTCAAGGAG-ATAAGATTCCT
1 TTGTAGCTTCAATCTGAC-CCACTGCAACTTC-AGGGGTATAGGA----T
* * * *
45354870 TATAGTAGATTCAATCCGACCTACTGCAACTTCAGGGATATAGGAT
1 T-T-GTAGCTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGAT
*
45354916 TTGTAGCTTTAATCTG
1 TTGTAGCTTCAATCTG
45354932 CTTTACTGCA
Statistics
Matches: 292, Mismatches: 58, Indels: 84
0.67 0.13 0.19
Matches are distributed among these distances:
43 5 0.02
44 125 0.43
45 15 0.05
46 4 0.01
47 6 0.02
48 4 0.01
49 14 0.05
50 115 0.39
51 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (44 bp):
TTGTAGCTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGAT
Done.