Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 129 of 378
Found at i:36244224 original size:41 final size:42
Alignment explanation
Indices: 36244166--36244286 Score: 129
Period size: 41 Copynumber: 2.8 Consensus size: 42
36244156 TCACATAACG
* *
36244166 ATGCCACTGTCCCAGACAGGGTCTTACACAAATCAAATA-CA
1 ATGCCAATGTCCCAGACAGGGTCTTACACAAATCAAAAATCA
* * * *
36244207 ATGTCGATGTCCCAGACATGGTCTTACACGTAAATCAAAAATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACAC--AAATCAAAAATCA
*
36244251 ATGCCAATGTCCCAGAC-GTAGTCTTACACATAATCA
1 ATGCCAATGTCCCAGACAG-GGTCTTACACA-AATCA
36244287 CATATCGGAA
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
41 25 0.38
42 1 0.02
43 14 0.22
44 25 0.38
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACAAATCAAAAATCA
Found at i:36244263 original size:85 final size:85
Alignment explanation
Indices: 36244131--36244286 Score: 210
Period size: 85 Copynumber: 1.8 Consensus size: 85
36244121 CAATGCCAAC
* * * * * *
36244131 GTCCTAGACATGGTCTTCCATGTAATCACATAACGATGCCACTGTCCCAGACAG-GGTCTTACAC
1 GTCCCAGACATGGTCTTACACGTAATCACAAAACGATGCCAATGTCCCAGAC-GTAGTCTTACAC
36244195 A-AATCAAATACAATGTCGAT
65 ATAATCAAATACAATGTCGAT
36244215 GTCCCAGACATGGTCTTACACGTAAATCA-AAAATCGATGCCAATGTCCCAGACGTAGTCTTACA
1 GTCCCAGACATGGTCTTACACGT-AATCACAAAA-CGATGCCAATGTCCCAGACGTAGTCTTACA
36244279 CATAATCA
64 CATAATCA
36244287 CATATCGGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
84 24 0.39
85 33 0.53
86 5 0.08
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.24
Consensus pattern (85 bp):
GTCCCAGACATGGTCTTACACGTAATCACAAAACGATGCCAATGTCCCAGACGTAGTCTTACACA
TAATCAAATACAATGTCGAT
Found at i:36244266 original size:44 final size:43
Alignment explanation
Indices: 36244123--36244279 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 43
36244113 AGCTTGTACA
* * * * *
36244123 ATGCCAACGTCCTAGACATGGTCTTCCATGT-AATCACATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCA-AAAACG
* * * *
36244166 ATGCCACTGTCCCAGACAGGGTCTTACAC--AAATCAAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAAAACG
* *
36244207 ATGTCGATGTCCCAGACATGGTCTTACACGTAAATCAAAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAAAA-CG
* *
36244251 ATGCCAATGTCCCAGACGTAGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
36244280 ATAATCACAT
Statistics
Matches: 91, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
41 28 0.31
42 5 0.05
43 32 0.35
44 26 0.29
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAAAACG
Found at i:36244305 original size:44 final size:44
Alignment explanation
Indices: 36244164--36244283 Score: 129
Period size: 44 Copynumber: 2.8 Consensus size: 44
36244154 AATCACATAA
* ** *
36244164 CGATGCCACTGTCCCAGACAGGGTCTTACAC--AAATCAAATA-
1 CGATGCCAATGTCCCAGACATAGTCTTACACATAAATCAAAAAT
* * * * *
36244205 CAATGTCGATGTCCCAGACATGGTCTTACACGTAAATCAAAAAT
1 CGATGCCAATGTCCCAGACATAGTCTTACACATAAATCAAAAAT
*
36244249 CGATGCCAATGTCCCAGACGTAGTCTTACACATAA
1 CGATGCCAATGTCCCAGACATAGTCTTACACATAA
36244284 TCACATATCG
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
41 26 0.41
43 9 0.14
44 29 0.45
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (44 bp):
CGATGCCAATGTCCCAGACATAGTCTTACACATAAATCAAAAAT
Found at i:36250888 original size:20 final size:20
Alignment explanation
Indices: 36250863--36250901 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
36250853 AAGATATGTG
*
36250863 TTTATATAGATGAACTACTA
1 TTTATACAGATGAACTACTA
*
36250883 TTTATACGGATGAACTACT
1 TTTATACAGATGAACTACT
36250902 GGTTATATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (20 bp):
TTTATACAGATGAACTACTA
Found at i:36250907 original size:20 final size:20
Alignment explanation
Indices: 36250871--36250930 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
36250861 TGTTTATATA
*
36250871 GATGAACTACTATTTATACG
1 GATGAACTACTAGTTATACG
* *
36250891 GATGAACTACTGGTTATATG
1 GATGAACTACTAGTTATACG
* *
36250911 AATGAATTA-TAGTTTATACG
1 GATGAACTACTAG-TTATACG
36250931 AATAGAAATG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (20 bp):
GATGAACTACTAGTTATACG
Found at i:36252876 original size:40 final size:39
Alignment explanation
Indices: 36252793--36253021 Score: 214
Period size: 40 Copynumber: 5.8 Consensus size: 39
36252783 TTGAATGATG
* ** * *
36252793 TCCGGGCTAAGTCCCGAAGGC-TTTGTGTTAAGTGACTATA
1 TCCGGGCTAAG-CCCGAAGGCATTCGTG-CGAGTTACTAAA
* * * *
36252833 TCCGGACTAAGATCCGAAGGCGTTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-CCCGAAGGCATTCGTGCGAGTTACTAAA
*
36252873 TCCGGGCTAAGCCCGAAGGCATTTGT-CGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
36252911 T-CGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
36252949 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA
1 TCCGGGCTAAG-CCCGAAGGCATTCGTGCGAGTTACTA-AA
** * *
36252990 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAG-CCCGAAGGCATTCGTGCGAGT
36253022 CGTTATATCC
Statistics
Matches: 161, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
37 24 0.15
38 24 0.15
39 20 0.12
40 86 0.53
41 7 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:36260961 original size:39 final size:40
Alignment explanation
Indices: 36260853--36261083 Score: 233
Period size: 40 Copynumber: 5.8 Consensus size: 40
36260843 TTGAATGATG
* ** * *
36260853 TCCGGGCTAAGTCCCGAAGGC-TTTGTGTTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCAGTTGTG-CGAGTTACTAAA
* * *
36260893 TCCGGACCAAGAT-CCGAAGGC-GTTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCAGTT-GTGCGAGTTACTAAA
36260933 TCCGGGCTAAG-CCCGAAGGCAGTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCAGTTGTGCGAGTTACTAAA
*
36260972 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCAGTTGTGCGAGTTACTAAA
* *
36261011 CCCGGGTTAAGTCCCGAAGGCA-TTCGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCAGTT-GTGCGAGTTACTA-AA
** * *
36261052 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCAGTTGTGCGAGT
36261084 CGTTATATCC
Statistics
Matches: 165, Mismatches: 18, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
39 71 0.43
40 86 0.52
41 8 0.05
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCAGTTGTGCGAGTTACTAAA
Found at i:36261030 original size:79 final size:79
Alignment explanation
Indices: 36260854--36261083 Score: 236
Period size: 79 Copynumber: 2.9 Consensus size: 79
36260844 TGAATGATGT
* ** * * * * *
36260854 CCGGGCTAAGTCCCGAAGGC-TTTGTGTTAAGTGACTATATCCGGACCAAGAT-CCGAAGGCGTT
1 CCGGGCTAAG-CCCGAAGGCATTCGTG-CGAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATT
* *
36260917 CGTGCGAGTTAATAAAT
63 TGTGCGAGTTAATAAAC
36260934 CCGGGCTAAGCCCGAAGGCAGTT-GTGCGAGTTACTA-AATCCGGGCTAAG-CCCGAAGGCATTT
1 CCGGGCTAAGCCCGAAGGCA-TTCGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTT
*
36260996 GTGCGAGTTACTAAAC
64 GTGCGAGTTAATAAAC
* **
36261012 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAACCGGGCTTTGTCCCGAAGGCATTTG
1 CCGGGCTAAG-CCCGAAGGCATTCGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
*
36261077 AGCGAGT
65 TGCGAGT
36261084 CGTTATATCC
Statistics
Matches: 128, Mismatches: 14, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
78 36 0.28
79 55 0.43
80 35 0.27
81 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.23
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTCGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGTTAATAAAC
Found at i:36261099 original size:79 final size:79
Alignment explanation
Indices: 36260906--36261084 Score: 211
Period size: 78 Copynumber: 2.3 Consensus size: 79
36260896 GGACCAAGAT
* * * * * * *
36260906 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGCTAAG-CCCGAAGGCAGTTGTGCGAGTTACTA
1 CCGAAGGCATTTGAGCGAGTCACTAAACCCGGGTTAAGTCCCGAAGGCAGTTGTGCGAGTTACTA
36260970 AATCCGGGCTAAGC
66 AATCCGGGCTAAGC
* *
36260984 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTCCCGAAGGCA-TTCGTGCGAGTTACT
1 CCGAAGGCATTTGAGCGAGTCACTAAACCCGGGTTAAGTCCCGAAGGCAGTT-GTGCGAGTTACT
**
36261048 ATAA-CCGGGCTTTGTC
65 A-AATCCGGGCTAAG-C
36261064 CCGAAGGCATTTGAGCGAGTC
1 CCGAAGGCATTTGAGCGAGTC
36261085 GTTATATCCG
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
78 35 0.40
79 31 0.35
80 22 0.25
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
CCGAAGGCATTTGAGCGAGTCACTAAACCCGGGTTAAGTCCCGAAGGCAGTTGTGCGAGTTACTA
AATCCGGGCTAAGC
Found at i:36277847 original size:54 final size:54
Alignment explanation
Indices: 36277783--36277949 Score: 221
Period size: 55 Copynumber: 3.1 Consensus size: 54
36277773 TTGGTAAGAT
* * * *
36277783 AAGGATATCATGTAACACCATGCCAAGGCATGACATTGATAAGTTCTATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* *
36277837 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGC
** *
36277892 AAAGG-ACCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
36277945 AAGGA
1 AAGGA
36277950 TACCACGTAA
Statistics
Matches: 99, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
52 4 0.04
53 7 0.07
54 40 0.40
55 44 0.44
56 4 0.04
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
Found at i:36277905 original size:55 final size:53
Alignment explanation
Indices: 36277791--36277979 Score: 209
Period size: 55 Copynumber: 3.5 Consensus size: 53
36277781 ATAAGGATAT
* * * * *
36277791 CATGTAACACCATGCCAAGGCATGACATTGATAAGTTCTATAAGGCAAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGG-AAC
* *
36277845 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGACC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC-AAGGAAC
* *
36277900 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGA-AC
* * * * *
36277953 CACGTAAGAACGTGTCAAAACATGGCA
1 CATGTAAGACCATGCCAAGACATGGCA
36277980 ATGGTAAGTT
Statistics
Matches: 115, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 5 0.04
53 29 0.25
54 33 0.29
55 44 0.38
56 4 0.03
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (53 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGAAC
Found at i:36278112 original size:16 final size:17
Alignment explanation
Indices: 36278093--36278125 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
36278083 CTTATTTATT
36278093 ATTGAGATTAT-AAGTA
1 ATTGAGATTATCAAGTA
36278109 ATTGAGATTATCAAGTA
1 ATTGAGATTATCAAGTA
36278126 TTAAGTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.36
Consensus pattern (17 bp):
ATTGAGATTATCAAGTA
Found at i:36283137 original size:29 final size:29
Alignment explanation
Indices: 36283104--36283235 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
36283094 GTGACGAGAT
*
36283104 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
36283133 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
36283162 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
36283191 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
36283220 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
36283236 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:36291020 original size:29 final size:29
Alignment explanation
Indices: 36290987--36291060 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
36290977 GTGACGAGAT
36290987 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
36291016 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
36291045 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
36291061 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:36291076 original size:29 final size:29
Alignment explanation
Indices: 36291044--36291121 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 29
36291034 CTGGAAATAT
* *
36291044 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
* * * *
36291073 ATGGCACTATGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTA--AGTGTGCGAGCTCAAAGCGC
36291104 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
36291122 AATCGAGTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
29 16 0.41
31 23 0.59
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.23
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:36298995 original size:29 final size:29
Alignment explanation
Indices: 36298953--36299026 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
36298943 GGTGCGAGAT
36298953 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
36298982 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
36299011 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
36299027 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:36299918 original size:17 final size:16
Alignment explanation
Indices: 36299896--36299929 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
36299886 AAATCACTAA
36299896 AAATAGTAAGTAGAATT
1 AAATAGTAAGTA-AATT
*
36299913 AAATAGTGAGTAAATT
1 AAATAGTAAGTAAATT
36299929 A
1 A
36299930 TGGAACTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (16 bp):
AAATAGTAAGTAAATT
Found at i:36306851 original size:29 final size:29
Alignment explanation
Indices: 36306819--36306896 Score: 75
Period size: 31 Copynumber: 2.6 Consensus size: 29
36306809 CTGGAAATAT
* *
36306819 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
36306848 ATGGCACTCTGTGTGTGCGGGCTTAAATCGC
1 ATGGCA--CTAAGTGTGCGAGCTCAAAGCGC
36306879 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
36306897 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
29 15 0.41
31 22 0.59
ACGTcount: A:0.22, C:0.21, G:0.35, T:0.23
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:36309529 original size:29 final size:29
Alignment explanation
Indices: 36309487--36309551 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
36309477 CGGGTGTTAC
*
36309487 AGTGTGCATGCTGGAAAAATATGGCACTG
1 AGTGTGCATGCTGGAAAAATATGGCACTA
*
36309516 AGTGTGCATGCTGGAAATATATGGCACTA
1 AGTGTGCATGCTGGAAAAATATGGCACTA
36309545 AGTGTGC
1 AGTGTGC
36309552 GAGCTCGAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (29 bp):
AGTGTGCATGCTGGAAAAATATGGCACTA
Found at i:36317365 original size:57 final size:58
Alignment explanation
Indices: 36317257--36317386 Score: 244
Period size: 57 Copynumber: 2.3 Consensus size: 58
36317247 GTGACGAGAT
36317257 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATA
*
36317315 TGGCACTAAGTGTGCATGCTGGAAA-ATATGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATA
36317372 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
36317387 GAGCTCGAAG
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
57 46 0.65
58 25 0.35
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (58 bp):
TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:36317407 original size:29 final size:29
Alignment explanation
Indices: 36317257--36317386 Score: 244
Period size: 29 Copynumber: 4.5 Consensus size: 29
36317247 GTGACGAGAT
36317257 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
36317286 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
36317315 TGGCACTAAGTGTGCATGCTGGAAA-ATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
36317343 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
36317372 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
36317387 GAGCTCGAAG
Statistics
Matches: 98, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
28 27 0.28
29 71 0.72
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:36320574 original size:11 final size:11
Alignment explanation
Indices: 36320560--36320615 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
36320550 AGATAAATAT
36320560 TATTTTATTAA
1 TATTTTATTAA
*
36320571 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
36320584 TATTTTATTAT
1 TATTTTATTAA
**
36320595 TATTTTATTGT
1 TATTTTATTAA
36320606 TATTTTATTA
1 TATTTTATTA
36320616 GTATATAAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
11 25 0.66
12 6 0.16
13 7 0.18
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:36322450 original size:46 final size:46
Alignment explanation
Indices: 36322398--36322671 Score: 361
Period size: 46 Copynumber: 6.0 Consensus size: 46
36322388 GCTCTCTGAA
** * *
36322398 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCTACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
36322444 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
36322490 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
36322536 ATGAAATGAATAAGACCATGCTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
36322582 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * * *
36322628 A-GAAAATGAGTAAGACCGTAGTTGAAAGACACAATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
36322672 TCAAAGATAA
Statistics
Matches: 205, Mismatches: 22, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 204 1.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:36333896 original size:40 final size:40
Alignment explanation
Indices: 36333753--36333966 Score: 282
Period size: 39 Copynumber: 5.5 Consensus size: 40
36333743 CGGATGATAA
* *
36333753 CCGGGCTAAGTCCCGAAGG-ATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
36333792 CCGGGCTAAG-CCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
36333831 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
36333870 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
36333910 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
36333950 CC-GGCTAAAT-CCGAAGG
1 CCGGGCTAAGTCCCGAAGG
36333967 TACTTGGTTT
Statistics
Matches: 165, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
38 15 0.09
39 84 0.51
40 66 0.40
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:36340911 original size:40 final size:40
Alignment explanation
Indices: 36340854--36341069 Score: 262
Period size: 40 Copynumber: 5.4 Consensus size: 40
36340844 GATGATAACT
*
36340854 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCC
* * *
36340894 GGGCTAAGCCCCAAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCC
* *
36340934 AGGCTAAG-CCCTGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCC-GAAGGCATTTGTGCGAGTGACTATATCC
* * *
36340974 GGGCTACGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCC
*
36341014 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATATCC
*
36341054 -GGCTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
36341070 TACTTGGTTT
Statistics
Matches: 159, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
39 19 0.12
40 136 0.86
41 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCC
Found at i:36345205 original size:14 final size:15
Alignment explanation
Indices: 36345178--36345207 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
36345168 CTGCATGATG
36345178 TTTCTTCTTCCTCCT
1 TTTCTTCTTCCTCCT
36345193 TTTCTTC-TCCTCCT
1 TTTCTTCTTCCTCCT
36345207 T
1 T
36345208 CTTTCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTCTTCTTCCTCCT
Found at i:36345532 original size:21 final size:21
Alignment explanation
Indices: 36345506--36345559 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
36345496 TTTTCATTTT
** *
36345506 CAACAACTTTTTCTTCTTCAG
1 CAACAACTTCCTCTTCTACAG
36345527 CAACAACTTCCTCTTCTACAG
1 CAACAACTTCCTCTTCTACAG
*
36345548 CAGCAACTTCCT
1 CAACAACTTCCT
36345560 TCTCAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.35, G:0.06, T:0.33
Consensus pattern (21 bp):
CAACAACTTCCTCTTCTACAG
Found at i:36351403 original size:15 final size:15
Alignment explanation
Indices: 36351380--36351410 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
36351370 TCAAAAATTC
36351380 CAATACAAAACATAT
1 CAATACAAAACATAT
*
36351395 CAATCCAAAACATAT
1 CAATACAAAACATAT
36351410 C
1 C
36351411 TTTTATTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:36354771 original size:28 final size:27
Alignment explanation
Indices: 36354683--36354797 Score: 142
Period size: 27 Copynumber: 4.2 Consensus size: 27
36354673 TAAGTTGTAA
* *
36354683 AATTACAGAAATACCAC-TGTAGGATAG
1 AATTACCGAAATACC-CTTGTAGGGTAG
36354710 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
36354737 AAATACCGAAATACCCCATGTAGGGTAG
1 AATTACCGAAATA-CCCTTGTAGGGTAG
* * *
36354765 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
36354792 AATTAC
1 AATTAC
36354798 TATTTTGCCC
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 52 0.68
28 24 0.31
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.23
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:36354773 original size:55 final size:53
Alignment explanation
Indices: 36354679--36354794 Score: 160
Period size: 55 Copynumber: 2.1 Consensus size: 53
36354669 TGGATAAGTT
*
36354679 GTAAAATTACAGAAATACCACTGTAGGATAGAATTACCGAAATACCCTTGTAGG
1 GTAAAA-TACCGAAATACCACTGTAGGATAGAATTACCGAAATACCCTTGTAGG
* * * *
36354733 GTAGAAATACCGAAATACCCCATGTAGGGTAGAATTACCGAGATACCCTTGTGGG
1 GTA-AAATACCGAAATACCAC-TGTAGGATAGAATTACCGAAATACCCTTGTAGG
36354788 GTAAAAT
1 GTAAAAT
36354795 TACTATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
54 19 0.35
55 36 0.65
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (53 bp):
GTAAAATACCGAAATACCACTGTAGGATAGAATTACCGAAATACCCTTGTAGG
Found at i:36362163 original size:27 final size:26
Alignment explanation
Indices: 36362124--36362242 Score: 148
Period size: 27 Copynumber: 4.4 Consensus size: 26
36362114 TGGATAAGTT
36362124 GTAGAATTACCGAAATATCCCTGTAGG
1 GTAGAATTACCGAAATA-CCCTGTAGG
*
36362151 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCC-TGTAGG
* *
36362178 GTGGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATA-CCCTGTAGG
* *
36362205 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCC-TGTAGG
*
36362232 GTAAAATTACC
1 GTAGAATTACC
36362243 ATTTTGCCCC
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
26 6 0.08
27 71 0.89
28 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (26 bp):
GTAGAATTACCGAAATACCCTGTAGG
Found at i:36362200 original size:54 final size:54
Alignment explanation
Indices: 36362131--36362233 Score: 170
Period size: 54 Copynumber: 1.9 Consensus size: 54
36362121 GTTGTAGAAT
*
36362131 TACCGAAATATCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTGGAAA
1 TACCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTGGAAA
* * *
36362185 TACCGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGT
1 TACCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGGGT
36362234 AAAATTACCA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (54 bp):
TACCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTGGAAA
Found at i:36362938 original size:27 final size:26
Alignment explanation
Indices: 36362894--36362945 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
36362884 CTCGCTGCAA
*
36362894 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
36362921 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
36362946 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:36362983 original size:2 final size:2
Alignment explanation
Indices: 36362976--36363001 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36362966 TGGCTTTGCC
36362976 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
36363002 CTGTTCTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36367020 original size:40 final size:40
Alignment explanation
Indices: 36366951--36367132 Score: 258
Period size: 40 Copynumber: 4.6 Consensus size: 40
36366941 AAACCAAGTA
* * * *
36366951 CCTTCGGGATTTAG-CCGGATATCGCAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
36366990 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
36367030 CCTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
36367070 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
36367110 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
36367133 CATCCGAATA
Statistics
Matches: 126, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 12 0.10
40 114 0.90
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:36378057 original size:40 final size:40
Alignment explanation
Indices: 36377991--36378157 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
36377981 AAATTGAATG
* * *
36377991 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
36378030 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
36378070 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
36378110 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
36378150 ATATCCGG
1 ATATCCGG
36378158 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:36386058 original size:40 final size:40
Alignment explanation
Indices: 36385992--36386158 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
36385982 AAATTGAATG
* * *
36385992 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
36386031 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
36386071 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
36386111 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
36386151 ATATCCGG
1 ATATCCGG
36386159 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:36408323 original size:8 final size:8
Alignment explanation
Indices: 36408310--36408337 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
36408300 GGGATTTATT
36408310 TGTGAAAA
1 TGTGAAAA
36408318 TGTGAAAA
1 TGTGAAAA
36408326 TGTGAAAA
1 TGTGAAAA
36408334 TGTG
1 TGTG
36408338 TGGTTAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (8 bp):
TGTGAAAA
Found at i:36411988 original size:42 final size:42
Alignment explanation
Indices: 36411897--36411996 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
36411887 CATGGGATCA
*
36411897 CACATATCGATGCCGATAGCCCAGCTATGGTCTTACACAATGT
1 CACATATCGATGCC-ATAGCCCAGCTATGGTCTTACACAATAT
*
36411940 CTCATATCGATGCCAT-GTCCCAGAC-ATGGTCTTACACGAA-AT
1 CACATATCGATGCCATAG-CCCAG-CTATGGTCTTACAC-AATAT
*
36411982 CACATATCAATGCCA
1 CACATATCGATGCCA
36411997 ATGACATATC
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
41 1 0.02
42 33 0.66
43 16 0.32
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (42 bp):
CACATATCGATGCCATAGCCCAGCTATGGTCTTACACAATAT
Found at i:36412036 original size:48 final size:48
Alignment explanation
Indices: 36411957--36412083 Score: 173
Period size: 48 Copynumber: 2.6 Consensus size: 48
36411947 CGATGCCATG
* ** *
36411957 TCCCAGACATGGTCTTACACGAAATCACATATCAATGCCAATGACATA
1 TCCCAGACATGGTCTTACATGGGATCTCATATCAATGCCAATGACATA
* * * * *
36412005 TCCTAGATATGGTCTTACATGGGATCTCATATCGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGATCTCATATCAATGCCAATGACATA
36412053 TCCCAGACATGGTCTTACATGGGATCTCATA
1 TCCCAGACATGGTCTTACATGGGATCTCATA
36412084 CAACCCTAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 68 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (48 bp):
TCCCAGACATGGTCTTACATGGGATCTCATATCAATGCCAATGACATA
Found at i:36414610 original size:24 final size:24
Alignment explanation
Indices: 36414346--36414606 Score: 486
Period size: 24 Copynumber: 10.9 Consensus size: 24
36414336 ACAAAGACCA
*
36414346 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
36414370 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
36414394 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
*
36414418 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
*
36414442 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
36414466 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
36414490 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
36414514 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
36414538 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
*
36414562 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
36414586 TATGGCACTATGTGTGCGATT
1 TATGGCACTATGTGTGCGATT
36414607 TACTCAAGCA
Statistics
Matches: 233, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 233 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTCAC
Found at i:36415805 original size:24 final size:24
Alignment explanation
Indices: 36415537--36415803 Score: 471
Period size: 24 Copynumber: 11.1 Consensus size: 24
36415527 GCAAAGACCA
36415537 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
36415561 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
36415585 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
36415609 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
36415633 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
36415657 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
36415681 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
36415705 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
36415729 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
36415753 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
36415777 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
36415801 TAT
1 TAT
36415804 AGTCACATTC
Statistics
Matches: 237, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 237 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:36423092 original size:24 final size:24
Alignment explanation
Indices: 36422776--36423090 Score: 549
Period size: 24 Copynumber: 13.1 Consensus size: 24
36422766 ACAAAGACCA
36422776 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
36422800 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
36422824 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
36422848 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
36422872 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
36422896 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
36422920 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
36422944 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
36422968 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
36422992 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
36423016 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
36423040 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
36423064 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
36423088 TAT
1 TAT
36423091 AGTCACATTC
Statistics
Matches: 285, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 285 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:36425652 original size:73 final size:72
Alignment explanation
Indices: 36425569--36425831 Score: 481
Period size: 73 Copynumber: 3.6 Consensus size: 72
36425559 ACAAAGACCA
36425569 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACCTATGGCACTATGTGTG
1 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCA-CTATGGCACTATGTGTG
36425634 CGATTCAC
65 CGATTCAC
* *
36425642 TATGGCACTATGTGTGCGATTTACTATGGCACTATGGGTGGCGATTTACTATGGCACTATGTGTG
1 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGT-GCGATTCACTATGGCACTATGTGTG
36425707 CGATTCAC
65 CGATTCAC
*
36425715 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
36425780 GATTCAC
66 GATTCAC
36425787 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATT
1 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATT
36425832 TACTCAAGCA
Statistics
Matches: 183, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
72 76 0.42
73 100 0.55
74 7 0.04
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.35
Consensus pattern (72 bp):
TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
GATTCAC
Found at i:36425835 original size:24 final size:24
Alignment explanation
Indices: 36425569--36425831 Score: 463
Period size: 24 Copynumber: 10.9 Consensus size: 24
36425559 ACAAAGACCA
*
36425569 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
36425593 TATGGCACTATGTGTGCGATTCACC
1 TATGGCACTATGTGTGCGATTCA-C
36425618 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
*
36425642 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
* *
36425666 TATGGCACTATGGGTGGCGATTTAC
1 TATGGCACTATGTGT-GCGATTCAC
36425691 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
36425715 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
36425739 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
36425763 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
*
36425787 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
36425811 TATGGCACTATGTGTGCGATT
1 TATGGCACTATGTGTGCGATT
36425832 TACTCAAGCA
Statistics
Matches: 231, Mismatches: 6, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
24 184 0.80
25 47 0.20
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTCAC
Found at i:36427026 original size:24 final size:24
Alignment explanation
Indices: 36426760--36427024 Score: 453
Period size: 24 Copynumber: 11.1 Consensus size: 24
36426750 GCAAAGACCA
36426760 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
36426784 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
36426808 TATGGCACTATGTGTGCGA-TT-C
1 TATGGCACTATGTGTGCGATTTAC
36426830 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
36426854 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
36426878 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
36426902 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
36426926 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
36426950 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
36426974 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
36426998 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
36427022 TAT
1 TAT
36427025 AGTCACATTC
Statistics
Matches: 233, Mismatches: 6, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
22 20 0.09
23 3 0.01
24 210 0.90
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:36434317 original size:24 final size:24
Alignment explanation
Indices: 36434001--36434315 Score: 549
Period size: 24 Copynumber: 13.1 Consensus size: 24
36433991 ACAAAGACCA
36434001 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
36434025 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
36434049 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
36434073 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
36434097 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
36434121 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
36434145 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
36434169 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
36434193 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
36434217 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
36434241 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
36434265 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
36434289 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
36434313 TAT
1 TAT
36434316 AGTCACATTC
Statistics
Matches: 285, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 285 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:36440329 original size:43 final size:42
Alignment explanation
Indices: 36440282--36440380 Score: 137
Period size: 42 Copynumber: 2.3 Consensus size: 42
36440272 TTCTAGACGT
*
36440282 GGTCTTACATGTAACCAAATATCGATGCC-ACTGTCCCAGACAG
1 GGTCTTACACGTAACCAAATAT-GATGCCGA-TGTCCCAGACAG
* * *
36440325 GGTCTTACACGAAATCAAATATGATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAACCAAATATGATGCCGATGTCCCAGACAG
36440367 GGTCTTACACGTAA
1 GGTCTTACACGTAA
36440381 ATCTCAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 30 0.60
43 20 0.40
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (42 bp):
GGTCTTACACGTAACCAAATATGATGCCGATGTCCCAGACAG
Found at i:36440383 original size:43 final size:44
Alignment explanation
Indices: 36440276--36440383 Score: 143
Period size: 43 Copynumber: 2.5 Consensus size: 44
36440266 CCAACATTCT
* * *
36440276 AGACGTGGTCTTACATGT-AACCAAATATCGATGCCACTGTCCC
1 AGACATGGTCTTACACGTAAATCAAATATCGATGCCACTGTCCC
*
36440319 AGACAGGGTCTTACACG-AAATCAAATAT-GATGCCGA-TGTCCC
1 AGACATGGTCTTACACGTAAATCAAATATCGATGCC-ACTGTCCC
36440361 AGACATGGTCTTACACGTAAATC
1 AGACATGGTCTTACACGTAAATC
36440384 TCAAATTGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 28 0.49
43 29 0.51
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (44 bp):
AGACATGGTCTTACACGTAAATCAAATATCGATGCCACTGTCCC
Found at i:36449765 original size:5 final size:5
Alignment explanation
Indices: 36449748--36449777 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
36449738 GTAAATTAAT
36449748 AAATA ATAATA AAATA AAATA AAATA AAAT
1 AAATA A-AATA AAATA AAATA AAATA AAAT
36449778 TAACTTGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAATA
Found at i:36455391 original size:55 final size:54
Alignment explanation
Indices: 36455303--36455557 Score: 226
Period size: 55 Copynumber: 4.8 Consensus size: 54
36455293 ATTAGGGTTT
*
36455303 AAGGATACCGTGTAAGACCATGCCAAGGA-ATGGCAATTGGTAAAGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAA-GACATGGCAATTGGT-AAGTTTCTAAGGC
* * * ** * *
36455358 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTAATAAGTTACTATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
36455413 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* * *
36455466 AAGGCTACCATGTAATACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
36455515 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
36455558 GTGCCCGTGT
Statistics
Matches: 164, Mismatches: 28, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
49 38 0.23
52 7 0.04
53 41 0.25
54 11 0.07
55 63 0.38
56 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:36463033 original size:53 final size:53
Alignment explanation
Indices: 36462851--36463104 Score: 245
Period size: 53 Copynumber: 4.8 Consensus size: 53
36462841 ATTAGGGTTT
* *
36462851 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCATAAGGC
* * * *
36462906 -AGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * *
36462960 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * *
36463013 AAGGCTACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* * * *
36463062 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
36463105 GTACCCGTGT
Statistics
Matches: 170, Mismatches: 22, Indels: 20
0.80 0.10 0.09
Matches are distributed among these distances:
49 39 0.23
51 3 0.02
52 8 0.05
53 49 0.29
54 35 0.21
55 33 0.19
56 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:36463056 original size:108 final size:109
Alignment explanation
Indices: 36462861--36463057 Score: 301
Period size: 108 Copynumber: 1.8 Consensus size: 109
36462851 AAGGATACCG
*
36462861 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAGGAAATCATGTAAGACCAT
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAGGAAACCATGTAAGACCAT
*
36462926 GTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 GTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* **
36462970 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGCTACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC-AGGAAACCATGTAAGACC
*
36463032 ATGTCAAGACATGGCAATGGTAAGTT
64 ATGTCAAGACATGGCAATGATAAGTT
36463058 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
106 3 0.04
107 7 0.09
108 46 0.57
109 24 0.30
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.23
Consensus pattern (109 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAGGAAACCATGTAAGACCAT
GTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:36476557 original size:32 final size:32
Alignment explanation
Indices: 36476514--36476578 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
36476504 GTTAGATGAT
*
36476514 TACCACTCCAAGGCAAGA-AACAGAGAAAGCAA
1 TACCACCCCAAGGCAA-ATAACAGAGAAAGCAA
*
36476546 TACCACCCCAAGGCAAATAAGAGAGAAAGCAA
1 TACCACCCCAAGGCAAATAACAGAGAAAGCAA
36476578 T
1 T
36476579 CATTCGGCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 1 0.03
32 29 0.97
ACGTcount: A:0.49, C:0.25, G:0.18, T:0.08
Consensus pattern (32 bp):
TACCACCCCAAGGCAAATAACAGAGAAAGCAA
Found at i:36479094 original size:27 final size:28
Alignment explanation
Indices: 36479049--36479109 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
36479039 TTACCTAGAC
*
36479049 CCCTATATATGTTAAATGACTATTTT-G
1 CCCTATATATGGTAAATGACTATTTTGG
*
36479076 CCCT-TATATGGTAAGATGACTGTTTTGG
1 CCCTATATATGGTAA-ATGACTATTTTGG
36479104 CCCTAT
1 CCCTAT
36479110 GTGATGTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 9 0.31
27 14 0.48
28 5 0.17
29 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (28 bp):
CCCTATATATGGTAAATGACTATTTTGG
Found at i:36485094 original size:29 final size:29
Alignment explanation
Indices: 36485061--36485132 Score: 144
Period size: 29 Copynumber: 2.5 Consensus size: 29
36485051 GTGACGAGAT
36485061 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
36485090 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
36485119 TGGCACTAAGTGTG
1 TGGCACTAAGTGTG
36485133 TGTGACAGCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:36486821 original size:39 final size:39
Alignment explanation
Indices: 36486767--36486910 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
36486757 GAATGTTCGA
36486767 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
36486806 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
36486845 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
36486884 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
36486911 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 86 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:36486857 original size:78 final size:79
Alignment explanation
Indices: 36486768--36486950 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
36486758 AATGTTCGAG
36486768 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
36486832 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
* *
36486846 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
** *
36486911 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
36486925 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
36486951 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:36497665 original size:40 final size:40
Alignment explanation
Indices: 36497620--36497786 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
36497610 CGGAATATAA
36497620 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
36497660 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
36497700 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
36497740 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
36497779 CCGGATAT
1 CCGGATAT
36497787 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:36505650 original size:40 final size:40
Alignment explanation
Indices: 36505605--36505771 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
36505595 CGGAATATAA
36505605 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
36505645 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
36505685 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
36505725 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
36505764 CCGGATAT
1 CCGGATAT
36505772 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:36515995 original size:27 final size:27
Alignment explanation
Indices: 36515965--36516118 Score: 164
Period size: 27 Copynumber: 5.5 Consensus size: 27
36515955 ATAGTGAATC
36515965 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * **
36515992 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AGCT
36516020 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * *
36516047 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATA-AA-ATCAGCT
* **
36516076 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCTATA-AAAT-CAGCT
*
36516105 TGCACACTTAGTGC
1 CGCACACTTAGTGC
36516119 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 40 0.37
28 27 0.25
29 40 0.37
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAGCT
Found at i:36516012 original size:29 final size:28
Alignment explanation
Indices: 36515965--36516118 Score: 145
Period size: 29 Copynumber: 5.5 Consensus size: 28
36515955 ATAGTGAATC
36515965 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* * **
36515992 CGCACACATAGTGC-TATATAATCAAATT
1 CGCACACTTAGTGCATATAAAATC-AGCT
36516020 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* ** *
36516047 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGC-ATATAAAATCAGCT
**
36516076 CGCACACTTAGTGCCATAT-ATTTCCAGCT
1 CGCACACTTAGTG-CATATAAAAT-CAGCT
*
36516105 TGCACACTTAGTGC
1 CGCACACTTAGTGC
36516119 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
27 36 0.34
28 28 0.26
29 42 0.39
30 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCATATAAAATCAGCT
Found at i:36516036 original size:55 final size:55
Alignment explanation
Indices: 36515965--36516068 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
36515955 ATAGTGAATC
36515965 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
36516020 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
36516069 TTGAGCTCGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
Found at i:36518237 original size:51 final size:51
Alignment explanation
Indices: 36518152--36518351 Score: 330
Period size: 51 Copynumber: 3.9 Consensus size: 51
36518142 ATGGATACAC
*
36518152 AGTGGCCTTCACATAGTACCACACCTGTAG-CCAAAGCTATTTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAA
*
36518203 AGTGGCCTTCACATAGTACCACACTTGTTTCCAAAGCTATTTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAA
* * * *
36518254 AGTAGCCTTTACATAGTACCACACTTGTGACCGAAGCTATTTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAA
36518305 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
36518352 CTAAGGTTCA
Statistics
Matches: 137, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
51 137 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAA
Found at i:36518419 original size:24 final size:24
Alignment explanation
Indices: 36518387--36518432 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
36518377 ACTTAGCACA
36518387 ATGCCATGGACTTATTTCACTTTG
1 ATGCCATGGACTTATTTCACTTTG
*
36518411 ATGCCATGGTCTTATTTCACTT
1 ATGCCATGGACTTATTTCACTT
36518433 AGCACATTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTTG
Found at i:36520282 original size:40 final size:39
Alignment explanation
Indices: 36520230--36520441 Score: 203
Period size: 40 Copynumber: 5.3 Consensus size: 39
36520220 GATTGTCTTT
* * *
36520230 GGGACATT-GCCCGGTTATAGTGATTCGCACAATTGCCTTC
1 GGGA-ATTAGCCCGGTT-TAGTAACTCGCACAAATGCCTTC
*
36520270 GGGAATTAGCCCGGATTTAGTAACTCGCACGAATGCCTTC
1 GGGAATTAGCCCGG-TTTAGTAACTCGCACAAATGCCTTC
* * * *
36520310 GGGACTTAACCCGATTTTGGTAACTCGCACAAATGCCTTC
1 GGGAATTAGCCCG-GTTTAGTAACTCGCACAAATGCCTTC
* * *
36520350 GGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTC
1 GGGAATTAGCCCGG-TTTAGTAACTCGCACAAATGCCTTC
* * *
36520390 GGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGCCTTC
1 GGGAATTAG-CCCGG-TTTAGTAAC-TCGCACAAATGCCTTC
*
36520431 GGGACTTAGCC
1 GGGAATTAGCC
36520442 TGGACACCAT
Statistics
Matches: 147, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
39 3 0.02
40 119 0.81
41 24 0.16
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
GGGAATTAGCCCGGTTTAGTAACTCGCACAAATGCCTTC
Found at i:36526170 original size:25 final size:26
Alignment explanation
Indices: 36526116--36526170 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
36526106 TTTCATATTT
36526116 TATAATAAGGTTAAATATGTAATTAA
1 TATAATAAGGTTAAATATGTAATTAA
* *
36526142 -ATAAT-ATGTTAATATATGTTA-TAA
1 TATAATAAGGTTAA-ATATGTAATTAA
36526166 TATAA
1 TATAA
36526171 CATAAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (26 bp):
TATAATAAGGTTAAATATGTAATTAA
Found at i:36530688 original size:40 final size:39
Alignment explanation
Indices: 36530597--36530707 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 39
36530587 ATAACCATGT
* * *
36530597 GCACAAATGCCTTCGGGTCTTAGCCCAGATAGAATGTCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
36530637 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* *
36530677 GCACAATTGCCTTCGGTTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
36530708 TAAATTCCAG
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 55 0.92
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:36545699 original size:162 final size:162
Alignment explanation
Indices: 36545432--36545758 Score: 654
Period size: 162 Copynumber: 2.0 Consensus size: 162
36545422 AAACACGCGG
36545432 AACATTTGAGAACGGTTTTGCAAATTTTGAGAGAGAAGCAGTTGTATGCTAAGTTTAGCAAAATT
1 AACATTTGAGAACGGTTTTGCAAATTTTGAGAGAGAAGCAGTTGTATGCTAAGTTTAGCAAAATT
36545497 GAGTTTTGGGTCCAAGAGGTAGGATTCTTAGGACACATTGTGTAGAGTGAAGGGATTAGAGTTGA
66 GAGTTTTGGGTCCAAGAGGTAGGATTCTTAGGACACATTGTGTAGAGTGAAGGGATTAGAGTTGA
36545562 CCGTAGTAAGATATCGGTTATTGTAAAGTGGA
131 CCGTAGTAAGATATCGGTTATTGTAAAGTGGA
36545594 AACATTTGAGAACGGTTTTGCAAATTTTGAGAGAGAAGCAGTTGTATGCTAAGTTTAGCAAAATT
1 AACATTTGAGAACGGTTTTGCAAATTTTGAGAGAGAAGCAGTTGTATGCTAAGTTTAGCAAAATT
36545659 GAGTTTTGGGTCCAAGAGGTAGGATTCTTAGGACACATTGTGTAGAGTGAAGGGATTAGAGTTGA
66 GAGTTTTGGGTCCAAGAGGTAGGATTCTTAGGACACATTGTGTAGAGTGAAGGGATTAGAGTTGA
36545724 CCGTAGTAAGATATCGGTTATTGTAAAGTGGA
131 CCGTAGTAAGATATCGGTTATTGTAAAGTGGA
36545756 AAC
1 AAC
36545759 CGCCAAGGAA
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
162 165 1.00
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.31
Consensus pattern (162 bp):
AACATTTGAGAACGGTTTTGCAAATTTTGAGAGAGAAGCAGTTGTATGCTAAGTTTAGCAAAATT
GAGTTTTGGGTCCAAGAGGTAGGATTCTTAGGACACATTGTGTAGAGTGAAGGGATTAGAGTTGA
CCGTAGTAAGATATCGGTTATTGTAAAGTGGA
Found at i:36557891 original size:39 final size:39
Alignment explanation
Indices: 36557836--36558041 Score: 254
Period size: 39 Copynumber: 5.3 Consensus size: 39
36557826 GTATGAGATT
*
36557836 GAAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
1 GAAAA-ATATCCGGACATGAAGTCCACAGGCTATATGCTG
* *
36557876 GAAAAATATCAGGACATG-AGATCCACAGGCTATATGCTA
1 GAAAAATATCCGGACATGAAG-TCCACAGGCTATATGCTG
* * *
36557915 GAAATATATCCGGACTTGAGGTCCACAGGCTATATGCTG
1 GAAAAATATCCGGACATGAAGTCCACAGGCTATATGCTG
* * *
36557954 GAAAAATATCCGGACATG-AGATCCGCAGGCTTTATGCTA
1 GAAAAATATCCGGACATGAAG-TCCACAGGCTATATGCTG
* * **
36557993 GAAATATATCCGGACTTGAAGTCCACAGGCTACGTGCTG
1 GAAAAATATCCGGACATGAAGTCCACAGGCTATATGCTG
36558032 GAAAAATATC
1 GAAAAATATC
36558042 TGGGTTAAAA
Statistics
Matches: 140, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
38 3 0.02
39 129 0.92
40 8 0.06
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (39 bp):
GAAAAATATCCGGACATGAAGTCCACAGGCTATATGCTG
Found at i:36558061 original size:117 final size:117
Alignment explanation
Indices: 36557836--36558068 Score: 258
Period size: 117 Copynumber: 2.0 Consensus size: 117
36557826 GTATGAGATT
*
36557836 GAAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTGGAAAAATATCAGGACATGAGATCCA
1 GAAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTAGAAAAATATCAGGACATGAGATCCA
* * * ***
36557901 CAGGCTATATGCTAGAAATATATCCGGACTTGAGGTCCACAGGCTATATGCTG
66 CAGGCTACATGCTAGAAAAATATCCGGACTTAAAACCCACAGGCT-TATGCTG
* * * *
36557954 GAAAA-ATATCCGGACATG-AGATCCGCAGGCTTTATGCTAGAAATATATCCGGACTTGA-AGTC
1 GAAAATATATCCGGACATGAAG-TCCGCAGGCTATATGCTAGAAAAATATCAGGACATGAGA-TC
* * * * *
36558016 CACAGGCTACGTGCTGGAAAAATATCTGG-GTTAAAAACCCGCAGGCTTATGCT
64 CACAGGCTACATGCTAGAAAAATATCCGGACTT-AAAACCCACAGGCTTATGCT
36558069 AGTAATGTAT
Statistics
Matches: 96, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
116 11 0.11
117 80 0.83
118 5 0.05
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (117 bp):
GAAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTAGAAAAATATCAGGACATGAGATCCA
CAGGCTACATGCTAGAAAAATATCCGGACTTAAAACCCACAGGCTTATGCTG
Found at i:36558063 original size:78 final size:78
Alignment explanation
Indices: 36557838--36558041 Score: 336
Period size: 78 Copynumber: 2.6 Consensus size: 78
36557828 ATGAGATTGA
* * *
36557838 AAATATATCCGGACATGAAGTCCGCAGGCTATATGCTGGAAAAATATCAGGACATGAGATCCACA
1 AAATATATCCGGACTTGAAGTCCACAGGCTATATGCTGGAAAAATATCAGGACATGAGATCCGCA
*
36557903 GGCTATATGCTAG
66 GGCTTTATGCTAG
* *
36557916 AAATATATCCGGACTTGAGGTCCACAGGCTATATGCTGGAAAAATATCCGGACATGAGATCCGCA
1 AAATATATCCGGACTTGAAGTCCACAGGCTATATGCTGGAAAAATATCAGGACATGAGATCCGCA
36557981 GGCTTTATGCTAG
66 GGCTTTATGCTAG
**
36557994 AAATATATCCGGACTTGAAGTCCACAGGCTACGTGCTGGAAAAATATC
1 AAATATATCCGGACTTGAAGTCCACAGGCTATATGCTGGAAAAATATC
36558042 TGGGTTAAAA
Statistics
Matches: 117, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 117 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (78 bp):
AAATATATCCGGACTTGAAGTCCACAGGCTATATGCTGGAAAAATATCAGGACATGAGATCCGCA
GGCTTTATGCTAG
Found at i:36565063 original size:49 final size:50
Alignment explanation
Indices: 36565004--36565129 Score: 168
Period size: 49 Copynumber: 2.6 Consensus size: 50
36564994 TGTTGTGTGT
* *
36565004 CAGTGTAAGACCTGTTTGGGACATGGCATTGA-CATCGATAGATGAGAGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATTCAGCATCGATAGATGAAAGC
* * *
36565053 CAGTGTAAGACCTGTTTGGGACATGGCA-TCAGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTTTGGGACATGGCATTCAGCATCGATAGATGAAAGC
* *
36565102 CAGTGTAAGACATG-TTGGGACACGGCAT
1 CAGTGTAAGACCTGTTTGGGACATGGCAT
36565130 CGACTTTAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
48 14 0.21
49 54 0.79
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (50 bp):
CAGTGTAAGACCTGTTTGGGACATGGCATTCAGCATCGATAGATGAAAGC
Found at i:36566646 original size:44 final size:44
Alignment explanation
Indices: 36566581--36566665 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
36566571 TTGATATCTC
* *
36566581 AAAGTCCATGGTTGTACCATGGCAATTAAAGAAGAATTGACAGA
1 AAAGTCCATGGTTATAACATGGCAATTAAAGAAGAATTGACAGA
* * *
36566625 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGAC
1 AAAGTCCATGGTT-ATAACATGGCAATTAAAGAAGAATTGAC
36566666 GGTTAAGGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 3 0.09
44 32 0.91
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCAATTAAAGAAGAATTGACAGA
Found at i:36566939 original size:55 final size:52
Alignment explanation
Indices: 36566818--36567215 Score: 308
Period size: 55 Copynumber: 7.5 Consensus size: 52
36566808 ATCTGGATAT
* * * * * * * *
36566818 CATGTAAGACCATGCCAAGGCACGACATTGATAAGTTCTATAAGGCAAGGAAAT
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTC-ATAAGGAAAGG-TAC
* *
36566872 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTTTAAGGAAAAGGTCC
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-C-ATAAGG-AAAGGTAC
* * * * *
36566927 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGACAAAGATAC
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCATAAG-GAAAGGTAC
*** * * *
36566980 CATGTAAGACCATGTTTGGAACATGACATTTGGTGAG---ATAAGG--A--TAT
1 CATGTAAGACCATGTCAAG-ACATGGCA-TTGATGAGTTCATAAGGAAAGGTAC
* * * * * * *
36567027 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTGTATAAGGGAAGGAAAT
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CATAAGGAAAGG-TAC
*
36567081 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-C-ATAAGG-AAAGGTAC
* * *
36567136 CATGTAAGACCATGCCAAGGCATGGCATT-AGTGAGTTCATAAGGCAAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCATTGA-TGAGTTCATAAGGAAAGG-TAC
*
36567189 CACGTAAGACCATGTCAAGACATGGCA
1 CATGTAAGACCATGTCAAGACATGGCA
36567216 ATGGTAAGTT
Statistics
Matches: 276, Mismatches: 50, Indels: 37
0.76 0.14 0.10
Matches are distributed among these distances:
45 6 0.02
46 6 0.02
47 17 0.06
49 7 0.03
51 1 0.00
52 9 0.03
53 57 0.21
54 77 0.28
55 88 0.32
56 8 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (52 bp):
CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCATAAGGAAAGGTAC
Found at i:36566964 original size:109 final size:106
Alignment explanation
Indices: 36566818--36567215 Score: 472
Period size: 109 Copynumber: 3.8 Consensus size: 106
36566808 ATCTGGATAT
* * *
36566818 CATGTAAGACCATGCCAAGGCACGACATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC-ATAAGGCAAGGAAACCATGTAAGACC
36566883 ATGTCAAGACATGGCATTGATGAGTTACTTTAAGGAAAAGGTCC
65 ATGTCAAGACATGGCATTGATGAGTTAC-TTAAGG-AAAGGTCC
* * * * *
36566927 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGACAAAGATACCATGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCATAAGGCAAGGAAACCATGTAAGACCA
*** * * *
36566992 TGTTTGGAACATGACATTTGGTGAG--A--TAAGGATA--T--
66 TGTCAAG-ACATGGCA-TTGATGAGTTACTTAAGGAAAGGTCC
* * *
36567027 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTGTATAAGGGAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CATAAGGCAAGGAAACCATGTAAGACC
36567092 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
65 ATGTCAAGACATGGCATTGATGAGTTACT-TAAGG-AAAGGTCC
* * *
36567136 CATGTAAGACCATGCCAAGGCATGGCATT-AGTGAGTTCATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGA-TAAGTTCATAAGGCAAGGAAACCATGTAAGACC
36567200 ATGTCAAGACATGGCA
65 ATGTCAAGACATGGCA
36567216 ATGGTAAGTT
Statistics
Matches: 241, Mismatches: 34, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
99 7 0.03
100 42 0.17
101 27 0.11
102 1 0.00
104 7 0.03
105 7 0.03
107 1 0.00
108 67 0.28
109 75 0.31
110 7 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (106 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCATAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCATTGATGAGTTACTTAAGGAAAGGTCC
Found at i:36567047 original size:209 final size:209
Alignment explanation
Indices: 36566812--36567203 Score: 694
Period size: 209 Copynumber: 1.9 Consensus size: 209
36566802 ACTAAGATCT
36566812 GGATATCATGTAAGACCATGCCAAGGCACGACATTGATAAGTTCTATAAGGCAAGGAAATCATGT
1 GGATATCATGTAAGACCATGCCAAGGCACGACATTGATAAGTTCTATAAGGCAAGGAAATCATGT
*
36566877 AAGACCATGTCAAGACATGGCATTGATGAGTTACTTTAAGGAAAAGGTCCCATGTAAGACCATGC
66 AAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCCCATGTAAGACCATGC
* *
36566942 CAAGGCATGGCATTGGTGAGTTCATAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGAC
131 CAAGGCATGGCATTAGTGAGTTCATAAGACAAAGATACCACGTAAGACCATGTTTGGAACATGAC
36567007 ATTTGGTGAGATAA
196 ATTTGGTGAGATAA
* * * *
36567021 GGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTGTATAAGGGAAGGAAATCATGT
1 GGATATCATGTAAGACCATGCCAAGGCACGACATTGATAAGTTCTATAAGGCAAGGAAATCATGT
*
36567086 AAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGC
66 AAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCCCATGTAAGACCATGC
* *
36567151 CAAGGCATGGCATTAGTGAGTTCATAAGGCAAGGATACCACGTAAGACCATGT
131 CAAGGCATGGCATTAGTGAGTTCATAAGACAAAGATACCACGTAAGACCATGT
36567204 CAAGACATGG
Statistics
Matches: 173, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
209 173 1.00
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (209 bp):
GGATATCATGTAAGACCATGCCAAGGCACGACATTGATAAGTTCTATAAGGCAAGGAAATCATGT
AAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCCCATGTAAGACCATGC
CAAGGCATGGCATTAGTGAGTTCATAAGACAAAGATACCACGTAAGACCATGTTTGGAACATGAC
ATTTGGTGAGATAA
Found at i:36567226 original size:108 final size:109
Alignment explanation
Indices: 36567027--36567226 Score: 296
Period size: 108 Copynumber: 1.8 Consensus size: 109
36567017 ATAAGGATAT
* * * *
36567027 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTGTATAAGGGAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTGCATAAGGCAAGGAAACCACGTAAGACC
* *
36567092 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCC
* *
36567136 CATGTAAGACCATGCCAAGGCATGGCATT-AGTGAGTT-CATAAGGCAAGGATACCACGTAAGAC
1 CATGTAAGACCATGCCAAGGCATGGCATTGA-TAAGTTGCATAAGGCAAGGAAACCACGTAAGAC
*
36567199 CATGTCAAGACATGGCAATGGTAAGTTA
65 CATGTCAAGACATGGCAATGATAAGTTA
36567227 AAAAGGGAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
108 47 0.58
109 34 0.42
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTGCATAAGGCAAGGAAACCACGTAAGACC
ATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCC
Found at i:36569690 original size:13 final size:13
Alignment explanation
Indices: 36569672--36569696 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36569662 GCCTCTAGCC
36569672 TGGGCGTGTGCCT
1 TGGGCGTGTGCCT
36569685 TGGGCGTGTGCC
1 TGGGCGTGTGCC
36569697 CAAAAATTGT
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:0.00, C:0.24, G:0.48, T:0.28
Consensus pattern (13 bp):
TGGGCGTGTGCCT
Found at i:36573005 original size:93 final size:91
Alignment explanation
Indices: 36572848--36573016 Score: 302
Period size: 93 Copynumber: 1.8 Consensus size: 91
36572838 GCCCCTAAGT
*
36572848 GAACTCGGACTCAACTCAACGAGCTCGGGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 GAACTCGGACTCAACTCAACGAGCTCGGATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
36572913 AGTTCGGATGCCTAGTTACATTTCAC
66 AGTTCGGATGCCTAGTTACATTTCAC
*
36572939 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
36573004 CGAGTTCGGATGC
64 CGAGTTCGGATGC
36573017 TCAACCATCC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 27 0.36
93 47 0.64
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATTTCAC
Found at i:36573032 original size:46 final size:44
Alignment explanation
Indices: 36572843--36573024 Score: 190
Period size: 44 Copynumber: 4.0 Consensus size: 44
36572833 AACCCGCCCC
* * * *
36572843 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCGCAACCA
36572887 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCGC-A---ACCA
* * * *
36572933 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCGCAACCA
*
36572980 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCGCAACCA
36573024 T
1 T
36573025 CCTAGTGACA
Statistics
Matches: 114, Mismatches: 13, Indels: 22
0.77 0.09 0.15
Matches are distributed among these distances:
43 1 0.01
44 44 0.39
45 2 0.02
46 30 0.26
47 30 0.26
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCGCAACCA
Found at i:36573466 original size:30 final size:30
Alignment explanation
Indices: 36573432--36573491 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
36573422 ATTTAATACG
36573432 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
36573462 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
36573492 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:36580928 original size:29 final size:30
Alignment explanation
Indices: 36580896--36580954 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
36580886 ATTTAATACG
36580896 AACTTTGGAAAAATTACACTTTTGC-CCTA
1 AACTTTGGAAAAATTACACTTTTGCACCTA
* * *
36580925 AACTTTTGCATAATTACACTTTTGCACCTA
1 AACTTTGGAAAAATTACACTTTTGCACCTA
36580955 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCACCTA
Found at i:36583914 original size:42 final size:41
Alignment explanation
Indices: 36583794--36583922 Score: 107
Period size: 42 Copynumber: 3.0 Consensus size: 41
36583784 CACATAGTAC
* * * **
36583794 CATACCAATGCCATATGCCATATATAGTCTTACATGGGATCT
1 CATACCAATGCCATAT-CCAGATATGGTCTTACACGAAATCT
* * * * * *
36583836 CAAATCGATGCCAATAGTCTAGCTGTGGTCTTACACGAAATCT
1 CATACCAATGCC-ATA-TCCAGATATGGTCTTACACGAAATCT
36583879 CATACCAATGCCATATCCCAGATATGGTCTTACACGTAAA-CT
1 CATACCAATGCCATAT-CCAGATATGGTCTTACACG-AAATCT
36583921 CA
1 CA
36583923 AATAACCCTA
Statistics
Matches: 66, Mismatches: 17, Indels: 8
0.73 0.19 0.09
Matches are distributed among these distances:
41 1 0.02
42 32 0.48
43 32 0.48
44 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (41 bp):
CATACCAATGCCATATCCAGATATGGTCTTACACGAAATCT
Found at i:36600238 original size:54 final size:54
Alignment explanation
Indices: 36600180--36600284 Score: 192
Period size: 54 Copynumber: 1.9 Consensus size: 54
36600170 ACTCATGAGT
36600180 TCATAATCACATAGTTCCTAGTGACATGTCACTTGTATCCTAAACTATTCCAAC
1 TCATAATCACATAGTTCCTAGTGACATGTCACTTGTATCCTAAACTATTCCAAC
**
36600234 TCATAATTGCATAGTTCCTAGTGACATGTCACTTGTATCCTAAACTATTCC
1 TCATAATCACATAGTTCCTAGTGACATGTCACTTGTATCCTAAACTATTCC
36600285 GAAGGTTCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (54 bp):
TCATAATCACATAGTTCCTAGTGACATGTCACTTGTATCCTAAACTATTCCAAC
Found at i:36608938 original size:31 final size:31
Alignment explanation
Indices: 36608900--36608963 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
36608890 CCTTTTCATA
36608900 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
36608931 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
36608962 TT
1 TT
36608964 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:36609296 original size:47 final size:47
Alignment explanation
Indices: 36609155--36609296 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
36609145 GCTTTATCAT
* * *
36609155 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTTTA
*
36609204 ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTA
36609251 ATAACTGGGGCATAAGCCCTTTTGATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTT
36609297 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
47 60 0.69
48 15 0.17
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTA
Found at i:36609297 original size:24 final size:24
Alignment explanation
Indices: 36609155--36609296 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
36609145 GCTTTATCAT
*
36609155 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
36609180 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
36609204 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
36609227 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
36609251 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
36609275 ATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
36609297 TCACTTCCTC
Statistics
Matches: 110, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
23 39 0.35
24 59 0.54
25 12 0.11
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:36609372 original size:20 final size:20
Alignment explanation
Indices: 36609347--36609406 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
36609337 TATGATTACC
36609347 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
36609367 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
36609387 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
36609407 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:36609377 original size:11 final size:11
Alignment explanation
Indices: 36609347--36609401 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
36609337 TATGATTACC
36609347 TCATGTGCATA
1 TCATGTGCATA
*
36609358 TCA--TACATA
1 TCATGTGCATA
36609367 TCATGTGCATA
1 TCATGTGCATA
* *
36609378 TCA--TACATT
1 TCATGTGCATA
36609387 TCATGTGCATA
1 TCATGTGCATA
36609398 TCAT
1 TCAT
36609402 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:36609481 original size:25 final size:25
Alignment explanation
Indices: 36609449--36609496 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
36609439 ATACATAAAC
* * *
36609449 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
36609474 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
36609497 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:36611949 original size:40 final size:39
Alignment explanation
Indices: 36611904--36612033 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
36611894 CGGAATATAA
36611904 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
36611944 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
36611984 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
36612024 CCGGATATAA
1 CCGGATATAA
36612034 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:36612048 original size:40 final size:40
Alignment explanation
Indices: 36611920--36612071 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
36611910 ATAACCATGT
* * *
36611920 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
36611960 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
36612000 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
36612040 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
36612072 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:36612054 original size:80 final size:80
Alignment explanation
Indices: 36611920--36612069 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
36611910 ATAACCATGT
*
36611920 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
36611984 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
36612000 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
36612063 CCCGGAT
64 CCCGGAT
36612070 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:36619953 original size:39 final size:40
Alignment explanation
Indices: 36619784--36619999 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
36619774 AAGCCAAGTA
* * *
36619784 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
36619823 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
36619863 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
36619903 CCTTCGGGACTTAGCCCGGATATAGTAACT-GCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
36619942 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
36619982 CCTTC-GGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
36620000 TTATCATCCA
Statistics
Matches: 165, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
38 1 0.01
39 60 0.36
40 104 0.63
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:36619988 original size:79 final size:80
Alignment explanation
Indices: 36619784--36619999 Score: 280
Period size: 79 Copynumber: 2.7 Consensus size: 80
36619774 AAGCCAAGTA
* * * * * *
36619784 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
36619847 GTAACTCGCACGAATG
65 GTAACTCGCACAAATG
* *
36619863 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
36619928 TAACT-GCACAAATG
66 TAACTCGCACAAATG
* *
36619942 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATGCCTTC-GGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
36620000 TTATCATCCA
Statistics
Matches: 125, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
78 14 0.11
79 60 0.48
80 51 0.41
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTCGCACAAATG
Found at i:36627938 original size:40 final size:40
Alignment explanation
Indices: 36627876--36628093 Score: 262
Period size: 40 Copynumber: 5.5 Consensus size: 40
36627866 AAGCCAAGTA
* * * *
36627876 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
36627915 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
36627955 CCTTCGGGACTTAGCCCGGATACAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * *
36627995 CCTTCGGGACTTAGCCTGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * * * *
36628035 CCTTCGGGACTTAGCTC-GAAACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
36628075 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
36628094 TTATCATCCA
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
39 15 0.10
40 140 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:36631473 original size:5 final size:5
Alignment explanation
Indices: 36631463--36631487 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
36631453 TATTGGGGTT
36631463 GACAG GACAG GACAG GACAG GACAG
1 GACAG GACAG GACAG GACAG GACAG
36631488 AAATGAGCCA
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:0.40, C:0.20, G:0.40, T:0.00
Consensus pattern (5 bp):
GACAG
Found at i:36632153 original size:28 final size:28
Alignment explanation
Indices: 36632122--36632209 Score: 69
Period size: 28 Copynumber: 3.1 Consensus size: 28
36632112 ATAGAGTGGT
36632122 TGATGATATACATGTTTAATAGTATGTA
1 TGATGATATACATGTTTAATAGTATGTA
* **
36632150 TGAT--TA-A-GTGATTAACTAATAG-AGTGGC
1 TGATGATATACATG-TT---TAATAGTA-TGTA
36632178 TGATGATATACATGTTTAATAGTATGTA
1 TGATGATATACATGTTTAATAGTATGTA
36632206 TGAT
1 TGAT
36632210 TAAGTAGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 20
0.63 0.09 0.29
Matches are distributed among these distances:
24 2 0.05
25 3 0.07
26 2 0.05
27 1 0.02
28 28 0.64
29 1 0.02
30 2 0.05
31 3 0.07
32 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (28 bp):
TGATGATATACATGTTTAATAGTATGTA
Found at i:36632162 original size:56 final size:56
Alignment explanation
Indices: 36632100--36632222 Score: 221
Period size: 56 Copynumber: 2.2 Consensus size: 56
36632090 AATACTTGCT
*
36632100 AGTGATTAACTAATAGAGTGGTTGATGATATACATGTTTAATAGTATGTATGATTA
1 AGTGATTAACTAATAGAGTGGCTGATGATATACATGTTTAATAGTATGTATGATTA
36632156 AGTGATTAACTAATAGAGTGGCTGATGATATACATGTTTAATAGTATGTATGATTA
1 AGTGATTAACTAATAGAGTGGCTGATGATATACATGTTTAATAGTATGTATGATTA
*
36632212 AGT-AGTAACTA
1 AGTGATTAACTA
36632223 TCACATGAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
55 7 0.11
56 58 0.89
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (56 bp):
AGTGATTAACTAATAGAGTGGCTGATGATATACATGTTTAATAGTATGTATGATTA
Found at i:36636052 original size:10 final size:11
Alignment explanation
Indices: 36636013--36636054 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
36636003 TATTTACGAA
*
36636013 GTTAATTGAGTG
1 GTTAATT-AGAG
36636025 GTTAATTAGAG
1 GTTAATTAGAG
*
36636036 TTTAATTA-AG
1 GTTAATTAGAG
36636046 GTTAATTAG
1 GTTAATTAG
36636055 GTATAAGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 10 0.38
12 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (11 bp):
GTTAATTAGAG
Found at i:36641589 original size:45 final size:45
Alignment explanation
Indices: 36641522--36641613 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
36641512 TCAAACTGTT
*
36641522 AGTTGGCATACTTGAGATTAAAGAATTTGTGGTACTTGTTGAGCG
1 AGTTGGCATACTTGAGAATAAAGAATTTGTGGTACTTGTTGAGCG
36641567 AGTTGGCATACTTGAGAATAAAGAATTTGTGGTACTTGTTGAGCG
1 AGTTGGCATACTTGAGAATAAAGAATTTGTGGTACTTGTTGAGCG
36641612 AG
1 AG
36641614 CTTGCAAAGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.28, C:0.09, G:0.29, T:0.34
Consensus pattern (45 bp):
AGTTGGCATACTTGAGAATAAAGAATTTGTGGTACTTGTTGAGCG
Found at i:36649956 original size:34 final size:34
Alignment explanation
Indices: 36649894--36649958 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
36649884 TGTTACTGTT
* *
36649894 ACTGTATTGGGCTAAGGCCCACATTGATATTATA
1 ACTGTAATGGGCTAAGGCCCACACTGATATTATA
*
36649928 ACTGTAATGGGCTATGGCCCTA-ACTGATATT
1 ACTGTAATGGGCTAAGGCCC-ACACTGATATT
36649959 GGACTGTCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 26 0.96
35 1 0.04
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (34 bp):
ACTGTAATGGGCTAAGGCCCACACTGATATTATA
Found at i:36650751 original size:3 final size:3
Alignment explanation
Indices: 36650743--36650795 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
36650733 ATGAATTAAA
* *
36650743 TAT TAT TA- TAT TA- TAT TAT TAT TAT AAT GTAT TAT TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
36650787 TAT TAT TAT
1 TAT TAT TAT
36650796 CTAATATATA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
2 4 0.09
3 37 0.86
4 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:36650764 original size:16 final size:16
Alignment explanation
Indices: 36650743--36650795 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
36650733 ATGAATTAAA
36650743 TATTATTATATTATAT
1 TATTATTATATTATAT
* *
36650759 TATTATTATAATGTAT
1 TATTATTATATTATAT
*
36650775 TATTATTAT-TAATAT
1 TATTATTATATTATAT
36650790 TATTAT
1 TATTAT
36650796 CTAATATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 9 0.28
16 23 0.72
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTATTATATTATAT
Found at i:36653414 original size:14 final size:14
Alignment explanation
Indices: 36653395--36653424 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
36653385 TGTGCCACGA
36653395 ATACATTCTTTAAT
1 ATACATTCTTTAAT
36653409 ATACATTCTTTAAT
1 ATACATTCTTTAAT
36653423 AT
1 AT
36653425 GGAAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (14 bp):
ATACATTCTTTAAT
Found at i:36653592 original size:6 final size:6
Alignment explanation
Indices: 36653583--36653634 Score: 95
Period size: 6 Copynumber: 8.7 Consensus size: 6
36653573 TTAATATAGT
*
36653583 ATTATA ATTATA ATTGTA ATTATA ATTATA ATTATA ATTATA ATTATA
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA
36653631 ATTA
1 ATTA
36653635 CTTAAATATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (6 bp):
ATTATA
Found at i:36653889 original size:27 final size:28
Alignment explanation
Indices: 36653850--36653908 Score: 111
Period size: 27 Copynumber: 2.1 Consensus size: 28
36653840 TACTTTTAAC
36653850 TTTTAGTGTGAGTAAATCATATTTTGAA
1 TTTTAGTGTGAGTAAATCATATTTTGAA
36653878 TTTT-GTGTGAGTAAATCATATTTTGAA
1 TTTTAGTGTGAGTAAATCATATTTTGAA
36653905 TTTT
1 TTTT
36653909 TTCTACAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 27 0.87
28 4 0.13
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (28 bp):
TTTTAGTGTGAGTAAATCATATTTTGAA
Found at i:36657089 original size:3 final size:3
Alignment explanation
Indices: 36657081--36657113 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
36657071 AAGGGGTTGT
36657081 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
36657114 ACTCCCAGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:36657866 original size:31 final size:30
Alignment explanation
Indices: 36657792--36657866 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 30
36657782 TAAAAAAAAT
*
36657792 AATAACTCAGTAATTTAAATAAAAACTTTTA
1 AATAA-TCAATAATTTAAATAAAAACTTTTA
**
36657823 AATAATCTAATAATTTAAATAAAATTTTTTA
1 AATAATC-AATAATTTAAATAAAAACTTTTA
36657854 AATAATTCAATAA
1 AATAA-TCAATAA
36657867 CTGTAATTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
30 2 0.05
31 35 0.90
32 2 0.05
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.39
Consensus pattern (30 bp):
AATAATCAATAATTTAAATAAAAACTTTTA
Found at i:36667660 original size:39 final size:39
Alignment explanation
Indices: 36667557--36667682 Score: 173
Period size: 39 Copynumber: 3.2 Consensus size: 39
36667547 ATTGTCAAAT
* *
36667557 CAACCAAACACTCCAGACAGAAGCTCATAAGAGCTAATC
1 CAACCGAACACGCCAGACAGAAGCTCATAAGAGCTAATC
** *
36667596 CAATTGAAATACGCCAGACAGAAGCTCATAAGAGCTAATC
1 CAACCG-AACACGCCAGACAGAAGCTCATAAGAGCTAATC
*
36667636 CAACCGAACACGCCAGACAGAAGCTAATAA-AGGCTAATC
1 CAACCGAACACGCCAGACAGAAGCTCATAAGA-GCTAATC
36667675 CAACCGAA
1 CAACCGAA
36667683 ACATGCAGAA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
38 1 0.01
39 40 0.53
40 35 0.46
ACGTcount: A:0.44, C:0.28, G:0.16, T:0.13
Consensus pattern (39 bp):
CAACCGAACACGCCAGACAGAAGCTCATAAGAGCTAATC
Found at i:36668673 original size:17 final size:19
Alignment explanation
Indices: 36668633--36668673 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
36668623 ATTTTAATAA
36668633 TAAAATAACTTATAAAACT
1 TAAAATAACTTATAAAACT
36668652 TAAAA-AACTTATAAAA-T
1 TAAAATAACTTATAAAACT
36668669 TAAAA
1 TAAAA
36668674 GGAATTAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.27
18 11 0.50
19 5 0.23
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (19 bp):
TAAAATAACTTATAAAACT
Found at i:36678120 original size:30 final size:30
Alignment explanation
Indices: 36678086--36678142 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
36678076 CTTCTAAAAA
* *
36678086 TATTTACAAAAAGAGACACCTAATTTTTAT
1 TATTTACAAAAAGAGAAACCAAATTTTTAT
**
36678116 TATTTATGAAAAGAGAAACCAAATTTT
1 TATTTACAAAAAGAGAAACCAAATTTT
36678143 AAAAATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.35
Consensus pattern (30 bp):
TATTTACAAAAAGAGAAACCAAATTTTTAT
Found at i:36693658 original size:14 final size:15
Alignment explanation
Indices: 36693632--36693664 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
36693622 TAATTCATAA
36693632 AAAATTAAAAAAATT
1 AAAATTAAAAAAATT
36693647 AAAATT-AAAAAATT
1 AAAATTAAAAAAATT
36693661 AAAA
1 AAAA
36693665 GTGTTCATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAATTAAAAAAATT
Found at i:36693826 original size:12 final size:12
Alignment explanation
Indices: 36693805--36693842 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
36693795 ATTTATGGAT
36693805 TAATATATAAAAA
1 TAATA-ATAAAAA
36693818 TAATAATAACAAA
1 TAATAATAA-AAA
36693831 -AATAATAAAAA
1 TAATAATAAAAA
36693842 T
1 T
36693843 TAAAGATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
11 3 0.13
12 12 0.52
13 8 0.35
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (12 bp):
TAATAATAAAAA
Found at i:36694116 original size:6 final size:6
Alignment explanation
Indices: 36694105--36694130 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
36694095 CTAGGCATTG
36694105 GGGTTA GGGTTA GGGTTA GGGTTA GG
1 GGGTTA GGGTTA GGGTTA GGGTTA GG
36694131 AGGATTTAAT
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:0.54, T:0.31
Consensus pattern (6 bp):
GGGTTA
Found at i:36696427 original size:20 final size:21
Alignment explanation
Indices: 36696390--36696430 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36696380 TTATGATACA
* *
36696390 TTAATATTTTTATATTAAATT
1 TTAAGATTTTAATATTAAATT
36696411 TTAAGATTTTAAT-TTAAATT
1 TTAAGATTTTAATATTAAATT
36696431 AATTTTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TTAAGATTTTAATATTAAATT
Found at i:36698221 original size:43 final size:43
Alignment explanation
Indices: 36698083--36698221 Score: 136
Period size: 43 Copynumber: 3.2 Consensus size: 43
36698073 CCTTAAGTGA
* * * * * *
36698083 CGCTTCTCACAAAAATGTCACTATAGAACATGACCTTTAGCAG
1 CGCTTTTCCCAAAAATGTCACTAAAAAACATGACATTTAGCGG
* * * * * *
36698126 CGCTTTTTCCACAAATGCCGCTAAACAACATGACATTTAGTGG
1 CGCTTTTCCCAAAAATGTCACTAAAAAACATGACATTTAGCGG
* *
36698169 CGCTTTTCCCAAAAATGTCACTAAAAAAATATGACTTTTAGCGG
1 CGCTTTTCCCAAAAATGTCACT-AAAAAACATGACATTTAGCGG
36698213 CG-TTTTCCC
1 CGCTTTTCCC
36698222 TACAAACACC
Statistics
Matches: 76, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
43 57 0.75
44 19 0.25
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (43 bp):
CGCTTTTCCCAAAAATGTCACTAAAAAACATGACATTTAGCGG
Found at i:36698780 original size:30 final size:29
Alignment explanation
Indices: 36698748--36698805 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
36698738 CATGAGAATA
*
36698748 TATATGTGTGAAAATTGTGTGAG-TAATT
1 TATATCTGTGAAAATTGTGTGAGCTAATT
36698776 TATATCTGTGAAAATTGTGTGAGCTAATT
1 TATATCTGTGAAAATTGTGTGAGCTAATT
36698805 T
1 T
36698806 TATTGTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.31, C:0.03, G:0.22, T:0.43
Consensus pattern (29 bp):
TATATCTGTGAAAATTGTGTGAGCTAATT
Done.