Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 44 of 297
Found at i:15668123 original size:171 final size:171
Alignment explanation
Indices: 15667831--15668158 Score: 451
Period size: 171 Copynumber: 1.9 Consensus size: 171
15667821 TGGATGTGTG
* * * *** *
15667831 GGAGCCACGGGCACCATCGATAAACAAGGCCTTTGGTCGTGCTGGAGCTTTGGGCACCATCGGAA
1 GGAGCCACGGGCACCATCGATAAACAAGGCCCTTGGTCGTGCGGGAGCCTCAAGAACCATCGGAA
* * * *
15667896 CCTTGGTGCCTTAGATGTGCAGGAGCCTTGAGCAGCATCGGCATCTTGGTGCTTGGATGTGCGGG
66 CCTTGGTGCCTCAGATGTGCAGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCAGG
*
15667961 AGCCTCAGACACCATCGGCAACCTAGGCCCTTGGTCGTGCC
131 AGCCTCAGACACCATAGGCAACCTAGGCCCTTGGTCGTGCC
* * * * * *
15668002 GGAGCCTCGGGCACCATCGGTAACCTAGGCCCTTGGTGGTGCGGGAGCCTCAAGAACCATCGGCA
1 GGAGCCACGGGCACCATCGATAAACAAGGCCCTTGGTCGTGCGGGAGCCTCAAGAACCATCGGAA
* *
15668067 CCTTGGTGCCTCGGATGTGC-GAGAGCCTCGAGCAGCATTGGCACCTTGGTGCTTGGATGTGCAG
66 CCTTGGTGCCTCAGATGTGCAG-GAGCCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCAG
*
15668131 GAGCCTCGGACACCATAGGCAACCTAGG
130 GAGCCTCAGACACCATAGGCAACCTAGG
15668159 ACGTTGGATG
Statistics
Matches: 135, Mismatches: 21, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
170 1 0.01
171 134 0.99
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.20
Consensus pattern (171 bp):
GGAGCCACGGGCACCATCGATAAACAAGGCCCTTGGTCGTGCGGGAGCCTCAAGAACCATCGGAA
CCTTGGTGCCTCAGATGTGCAGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCAGG
AGCCTCAGACACCATAGGCAACCTAGGCCCTTGGTCGTGCC
Found at i:15668195 original size:128 final size:129
Alignment explanation
Indices: 15667918--15668215 Score: 309
Period size: 128 Copynumber: 2.3 Consensus size: 129
15667908 AGATGTGCAG
* * * *
15667918 GAGCCTTGAGCAGCATCGGCATCTTGGTG-CTTGGATGTGCGGGAGCCTCAGACACCATCGGCAA
1 GAGCCTCGAGCAGCATCGGCACCTTGGTGCCTCGGATGTGCGAGAGCCTCAGACACCATCGGCAA
* * * * * *
15667982 CCTAGGCCCTTGGTCGTGCCGGAGCCTCGGGCACCATCGGTAACCTAGGCCCTTGGTGGTGCGG
66 CCTAGGCCCTTGGTCGTGCAGGAGCCTCGGACACCATAGGCAACCTAGGACCTTGGTGGTGCGA
* * * * *
15668046 GAGCCTCAAGAACCATCGGCACCTTGGTGCCTCGGATGTGCGAGAGCCTC-GAGCAGCATTGGC-
1 GAGCCTCGAGCAGCATCGGCACCTTGGTGCCTCGGATGTGCGAGAGCCTCAGA-CACCATCGGCA
* ** *
15668109 ACCTTGGTGCTTGGAT-GTGCAGGAGCCTCGGACACCATAGGCAACCTAGGACGTTGGAT-GTGC
65 ACCTAGGCCCTTGG-TCGTGCAGGAGCCTCGGACACCATAGGCAACCTAGGACCTTGG-TGGTGC
15668172 GA
128 GA
* ** * * *
15668174 GTGCCTCGAGCAGCAGGGGCACCCTAGTGCCTCGAATGTGCG
1 GAGCCTCGAGCAGCATCGGCACCTTGGTGCCTCGGATGTGCG
15668216 GGCTAAAGAA
Statistics
Matches: 138, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
128 110 0.80
129 28 0.20
ACGTcount: A:0.18, C:0.29, G:0.34, T:0.19
Consensus pattern (129 bp):
GAGCCTCGAGCAGCATCGGCACCTTGGTGCCTCGGATGTGCGAGAGCCTCAGACACCATCGGCAA
CCTAGGCCCTTGGTCGTGCAGGAGCCTCGGACACCATAGGCAACCTAGGACCTTGGTGGTGCGA
Found at i:15668217 original size:171 final size:171
Alignment explanation
Indices: 15667886--15668217 Score: 404
Period size: 171 Copynumber: 1.9 Consensus size: 171
15667876 AGCTTTGGGC
* * *
15667886 ACCATCGGAACCTTGGTGCCTTAGATGTGCAGGAGCCTTGAGCAGCATCGGCATCTTGGTGCTTG
1 ACCATCGGAACCTTGGTGCCTCAGATGTGCAGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTTG
* * * *
15667951 GATGTGCGGGAGCCTCAGACACCATCGGCAACCTAGGCCCTTGGTCGTGCCGGAGCCTCGGGCAC
66 GATGTGCAGGAGCCTCAGACACCATAGGCAACCTAGGACCTTGGTCGTGCCGGAGCCTCGAGCAC
* * * *
15668016 CATCGGTAACCTAGGCCCTTGGTGGTGCGGGAGCCTCAAGA
131 CAGCGGCAACCTAGGCCCTCGATGGTGCGGGAGCCTCAAGA
* * *
15668057 ACCATCGGCACCTTGGTGCCTCGGATGTGC-GAGAGCCTCGAGCAGCATTGGCACCTTGGTGCTT
1 ACCATCGGAACCTTGGTGCCTCAGATGTGCAG-GAGCCTCGAGCAGCATCGGCACCTTGGTGCTT
* * *
15668121 GGATGTGCAGGAGCCTCGGACACCATAGGCAACCTAGGACGTTGGAT-GTG-CGAGTGCCTCGAG
65 GGATGTGCAGGAGCCTCAGACACCATAGGCAACCTAGGACCTTGG-TCGTGCCG-GAGCCTCGAG
* * *
15668184 CAGCAGGGGCACCCTAGTG-CCTCGAAT-GTGCGGG
128 CACCAGCGGCAACCTAG-GCCCTCG-ATGGTGCGGG
15668218 CTAAAGAAAA
Statistics
Matches: 136, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
170 3 0.02
171 130 0.96
172 3 0.02
ACGTcount: A:0.18, C:0.28, G:0.34, T:0.20
Consensus pattern (171 bp):
ACCATCGGAACCTTGGTGCCTCAGATGTGCAGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTTG
GATGTGCAGGAGCCTCAGACACCATAGGCAACCTAGGACCTTGGTCGTGCCGGAGCCTCGAGCAC
CAGCGGCAACCTAGGCCCTCGATGGTGCGGGAGCCTCAAGA
Found at i:15675563 original size:58 final size:59
Alignment explanation
Indices: 15675472--15675592 Score: 181
Period size: 58 Copynumber: 2.1 Consensus size: 59
15675462 CCCTCCCCAA
* * *
15675472 TCCCAAAAGGTAGAATTCAAATACCGTTACATGTTCGGTACCCAATAATGAATGAACCG
1 TCCCAAAAGCTAGAATTCAAATACCGTTACATGTTCAGTACCCAACAATGAATGAACCG
* * *
15675531 TCCC-AAAGCTAGAATTCATATACCGTTGCATGTTCAGTACCCAACAATGAATGAATCG
1 TCCCAAAAGCTAGAATTCAAATACCGTTACATGTTCAGTACCCAACAATGAATGAACCG
15675589 TCCC
1 TCCC
15675593 TGTCTCTCTC
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
58 52 0.93
59 4 0.07
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.25
Consensus pattern (59 bp):
TCCCAAAAGCTAGAATTCAAATACCGTTACATGTTCAGTACCCAACAATGAATGAACCG
Found at i:15685403 original size:27 final size:28
Alignment explanation
Indices: 15685319--15685416 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
15685309 CATGAGATTG
* * * *
15685319 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
15685348 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
15685376 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
15685403 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
15685417 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:15685427 original size:27 final size:27
Alignment explanation
Indices: 15685347--15685429 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
15685337 TAAATTGTAC
* *
15685347 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
15685375 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
15685402 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
15685429 A
1 A
15685430 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:15685430 original size:29 final size:27
Alignment explanation
Indices: 15685319--15685430 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
15685309 CATGAGATTG
** * *
15685319 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
15685348 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
15685376 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
15685403 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
15685431 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:15693215 original size:27 final size:28
Alignment explanation
Indices: 15693131--15693227 Score: 133
Period size: 27 Copynumber: 3.5 Consensus size: 28
15693121 CATGAGATTG
* * * *
15693131 GCACTAAGTGTGCGGGTTTAACTTGTACA
1 GCACTAAGTGTGCGAGTTTGA-TTATATA
15693160 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
15693188 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
15693215 GCACTGAGTGTGC
1 GCACTAAGTGTGC
15693228 AGACTTAATA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 23 0.37
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:15693239 original size:27 final size:27
Alignment explanation
Indices: 15693159--15693241 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
15693149 TAACTTGTAC
* *
15693159 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
15693187 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
15693214 AGCACTGAGTGTGCAGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
15693241 A
1 A
15693242 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:15693242 original size:29 final size:27
Alignment explanation
Indices: 15693131--15693242 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
15693121 CATGAGATTG
** * *
15693131 GCACTAAGTGTGCGGGTTTAACTTGTACA
1 GCACTAAGTGTGC-GACTTAA-TTATATA
* *
15693160 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
15693188 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
15693215 GCACTGAGTGTGCAGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
15693243 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 27 0.38
29 22 0.31
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:15695784 original size:10 final size:10
Alignment explanation
Indices: 15695771--15695796 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
15695761 CTCCTCCTAT
15695771 TTTCTTCTAA
1 TTTCTTCTAA
15695781 TTTCTTCTAA
1 TTTCTTCTAA
15695791 TTTCTT
1 TTTCTT
15695797 TCGTTTCACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTCTTCTAA
Found at i:15698229 original size:28 final size:29
Alignment explanation
Indices: 15698181--15698236 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
15698171 TACTATAGAT
15698181 TATGAAACTTTAGATTCTGAAAACTATAC
1 TATGAAACTTTAGATTCTGAAAACTATAC
*
15698210 TATGAAAC-TTAGATTTTGAAAACTATA
1 TATGAAACTTTAGATTCTGAAAACTATA
15698237 GATATTGATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (29 bp):
TATGAAACTTTAGATTCTGAAAACTATAC
Found at i:15698784 original size:37 final size:37
Alignment explanation
Indices: 15698743--15698818 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
15698733 AATTTGGGAC
*
15698743 ACACAGCCGTGTCCCAGCCCATCTCTTCATCCGTGTA
1 ACACAGCCGTGTCCCAACCCATCTCTTCATCCGTGTA
* *
15698780 ACACAGTCGTGTCCCAACCTATCTCTTCATCCGTGTA
1 ACACAGCCGTGTCCCAACCCATCTCTTCATCCGTGTA
15698817 AC
1 AC
15698819 TCTCTTAGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.21, C:0.38, G:0.14, T:0.26
Consensus pattern (37 bp):
ACACAGCCGTGTCCCAACCCATCTCTTCATCCGTGTA
Found at i:15699824 original size:13 final size:13
Alignment explanation
Indices: 15699808--15699832 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15699798 AATGATTTCA
15699808 TGAAAATTTTGAT
1 TGAAAATTTTGAT
15699821 TGAAAATTTTGA
1 TGAAAATTTTGA
15699833 CGTTTAGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
TGAAAATTTTGAT
Found at i:15700934 original size:42 final size:42
Alignment explanation
Indices: 15700885--15701038 Score: 159
Period size: 42 Copynumber: 3.6 Consensus size: 42
15700875 TGAGATTATG
15700885 TGTAAGACCATATCTGGGATATGGCATC-ATTATGAGACTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGA-TATGAGACTTCA
* * * **
15700927 TGTAAGACCATATTTGGGATATGACATCGATATGAGATTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
* * * ** * *
15700969 TGTAAGACCATAGCTGGGCTATTGGCATCGAAACAAG-GTCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGACT-TCA
15701012 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
15701039 TGATGTAGTA
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 60 0.66
43 31 0.34
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
Found at i:15719901 original size:47 final size:47
Alignment explanation
Indices: 15719847--15720032 Score: 282
Period size: 47 Copynumber: 4.0 Consensus size: 47
15719837 TTAGGATTTT
** * * *
15719847 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATACATGTGATAAGGCCGAATGGCCA
15719894 ATGTGATGAATGTGAACATGCATACATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATACATGTGATAAGGCCGAATGGCCA
15719941 ATGTGATGAATGTGAACATGCATACATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATACATGTGATAAGGCCGAATGGCCA
* * * * *
15719988 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATACATGTGATAAGGCCGAATGGC
15720033 TAGTGTGAAA
Statistics
Matches: 129, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 129 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.25
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATACATGTGATAAGGCCGAATGGCCA
Found at i:15719922 original size:25 final size:25
Alignment explanation
Indices: 15719894--15719972 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
15719884 CGAATGGCCA
15719894 ATGTGATGAATGTGAACATGCATAC
1 ATGTGATGAATGTGAACATGCATAC
* * *
15719919 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAC
15719941 ATGTGATGAATGTGAACATGCATAC
1 ATGTGATGAATGTGAACATGCATAC
15719966 ATGTGAT
1 ATGTGAT
15719973 AAGGCCGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 8 0.20
23 9 0.22
24 9 0.22
25 15 0.37
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.27
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAC
Found at i:15719947 original size:22 final size:22
Alignment explanation
Indices: 15719876--15719992 Score: 62
Period size: 23 Copynumber: 5.0 Consensus size: 22
15719866 GTATATATGA
15719876 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
15719898 GATGAATG-TGAACAT-GCATACATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
15719923 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
15719945 GATGAATG-TGAACAT-GCATACATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
15719970 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
15719992 G
1 G
15719993 GTGAATATGA
Statistics
Matches: 69, Mismatches: 12, Indels: 28
0.63 0.11 0.26
Matches are distributed among these distances:
22 17 0.25
23 18 0.26
24 18 0.26
25 16 0.23
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.22
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:15720302 original size:37 final size:37
Alignment explanation
Indices: 15720194--15720302 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
15720184 GGAAATATAT
* *
15720194 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTA
15720231 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTA
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTA
* * *
15720268 TCCGGGTAAGACCCGATAACTTCGTGTCGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
15720303 CGTCCGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTA
Found at i:15720413 original size:42 final size:42
Alignment explanation
Indices: 15720354--15720436 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
15720344 AAAGCTATAA
*
15720354 GACTTCGTAATAAGAATTTCTTATAAATATATTCAATGCGAC
1 GACTTCGTAATAAGAATTGCTTATAAATATATTCAATGCGAC
15720396 GACTTCGTAATAAGAATTGCTTATAAATATATTCAATGCGA
1 GACTTCGTAATAAGAATTGCTTATAAATATATTCAATGCGA
15720437 AAGGTTAAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (42 bp):
GACTTCGTAATAAGAATTGCTTATAAATATATTCAATGCGAC
Found at i:15721461 original size:23 final size:23
Alignment explanation
Indices: 15721435--15721510 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
15721425 ATTTGGATTG
15721435 AATTTTAAGGGTATAAGTGTTGC
1 AATTTTAAGGGTATAAGTGTTGC
* **
15721458 AATTTTGAAAGAGTATTTG-GATTG-
1 AATTTT--AAGGGTATAAGTG-TTGC
* *
15721482 AATTATAAGGGTATAAGTGATGC
1 AATTTTAAGGGTATAAGTGTTGC
15721505 AATTTT
1 AATTTT
15721511 GAAAGAGTGT
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
22 10 0.26
23 12 0.31
24 6 0.15
25 11 0.28
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (23 bp):
AATTTTAAGGGTATAAGTGTTGC
Found at i:15721483 original size:47 final size:47
Alignment explanation
Indices: 15721425--15721518 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
15721415 TTGAATTTCG
* *
15721425 ATTTGGATTGAATTTTAAGGGTATAAGTGTTGCAATTTTGAAAGAGT
1 ATTTGGATTGAATTATAAGGGTATAAGTGATGCAATTTTGAAAGAGT
15721472 ATTTGGATTGAATTATAAGGGTATAAGTGATGCAATTTTGAAAGAGT
1 ATTTGGATTGAATTATAAGGGTATAAGTGATGCAATTTTGAAAGAGT
15721519 GTTATGACTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.34, C:0.02, G:0.26, T:0.38
Consensus pattern (47 bp):
ATTTGGATTGAATTATAAGGGTATAAGTGATGCAATTTTGAAAGAGT
Found at i:15721495 original size:22 final size:22
Alignment explanation
Indices: 15721425--15721495 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
15721415 TTGAATTTCG
15721425 ATTTGGATTGAATTTTAAGGGT
1 ATTTGGATTGAATTTTAAGGGT
** *
15721447 ATAAGTG-TTGCAATTTTGAAAGAGT
1 ATTTG-GATTG-AATTTT--AAGGGT
*
15721472 ATTTGGATTGAATTATAAGGGT
1 ATTTGGATTGAATTTTAAGGGT
15721494 AT
1 AT
15721496 AAGTGATGCA
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 6 0.16
25 11 0.30
ACGTcount: A:0.32, C:0.01, G:0.25, T:0.41
Consensus pattern (22 bp):
ATTTGGATTGAATTTTAAGGGT
Found at i:15722145 original size:40 final size:40
Alignment explanation
Indices: 15721662--15722133 Score: 809
Period size: 40 Copynumber: 11.8 Consensus size: 40
15721652 GAGAATTGAG
*
15721662 AGTGATATATCCGGGCTAAGTCCCGAAAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
15721702 AGTGATATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
15721742 AGTGATATATCCGGGCTAAGTCCCGAAAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
15721782 AGTGATATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
15721822 AGTGATATATCCGGGCTAAGTCCCGAAAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
15721862 AGTGATATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
15721902 AGTGATATATCCGGGCTAAGTCCCGAAAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
15721942 AGTGATATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
15721982 AGTGATATATCCGGGCTAAGTCCCGAAAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
15722022 AGTGATATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
15722062 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
15722102 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
15722134 ATCATGCTGG
Statistics
Matches: 406, Mismatches: 26, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 406 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:15726224 original size:47 final size:47
Alignment explanation
Indices: 15726170--15726364 Score: 182
Period size: 47 Copynumber: 4.1 Consensus size: 47
15726160 TTAGGATTTT
** * * *
15726170 ATGTGATGAATATGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAATGGCCA
* * * *
15726217 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAATGGCCA
* *
15726264 ATGTGGTGAATATGAACATGCATATATGTGGA-AAAGCCGAATGGCTA
1 ATGTGATGAATATGAACATGCATATATGT-GATAAAGCCGAATGGCCA
* * * *
15726311 ATGTGAAAT-ATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
1 ATGTG--ATGA-ATATGA-ACATGCATATATGTGATAAAGCCGAATGGCCA
15726359 ATGTGA
1 ATGTGA
15726365 AATATGTATG
Statistics
Matches: 125, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
46 1 0.01
47 84 0.67
48 30 0.24
49 6 0.05
50 4 0.03
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAATGGCCA
Found at i:15726272 original size:25 final size:25
Alignment explanation
Indices: 15726199--15726272 Score: 59
Period size: 23 Copynumber: 3.1 Consensus size: 25
15726189 GTATATATGA
*
15726199 GATAAGGCCGAATGGCCAATGTGAT
1 GATAAGGCCGAATGGCCAATGTGGT
* * *
15726224 GA-ATGTG-AGCAT-G-CATATGT-GT
1 GATAAG-GCCGAATGGCCA-ATGTGGT
15726246 GATAAGGCCGAATGGCCAATGTGGT
1 GATAAGGCCGAATGGCCAATGTGGT
15726271 GA
1 GA
15726273 ATATGAACAT
Statistics
Matches: 35, Mismatches: 7, Indels: 14
0.62 0.12 0.25
Matches are distributed among these distances:
22 6 0.17
23 10 0.29
24 10 0.29
25 9 0.26
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.23
Consensus pattern (25 bp):
GATAAGGCCGAATGGCCAATGTGGT
Found at i:15726443 original size:98 final size:96
Alignment explanation
Indices: 15726287--15726470 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 96
15726277 GAACATGCAT
*
15726287 ATATGTGGAAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGAAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
15726352 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
* *
15726383 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGAAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
15726447 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
15726471 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 25 0.31
97 2 0.02
98 53 0.65
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGAAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:15726486 original size:50 final size:48
Alignment explanation
Indices: 15726286--15726470 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
15726276 TGAACATGCA
*
15726286 TATATGTGGAAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
15726334 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
15726382 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
15726432 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
15726471 GGCGATGTGC
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 79 0.63
49 4 0.03
50 40 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:15726724 original size:37 final size:37
Alignment explanation
Indices: 15726616--15726724 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
15726606 GGAAATATAT
* *
15726616 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
* *
15726653 TCCGGGTAAGACCCGATTACTACGTGTAGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
* *
15726690 TCCGGGTAAGACCCGATAACTTCGTGTGGGGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
15726725 CGTCTGAGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:15727747 original size:31 final size:31
Alignment explanation
Indices: 15727709--15727770 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
15727699 CAGATCCGAT
15727709 GATTGTTTGCTATTCCGAGGTAGAATTTATG
1 GATTGTTTGCTATTCCGAGGTAGAATTTATG
*
15727740 GATTGTTTGCTGTTCCGAGGTAGAATTTATG
1 GATTGTTTGCTATTCCGAGGTAGAATTTATG
15727771 TACCGAGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.21, C:0.10, G:0.27, T:0.42
Consensus pattern (31 bp):
GATTGTTTGCTATTCCGAGGTAGAATTTATG
Found at i:15736377 original size:27 final size:27
Alignment explanation
Indices: 15736339--15736639 Score: 356
Period size: 27 Copynumber: 11.1 Consensus size: 27
15736329 GGTCATTATT
*
15736339 TGACCGTAATGCCCCTGTAGGGTAAAA
1 TGACTGTAATGCCCCTGTAGGGTAAAA
*
15736366 TGACTGTAATGCCCCTATAGGGTAAAA
1 TGACTGTAATGCCCCTGTAGGGTAAAA
* *
15736393 TGACCGTAATGCCCCTATAGGGTAAAA
1 TGACTGTAATGCCCCTGTAGGGTAAAA
** *
15736420 TGACCATAATACCCCTGTAGGGTAAAA
1 TGACTGTAATGCCCCTGTAGGGTAAAA
* *
15736447 TGACCGTAATGCCCCTGTAAGGTAAAA
1 TGACTGTAATGCCCCTGTAGGGTAAAA
*
15736474 TGA-TCGTAATGCCCCTGTAAGGTAAAA
1 TGACT-GTAATGCCCCTGTAGGGTAAAA
*
15736501 TGACTGTAATGCCCCTATAGGGTAAAA
1 TGACTGTAATGCCCCTGTAGGGTAAAA
*
15736528 TGA-TCGTAATGCCCCAGTAGGGTAAAA
1 TGACT-GTAATGCCCCTGTAGGGTAAAA
* * *
15736555 TGACTGTAATACCCCTGAAGGTTAAAA
1 TGACTGTAATGCCCCTGTAGGGTAAAA
* *
15736582 TG-GTCGTAATGCCCTTGTAGGGTAAAA
1 TGACT-GTAATGCCCCTGTAGGGTAAAA
** * * *
15736609 TGACCATAATACCCCTATATGGTAAAA
1 TGACTGTAATGCCCCTGTAGGGTAAAA
15736636 TGAC
1 TGAC
15736640 GATTATGCCC
Statistics
Matches: 238, Mismatches: 30, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
26 2 0.01
27 234 0.98
28 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
TGACTGTAATGCCCCTGTAGGGTAAAA
Found at i:15736398 original size:54 final size:55
Alignment explanation
Indices: 15736339--15736639 Score: 398
Period size: 54 Copynumber: 5.6 Consensus size: 55
15736329 GGTCATTATT
* *
15736339 TGACCGTAATGCCCCTGTAGGGTAAAATGACT-GTAATGCCCCTATAGGGTAAAA
1 TGACCGTAATGCCCCTATAGGGTAAAATGACTCGTAATGCCCCTGTAGGGTAAAA
* *
15736393 TGACCGTAATGCCCCTATAGGGTAAAATGAC-CATAATACCCCTGTAGGGTAAAA
1 TGACCGTAATGCCCCTATAGGGTAAAATGACTCGTAATGCCCCTGTAGGGTAAAA
* * *
15736447 TGACCGTAATGCCCCTGTAAGGTAAAATGA-TCGTAATGCCCCTGTAAGGTAAAA
1 TGACCGTAATGCCCCTATAGGGTAAAATGACTCGTAATGCCCCTGTAGGGTAAAA
* *
15736501 TGACTGTAATGCCCCTATAGGGTAAAATGA-TCGTAATGCCCCAGTAGGGTAAAA
1 TGACCGTAATGCCCCTATAGGGTAAAATGACTCGTAATGCCCCTGTAGGGTAAAA
* * * * *
15736555 TGACTGTAATACCCCTGA-AGGTTAAAATG-GTCGTAATGCCCTTGTAGGGTAAAA
1 TGACCGTAATGCCCCT-ATAGGGTAAAATGACTCGTAATGCCCCTGTAGGGTAAAA
* * *
15736609 TGACCATAATACCCCTATATGGTAAAATGAC
1 TGACCGTAATGCCCCTATAGGGTAAAATGAC
15736640 GATTATGCCC
Statistics
Matches: 218, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
53 1 0.00
54 216 0.99
55 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (55 bp):
TGACCGTAATGCCCCTATAGGGTAAAATGACTCGTAATGCCCCTGTAGGGTAAAA
Found at i:15736832 original size:27 final size:28
Alignment explanation
Indices: 15736780--15736852 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 28
15736770 GGAAGTATTG
* * *
15736780 TACTGGTGACTATGTCAC-ATTCACTGT
1 TACTGGTGGCTATGCCACAATTCACTGA
*
15736807 TACTTGTGGCTATGCCACAATT-ACTGA
1 TACTGGTGGCTATGCCACAATTCACTGA
* *
15736834 TACTGGGGGCTTTGCCACA
1 TACTGGTGGCTATGCCACA
15736853 TTTATTGCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 35 0.92
28 3 0.08
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (28 bp):
TACTGGTGGCTATGCCACAATTCACTGA
Found at i:15737853 original size:56 final size:56
Alignment explanation
Indices: 15737767--15737886 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
15737757 ACAAGGGATG
15737767 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
15737823 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
15737879 ATGGGCAA
1 ATGGGCAA
15737887 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:15739152 original size:79 final size:81
Alignment explanation
Indices: 15739016--15739198 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 81
15739006 TCGAATGATG
* *
15739016 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
15739080 TGTGCGAGATACTAAT
66 TGTGCGAGATACTAAA
* * * **
15739096 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
15739158 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * *
15739175 ACCGGGTTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
15739199 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
78 1 0.01
79 58 0.66
80 29 0.33
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:15739207 original size:40 final size:40
Alignment explanation
Indices: 15739016--15739200 Score: 214
Period size: 40 Copynumber: 4.7 Consensus size: 40
15739006 TCGAATGATG
* * * * *
15739016 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
15739056 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
15739096 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15739135 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
15739175 ACCGGGTTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
15739201 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 34 0.27
40 84 0.67
41 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15739222 original size:79 final size:79
Alignment explanation
Indices: 15739069--15739233 Score: 199
Period size: 79 Copynumber: 2.1 Consensus size: 79
15739059 GGACTAAGAT
** **
15739069 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAAACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
15739134 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
15739148 CCGAAGGCATTTGTGCGAGTTACTAAAACCGGGTTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CCGAAGGCATTTGTGCGAGATACTAAAACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CT
* *
15739212 ATATCC-GGTTAAATT
64 AAATCCGGGTTAAATC
15739227 CCGAAGG
1 CCGAAGG
15739234 TACGTGATTT
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
79 49 0.67
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAAAACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:15745778 original size:56 final size:56
Alignment explanation
Indices: 15745692--15745811 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
15745682 ACAAGGGATG
15745692 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
15745748 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
15745804 ATGGGCAA
1 ATGGGCAA
15745812 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:15747056 original size:103 final size:103
Alignment explanation
Indices: 15746877--15747082 Score: 403
Period size: 103 Copynumber: 2.0 Consensus size: 103
15746867 TTGAGTTTTG
*
15746877 CTAATGAAAATGAAATACGAATGTGTCATGATTTATTGTTAAATGTGCATGGTTATTCGAATGAT
1 CTAATGAAAATGAAATACGAATGTGTCATGATTTATTGTTAAATGTGCATGGTTATTCGAATAAT
15746942 GTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACC
66 GTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACC
15746980 CTAATGAAAATGAAATACGAATGTGTCATGATTTATTGTTAAATGTGCATGGTTATTCGAATAAT
1 CTAATGAAAATGAAATACGAATGTGTCATGATTTATTGTTAAATGTGCATGGTTATTCGAATAAT
15747045 GTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACC
66 GTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACC
15747083 ATATCCGGAC
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.32
Consensus pattern (103 bp):
CTAATGAAAATGAAATACGAATGTGTCATGATTTATTGTTAAATGTGCATGGTTATTCGAATAAT
GTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACC
Found at i:15748004 original size:40 final size:40
Alignment explanation
Indices: 15747046--15747990 Score: 1709
Period size: 40 Copynumber: 23.6 Consensus size: 40
15747036 TCGAATAATG
* * * * *
15747046 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * * *
15747086 TCCGGACTAAGAT-TCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
15747126 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15747165 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15747205 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15747245 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15747285 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15747325 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15747365 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15747405 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15747445 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15747485 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15747525 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15747565 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15747605 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15747645 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15747685 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15747725 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15747765 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15747805 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15747845 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15747885 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15747925 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
15747966 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
15747991 AACGAGTAGC
Statistics
Matches: 883, Mismatches: 17, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
39 33 0.04
40 840 0.95
41 10 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15755670 original size:455 final size:455
Alignment explanation
Indices: 15754819--15755730 Score: 1824
Period size: 455 Copynumber: 2.0 Consensus size: 455
15754809 ACATCTTATT
15754819 AGGGAAAGAAAACCCGTAATGACTTTTCCTGGTGGCCTTGTTTAACTTCGTGTAATTCCTACAAA
1 AGGGAAAGAAAACCCGTAATGACTTTTCCTGGTGGCCTTGTTTAACTTCGTGTAATTCCTACAAA
15754884 TCCTCCAACTGTGACTCGAATATGTGAAATAATCCATCCAGTACCTTTCGTGTGCCTTTCCAAAA
66 TCCTCCAACTGTGACTCGAATATGTGAAATAATCCATCCAGTACCTTTCGTGTGCCTTTCCAAAA
15754949 TCACAAGTGCCTCTTCTTCTTGATCTTTGGTGAACTCAACTTAAATAATGACAGGAAAATTCGAA
131 TCACAAGTGCCTCTTCTTCTTGATCTTTGGTGAACTCAACTTAAATAATGACAGGAAAATTCGAA
15755014 GACAGACCCAAGTAATCATATTTCAAATACAGAGACAAAATCTTCAGCTCCAATTTATCTGGCTC
196 GACAGACCCAAGTAATCATATTTCAAATACAGAGACAAAATCTTCAGCTCCAATTTATCTGGCTC
15755079 TTCAATCATCACTTTTGGTTGTGTGTACTCCCGAGATAATAACTCTAATGATTCCAGTGGAACTT
261 TTCAATCATCACTTTTGGTTGTGTGTACTCCCGAGATAATAACTCTAATGATTCCAGTGGAACTT
15755144 CCTAAGTGAATCCCTTCGTTTTAGCTTCTAACAAAGCCAAACATTCCTCGTCTTCATCATCACTT
326 CCTAAGTGAATCCCTTCGTTTTAGCTTCTAACAAAGCCAAACATTCCTCGTCTTCATCATCACTT
15755209 GGCGAATTCTCTAGCAGAATACATTCTAACAGATCATCTATAGAATTGAGCTCCAACTCTGTAGA
391 GGCGAATTCTCTAGCAGAATACATTCTAACAGATCATCTATAGAATTGAGCTCCAACTCTGTAGA
15755274 AGGGAAAGAAAACCCGTAATGACTTTTCCTGGTGGCCTTGTTTAACTTCGTGTAATTCCTACAAA
1 AGGGAAAGAAAACCCGTAATGACTTTTCCTGGTGGCCTTGTTTAACTTCGTGTAATTCCTACAAA
15755339 TCCTCCAACTGTGACTCGAATATGTGAAATAATCCATCCAGTACCTTTCGTGTGCCTTTCCAAAA
66 TCCTCCAACTGTGACTCGAATATGTGAAATAATCCATCCAGTACCTTTCGTGTGCCTTTCCAAAA
15755404 TCACAAGTGCCTCTTCTTCTTGATCTTTGGTGAACTCAACTTAAATAATGACAGGAAAATTCGAA
131 TCACAAGTGCCTCTTCTTCTTGATCTTTGGTGAACTCAACTTAAATAATGACAGGAAAATTCGAA
15755469 GACAGACCCAAGTAATCATATTTCAAATACAGAGACAAAATCTTCAGCTCCAATTTATCTGGCTC
196 GACAGACCCAAGTAATCATATTTCAAATACAGAGACAAAATCTTCAGCTCCAATTTATCTGGCTC
15755534 TTCAATCATCACTTTTGGTTGTGTGTACTCCCGAGATAATAACTCTAATGATTCCAGTGGAACTT
261 TTCAATCATCACTTTTGGTTGTGTGTACTCCCGAGATAATAACTCTAATGATTCCAGTGGAACTT
15755599 CCTAAGTGAATCCCTTCGTTTTAGCTTCTAACAAAGCCAAACATTCCTCGTCTTCATCATCACTT
326 CCTAAGTGAATCCCTTCGTTTTAGCTTCTAACAAAGCCAAACATTCCTCGTCTTCATCATCACTT
15755664 GGCGAATTCTCTAGCAGAATACATTCTAACAGATCATCTATAGAATTGAGCTCCAACTCTGTAGA
391 GGCGAATTCTCTAGCAGAATACATTCTAACAGATCATCTATAGAATTGAGCTCCAACTCTGTAGA
15755729 AG
1 AG
15755731 CCAGCGATTC
Statistics
Matches: 457, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
455 457 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (455 bp):
AGGGAAAGAAAACCCGTAATGACTTTTCCTGGTGGCCTTGTTTAACTTCGTGTAATTCCTACAAA
TCCTCCAACTGTGACTCGAATATGTGAAATAATCCATCCAGTACCTTTCGTGTGCCTTTCCAAAA
TCACAAGTGCCTCTTCTTCTTGATCTTTGGTGAACTCAACTTAAATAATGACAGGAAAATTCGAA
GACAGACCCAAGTAATCATATTTCAAATACAGAGACAAAATCTTCAGCTCCAATTTATCTGGCTC
TTCAATCATCACTTTTGGTTGTGTGTACTCCCGAGATAATAACTCTAATGATTCCAGTGGAACTT
CCTAAGTGAATCCCTTCGTTTTAGCTTCTAACAAAGCCAAACATTCCTCGTCTTCATCATCACTT
GGCGAATTCTCTAGCAGAATACATTCTAACAGATCATCTATAGAATTGAGCTCCAACTCTGTAGA
Found at i:15761110 original size:27 final size:26
Alignment explanation
Indices: 15761072--15761167 Score: 88
Period size: 27 Copynumber: 3.5 Consensus size: 26
15761062 AGCATGGCTG
15761072 CCAGAACAGATATTGTGACAGAG-TCA
1 CCAGAACAGATATTGTGACAGAGCT-A
* *
15761098 CCAGATATAGATATTTGTGGCAGAGCTA
1 CCAGA-ACAGATA-TTGTGACAGAGCTA
* *
15761126 CCAGAACAGATATTTGTGGC-GTAGCCA
1 CCAGAACAGATA-TTGTGACAG-AGCTA
15761153 CCAGAAACAGATATT
1 CCAG-AACAGATATT
15761168 TGTGGCATAG
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
26 6 0.10
27 30 0.49
28 24 0.39
29 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCTA
Found at i:15761178 original size:28 final size:28
Alignment explanation
Indices: 15761072--15761186 Score: 130
Period size: 28 Copynumber: 4.2 Consensus size: 28
15761062 AGCATGGCTG
* *
15761072 CCAG-AACAGATA-TTGTGACAGAGTCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
* * *
15761098 CCAGATATAGATATTTGTGGCAGAGCTA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
15761126 CCAG-AACAGATATTTGTGGC-GTAGCCA
1 CCAGAAACAGATATTTGTGGCAG-AGCCA
*
15761153 CCAGAAACAGATATTTGTGGCATAGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
*
15761181 CTAGAA
1 CCAGAA
15761187 CGCTTCCTCC
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
26 5 0.07
27 28 0.38
28 41 0.55
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (28 bp):
CCAGAAACAGATATTTGTGGCAGAGCCA
Found at i:15761187 original size:55 final size:54
Alignment explanation
Indices: 15761072--15761187 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 54
15761062 AGCATGGCTG
* * * *
15761072 CCAGAACAGATATTGTGACAGAGTCACCAGATATAGATATTTGTGGCAGAGCTA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATATTTGTGGCAGAGCCA
* *
15761126 CCAGAACAGATATTTGTGGC-GTAGCCACCAGAAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAG-AGCCACCAGAAACAGATATTTGTGGCAGAGCCA
*
15761181 CTAGAAC
1 CCAGAAC
15761188 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
54 13 0.25
55 40 0.75
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.22
Consensus pattern (54 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATATTTGTGGCAGAGCCA
Found at i:15765838 original size:40 final size:40
Alignment explanation
Indices: 15765794--15765981 Score: 322
Period size: 40 Copynumber: 4.7 Consensus size: 40
15765784 GCAAACACAT
* * * *
15765794 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
15765834 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
15765874 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
15765914 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
15765954 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
15765982 TCCAATGCTC
Statistics
Matches: 141, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:15769124 original size:40 final size:40
Alignment explanation
Indices: 15769040--15769146 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 40
15769030 ATCTTGGTAT
* *
15769040 CGCACACTTAGTGCCATATATAGCCGAAGCTATTCCAATT
1 CGCACACTTAGTGCCATATATAGTCGAAGCTATTCCAATA
*
15769080 CGCACACTTAGTGCTC-TATATAGTCGAAGCTATCTCGAA-A
1 CGCACACTTAGTGC-CATATATAGTCGAAGCTAT-TCCAATA
* *
15769120 CGCACACTAAGTGCCAAATATAGTCGA
1 CGCACACTTAGTGCCATATATAGTCGA
15769147 TTTGTCGTTG
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
39 1 0.02
40 53 0.90
41 5 0.08
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (40 bp):
CGCACACTTAGTGCCATATATAGTCGAAGCTATTCCAATA
Found at i:15771307 original size:40 final size:40
Alignment explanation
Indices: 15771270--15771495 Score: 314
Period size: 40 Copynumber: 5.7 Consensus size: 40
15771260 GCTACTCGTT
* *
15771270 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
15771310 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
15771350 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
15771390 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
15771430 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
15771471 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
15771496 CATCATTCAA
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 2 0.01
40 156 0.91
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:15778811 original size:55 final size:55
Alignment explanation
Indices: 15778723--15779727 Score: 1922
Period size: 55 Copynumber: 18.3 Consensus size: 55
15778713 ATATTAAGTC
* * * ** *
15778723 CGCACACTCAGTGCTATATAATCAACTCACACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
15778778 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
15778833 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
15778888 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
15778943 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
15778998 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
15779053 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
15779108 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
15779163 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
15779218 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
15779273 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
15779328 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
15779383 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
15779438 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
15779493 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
15779548 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
15779603 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
* *
15779658 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTC-AACTTGCACACTTAGTGCTACATAGTCAAACT
15779713 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15779728 GCACAATTTA
Statistics
Matches: 941, Mismatches: 8, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
55 915 0.97
56 26 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
Found at i:15792357 original size:46 final size:46
Alignment explanation
Indices: 15792282--15792499 Score: 230
Period size: 46 Copynumber: 4.7 Consensus size: 46
15792272 TGTAACACGC
* *
15792282 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACGTTCGCAT
* * *
15792328 CCGTAAGTGAACTCAGAATCAACTCAACGAGTTCGGA--TTC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGC-A--T
* * **
15792374 ACATTTCA-CAAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * *
15792421 CCATAAGTGAACTCAGACTCAACTCAACAAGTTCGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
15792467 CCATAAATGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
15792500 TGGATGCCCA
Statistics
Matches: 140, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.03
45 4 0.03
46 95 0.68
47 29 0.21
48 2 0.01
49 4 0.03
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:15794223 original size:14 final size:15
Alignment explanation
Indices: 15794201--15794230 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
15794191 GAATATTAAA
15794201 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
15794216 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
15794230 A
1 A
15794231 AGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:15805130 original size:40 final size:39
Alignment explanation
Indices: 15805048--15805130 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 39
15805038 CACATCAAAA
* * *
15805048 TCTTCTCTCTTGTCCTCCCTTCCCTACACATTCCTTCAT
1 TCTTCTCCCTTGTCCTCCCTTCCCTACACAGTCCATCAT
15805087 TCTTCTNCCCTTGTCCTCCCTTCCCTACACAGTCTCATC-T
1 TCTTCT-CCCTTGTCCTCCCTTCCCTACACAGTC-CATCAT
15805127 TCTT
1 TCTT
15805131 ATTCCTTTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
39 6 0.15
40 30 0.77
41 3 0.08
ACGTcount: A:0.10, C:0.43, G:0.04, T:0.42
Consensus pattern (39 bp):
TCTTCTCCCTTGTCCTCCCTTCCCTACACAGTCCATCAT
Found at i:15810913 original size:28 final size:28
Alignment explanation
Indices: 15810862--15811082 Score: 327
Period size: 28 Copynumber: 7.9 Consensus size: 28
15810852 CTTAATACAG
* *
15810862 AGTTCACCATAAAGGC-TAATCTTTCAT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
*
15810889 AGTTCACCACAAAAGCTTATTCTTTCAT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
**
15810917 AGTTCACCACAAAGGCTTATTCTTTTGT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
15810945 AGTTCACCACAAAGGCTTATTCTTTCAT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
15810973 AGTTCACCACAAAGGCTTATTCTTTCAT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
* *
15811001 AGTTTACCACAAAGGCTTATTCTTTCGT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
* **
15811029 ACTTTGCCACAAAGGCTTATTCTTTCAT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
* *
15811057 AGTTCGCCACAAAGGCTTATTTTTTC
1 AGTTCACCACAAAGGCTTATTCTTTC
15811083 CTGATGTGTT
Statistics
Matches: 177, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
27 14 0.08
28 163 0.92
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.37
Consensus pattern (28 bp):
AGTTCACCACAAAGGCTTATTCTTTCAT
Found at i:15815285 original size:24 final size:23
Alignment explanation
Indices: 15815234--15815297 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 23
15815224 CTACACCACC
* *
15815234 CAAGAGAGCACTAAAGTGCTGAG
1 CAAGAGAGCACCAAAGTGCTGAA
*
15815257 C-AGAGAGCACCAAAGTGTTGAA
1 CAAGAGAGCACCAAAGTGCTGAA
* *
15815279 CAA-AGAGAACCGAAGTGCT
1 CAAGAGAGCACCAAAGTGCT
15815298 AAATGTCGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 32 0.94
23 2 0.06
ACGTcount: A:0.41, C:0.19, G:0.28, T:0.12
Consensus pattern (23 bp):
CAAGAGAGCACCAAAGTGCTGAA
Found at i:15816165 original size:41 final size:40
Alignment explanation
Indices: 15816118--15816256 Score: 138
Period size: 42 Copynumber: 3.4 Consensus size: 40
15816108 TGGCACTAAA
* * * * *
15816118 AGAAAAACGCCGCAATATGTAAAGCAATAGTGGTGCTTATG
1 AGAAAAACACCGCAAAAGGTAAAGCATTAGTGGCG-TTATG
* **
15816159 AGAAAAA-ATGCCGCAAAAGGTCAAGCATTAGCAGCGTTTATG
1 AGAAAAACA--CCGCAAAAGGTAAAGCATTAGTGGCG-TTATG
*
15816201 AGAAAAACACCACAAAAGGTCAAA-CATTAGTGGCGTTATG
1 AGAAAAACACCGCAAAAGGT-AAAGCATTAGTGGCGTTATG
15816241 AGAAAAACACCGCAAA
1 AGAAAAACACCGCAAA
15816257 GTATCATTTT
Statistics
Matches: 80, Mismatches: 14, Indels: 9
0.78 0.14 0.09
Matches are distributed among these distances:
40 20 0.25
41 26 0.32
42 33 0.41
43 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (40 bp):
AGAAAAACACCGCAAAAGGTAAAGCATTAGTGGCGTTATG
Found at i:15816251 original size:40 final size:41
Alignment explanation
Indices: 15816101--15816256 Score: 140
Period size: 41 Copynumber: 3.8 Consensus size: 41
15816091 CAAATATTAT
* ** * * *
15816101 ACATTAGTGGCAC-TAAAAGAAAAACGCCGCAATATGT-AA
1 ACATTAGTGGCGCTTATGAGAAAAACACCGCAAAAGGTCAA
* *
15816140 AGCAATAGTGGTGCTTATGAGAAAAA-ATGCCGCAAAAGGTCAA
1 A-CATTAGTGGCGCTTATGAGAAAAACA--CCGCAAAAGGTCAA
* ** * *
15816183 GCATTAGCAGCGTTTATGAGAAAAACACCACAAAAGGTCAA
1 ACATTAGTGGCGCTTATGAGAAAAACACCGCAAAAGGTCAA
15816224 ACATTAGTGGCG-TTATGAGAAAAACACCGCAAA
1 ACATTAGTGGCGCTTATGAGAAAAACACCGCAAA
15816257 GTATCATTTT
Statistics
Matches: 92, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
39 1 0.01
40 29 0.32
41 31 0.34
42 28 0.30
43 3 0.03
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (41 bp):
ACATTAGTGGCGCTTATGAGAAAAACACCGCAAAAGGTCAA
Found at i:15827876 original size:18 final size:18
Alignment explanation
Indices: 15827853--15827888 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15827843 TTAATCACCC
15827853 TCTTCAACAAAATATTTT
1 TCTTCAACAAAATATTTT
* *
15827871 TCTTCACCAAAATGTTTT
1 TCTTCAACAAAATATTTT
15827889 AAATTGCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.19, G:0.03, T:0.44
Consensus pattern (18 bp):
TCTTCAACAAAATATTTT
Found at i:15830472 original size:27 final size:27
Alignment explanation
Indices: 15830383--15830474 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
15830373 TTTATACCTA
* *
15830383 AAACTGTATTTGAATGGGCTAAGGCCT
1 AAACTGTATCTAAATGGGCTAAGGCCT
* * *
15830410 AAATTGTAGCTAAATGGGCTATGGCCT
1 AAACTGTATCTAAATGGGCTAAGGCCT
*
15830437 AAACTGTATCTAAATGGGCTAAGGTCT
1 AAACTGTATCTAAATGGGCTAAGGCCT
15830464 AAACTGTATCT
1 AAACTGTATCT
15830475 GAATATGTTA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (27 bp):
AAACTGTATCTAAATGGGCTAAGGCCT
Found at i:15841828 original size:13 final size:13
Alignment explanation
Indices: 15841810--15841834 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15841800 TAAAAGAGCA
15841810 TAAAATTTAAAGT
1 TAAAATTTAAAGT
15841823 TAAAATTTAAAG
1 TAAAATTTAAAG
15841835 ATGATAATCA
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
TAAAATTTAAAGT
Found at i:15841954 original size:36 final size:34
Alignment explanation
Indices: 15841886--15841971 Score: 136
Period size: 36 Copynumber: 2.5 Consensus size: 34
15841876 AAAACTTTGG
*
15841886 ATCATAACTTACATAATACATAAATATTTATCAT
1 ATCATAACTTACATAATACATAAATATATATCAT
*
15841920 ATCATAAGTTACATAACTTACATAAATATATATCAT
1 ATCATAACTTACATAA--TACATAAATATATATCAT
15841956 ATCATAACTTACATAA
1 ATCATAACTTACATAA
15841972 AACTTTGGAT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
34 15 0.32
36 32 0.68
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.36
Consensus pattern (34 bp):
ATCATAACTTACATAATACATAAATATATATCAT
Found at i:15844087 original size:46 final size:46
Alignment explanation
Indices: 15844019--15844113 Score: 138
Period size: 46 Copynumber: 2.1 Consensus size: 46
15844009 TATTGAAAAG
* * *
15844019 AATGTTTGTGAGAACATCATTGGGATAAT-TCTGAATGTCGATAGAA
1 AATGTTTGCGAGAACATCATTGGGACAATCT-TGAATGTCAATAGAA
*
15844065 AATGTTTGCGAGAACATTATTGGGACAATCTTGAATGTCAATAGAA
1 AATGTTTGCGAGAACATCATTGGGACAATCTTGAATGTCAATAGAA
15844111 AAT
1 AAT
15844114 CAAAAGACAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 43 0.98
47 1 0.02
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (46 bp):
AATGTTTGCGAGAACATCATTGGGACAATCTTGAATGTCAATAGAA
Found at i:15849519 original size:48 final size:48
Alignment explanation
Indices: 15849459--15849674 Score: 211
Period size: 48 Copynumber: 4.5 Consensus size: 48
15849449 TGTGTGGCAA
* *
15849459 TGTAAGATCATGTCTGGGACATGGCATCGGCCATGATATCAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATCAGAGCCAG
* * * * * *
15849507 TGTAAGACCATGTTTGGAACATGGCATCGGCGATGTTGTGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATCAGAGCCAG
*** *
15849555 TGTAAGACCATGTCTGGGACATGGCATCGGCCACCTTATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATCAGAGCCAG
* * * * * * * *
15849603 TGTAATACCATGCCTGGGACATGGTATTGGCAATAAGA-CGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATC-AGAGCCAG
*
15849651 TGTAAGATCATG-CTTGGGACATGG
1 TGTAAGACCATGTC-TGGGACATGG
15849675 TATTGACCAT
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
47 1 0.01
48 138 0.99
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATCAGAGCCAG
Found at i:15849646 original size:96 final size:96
Alignment explanation
Indices: 15849459--15849674 Score: 247
Period size: 96 Copynumber: 2.2 Consensus size: 96
15849449 TGTGTGGCAA
** * **
15849459 TGTAAGATCATGTCTGGGACATGGCATCGGCCATGATATCAGAGCTAGTGTAAGACCATGTTTGG
1 TGTAAGATCATGTCTGGGACATGGCATCGGCCACCATATCAGAGCCAGTGTAAGACCATGCCTGG
* ** *
15849524 AACATGGCATCGGCGATGTTGTGAGAGCCAG
66 AACATGGCATCGGCAATGAAGCGAGAGCCAG
* * * *
15849555 TGTAAGACCATGTCTGGGACATGGCATCGGCCACCTTATGAGAGCCAGTGTAATACCATGCCTGG
1 TGTAAGATCATGTCTGGGACATGGCATCGGCCACCATATCAGAGCCAGTGTAAGACCATGCCTGG
* * * *
15849620 GACATGGTATTGGCAAT-AAGACGAGAGCTAG
66 AACATGGCATCGGCAATGAAG-CGAGAGCCAG
15849651 TGTAAGATCATG-CTTGGGACATGG
1 TGTAAGATCATGTC-TGGGACATGG
15849675 TATTGACCAT
Statistics
Matches: 100, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
95 2 0.02
96 98 0.98
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (96 bp):
TGTAAGATCATGTCTGGGACATGGCATCGGCCACCATATCAGAGCCAGTGTAAGACCATGCCTGG
AACATGGCATCGGCAATGAAGCGAGAGCCAG
Found at i:15876733 original size:20 final size:20
Alignment explanation
Indices: 15876705--15876742 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15876695 ATGATAATTA
*
15876705 AAGTAAATTAGTTAAGGATT
1 AAGTAAATTAATTAAGGATT
*
15876725 AAGTTAATTAATTAAGGA
1 AAGTAAATTAATTAAGGA
15876743 ATAATTAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.34
Consensus pattern (20 bp):
AAGTAAATTAATTAAGGATT
Found at i:15882836 original size:24 final size:24
Alignment explanation
Indices: 15882804--15882851 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
15882794 AGTGTAGAAG
15882804 TCCACTTTTTTTAGAATATCTGCA
1 TCCACTTTTTTTAGAATATCTGCA
15882828 TCCACTTTTTTTAGAATATCTGCA
1 TCCACTTTTTTTAGAATATCTGCA
15882852 ACTACTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.08, T:0.46
Consensus pattern (24 bp):
TCCACTTTTTTTAGAATATCTGCA
Found at i:15882858 original size:24 final size:24
Alignment explanation
Indices: 15882805--15882858 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
15882795 GTGTAGAAGT
*
15882805 CCACTTTTTTTAGAATATCTGCAT
1 CCACTTTTTTTAGAATATCTGCAA
15882829 CCACTTTTTTTAGAATATCTGCAA
1 CCACTTTTTTTAGAATATCTGCAA
*
15882853 CTACTT
1 CCACTT
15882859 CATGAATCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (24 bp):
CCACTTTTTTTAGAATATCTGCAA
Found at i:15886804 original size:35 final size:34
Alignment explanation
Indices: 15886765--15886844 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 34
15886755 AGGGAATATC
* *
15886765 TAAGGGATTTGGGG-ATTTTGATTTGGGGAAAAAAA
1 TAAGGGATTTGGGGAAATTT--TTAGGGGAAAAAAA
*
15886800 TAAGGTATTTGGGGAAAATTTTTAGGGGAAAAAAA
1 TAAGGGATTTGGGG-AAATTTTTAGGGGAAAAAAA
15886835 TAAGGGATTT
1 TAAGGGATTT
15886845 CGGAAAACTG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 35 0.90
37 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (34 bp):
TAAGGGATTTGGGGAAATTTTTAGGGGAAAAAAA
Found at i:15897084 original size:11 final size:11
Alignment explanation
Indices: 15897068--15897106 Score: 57
Period size: 10 Copynumber: 3.8 Consensus size: 11
15897058 GCTTAAGTTT
15897068 AGTTAATTATA
1 AGTTAATTATA
15897079 AGTTAA-T-TA
1 AGTTAATTATA
15897088 AGTTAATTATA
1 AGTTAATTATA
15897099 A-TTAATTA
1 AGTTAATTA
15897107 ATATGCCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.31
10 9 0.35
11 9 0.35
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (11 bp):
AGTTAATTATA
Found at i:15897091 original size:20 final size:19
Alignment explanation
Indices: 15897068--15897107 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
15897058 GCTTAAGTTT
15897068 AGTTAATTATAAGTTAATTA
1 AGTTAATTATAA-TTAATTA
15897088 AGTTAATTATAATTAATTA
1 AGTTAATTATAATTAATTA
15897107 A
1 A
15897108 TATGCCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (19 bp):
AGTTAATTATAATTAATTA
Found at i:15898092 original size:22 final size:22
Alignment explanation
Indices: 15898060--15898163 Score: 93
Period size: 22 Copynumber: 4.7 Consensus size: 22
15898050 ATAGATTCAA
*
15898060 CACTTCAGTGCTCTCTGTCTAG
1 CACTTTAGTGCTCTCTGTCTAG
*
15898082 CACTTTGGTGCTCTCTG-CTTAG
1 CACTTTAGTGCTCTCTGTC-TAG
* * * *
15898104 CATTTTAGTGCTCTTTATTTAG
1 CACTTTAGTGCTCTCTGTCTAG
* * *
15898126 AACTTCAGTGCTCTCTGTTTAG
1 CACTTTAGTGCTCTCTGTCTAG
* *
15898148 CACTATGGTGCTCTCT
1 CACTTTAGTGCTCTCT
15898164 AGTGTGGTGT
Statistics
Matches: 64, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
21 1 0.02
22 63 0.98
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.42
Consensus pattern (22 bp):
CACTTTAGTGCTCTCTGTCTAG
Found at i:15900582 original size:22 final size:24
Alignment explanation
Indices: 15900537--15900585 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
15900527 TATATCTAAT
* *
15900537 TTATAATTGTTTATAATATTTATA
1 TTATAATTGTTGATAATATATATA
15900561 TTATAATT-TTGATATATATATATA
1 TTATAATTGTTGATA-ATATATATA
15900585 T
1 T
15900586 ATGTATGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (24 bp):
TTATAATTGTTGATAATATATATA
Found at i:15908035 original size:4 final size:4
Alignment explanation
Indices: 15908019--15908050 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
15908009 GGAGGAATAA
15908019 GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
15908051 GGGCATAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (4 bp):
GTAT
Found at i:15909100 original size:35 final size:35
Alignment explanation
Indices: 15909061--15909131 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
15909051 TCTAGGATCA
* *
15909061 CATATTTTTGAAGATCCAC-TTCCATATTTGCCAAG
1 CATATCTTTGAAGAT-CACTTTCCATATTTACCAAG
15909096 CATATCTTTGAAGATCACTTTCCATATTTACCAAG
1 CATATCTTTGAAGATCACTTTCCATATTTACCAAG
15909131 C
1 C
15909132 GCCAGAGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 3 0.09
35 30 0.91
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.37
Consensus pattern (35 bp):
CATATCTTTGAAGATCACTTTCCATATTTACCAAG
Found at i:15909175 original size:60 final size:60
Alignment explanation
Indices: 15909104--15909225 Score: 217
Period size: 60 Copynumber: 2.0 Consensus size: 60
15909094 AGCATATCTT
15909104 TGAAGATCACTTTCCATATTTACCAAGCGCCAGAGATAGGCTTTCAATCTCTCCAAGCAA
1 TGAAGATCACTTTCCATATTTACCAAGCGCCAGAGATAGGCTTTCAATCTCTCCAAGCAA
* * *
15909164 TGAAGATCACTTTCCATATTTACCAAGCTCCAGAGATGGGCTTTCAATTTCTCCAAGCAA
1 TGAAGATCACTTTCCATATTTACCAAGCGCCAGAGATAGGCTTTCAATCTCTCCAAGCAA
15909224 TG
1 TG
15909226 GACCAGTCCG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (60 bp):
TGAAGATCACTTTCCATATTTACCAAGCGCCAGAGATAGGCTTTCAATCTCTCCAAGCAA
Found at i:15910977 original size:48 final size:48
Alignment explanation
Indices: 15910922--15911249 Score: 233
Period size: 48 Copynumber: 6.9 Consensus size: 48
15910912 TGAATTACCG
* *
15910922 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA-AGTCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATA-TCGAGGCTA
* * * * * ** **
15910970 ATGCCATGTCCCAGGCATGGTCTTACACTAGCTCTCATCTCAATACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCTA
* * * * * * *
15911018 ATACCATGTCCTAGACATGATCTTACATTGGCTCTCATAAT-GTGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAGGCTA
* * * * *
15911066 ATGCCATGTCCCAGACAAGGTCTTACACTAGCACACATATC-ATTG-TCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGA-GGCT-A
* *
15911114 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATC-A--C-G
1 ATGCCATGTCCCAGACATGGTCTTACACTGG--CTCAC-ATATCGAGGCTA
* * * * *
15911161 ATGCCATGTTCCAAACATGGTCTTACACTGGATCTCATATCGTGG-TCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCT-A
* *
15911209 ATGCCATGTCCCAGATATGGTCTTACACTGGCACACATATC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC
15911250 ACCCAAACGT
Statistics
Matches: 214, Mismatches: 52, Indels: 28
0.73 0.18 0.10
Matches are distributed among these distances:
44 4 0.02
45 3 0.01
47 32 0.15
48 165 0.77
49 1 0.00
50 4 0.02
51 5 0.02
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCTA
Found at i:15911088 original size:96 final size:95
Alignment explanation
Indices: 15910917--15911150 Score: 281
Period size: 96 Copynumber: 2.4 Consensus size: 95
15910907 GAGGGTGAAT
* * * *
15910917 TACCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAAGTCGAGGCTAATGCCATGTCCC
1 TACCGATGCCATG-TCCAGACATGGTCTTACACTGGCTCTCAAATCGAGGCCAATGCCATGTCCC
* * * * *
15910982 AGGCATGGTCTTACACTAGCTCTCATCTCAA
65 AGACAAGGTCTTACACTAGCACACATATCAA
* * * *
15911013 TACCGATACCATGTCCTAGACATGATCTTACATTGGCTCTCATAAT-GTGGCCAATGCCATGTCC
1 TACCGATGCCATGTCC-AGACATGGTCTTACACTGGCTCTCA-AATCGAGGCCAATGCCATGTCC
*
15911077 CAGACAAGGTCTTACACTAGCACACATATCAT
64 CAGACAAGGTCTTACACTAGCACACATATCAA
**
15911109 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA
1 TACCGATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCA
15911151 CAACATCACG
Statistics
Matches: 116, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
95 3 0.03
96 109 0.94
97 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (95 bp):
TACCGATGCCATGTCCAGACATGGTCTTACACTGGCTCTCAAATCGAGGCCAATGCCATGTCCCA
GACAAGGTCTTACACTAGCACACATATCAA
Found at i:15911213 original size:95 final size:95
Alignment explanation
Indices: 15910922--15911240 Score: 270
Period size: 96 Copynumber: 3.3 Consensus size: 95
15910912 TGAATTACCG
* * * * **
15910922 ATGCCATGTTCCAAACATGGTCTTACACTGG--CTCACAAGTCGAGGCTAATGCCATGTCCCAGG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAA--C-ATGCCAATGCCATGTCCCAAA
* * * * ** *
15910985 CATGGTCTTACACTAGCTCTCATCTCAAT-ACCG
63 CAAGGTCTTACACTAGCACACATATC-ATGGTCA
* * * * * ** *
15911018 ATACCATGTCCTAGACATGATCTTACATTGGCTCTCATAATGTGGCCAATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACAT-GCCAATGCCATGTCCCAAACA
* *
15911083 AGGTCTTACACTAGCACACATATCATTGTCG
65 AGGTCTTACACTAGCACACATATCATGGTCA
* *
15911114 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACAT-CACGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATGC-CAATGCCATGTCCCAAACA
* * * *
15911178 TGGTCTTACACT-GGATCTCATATCGTGGTCA
65 AGGTCTTACACTAGCA-CACATATCATGGTCA
*
15911209 ATGCCATGTCCCAGATATGGTCTTACACTGGC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC
15911241 ACACATATCA
Statistics
Matches: 182, Mismatches: 35, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
94 3 0.02
95 71 0.39
96 102 0.56
98 6 0.03
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (95 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATGCCAATGCCATGTCCCAAACAA
GGTCTTACACTAGCACACATATCATGGTCA
Found at i:15911231 original size:143 final size:144
Alignment explanation
Indices: 15910970--15911250 Score: 383
Period size: 143 Copynumber: 2.0 Consensus size: 144
15910960 GTCGAGGCTA
* * *
15910970 ATGCCATGTCCCAGGCATGGTCTTACACTAGCTCTCATCTCAATACCGATACCATGTCCTAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCACAATACCGATACCATGTCCTAAACA
* *
15911035 TGATCTTACATTGGCTCTCATAATGTGGCCAATGCCATGTCCCAGACAAGGTCTTACACTAGCAC
66 TGATCTTACACTGGATCTCATAATGTGGCCAATGCCATGTCCCAGACAAGGTCTTACACTAGCAC
15911100 ACATATCATTGTCG
131 ACATATCATTGTCG
* *
15911114 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-CA-ACAT-CACGATGCCATGTTCC-AA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCACA-ATAC-CGATACCATG-TCCTAA
* * * * *
15911175 ACATGGTCTTACACTGGATCTCAT-ATCGTGGTCAATGCCATGTCCCAGATATGGTCTTACACTG
63 ACATGATCTTACACTGGATCTCATAAT-GTGGCCAATGCCATGTCCCAGACAAGGTCTTACACTA
15911239 GCACACATATCA
127 GCACACATATCA
15911251 CCCAAACGTC
Statistics
Matches: 121, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
142 4 0.03
143 79 0.65
144 38 0.31
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (144 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCACAATACCGATACCATGTCCTAAACA
TGATCTTACACTGGATCTCATAATGTGGCCAATGCCATGTCCCAGACAAGGTCTTACACTAGCAC
ACATATCATTGTCG
Found at i:15913627 original size:17 final size:17
Alignment explanation
Indices: 15913607--15913641 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
15913597 TCTTGAGGAA
15913607 TATGCTATCACCTTACC
1 TATGCTATCACCTTACC
15913624 TATGCTATCACCTTACC
1 TATGCTATCACCTTACC
15913641 T
1 T
15913642 TCTTGCATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.34, G:0.06, T:0.37
Consensus pattern (17 bp):
TATGCTATCACCTTACC
Found at i:15919375 original size:48 final size:48
Alignment explanation
Indices: 15919257--15919528 Score: 307
Period size: 48 Copynumber: 5.7 Consensus size: 48
15919247 AGGGTGAATT
* * * * * *
15919257 GCCGATGCCATGTTCCAAACATGGTTTTACACTGGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTG
15919305 GCC-ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCGTG
* * * * *
15919352 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-GTG
* * * * * *
15919400 GCCGATGCCATGTCCCAGACATGGTCTGACACTGGCTTTCACAGCATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTG
* * *
15919448 ACCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTG
* *
15919496 GCTGATGCCATGTCCTAGACATGGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
15919529 AGCACACATA
Statistics
Matches: 187, Mismatches: 32, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
47 43 0.23
48 143 0.76
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTG
Found at i:15922394 original size:28 final size:28
Alignment explanation
Indices: 15922354--15922423 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
15922344 TATAGTAAGT
*
15922354 TCGCACACTTAGTGCT-TAATAATCAAAC
1 TCGCACACTTAGTGCTAT-ACAATCAAAC
*
15922382 TCGCACACTTAGTGCTATACAATTAAAC
1 TCGCACACTTAGTGCTATACAATCAAAC
15922410 TCGCACACTTAGTG
1 TCGCACACTTAGTG
15922424 TCAATCTCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.29
Consensus pattern (28 bp):
TCGCACACTTAGTGCTATACAATCAAAC
Found at i:15925840 original size:37 final size:37
Alignment explanation
Indices: 15925781--15925889 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
15925771 AGCTCAGACG
* *
15925781 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
15925818 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
15925855 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
15925890 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:15926174 original size:13 final size:13
Alignment explanation
Indices: 15926156--15926192 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
15926146 ACCTTTACCA
15926156 CATATACATATCT
1 CATATACATATCT
15926169 CATATACATATCT
1 CATATACATATCT
*
15926182 CATATATATAT
1 CATATACATAT
15926193 TTCACATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (13 bp):
CATATACATATCT
Found at i:15926274 original size:50 final size:51
Alignment explanation
Indices: 15926036--15926371 Score: 225
Period size: 50 Copynumber: 6.9 Consensus size: 51
15926026 GCACATCGCC
*
15926036 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA--CATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTCA-A
*
15926086 TATATATTTCACATT-GACCATTCGGCTTTACCACATATA--CATATCTCATA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATATGCATATCTCA-A
* * * * * * *
15926136 TATATATTTCACCTTTACCACATAT--AC-ATATCTCATATA--CATATCTCATA
1 TACATATTTCA-CATTAGC-CAT-TCGGCTTTACCACATATATGCATATCTCA-A
*
15926186 TATATATTTCACATT-GACCATTCGGCTTTACCAC--ATATGCATATCTC-A
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATATGCATATCTCAA
*
15926234 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATGT-TC-A
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTCAA
* * * * * *
15926283 T--AT-TCATCACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTC--
1 TACATAT-TTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTCAA
* * * *
15926329 -ACAT-TCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
1 TACATAT-TTCACATTAGCCATTCGGCTTTACCACATATATGCAT
15926372 GTTCACATTC
Statistics
Matches: 245, Mismatches: 23, Indels: 39
0.80 0.07 0.13
Matches are distributed among these distances:
46 1 0.00
47 77 0.31
48 38 0.16
49 11 0.04
50 109 0.44
51 5 0.02
52 3 0.01
53 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (51 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTCAA
Found at i:15926314 original size:22 final size:22
Alignment explanation
Indices: 15926288--15926406 Score: 59
Period size: 23 Copynumber: 5.1 Consensus size: 22
15926278 GTTCATATTC
15926288 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
15926310 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
15926334 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
15926357 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
15926381 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
15926404 ATC
1 ATC
15926407 TCATATATAC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 18 0.25
23 19 0.27
24 19 0.27
25 15 0.21
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:15926321 original size:47 final size:47
Alignment explanation
Indices: 15926242--15926435 Score: 298
Period size: 47 Copynumber: 4.1 Consensus size: 47
15926232 CATACATATT
* * * *
15926242 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
15926289 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
15926336 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
15926383 TCACATTGGCCATTCGGCCTTATCTCATATATACAAATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
15926430 TCACAT
1 TCACAT
15926436 AAAATCCTAA
Statistics
Matches: 135, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 135 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:15926353 original size:94 final size:93
Alignment explanation
Indices: 15926194--15926435 Score: 308
Period size: 94 Copynumber: 2.6 Consensus size: 93
15926184 TATATATATT
* * *
15926194 TCACATTGACCATTCGGCTTTA-CCACATATGCATATCTCATACATAT-TTCACATTAGCCATTC
1 TCACATTGGCCATTCGGCCTTATCCACATATGCATA-CTC--ACAT-TCATCACATTAGCCATTC
* *
15926257 GGCTTTACCACATATATGCATGTTCATATTCA
62 GGCCTTACCACATATATGCATGTTCACATTCA
* *
15926289 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATC-CACATATGCATACTCACATTCATCACATTAGCCATTCGGC
*
15926354 CTTATCACATATATGCATGTTCACATTCA
65 CTTACCACATATATGCATGTTCACATTCA
* * * *
15926383 TCACATTGGCCATTCGGCCTTATCTCATATATACAAATTCACATTCATCACAT
1 TCACATTGGCCATTCGGCCTTATC-CACATATGCATACTCACATTCATCACAT
15926436 AAAATCCTAA
Statistics
Matches: 130, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
93 1 0.01
94 94 0.72
95 20 0.15
96 4 0.03
97 11 0.08
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (93 bp):
TCACATTGGCCATTCGGCCTTATCCACATATGCATACTCACATTCATCACATTAGCCATTCGGCC
TTACCACATATATGCATGTTCACATTCA
Found at i:15932030 original size:35 final size:35
Alignment explanation
Indices: 15931990--15932060 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
15931980 TTTAAGATCT
** *
15931990 CATATCTTTGAAAATCTCCTTCCATATTTGCCAAG
1 CATATCTTTGAAAATAACCTTCCATATTTACCAAG
* *
15932025 CATATCTTTGAAGATAACTTTCCATATTTACCAAG
1 CATATCTTTGAAAATAACCTTCCATATTTACCAAG
15932060 C
1 C
15932061 TCCGGAGATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (35 bp):
CATATCTTTGAAAATAACCTTCCATATTTACCAAG
Found at i:15932602 original size:27 final size:27
Alignment explanation
Indices: 15932564--15932617 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
15932554 AAAAAGGAAA
*
15932564 AGAAGTGACGCTTATGGGAGTTGGCAT
1 AGAAGTGACGCTTATGGGACTTGGCAT
15932591 AGAAGTGACGCTTATGGGACTTGGCAT
1 AGAAGTGACGCTTATGGGACTTGGCAT
15932618 TCACTCAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.13, G:0.35, T:0.26
Consensus pattern (27 bp):
AGAAGTGACGCTTATGGGACTTGGCAT
Found at i:15933540 original size:30 final size:30
Alignment explanation
Indices: 15933499--15933566 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
15933489 ATATATTAAT
*
15933499 TTCGGTTCGGTTAATGTATTTGAAAAAAAC
1 TTCGATTCGGTTAATGTATTTGAAAAAAAC
15933529 TTCGATTCGGTTAATGTATTTGAAAAAAAC
1 TTCGATTCGGTTAATGTATTTGAAAAAAAC
15933559 TTCGATTC
1 TTCGATTC
15933567 AATTAACGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (30 bp):
TTCGATTCGGTTAATGTATTTGAAAAAAAC
Found at i:15933583 original size:29 final size:30
Alignment explanation
Indices: 15933521--15933584 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
15933511 AATGTATTTG
** * **
15933521 AAAAAAACTTCGATTCGGTTAATGTATTTG
1 AAAAAAACTTCGATTCAATTAACGTATTAA
15933551 AAAAAAACTTCGATTCAATTAACG-ATTAA
1 AAAAAAACTTCGATTCAATTAACGTATTAA
15933580 AAAAA
1 AAAAA
15933585 TTTAAATTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (30 bp):
AAAAAAACTTCGATTCAATTAACGTATTAA
Found at i:15934754 original size:5 final size:5
Alignment explanation
Indices: 15934739--15934801 Score: 74
Period size: 5 Copynumber: 12.0 Consensus size: 5
15934729 TTGTTTCATA
15934739 GTTTT -TTTT GTTTT GTTTT GTTTTT GTTTT GTTTTT GTTTT GTTTTT
1 GTTTT GTTTT GTTTT GTTTT G-TTTT GTTTT G-TTTT GTTTT G-TTTT
*
15934786 GTTTTT TTTTT GTTTT
1 G-TTTT GTTTT GTTTT
15934802 TTGTTAATGG
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
4 4 0.08
5 28 0.54
6 20 0.38
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (5 bp):
GTTTT
Found at i:15934803 original size:11 final size:11
Alignment explanation
Indices: 15934740--15934801 Score: 101
Period size: 11 Copynumber: 5.8 Consensus size: 11
15934730 TGTTTCATAG
15934740 TTTT-TTTTG-
1 TTTTGTTTTGT
15934749 TTTTGTTTTGT
1 TTTTGTTTTGT
15934760 TTTTGTTTTGT
1 TTTTGTTTTGT
15934771 TTTTGTTTTGT
1 TTTTGTTTTGT
*
15934782 TTTTGTTTTTT
1 TTTTGTTTTGT
15934793 TTTTGTTTT
1 TTTTGTTTT
15934802 TTGTTAATGG
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
9 4 0.08
10 5 0.10
11 41 0.82
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (11 bp):
TTTTGTTTTGT
Found at i:15937928 original size:5 final size:6
Alignment explanation
Indices: 15937901--15937945 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
15937891 TGATAATCTG
* *
15937901 TGTATT TGTATT TGTATT TGTA-T TGTATTT TGTTTT TGTTTT TGT
1 TGTATT TGTATT TGTATT TGTATT TGTA-TT TGTATT TGTATT TGT
15937946 TTTTTTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
5 5 0.14
6 27 0.75
7 4 0.11
ACGTcount: A:0.11, C:0.00, G:0.18, T:0.71
Consensus pattern (6 bp):
TGTATT
Found at i:15939276 original size:51 final size:51
Alignment explanation
Indices: 15939212--15939314 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
15939202 ATATATAACA
*
15939212 GCTCTTTAAATATTTAATAAAATATTCACAGGCTTGATTTATAGAAATGAG
1 GCTCCTTAAATATTTAATAAAATATTCACAGGCTTGATTTATAGAAATGAG
15939263 GCTCCTTAAATATTTAATAAAATATTCACAGGCTTGATTTATAGAAATGAG
1 GCTCCTTAAATATTTAATAAAATATTCACAGGCTTGATTTATAGAAATGAG
15939314 G
1 G
15939315 TACCAAAATC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.36
Consensus pattern (51 bp):
GCTCCTTAAATATTTAATAAAATATTCACAGGCTTGATTTATAGAAATGAG
Found at i:15959578 original size:43 final size:43
Alignment explanation
Indices: 15959516--15959675 Score: 161
Period size: 43 Copynumber: 3.8 Consensus size: 43
15959506 AATGCCAACA
* *
15959516 TCCCAGACGTGGTCATACATGTAATCAAATATCGATGCCACTG
1 TCCCAGACGTGGTCTTACATGAAATCAAATATCGATGCCACTG
* *
15959559 TCCCAGACAG-GGTCTTACATGAAACCAAATA--GATGTCGA-TG
1 TCCCAGAC-GTGGTCTTACATGAAATCAAATATCGATG-CCACTG
* * * *
15959600 TCCCAGACATGGTCTTACACGTAATCTCAA-ATCGATGCCAAC-G
1 TCCCAGACGTGGTCTTACATGAAATC-AAATATCGATGCC-ACTG
*
15959643 TCCCAGACGTGGTCTTACATGAAATCACATATC
1 TCCCAGACGTGGTCTTACATGAAATCAAATATC
15959676 AAAAATCCTA
Statistics
Matches: 93, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
41 28 0.30
42 6 0.06
43 58 0.62
44 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
TCCCAGACGTGGTCTTACATGAAATCAAATATCGATGCCACTG
Found at i:15961833 original size:96 final size:97
Alignment explanation
Indices: 15961664--15961859 Score: 304
Period size: 96 Copynumber: 2.0 Consensus size: 97
15961654 CGTCAGCTCC
* *
15961664 ATATGTATTGAGTAACTCATCAGTTTTTCTATACCCCAAGTTACAGTTTAAAATCTTTATTGGAT
1 ATATGTATTGAGTAAATCATCAGTTTTTCTATACCCCAAGTTACAGTTTAAAATCTTCATTGGAT
* * *
15961729 TGCCAATCAGTTTAGGTTGATGGCATAGTAGT
66 TGCCAATCAGATTAAGTTGATGGCATACTAGT
* * *
15961761 ATATGTATTGAGTAAATCATTAGTTTTT-TATACCTCACGTTACAGTTTAAAATCTTCATTGGAT
1 ATATGTATTGAGTAAATCATCAGTTTTTCTATACCCCAAGTTACAGTTTAAAATCTTCATTGGAT
*
15961825 TGCTAATCAGATTAAGTTGATGGCATACTAGT
66 TGCCAATCAGATTAAGTTGATGGCATACTAGT
15961857 ATA
1 ATA
15961860 AGTGTTTCCA
Statistics
Matches: 90, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
96 64 0.71
97 26 0.29
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (97 bp):
ATATGTATTGAGTAAATCATCAGTTTTTCTATACCCCAAGTTACAGTTTAAAATCTTCATTGGAT
TGCCAATCAGATTAAGTTGATGGCATACTAGT
Found at i:15963029 original size:19 final size:19
Alignment explanation
Indices: 15963005--15963043 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
15962995 CTCTTCCATT
15963005 TGTCCTACACCTGAAAATC
1 TGTCCTACACCTGAAAATC
*
15963024 TGTCCTACACCTGAGAATC
1 TGTCCTACACCTGAAAATC
15963043 T
1 T
15963044 TGGGAAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (19 bp):
TGTCCTACACCTGAAAATC
Found at i:15965932 original size:6 final size:6
Alignment explanation
Indices: 15965921--15965960 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
15965911 CAATGGGTAT
*
15965921 GAAATG GAAAT- GAAATG GAAAT- GAAATG GTAAT- GAAATG G
1 GAAATG GAAATG GAAATG GAAATG GAAATG GAAATG GAAATG G
15965961 TAAGTGTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
5 14 0.48
6 15 0.52
ACGTcount: A:0.50, C:0.00, G:0.30, T:0.20
Consensus pattern (6 bp):
GAAATG
Found at i:15965963 original size:11 final size:11
Alignment explanation
Indices: 15965919--15965960 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
15965909 TTCAATGGGT
15965919 ATGAAATGGAA
1 ATGAAATGGAA
15965930 ATGAAATGGAA
1 ATGAAATGGAA
*
15965941 ATGAAATGGTA
1 ATGAAATGGAA
15965952 ATGAAATGG
1 ATGAAATGG
15965961 TAAGTGTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (11 bp):
ATGAAATGGAA
Found at i:15970596 original size:40 final size:40
Alignment explanation
Indices: 15970398--15970582 Score: 223
Period size: 40 Copynumber: 4.6 Consensus size: 40
15970388 CGAATGATGT
* * ** *
15970398 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCGTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
15970438 TCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
15970477 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
15970518 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
15970558 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
15970583 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 112 0.90
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:15974770 original size:43 final size:43
Alignment explanation
Indices: 15974709--15974794 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
15974699 CATTCCCAGA
15974709 ATTATGTCAAATTTTTCAAAAGGTAAAAGCATCAGATCAGCAG
1 ATTATGTCAAATTTTTCAAAAGGTAAAAGCATCAGATCAGCAG
15974752 ATTATGTCAAATTTTTCAAAAGGTAAAAGCATCAGATCAGCAG
1 ATTATGTCAAATTTTTCAAAAGGTAAAAGCATCAGATCAGCAG
15974795 GAAAACAAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (43 bp):
ATTATGTCAAATTTTTCAAAAGGTAAAAGCATCAGATCAGCAG
Found at i:16002143 original size:17 final size:17
Alignment explanation
Indices: 16002100--16002148 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
16002090 TAAAATTCCA
*
16002100 AAAACCTTAAAAC-ACC
1 AAAACCTTAAAACTAAC
* *
16002116 TAAACCCTAAAACTAAC
1 AAAACCTTAAAACTAAC
*
16002133 AAAACCTTAAACCTAA
1 AAAACCTTAAAACTAA
16002149 AAACCCTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAACCTTAAAACTAAC
Found at i:16003526 original size:20 final size:19
Alignment explanation
Indices: 16003493--16003544 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
16003483 TCGATTTATA
16003493 AAATTTTTAATAATTTTTT
1 AAATTTTTAATAATTTTTT
*
16003512 AAATTTTATATTAATTTTTAT
1 AAATTTT-TAATAATTTTT-T
*
16003533 GAACTTTTTAAT
1 -AAATTTTTAAT
16003545 TGTTTATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 7 0.26
20 10 0.37
21 4 0.15
22 6 0.22
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
AAATTTTTAATAATTTTTT
Found at i:16003530 original size:30 final size:30
Alignment explanation
Indices: 16003494--16003557 Score: 69
Period size: 30 Copynumber: 2.1 Consensus size: 30
16003484 CGATTTATAA
* *
16003494 AATTTTTAAT-AATTTTTTAAATT-TTATATT
1 AATTTTT-ATGAACTTTTTAAATGTTTAT-TT
*
16003524 AATTTTTATGAACTTTTTAATTGTTTATTT
1 AATTTTTATGAACTTTTTAAATGTTTATTT
16003554 AATT
1 AATT
16003558 ATTGTTGGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 2 0.07
30 23 0.79
31 4 0.14
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (30 bp):
AATTTTTATGAACTTTTTAAATGTTTATTT
Found at i:16004938 original size:6 final size:7
Alignment explanation
Indices: 16004921--16004951 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
16004911 ACCAAACATT
16004921 AAAAAAG
1 AAAAAAG
16004928 AAAAAAG
1 AAAAAAG
16004935 AAAAAAG
1 AAAAAAG
*
16004942 AAAAATG
1 AAAAAAG
16004949 AAA
1 AAA
16004952 CCCTAGCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:16005808 original size:25 final size:25
Alignment explanation
Indices: 16005780--16005862 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
16005770 CAGCTTGCAT
*
16005780 GAGCTTCCCAATATTTAGCTCACAA
1 GAGCTTCCCGATATTTAGCTCACAA
* * **
16005805 GAGCTTCTCGATATTCAGCTCGTAA
1 GAGCTTCCCGATATTTAGCTCACAA
* * * * *
16005830 CAGTTTCCCGATACTTAGCTCTCAT
1 GAGCTTCCCGATATTTAGCTCACAA
16005855 GAGCTTCC
1 GAGCTTCC
16005863 TTTTATTTAG
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCGATATTTAGCTCACAA
Found at i:16007403 original size:32 final size:33
Alignment explanation
Indices: 16007304--16007473 Score: 130
Period size: 33 Copynumber: 5.2 Consensus size: 33
16007294 CACATTCCCG
* * * **
16007304 TTTT-AAGTGTTACACACAAAGTGTACATACCC
1 TTTTCAAGTGGTACACACAAAGTATACCTTTCC
* * ** * **
16007336 TTTTCAATTTGTACACACAAAGTGCACATAGCC
1 TTTTCAAGTGGTACACACAAAGTATACCTTTCC
* * *
16007369 TTTTCAAGT-GTACACATATAGTGTACCTTTCC
1 TTTTCAAGTGGTACACACAAAGTATACCTTTCC
*
16007401 TTTTCAAGTGGTATACACAAAGTATACCTTTCC
1 TTTTCAAGTGGTACACACAAAGTATACCTTTCC
* * **
16007434 TTTTCATA-TGGAATACACAAAGTATACCTAACC
1 TTTTCA-AGTGGTACACACAAAGTATACCTTTCC
16007467 TTTTCAA
1 TTTTCAA
16007474 ATTGTACCAT
Statistics
Matches: 116, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
32 31 0.27
33 84 0.72
34 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (33 bp):
TTTTCAAGTGGTACACACAAAGTATACCTTTCC
Found at i:16007407 original size:65 final size:66
Alignment explanation
Indices: 16007262--16007423 Score: 175
Period size: 65 Copynumber: 2.5 Consensus size: 66
16007252 TTTCTGATGG
* * * * *
16007262 ACCTTTCCTTTTCTAGTTGTACACCCGAGGTGCACATTCCCGTTTTAAGTGTTACACACAAAGTG
1 ACCTTTCCTTTTCAAGTTGTACACACAAAGTGCACATACCCGTTTTAAGTGTTACACACAAAGTG
16007327 T
66 T
* ** * * * *
16007328 ACATACCCTTTTCAATTTGTACACACAAAGTGCACATAGCC-TTTTCAAGTG-TACACATATAGT
1 ACCTTTCCTTTTCAAGTTGTACACACAAAGTGCACATACCCGTTTT-AAGTGTTACACACAAAGT
16007391 GT
65 GT
* *
16007393 ACCTTTCCTTTTCAAGTGGTATACACAAAGT
1 ACCTTTCCTTTTCAAGTTGTACACACAAAGT
16007424 ATACCTTTCC
Statistics
Matches: 77, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
65 41 0.53
66 36 0.47
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (66 bp):
ACCTTTCCTTTTCAAGTTGTACACACAAAGTGCACATACCCGTTTTAAGTGTTACACACAAAGTG
T
Found at i:16014888 original size:55 final size:55
Alignment explanation
Indices: 16014799--16014907 Score: 175
Period size: 55 Copynumber: 2.0 Consensus size: 55
16014789 TACAATGTTT
16014799 ACATTTTAGCTTCTGATTTCCCACACTTCCAACACTAGTCACTAACAGTGACGAA
1 ACATTTTAGCTTCTGATTTCCCACACTTCCAACACTAGTCACTAACAGTGACGAA
* * *
16014854 ACATTTTGGCTTCGTG-TTTCCCACACTTCTAACACTAGTCACTGACAGTGACGA
1 ACATTTTAGCTTC-TGATTTCCCACACTTCCAACACTAGTCACTAACAGTGACGA
16014908 TGGCCTGGGA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
55 48 0.96
56 2 0.04
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (55 bp):
ACATTTTAGCTTCTGATTTCCCACACTTCCAACACTAGTCACTAACAGTGACGAA
Found at i:16017156 original size:33 final size:33
Alignment explanation
Indices: 16017113--16017235 Score: 133
Period size: 33 Copynumber: 3.8 Consensus size: 33
16017103 TTTCCGATGG
* * *
16017113 ACATTTCCTTTTCTAGTTGTACAC-CTGAGGTGC
1 ACATTCCCTTTTCAAGTTGTACACAC-GAAGTGC
* *
16017146 ACATTCCCTTTTCAAGTGGTACACACGAAGTGT
1 ACATTCCCTTTTCAAGTTGTACACACGAAGTGC
* * *
16017179 ACATACCCTTTTCAATTTGTACACACAAAGTGC
1 ACATTCCCTTTTCAAGTTGTACACACGAAGTGC
**
16017212 ACATAGCCTTTTCAAG-TGTACACA
1 ACATTCCCTTTTCAAGTTGTACACA
16017236 TACAGTGTAC
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
32 8 0.10
33 68 0.88
34 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (33 bp):
ACATTCCCTTTTCAAGTTGTACACACGAAGTGC
Found at i:16017254 original size:32 final size:33
Alignment explanation
Indices: 16017152--16017313 Score: 123
Period size: 33 Copynumber: 4.9 Consensus size: 33
16017142 GTGCACATTC
* * * * **
16017152 CCTTTTCAAGTGGTACACACGAAGTGTACATAC
1 CCTTTTCAAGTGATACACACAAAGTATACCTTT
* ** * **
16017185 CCTTTTCAATTTG-TACACACAAAGTGCACATAG
1 CCTTTTCAA-GTGATACACACAAAGTATACCTTT
* * *
16017218 CCTTTTCAAGTG-TACACATACAGTGTACCTTT
1 CCTTTTCAAGTGATACACACAAAGTATACCTTT
*
16017250 CCTTTTCAAGTGATATACACAAAGTATACCTTT
1 CCTTTTCAAGTGATACACACAAAGTATACCTTT
* *
16017283 CCTTTTCATA-TGGTATACACAAAGTATACCT
1 CCTTTTCA-AGTGATACACACAAAGTATACCT
16017314 AAACTTTTCA
Statistics
Matches: 110, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
32 28 0.25
33 79 0.72
34 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.33
Consensus pattern (33 bp):
CCTTTTCAAGTGATACACACAAAGTATACCTTT
Found at i:16017270 original size:65 final size:66
Alignment explanation
Indices: 16017142--16017274 Score: 155
Period size: 65 Copynumber: 2.0 Consensus size: 66
16017132 TACACCTGAG
* *
16017142 GTGCACATTCCCTTTTCAAGTGGTACACACGAAGTGTACATACCCTTTTCAATTTGTACACACAA
1 GTGCACATACCCTTTTCAAGTGGTACACACGAAGTGTACATACCCTTTTCAATGTGTACACACAA
16017207 A
66 A
* * * ** *
16017208 GTGCACATAGCCTTTTCAAGT-GTACACA-TACAGTGTACCTTTCCTTTTCAA-GTGATATACAC
1 GTGCACATACCCTTTTCAAGTGGTACACACGA-AGTGTACATACCCTTTTCAATGTG-TACACAC
16017270 AAA
64 AAA
16017273 GT
1 GT
16017275 ATACCTTTCC
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
64 3 0.05
65 35 0.61
66 19 0.33
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (66 bp):
GTGCACATACCCTTTTCAAGTGGTACACACGAAGTGTACATACCCTTTTCAATGTGTACACACAA
A
Found at i:16021262 original size:28 final size:29
Alignment explanation
Indices: 16021197--16021295 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
16021187 CATGAGATTG
* *
16021197 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTTC-GATTATATA
16021226 GCACTAAGTGTGCGAGGTT-GATTATATA
1 GCACTAAGTGTGCGAGGTTCGATTATATA
*
16021254 GCACTAAGTGTGCGA-GTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGGTTCGATTATAT-A
16021282 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
16021296 GGCTTATTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
27 4 0.06
28 42 0.66
29 14 0.22
30 4 0.06
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGGTTCGATTATATA
Found at i:16039182 original size:23 final size:24
Alignment explanation
Indices: 16039137--16039192 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
16039127 TTAAACATAT
* *
16039137 TTTTAAAAAATTAATTAATTGAAAA
1 TTTTAAAAAATT-ATGAAGTGAAAA
*
16039162 TTTTAAAAAATT-TGAAGTGAAAG
1 TTTTAAAAAATTATGAAGTGAAAA
*
16039185 TTTGAAAA
1 TTTTAAAA
16039193 TTTTAACCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 15 0.56
25 12 0.44
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.38
Consensus pattern (24 bp):
TTTTAAAAAATTATGAAGTGAAAA
Found at i:16042736 original size:28 final size:28
Alignment explanation
Indices: 16042693--16042751 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
16042683 CTCATATGAG
*
16042693 TATGTAAACGGGATCCTTTTTCGAGCCA
1 TATGTAAACGGAATCCTTTTTCGAGCCA
16042721 TATGTAAACGGAATCCTTTTTCGAGCCA
1 TATGTAAACGGAATCCTTTTTCGAGCCA
16042749 TAT
1 TAT
16042752 AACGGGAAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (28 bp):
TATGTAAACGGAATCCTTTTTCGAGCCA
Found at i:16042771 original size:25 final size:25
Alignment explanation
Indices: 16042743--16042970 Score: 107
Period size: 25 Copynumber: 9.2 Consensus size: 25
16042733 ATCCTTTTTC
*
16042743 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATGA
** * * **
16042768 GAGCTGTATAACGGAAAGCTTATTC
1 GAGCCATATAACGGGAAGCTCATGA
* *
16042793 GA-CC-TGAGTATCGGGAAGCTCATAA
1 GAGCCAT-A-TAACGGGAAGCTCATGA
* * *
16042818 GAGCTATA-AATCAGGAAGCTCATGG
1 GAGCCATATAA-CGGGAAGCTCATGA
* *
16042843 GAGCCAATATTA--GGAAGCTTC-GGA
1 GAGCC-ATATAACGGGAAGC-TCATGA
16042867 GAGCCAT-TAATCGGGAAGCTCATGA
1 GAGCCATATAA-CGGGAAGCTCATGA
* * *
16042892 AAGCCAATTATTA--GGAAGCTCGTGA
1 GAGCC-A-TATAACGGGAAGCTCATGA
* *
16042917 GAGCCGA-ATAACAGGAAGCTCAAGA
1 GAGCC-ATATAACGGGAAGCTCATGA
* * *
16042942 GAGCCATATATCGGGATGCTCATAA
1 GAGCCATATAACGGGAAGCTCATGA
16042967 GAGC
1 GAGC
16042971 TTTGGTGAGT
Statistics
Matches: 149, Mismatches: 36, Indels: 36
0.67 0.16 0.16
Matches are distributed among these distances:
22 2 0.01
23 6 0.04
24 18 0.12
25 112 0.75
26 6 0.04
27 3 0.02
28 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGA
Found at i:16042870 original size:49 final size:50
Alignment explanation
Indices: 16042806--16042947 Score: 148
Period size: 49 Copynumber: 2.9 Consensus size: 50
16042796 CTGAGTATCG
* * * **
16042806 GGAAGCTCATAAGAGCTATAAATCAGGAAGCTCATGGGAGCCAA-TATTA
1 GGAAGCTCGTGAGAGCCATAAATCAGGAAGCTCATGAAAGCCAATTATTA
* *
16042855 GGAAGCTTCG-GAGAGCCATTAATCGGGAAGCTCATGAAAGCCAATTATTA
1 GGAAGC-TCGTGAGAGCCATAAATCAGGAAGCTCATGAAAGCCAATTATTA
* *
16042905 GGAAGCTCGTGAGAGCCGA-ATAA-CAGGAAGCTCAAGAGAGCCA
1 GGAAGCTCGTGAGAGCC-ATA-AATCAGGAAGCTCATGAAAGCCA
16042948 TATATCGGGA
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
49 37 0.48
50 37 0.48
51 3 0.04
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (50 bp):
GGAAGCTCGTGAGAGCCATAAATCAGGAAGCTCATGAAAGCCAATTATTA
Found at i:16042920 original size:50 final size:49
Alignment explanation
Indices: 16042806--16042952 Score: 163
Period size: 50 Copynumber: 3.0 Consensus size: 49
16042796 CTGAGTATCG
* * * * *
16042806 GGAAGCTCATAAGAGCTATAAATCAGGAAGCTCATGGGAGCCAATATTA
1 GGAAGCTCGTGAGAGCCATTAATCAGGAAGCTCATGAGAGCCAATATTA
* *
16042855 GGAAGCTTCG-GAGAGCCATTAATCGGGAAGCTCATGAAAGCCAATTATTA
1 GGAAGC-TCGTGAGAGCCATTAATCAGGAAGCTCATGAGAGCCAA-TATTA
* *
16042905 GGAAGCTCGTGAGAGCCGAATAA-CAGGAAGCTCAAGAGAGCCATATAT
1 GGAAGCTCGTGAGAGCC-ATTAATCAGGAAGCTCATGAGAGCCA-ATAT
16042953 CGGGATGCTC
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
49 37 0.45
50 40 0.49
51 5 0.06
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.19
Consensus pattern (49 bp):
GGAAGCTCGTGAGAGCCATTAATCAGGAAGCTCATGAGAGCCAATATTA
Found at i:16049496 original size:12 final size:12
Alignment explanation
Indices: 16049479--16049503 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16049469 ATATGGTAAT
16049479 TGATAATTAAAA
1 TGATAATTAAAA
16049491 TGATAATTAAAA
1 TGATAATTAAAA
16049503 T
1 T
16049504 AAAACAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (12 bp):
TGATAATTAAAA
Found at i:16054354 original size:40 final size:40
Alignment explanation
Indices: 16054310--16054591 Score: 156
Period size: 40 Copynumber: 7.0 Consensus size: 40
16054300 CATCATCTCA
16054310 TACTTTCATATATCACTTGTCATGTATCATCATTTTCTTG
1 TACTTTCATATATCACTTGTCATGTATCATCATTTTCTTG
* * * ** * **
16054350 TAC-TTCAGATGGAT-A-TGTATAATCAAAT-ATCATTATCTCA
1 TACTTTCATAT--ATCACT-TGTCAT-GTATCATCATTTTCTTG
16054390 TACTTTCATATATCACTTGTCATGTATCATCATTTTCTTG
1 TACTTTCATATATCACTTGTCATGTATCATCATTTTCTTG
* * * ** * **
16054430 TAC-TTCAGATGGAT-A-TGTATAATCAAAT-ATCATTATCTCA
1 TACTTTCATAT--ATCACT-TGTCAT-GTATCATCATTTTCTTG
16054470 TACTTTCATATATCACTTGTCATGTATCATCATTTTCTTG
1 TACTTTCATATATCACTTGTCATGTATCATCATTTTCTTG
* * * ** * **
16054510 TAC-TTCAGATGGAT-A-TGTATAATCAAAT-ATCATTATCTCA
1 TACTTTCATAT--ATCACT-TGTCAT-GTATCATCATTTTCTTG
16054550 TACTTTCATATATCACTTGTCATGTATCATCATTTTCTTG
1 TACTTTCATATATCACTTGTCATGTATCATCATTTTCTTG
16054590 TA
1 TA
16054592 TTTTAGATGG
Statistics
Matches: 170, Mismatches: 48, Indels: 48
0.64 0.18 0.18
Matches are distributed among these distances:
39 33 0.19
40 104 0.61
41 33 0.19
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.45
Consensus pattern (40 bp):
TACTTTCATATATCACTTGTCATGTATCATCATTTTCTTG
Done.