Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 252 of 284
Found at i:84674171 original size:40 final size:40
Alignment explanation
Indices: 84674104--84674310 Score: 278
Period size: 40 Copynumber: 5.2 Consensus size: 40
84674094 CCTTCGGAGT
* *
84674104 TTAG-CCGGATATAGCT-ACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
*
84674143 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
**
84674183 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCAAGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
84674223 ATAGCTCGGATATAGTAACTCGCACAAATGCCTTCGGG-T
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
84674262 TTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
84674302 TTAGCCCGG
1 TTAGCCCGG
84674311 GTATCAATCC
Statistics
Matches: 148, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 37 0.25
40 110 0.74
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:84682975 original size:26 final size:26
Alignment explanation
Indices: 84682923--84682975 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
84682913 TTTACAGTTT
*
84682923 TACCCCTAGGAGATAAAGTACCGAAA
1 TACCCCTAGGAGATAAAGTACCCAAA
*
84682949 TACCCCTAGGAG-TAAATTGACCCAAA
1 TACCCCTAGGAGATAAAGT-ACCCAAA
84682975 T
1 T
84682976 GCATGTTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.19
Consensus pattern (26 bp):
TACCCCTAGGAGATAAAGTACCCAAA
Found at i:84683363 original size:33 final size:34
Alignment explanation
Indices: 84683286--84683366 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
84683276 TATGGGCCAT
*
84683286 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
84683320 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
84683353 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
84683367 GGGCTTAGGC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 13 0.34
33 14 0.37
34 11 0.29
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:84683371 original size:32 final size:31
Alignment explanation
Indices: 84683286--84683378 Score: 78
Period size: 32 Copynumber: 2.8 Consensus size: 31
84683276 TATGGGCCAT
*
84683286 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAAT---GGGCTAAGGCCCAGTTC
* * * **
84683320 AATGTAATCTGAAAAGGGCTCTGGCCCAGTATC
1 ACTGTTATCTG-AATGGGCTAAGGCCCAGT-TC
*
84683353 ACTGTTATCTGAATGGGCTTAGGCCC
1 ACTGTTATCTGAATGGGCTAAGGCCC
84683379 GATGGGCTTG
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
32 25 0.54
33 10 0.22
34 9 0.20
35 2 0.04
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (31 bp):
ACTGTTATCTGAATGGGCTAAGGCCCAGTTC
Found at i:84689574 original size:25 final size:24
Alignment explanation
Indices: 84689518--84689577 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
84689508 AAGGCTGTCA
* *
84689518 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGAGTTAGGAGCTGATAAG
84689542 GGAGAGGAGTTAGGAGCTGATCAA-
1 GGAGAGGAGTTAGGAGCTGAT-AAG
84689566 GGAGTAGGAGTT
1 GGAG-AGGAGTT
84689578 GGCCGGCCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 23 0.72
25 9 0.28
ACGTcount: A:0.33, C:0.05, G:0.42, T:0.20
Consensus pattern (24 bp):
GGAGAGGAGTTAGGAGCTGATAAG
Found at i:84691256 original size:33 final size:34
Alignment explanation
Indices: 84691179--84691259 Score: 85
Period size: 33 Copynumber: 2.4 Consensus size: 34
84691169 TATGGGCCAT
*
84691179 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * ** *
84691213 AATGTAATCTGAA-AA-GGGCTCTGGCCTAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
84691246 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
84691260 GGGCTTAGGC
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
32 12 0.32
33 14 0.38
34 11 0.30
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:84719166 original size:28 final size:28
Alignment explanation
Indices: 84719096--84719197 Score: 123
Period size: 28 Copynumber: 3.6 Consensus size: 28
84719086 ATACAGAAAA
* * * *
84719096 TGTGACAGAGTCACCAGATACAAATATTT
1 TGTGGCAGAGCCACCAGA-ACAGATAATT
*
84719125 TGTGGCAGTGCCACCAGAACAGATAATT
1 TGTGGCAGAGCCACCAGAACAGATAATT
* *
84719153 TATGGCAGGGCCACCAGAACAGATAATT
1 TGTGGCAGAGCCACCAGAACAGATAATT
*
84719181 TGTGGCATAGCCACCAG
1 TGTGGCAGAGCCACCAG
84719198 GACTCTTCCT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 48 0.76
29 15 0.24
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (28 bp):
TGTGGCAGAGCCACCAGAACAGATAATT
Found at i:84728017 original size:36 final size:36
Alignment explanation
Indices: 84727970--84728041 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
84727960 CACGGGTGTG
84727970 TGACTTGGCCGTGTGTCATAAGTCAGTATACCCTAC
1 TGACTTGGCCGTGTGTCATAAGTCAGTATACCCTAC
84728006 TGACTTGGCCGTGTGTCATAAGTCAGTATACCCTAC
1 TGACTTGGCCGTGTGTCATAAGTCAGTATACCCTAC
84728042 AGGTTTGGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (36 bp):
TGACTTGGCCGTGTGTCATAAGTCAGTATACCCTAC
Found at i:84733064 original size:46 final size:46
Alignment explanation
Indices: 84732995--84733166 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
84732985 ATTGCGAGGT
* *
84732995 CGATCCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGC
* * * * * *
84733041 CGATGCATGTCCCAGACACGTCTTCCACTTGCT-TAAATATCACGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCA--ATGC
* * *
84733089 CGATGCATGTCCTAGACATGTCTTACACTGGCTCTCATGCT--GTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT-CTCAAT-GC
*
84733135 TGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
84733167 ACACATATCA
Statistics
Matches: 101, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
45 1 0.01
46 64 0.63
48 34 0.34
49 2 0.02
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGC
Found at i:84733177 original size:94 final size:93
Alignment explanation
Indices: 84732858--84733166 Score: 261
Period size: 94 Copynumber: 3.3 Consensus size: 93
84732848 ATACCGACTC
* * ** *
84732858 CATGTCCCAGACATCGTCTTACACTGGTTTTCATAT-AGCGAGACCGATGCCATGTCCCAGATC-
1 CATGTCCCAGACA-CGTCTTACACTAGCTTAAATATCA-CGAGGCCGAT-CCATGTCCCAGA-CA
* * * *
84732921 GGTCTTACACT-GACACACAAC-AA-GCTGATG
62 TGTCTTACACTAG-CTCTCATCTAATGCTGATG
* * * ** ** *
84732951 CCATGTTCCAGACAGGTCTTACAGTAGCTTGTATATTGCGAGGTCGATCCATGTCCCAGACATGT
1 -CATGTCCCAGACACGTCTTACACTAGCTTAAATATCACGAGGCCGATCCATGTCCCAGACATGT
* *
84733016 CTTACACTAGCTCTCGTCTCAATGCCGATG
65 CTTACACTAGCTCTCATCT-AATGCTGATG
* * * *
84733046 CATGTCCCAGACACGTCTTCCACTTGCTTAAATATCACGAGGCCGATGCATGTCCTAGACATGTC
1 CATGTCCCAGACACGTCTTACACTAGCTTAAATATCACGAGGCCGATCCATGTCCCAGACATGTC
* *
84733111 TTACACTGGCTCTCATGCT-GTGGCTGATG
66 TTACACTAGCTCTCAT-CTAAT-GCTGATG
*
84733140 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACACGTCTTACACTAGC
84733167 ACACATATCA
Statistics
Matches: 172, Mismatches: 35, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
91 1 0.01
92 26 0.15
93 26 0.15
94 111 0.65
95 8 0.05
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (93 bp):
CATGTCCCAGACACGTCTTACACTAGCTTAAATATCACGAGGCCGATCCATGTCCCAGACATGTC
TTACACTAGCTCTCATCTAATGCTGATG
Found at i:84744610 original size:7 final size:7
Alignment explanation
Indices: 84744598--84744623 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
84744588 GGATGTTATT
84744598 TTGGACA
1 TTGGACA
84744605 TTGGACA
1 TTGGACA
84744612 TTGGACA
1 TTGGACA
84744619 TTGGA
1 TTGGA
84744624 ATTTTTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.31
Consensus pattern (7 bp):
TTGGACA
Found at i:84747135 original size:40 final size:41
Alignment explanation
Indices: 84747042--84747138 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 41
84747032 ATTGAATGGA
* *
84747042 ATGTGACCATGTTTGTATTTTGGTACCCCTAAATGCACATG
1 ATGTGCCCATGTTTGTACTTTGGTACCCCTAAATGCACATG
* * * * *
84747083 CT-TACCCTTGTTTGTACTTTGGTACCCTTGAATGCACAT-
1 ATGTGCCCATGTTTGTACTTTGGTACCCCTAAATGCACATG
*
84747122 ATGTGCCCCTGTTTGTA
1 ATGTGCCCATGTTTGTA
84747139 TTTCGATACC
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
39 1 0.02
40 43 0.96
41 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.39
Consensus pattern (41 bp):
ATGTGCCCATGTTTGTACTTTGGTACCCCTAAATGCACATG
Found at i:84747155 original size:40 final size:39
Alignment explanation
Indices: 84747042--84747155 Score: 97
Period size: 40 Copynumber: 2.8 Consensus size: 39
84747032 ATTGAATGGA
* *
84747042 ATGTGACCATGTTTGTATTTTGGTACCCCTAAATGCACATG
1 ATGTGCCCATGTTTGTA-TTTGGTA-CCCTGAATGCACATG
* * *
84747083 CT-TACCCTTGTTTGTACTTTGGTACCCTTGAATGCACAT-
1 ATGTGCCCATGTTTGTA-TTTGGTACCC-TGAATGCACATG
* *
84747122 ATGTGCCCCTGTTTGTATTTCGATACCTCTGAAT
1 ATGTGCCCATGTTTGTATTT-GGTACC-CTGAAT
84747156 ACACTTACAC
Statistics
Matches: 59, Mismatches: 10, Indels: 9
0.76 0.13 0.12
Matches are distributed among these distances:
39 7 0.12
40 50 0.85
41 2 0.03
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (39 bp):
ATGTGCCCATGTTTGTATTTGGTACCCTGAATGCACATG
Found at i:84749330 original size:2 final size:2
Alignment explanation
Indices: 84749323--84749353 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
84749313 ATAGGGGAAT
84749323 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
84749354 CATCAACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:84750077 original size:46 final size:45
Alignment explanation
Indices: 84750010--84750099 Score: 162
Period size: 46 Copynumber: 2.0 Consensus size: 45
84750000 GATTTGTAAC
84750010 CTCCCTAACCCGGCCTAAACGTTATGACTAGACTGAGAAAGGTTAT
1 CTCCCTAACCCGGCCTAAACGTTATGACTAGACTGAG-AAGGTTAT
*
84750056 CTCCCTAACCTGGCCTAAACGTTATGACTAGACTGAGAAGGTTA
1 CTCCCTAACCCGGCCTAAACGTTATGACTAGACTGAGAAGGTTA
84750100 CATTAGCCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 7 0.16
46 36 0.84
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (45 bp):
CTCCCTAACCCGGCCTAAACGTTATGACTAGACTGAGAAGGTTAT
Found at i:84751627 original size:16 final size:16
Alignment explanation
Indices: 84751600--84751644 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
84751590 ACCTGTAATG
84751600 CCCCAAAAATCTTAAAA
1 CCCC-AAAATCTTAAAA
* *
84751617 CCCCGAAATCTAAAAA
1 CCCCAAAATCTTAAAA
*
84751633 TCCCAAAATCTT
1 CCCCAAAATCTT
84751645 GAATTTTTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (16 bp):
CCCCAAAATCTTAAAA
Found at i:84753003 original size:28 final size:27
Alignment explanation
Indices: 84752954--84753039 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 27
84752944 GTGAGCATGA
* * * *
84752954 ATATGAATGTGACTAGGCCTAACGGGCC
1 ATATAAATGTGA-TTGGGCTAATGGGCC
84752982 ATATAAATGTGATTTGGGCTAAATGGGCC
1 ATATAAATGTGA-TTGGGCT-AATGGGCC
*
84753011 ATATAAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGC-TAATGGGCC
84753039 A
1 A
84753040 GATACAGGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 31 0.62
29 19 0.38
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (27 bp):
ATATAAATGTGATTGGGCTAATGGGCC
Found at i:84753016 original size:29 final size:28
Alignment explanation
Indices: 84752977--84753039 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
84752967 TAGGCCTAAC
*
84752977 GGGCCATATAAATGTGATTTGGGCTAAAT
1 GGGCCATATAAATATGA-TTGGGCTAAAT
*
84753006 GGGCCATATAAATATGATTGGGCTTAAT
1 GGGCCATATAAATATGATTGGGCTAAAT
84753034 GGGCCA
1 GGGCCA
84753040 GATACAGGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 16 0.50
29 16 0.50
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.29
Consensus pattern (28 bp):
GGGCCATATAAATATGATTGGGCTAAAT
Found at i:84766575 original size:13 final size:13
Alignment explanation
Indices: 84766552--84766585 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
84766542 TTAACCAAAT
84766552 AAAAT-AAATATA
1 AAAATAAAATATA
*
84766564 AATATAAAATATA
1 AAAATAAAATATA
84766577 AAAATAAAA
1 AAAATAAAA
84766586 CCAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATAAAATATA
Found at i:84777385 original size:40 final size:40
Alignment explanation
Indices: 84777292--84777668 Score: 523
Period size: 40 Copynumber: 9.5 Consensus size: 40
84777282 AAGCCAAGTA
* * *
84777292 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
84777330 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
84777370 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
84777410 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
84777450 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
84777490 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
84777530 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * *
84777570 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * *
84777610 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
84777650 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
84777669 TTATCATCCG
Statistics
Matches: 320, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
38 12 0.04
39 18 0.06
40 290 0.91
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:84782163 original size:18 final size:18
Alignment explanation
Indices: 84782142--84782182 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
84782132 TTACAGTAAA
84782142 AGTAAACAGTACAATAAT
1 AGTAAACAGTACAATAAT
*
84782160 AGTAAACAGTACAATAGT
1 AGTAAACAGTACAATAAT
84782178 AGTAA
1 AGTAA
84782183 CAATATGCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.22
Consensus pattern (18 bp):
AGTAAACAGTACAATAAT
Found at i:84782543 original size:27 final size:26
Alignment explanation
Indices: 84782512--84782647 Score: 92
Period size: 27 Copynumber: 5.0 Consensus size: 26
84782502 ACACATACAT
*
84782512 CACGTAGGGGTAAAACAGTCATCTTAC
1 CACGTAGGGG-AAAACAGTCATTTTAC
**
84782539 CACGTAAGGGGAAATTAGTCATTTTAC
1 CACGT-AGGGGAAAACAGTCATTTTAC
* * *
84782566 CACATAAGGGCAAAACCGTCATTTTAC
1 CACGT-AGGGGAAAACAGTCATTTTAC
* * * * *
84782593 CACATGAGGGCAAAATAGTCAGTTTAT
1 CACGT-AGGGGAAAACAGTCATTTTAC
* * * *
84782620 CGCATAAGGGAAAAATAGTCATTTTAC
1 CACGT-AGGGGAAAACAGTCATTTTAC
84782647 C
1 C
84782648 TTATAGTGGT
Statistics
Matches: 90, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
27 85 0.94
28 5 0.06
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (26 bp):
CACGTAGGGGAAAACAGTCATTTTAC
Found at i:84782612 original size:54 final size:54
Alignment explanation
Indices: 84782523--84782647 Score: 151
Period size: 54 Copynumber: 2.3 Consensus size: 54
84782513 ACGTAGGGGT
* * * * * *
84782523 AAAACAGTCATCTTACCACGTAAGGGGAAATTAGTCATTTTACCACATAAGGGC
1 AAAACAGTCATTTTACCACATAAGGGCAAAATAGTCAGTTTACCACATAAGGGA
* * * *
84782577 AAAACCGTCATTTTACCACATGAGGGCAAAATAGTCAGTTTATCGCATAAGGGA
1 AAAACAGTCATTTTACCACATAAGGGCAAAATAGTCAGTTTACCACATAAGGGA
*
84782631 AAAATAGTCATTTTACC
1 AAAACAGTCATTTTACC
84782648 TTATAGTGGT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.26
Consensus pattern (54 bp):
AAAACAGTCATTTTACCACATAAGGGCAAAATAGTCAGTTTACCACATAAGGGA
Found at i:84782722 original size:27 final size:27
Alignment explanation
Indices: 84782637--84782881 Score: 184
Period size: 27 Copynumber: 9.3 Consensus size: 27
84782627 GGGAAAAATA
* ***
84782637 GTCATTTTACCTTAT-AGTGGTATTACA
1 GTCATTTTACCCTATGAG-GGTATTTTG
*
84782664 GTCATTTTATCCTACT--GGGTA-TTTG
1 GTCATTTTACCCTA-TGAGGGTATTTTG
* *
84782689 ATTATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTTG
* * * * **
84782716 GCCATTTTACCATATGGGGGCATTTCA
1 GTCATTTTACCCTATGAGGGTATTTTG
* * **
84782743 GTAATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGAGGGTATTTTG
*
84782770 GTCATTTTACCCTATGTGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTTG
* * * * *
84782797 ATCATTCTACCTTGTGAGGGTATCTTG
1 GTCATTTTACCCTATGAGGGTATTTTG
*
84782824 GT-ATTTTACCC--T-AGGATATTTTG
1 GTCATTTTACCCTATGAGGGTATTTTG
84782847 GTCATTTTACCCTAT-AGGGGTATTTTG
1 GTCATTTTACCCTATGA-GGGTATTTTG
84782874 GTCATTTT
1 GTCATTTT
84782882 CAAGTAAATA
Statistics
Matches: 174, Mismatches: 36, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
23 11 0.06
24 11 0.06
25 12 0.07
26 18 0.10
27 121 0.70
28 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTTG
Found at i:84786968 original size:234 final size:235
Alignment explanation
Indices: 84786460--84786995 Score: 833
Period size: 234 Copynumber: 2.3 Consensus size: 235
84786450 TTCATGTTTC
* * * *
84786460 CAGGGTTGTGGATTTTTCTTGTTTCCAAGGCTCCTTAGGACTTATACACGCTATGTTCTATCTTT
1 CAGGGTTGTGGATTCTTCTTGTTTCCAAGGCTCCTTAGGACTTATACACACCACGTTCTATCTTT
*
84786525 TCCATCTATCTTTCATATTTTCATCTTTAGTGTTCTAATCTTTGATTTATTATTCTATTTATCTT
66 TCCATCTATCTTTCATAATTTCATCTTTAGTGTTCTAATCTTTGATTTATTATTCTATTTATCTT
* * * *
84786590 AGATATCTATTTTAAATTTTTTATCTGACTTGGATTCAATTACGTTTCAGGTTGTGTCAAAATCC
131 AGATATCTATTTTAAATTTTTTATCTAACTTAGATTCAATTACGTTTCAAGTTGTGTCAAAATCA
** *
84786655 AAGTTTCTTTTTGAACATCTAAAGCCCTAAGTCAAATCAA
196 AAGTTTCTTTCCGAACAGCTAAAGCCCTAAGTCAAATCAA
* * * *
84786695 TAGGGTTGTGGATCCTTCTTGTTTCTAAGGGTCCTTAGGACTTATACACACCACGTTCTATCTTT
1 CAGGGTTGTGGATTCTTCTTGTTTCCAAGGCTCCTTAGGACTTATACACACCACGTTCTATCTTT
*
84786760 TTCATCTATCTTTCATAATTT-ATTCTTTAGTGTTCTAATCTTTGATTTATTATTCTATTTATCT
66 TCCATCTATCTTTCATAATTTCA-TCTTTAGTGTTCTAATCTTTGATTTATTATTCTATTTATCT
* * *
84786824 TAGTTATCTATTTT-AATTTTTTATCTAACTTAGATTCAATTGCGTTTCAAGTTGTGTCAAAGTC
130 TAGATATCTATTTTAAATTTTTTATCTAACTTAGATTCAATTACGTTTCAAGTTGTGTCAAAATC
*
84786888 AAAGTTTCTTTCCGAACAGCTAAAGCCCTAAGTCAAATCCA
195 AAAGTTTCTTTCCGAACAGCTAAAGCCCTAAGTCAAATCAA
* * *
84786929 CAGGGTTGTGGATTCTTCTTGTTTCCAAGGCTCCTTAGGACTTCTATATACCACGTTCTATCTTT
1 CAGGGTTGTGGATTCTTCTTGTTTCCAAGGCTCCTTAGGACTTATACACACCACGTTCTATCTTT
84786994 TC
66 TC
84786996 TATATACCAC
Statistics
Matches: 271, Mismatches: 29, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
234 141 0.52
235 130 0.48
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (235 bp):
CAGGGTTGTGGATTCTTCTTGTTTCCAAGGCTCCTTAGGACTTATACACACCACGTTCTATCTTT
TCCATCTATCTTTCATAATTTCATCTTTAGTGTTCTAATCTTTGATTTATTATTCTATTTATCTT
AGATATCTATTTTAAATTTTTTATCTAACTTAGATTCAATTACGTTTCAAGTTGTGTCAAAATCA
AAGTTTCTTTCCGAACAGCTAAAGCCCTAAGTCAAATCAA
Found at i:84786997 original size:23 final size:23
Alignment explanation
Indices: 84786970--84787018 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
84786960 TCCTTAGGAC
84786970 TTCTATATACCACGTTCTATCTT
1 TTCTATATACCACGTTCTATCTT
84786993 TTCTATATACCACGTTCTATCTT
1 TTCTATATACCACGTTCTATCTT
84787016 TTC
1 TTC
84787019 CATCTATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.27, G:0.04, T:0.49
Consensus pattern (23 bp):
TTCTATATACCACGTTCTATCTT
Found at i:84788237 original size:234 final size:235
Alignment explanation
Indices: 84787729--84788264 Score: 833
Period size: 234 Copynumber: 2.3 Consensus size: 235
84787719 TTCATGTTTC
* * * *
84787729 CAGGGTTGTGGATTTTTCTTGTTTCCAAGGCTCCTTAGGACTTATACACGCTATGTTCTATCTTT
1 CAGGGTTGTGGATTCTTCTTGTTTCCAAGGCTCCTTAGGACTTATACACACCACGTTCTATCTTT
*
84787794 TCCATCTATCTTTCATATTTTCATCTTTAGTGTTCTAATCTTTGATTTATTATTCTATTTATCTT
66 TCCATCTATCTTTCATAATTTCATCTTTAGTGTTCTAATCTTTGATTTATTATTCTATTTATCTT
* * * *
84787859 AGATATCTATTTTAAATTTTTTATCTGACTTGGATTCAATTACGTTTCAGGTTGTGTCAAAATCC
131 AGATATCTATTTTAAATTTTTTATCTAACTTAGATTCAATTACGTTTCAAGTTGTGTCAAAATCA
** *
84787924 AAGTTTCTTTTTGAACATCTAAAGCCCTAAGTCAAATCAA
196 AAGTTTCTTTCCGAACAGCTAAAGCCCTAAGTCAAATCAA
* * * *
84787964 TAGGGTTGTGGATCCTTCTTGTTTCTAAGGGTCCTTAGGACTTATACACACCACGTTCTATCTTT
1 CAGGGTTGTGGATTCTTCTTGTTTCCAAGGCTCCTTAGGACTTATACACACCACGTTCTATCTTT
*
84788029 TTCATCTATCTTTCATAATTT-ATTCTTTAGTGTTCTAATCTTTGATTTATTATTCTATTTATCT
66 TCCATCTATCTTTCATAATTTCA-TCTTTAGTGTTCTAATCTTTGATTTATTATTCTATTTATCT
* * *
84788093 TAGTTATCTATTTT-AATTTTTTATCTAACTTAGATTCAATTGCGTTTCAAGTTGTGTCAAAGTC
130 TAGATATCTATTTTAAATTTTTTATCTAACTTAGATTCAATTACGTTTCAAGTTGTGTCAAAATC
*
84788157 AAAGTTTCTTTCCGAACAGCTAAAGCCCTAAGTCAAATCCA
195 AAAGTTTCTTTCCGAACAGCTAAAGCCCTAAGTCAAATCAA
* * *
84788198 CAGGGTTGTGGATTCTTCTTGTTTCCAAGGCTCCTTAGGACTTCTATATACCACGTTCTATCTTT
1 CAGGGTTGTGGATTCTTCTTGTTTCCAAGGCTCCTTAGGACTTATACACACCACGTTCTATCTTT
84788263 TC
66 TC
84788265 TATATACCAC
Statistics
Matches: 271, Mismatches: 29, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
234 141 0.52
235 130 0.48
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (235 bp):
CAGGGTTGTGGATTCTTCTTGTTTCCAAGGCTCCTTAGGACTTATACACACCACGTTCTATCTTT
TCCATCTATCTTTCATAATTTCATCTTTAGTGTTCTAATCTTTGATTTATTATTCTATTTATCTT
AGATATCTATTTTAAATTTTTTATCTAACTTAGATTCAATTACGTTTCAAGTTGTGTCAAAATCA
AAGTTTCTTTCCGAACAGCTAAAGCCCTAAGTCAAATCAA
Found at i:84788266 original size:23 final size:23
Alignment explanation
Indices: 84788239--84788287 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
84788229 TCCTTAGGAC
84788239 TTCTATATACCACGTTCTATCTT
1 TTCTATATACCACGTTCTATCTT
84788262 TTCTATATACCACGTTCTATCTT
1 TTCTATATACCACGTTCTATCTT
84788285 TTC
1 TTC
84788288 CATCTATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.27, G:0.04, T:0.49
Consensus pattern (23 bp):
TTCTATATACCACGTTCTATCTT
Found at i:84790537 original size:96 final size:96
Alignment explanation
Indices: 84790419--84790594 Score: 262
Period size: 96 Copynumber: 1.8 Consensus size: 96
84790409 CATACTTTCT
* * * * *
84790419 TCTCTAGTTGAATATTTAATTGGACATTGGAAACCCTTATTATCTTTTGAACTAAACTAATAACA
1 TCTCTAGTTGAATACTTAATTGGACATCGGAAACCCTTATGATCTTTGGAACTAAACCAATAACA
84790484 TTACACAAAAGGTGATAGCTCAATCGTATTC
66 TTACACAAAAGGTGATAGCTCAATCGTATTC
* * *
84790515 TCTCTATTTGGATACTTAATTGGACATCGGAAACCCTTATGATCTTTGGAACTACACCAATAACA
1 TCTCTAGTTGAATACTTAATTGGACATCGGAAACCCTTATGATCTTTGGAACTAAACCAATAACA
* *
84790580 TTTCACAATAGGTGA
66 TTACACAAAAGGTGA
84790595 GAGATCAGTT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 70 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (96 bp):
TCTCTAGTTGAATACTTAATTGGACATCGGAAACCCTTATGATCTTTGGAACTAAACCAATAACA
TTACACAAAAGGTGATAGCTCAATCGTATTC
Found at i:84792041 original size:18 final size:18
Alignment explanation
Indices: 84792018--84792054 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
84792008 AAAATAGTGA
84792018 TAACTTGAGTTCCCAAAC
1 TAACTTGAGTTCCCAAAC
84792036 TAACTTGAGTTCCCAAAC
1 TAACTTGAGTTCCCAAAC
84792054 T
1 T
84792055 CAAAATATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (18 bp):
TAACTTGAGTTCCCAAAC
Found at i:84800853 original size:3 final size:3
Alignment explanation
Indices: 84800847--84800875 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
84800837 AATAATAATA
84800847 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
84800876 GGTGAGGCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:84804131 original size:3 final size:3
Alignment explanation
Indices: 84804123--84804159 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
84804113 ACTGTAGTCT
84804123 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
84804160 AATGCATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:84808558 original size:50 final size:49
Alignment explanation
Indices: 84808391--84808615 Score: 315
Period size: 49 Copynumber: 4.5 Consensus size: 49
84808381 CTGGTACGCA
* * *
84808391 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
84808440 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * *
84808489 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
84808539 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
84808590 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
84808616 TGCGACCTCA
Statistics
Matches: 158, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
49 79 0.50
50 43 0.27
51 35 0.22
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:84808562 original size:99 final size:100
Alignment explanation
Indices: 84808378--84808622 Score: 332
Period size: 99 Copynumber: 2.5 Consensus size: 100
84808368 TAGCCAAAGC
* * * * ** *
84808378 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
84808443 TAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
66 TAGCCTGCACTTAGTACTACACACGTGATCACAAT
* * *
84808476 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGTA
*
84808541 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
65 GTAGCCTGCACTTAGTACTACACACGTGATCACAAT
* * * *
84808577 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
84808623 TCACAATAGA
Statistics
Matches: 127, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 40 0.31
99 43 0.34
100 1 0.01
101 43 0.34
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (100 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
TAGCCTGCACTTAGTACTACACACGTGATCACAAT
Found at i:84811258 original size:32 final size:33
Alignment explanation
Indices: 84811207--84811270 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
84811197 TGTGCAATTT
*
84811207 TTTTATTTATTATCGTTATTATATTTTTTATTA
1 TTTTATTTATTATCGTTATTATATTTATTATTA
* * *
84811240 TTTTA-TTATTCTCTTTATTTTATTTATTATT
1 TTTTATTTATTATCGTTATTATATTTATTATT
84811271 TTTGATATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 22 0.81
33 5 0.19
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.72
Consensus pattern (33 bp):
TTTTATTTATTATCGTTATTATATTTATTATTA
Found at i:84811388 original size:15 final size:16
Alignment explanation
Indices: 84811367--84811409 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
84811357 CCATGATATA
*
84811367 ATTATTAATATTAATG
1 ATTATTATTATTAATG
84811383 -TTATTATTA-TAATG
1 ATTATTATTATTAATG
84811397 ATTATTATTATTA
1 ATTATTATTATTA
84811410 TTATAATACT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 5 0.21
15 17 0.71
16 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (16 bp):
ATTATTATTATTAATG
Found at i:84811400 original size:21 final size:20
Alignment explanation
Indices: 84811367--84811417 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
84811357 CCATGATATA
*
84811367 ATTATTAATATTAATGTTATT
1 ATTA-TAATATTAATATTATT
*
84811388 ATTATAATGATTATTATTATT
1 ATTATAAT-ATTAATATTATT
84811409 ATTATAATA
1 ATTATAATA
84811418 CTCCTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
ATTATAATATTAATATTATT
Found at i:84823054 original size:27 final size:26
Alignment explanation
Indices: 84823010--84823061 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
84823000 CTCGCTGCAA
*
84823010 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
84823037 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
84823062 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:84823589 original size:266 final size:265
Alignment explanation
Indices: 84823115--84823645 Score: 1017
Period size: 266 Copynumber: 2.0 Consensus size: 265
84823105 NNNNNCCTCG
84823115 CTGCAATTTCTGTGGTGTGTAGCAGTTGGGTGGGTCGAGTAGTCTCCCCACATGGTGTAAGGCTG
1 CTGCAATTTCTGTGGTGTGTAGCAGTTGGGTGGGTCGAGTAGTCTCCCCACATGGTGTAAGGCTG
84823180 GTACGGGGGTGTTATGGATGGCTCCGGGTTGGGATTTCTGCATTCATGATATATTTGTTCTATAT
66 GTACGGGGGTGTTATGGATGGCTCCGGGTTGGGATTTCTGCATTCATGATATATTTGTTCTATAT
84823245 CTGCTATGGGCCTATGGGTTTCATTCTAATTTCTGTACCGGGCCAAGGCCCAGATAAGTCCGATT
131 CTGCTATGGGCCTATGGGTTTCATTCTAATTTCTGTACCGGGCCAAGGCCCAGATAAGTCCGATT
84823310 CTGAGGTTTGATCTGTTTTGGGCTATGGTTGGGTTATGTTACACACTGAGTTTACCGAACTCACC
196 CTGAGGTTTGATCTGTTTTGGGCTATGGTTGGGTTATGTTACACACTGAGTTTACCGAACTCACC
84823375 CTTTA
261 CTTTA
* * * *
84823380 NCTGCAATTTCTGTGGTGTGTAGCGGTTGGGTGGGTCGAGTAGTCTCCCCCCATGGTGTGAGGTT
1 -CTGCAATTTCTGTGGTGTGTAGCAGTTGGGTGGGTCGAGTAGTCTCCCCACATGGTGTAAGGCT
84823445 GGTACGGGGGTGTTATGGATGGCTCCGGGTTGGGATTTCTGCATTCATGATATATTTGTTCTATA
65 GGTACGGGGGTGTTATGGATGGCTCCGGGTTGGGATTTCTGCATTCATGATATATTTGTTCTATA
84823510 TCTGCTATGGGCCTATGGGTTTCATTCTAATTTCTGTACCGGGCCAAGGCCCAGATAAGTCCGAT
130 TCTGCTATGGGCCTATGGGTTTCATTCTAATTTCTGTACCGGGCCAAGGCCCAGATAAGTCCGAT
84823575 TCTGAGGTTTGATCTGTTTTGGGCTATGGTTGGGTTATGTTACACACTGAGTTTACCGAACTCAC
195 TCTGAGGTTTGATCTGTTTTGGGCTATGGTTGGGTTATGTTACACACTGAGTTTACCGAACTCAC
84823640 CCTTTA
260 CCTTTA
84823646 TTTTCATCTC
Statistics
Matches: 261, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
266 261 1.00
ACGTcount: A:0.17, C:0.18, G:0.29, T:0.35
Consensus pattern (265 bp):
CTGCAATTTCTGTGGTGTGTAGCAGTTGGGTGGGTCGAGTAGTCTCCCCACATGGTGTAAGGCTG
GTACGGGGGTGTTATGGATGGCTCCGGGTTGGGATTTCTGCATTCATGATATATTTGTTCTATAT
CTGCTATGGGCCTATGGGTTTCATTCTAATTTCTGTACCGGGCCAAGGCCCAGATAAGTCCGATT
CTGAGGTTTGATCTGTTTTGGGCTATGGTTGGGTTATGTTACACACTGAGTTTACCGAACTCACC
CTTTA
Found at i:84827741 original size:702 final size:702
Alignment explanation
Indices: 84826399--84827801 Score: 2709
Period size: 702 Copynumber: 2.0 Consensus size: 702
84826389 CTGATGAATC
84826399 GAATGTTCCAGCCTTACTTGGATCGATTCGTGGCCGTCTTTATCGACGATATTCTGGTTTATTCT
1 GAATGTTCCAGCCTTACTTGGATCGATTCGTGGCCGTCTTTATCGACGATATTCTGGTTTATTCT
*
84826464 GAAACTGAGGAGAAGCATGATGAGCATCTTCGTACTATGCTGCAAGTGCTAAGGGAGAAGGAGCT
66 GAAACTGAGGAGAAGCATGATGAACATCTTCGTACTATGCTGCAAGTGCTAAGGGAGAAGGAGCT
84826529 TTATGCGAAATTCAGTAAGTGTGAGTTCTGGTTGAGAGAGGTAACTTTCTTGGGGCATGTTGTCT
131 TTATGCGAAATTCAGTAAGTGTGAGTTCTGGTTGAGAGAGGTAACTTTCTTGGGGCATGTTGTCT
84826594 CTGCTGAAGGGATCAAGGTGGACCCTCGAAAGATTGAAGCGATTCTGGAATGAAAGCCACCGAGG
196 CTGCTGAAGGGATCAAGGTGGACCCTCGAAAGATTGAAGCGATTCTGGAATGAAAGCCACCGAGG
**
84826659 TCAGTGTCAAAAATTTGAAGTTTTCTGGGTTTAGCTGGGTACTATAGAAGGTTTGTGGAAGGATT
261 TCAGTGTCAAAAATTCAAAGTTTTCTGGGTTTAGCTGGGTACTATAGAAGGTTTGTGGAAGGATT
* *
84826724 TTCTGTGATGGCAGCGCCTTTGACAAAGCTTATAAGGAAGGGAGTACCGTTTGTTTGGACTGAGA
326 TTCTATGATGGCAACGCCTTTGACAAAGCTTATAAGGAAGGGAGTACCGTTTGTTTGGACTGAGA
84826789 AACAACAGGAATCTTTTGAGAAGCTGAAGAAAGTTCTGACCGAGGCACTTGTACTGATTCAGCCG
391 AACAACAGGAATCTTTTGAGAAGCTGAAGAAAGTTCTGACCGAGGCACTTGTACTGATTCAGCCG
84826854 GAGTCTGGAAAAGATTTTACCGTATGCAGTGATGCATCACATGTAGGGTTGGGCTGTGTGCTGAT
456 GAGTCTGGAAAAGATTTTACCGTATGCAGTGATGCATCACATGTAGGGTTGGGCTGTGTGCTGAT
84826919 GCAAGAGGGTAAAGTGGTTGCTTATGTATCGCAACAGCTTAAACCACATGAAGTTAACTATCCTA
521 GCAAGAGGGTAAAGTGGTTGCTTATGTATCGCAACAGCTTAAACCACATGAAGTTAACTATCCTA
84826984 CTCATGATTTGGATTTGGCAGCGGTAATCTTTACGCTTAAGATTTAGAGACATTACCTGTACGGA
586 CTCATGATTTGGATTTGGCAGCGGTAATCTTTACGCTTAAGATTTAGAGACATTACCTGTACGGA
84827049 GAAAGGTGTATTATATACACAGATCATAAGAGTCTTAAGTACTTGCTGACTT
651 GAAAGGTGTATTATATACACAGATCATAAGAGTCTTAAGTACTTGCTGACTT
84827101 GAATGTTCCAGCCTTACTTGGATCGATTCGTGGCCGTCTTTATCGACGATATTCTGGTTTATTCT
1 GAATGTTCCAGCCTTACTTGGATCGATTCGTGGCCGTCTTTATCGACGATATTCTGGTTTATTCT
84827166 GAAACTGAGGAGAAGCATGATGAACATCTTCGTACTATGCTGCAAGTGCTAAGGGAGAAGGAGCT
66 GAAACTGAGGAGAAGCATGATGAACATCTTCGTACTATGCTGCAAGTGCTAAGGGAGAAGGAGCT
84827231 TTATGCGAAATTCAGTAAGTGTGAGTTCTGGTTGAGAGAGGTAACTTTCTTGGGGCATGTTGTCT
131 TTATGCGAAATTCAGTAAGTGTGAGTTCTGGTTGAGAGAGGTAACTTTCTTGGGGCATGTTGTCT
*
84827296 CTGCTGAAGGGATCAAGGTGGACCCTCGAAAGATTGAAGCGATTCTGGAAT-AGAAGCCACTGAG
196 CTGCTGAAGGGATCAAGGTGGACCCTCGAAAGATTGAAGCGATTCTGGAATGA-AAGCCACCGAG
*
84827360 GTCAGTGTCGAAAATTCAAAGTTTTCTGGGTTTAGCTGGGTACTATAGAAGGTTTGTGGAAGGAT
260 GTCAGTGTCAAAAATTCAAAGTTTTCTGGGTTTAGCTGGGTACTATAGAAGGTTTGTGGAAGGAT
84827425 TTTCTATGATGGCAACGCCTTTGACAAAGCTTATAAGGAAGGGAGTACCGTTTGTTTGGACTGAG
325 TTTCTATGATGGCAACGCCTTTGACAAAGCTTATAAGGAAGGGAGTACCGTTTGTTTGGACTGAG
*
84827490 AAACAACAGGAATCTTTTGAGAAGCTGAAGAAAGTTCTGGCCGAGGCACTTGTACTGATTCAGCC
390 AAACAACAGGAATCTTTTGAGAAGCTGAAGAAAGTTCTGACCGAGGCACTTGTACTGATTCAGCC
*
84827555 GGAGTCTGGAAAAGATTTTACCGTATGCAGTGATGCATCACATGTAGGGTTGGGCTGTGTGTTGA
455 GGAGTCTGGAAAAGATTTTACCGTATGCAGTGATGCATCACATGTAGGGTTGGGCTGTGTGCTGA
84827620 TGCAAGAGGGTAAAGTGGTTGCTTATGTATCGCAACAGCTTAAACCACATGAAGTTAACTATCCT
520 TGCAAGAGGGTAAAGTGGTTGCTTATGTATCGCAACAGCTTAAACCACATGAAGTTAACTATCCT
84827685 ACTCATGATTTGGATTTGGCAGCGGTAATCTTTACGCTTAAGATTTAGAGACATTACCTGTACGG
585 ACTCATGATTTGGATTTGGCAGCGGTAATCTTTACGCTTAAGATTTAGAGACATTACCTGTACGG
84827750 AGAAAGGTGTATTATATACACAGATCATAAGAGTCTTAAGTACTTGCTGACT
650 AGAAAGGTGTATTATATACACAGATCATAAGAGTCTTAAGTACTTGCTGACT
84827802 GAGAAGGAGC
Statistics
Matches: 691, Mismatches: 9, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
701 1 0.00
702 690 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (702 bp):
GAATGTTCCAGCCTTACTTGGATCGATTCGTGGCCGTCTTTATCGACGATATTCTGGTTTATTCT
GAAACTGAGGAGAAGCATGATGAACATCTTCGTACTATGCTGCAAGTGCTAAGGGAGAAGGAGCT
TTATGCGAAATTCAGTAAGTGTGAGTTCTGGTTGAGAGAGGTAACTTTCTTGGGGCATGTTGTCT
CTGCTGAAGGGATCAAGGTGGACCCTCGAAAGATTGAAGCGATTCTGGAATGAAAGCCACCGAGG
TCAGTGTCAAAAATTCAAAGTTTTCTGGGTTTAGCTGGGTACTATAGAAGGTTTGTGGAAGGATT
TTCTATGATGGCAACGCCTTTGACAAAGCTTATAAGGAAGGGAGTACCGTTTGTTTGGACTGAGA
AACAACAGGAATCTTTTGAGAAGCTGAAGAAAGTTCTGACCGAGGCACTTGTACTGATTCAGCCG
GAGTCTGGAAAAGATTTTACCGTATGCAGTGATGCATCACATGTAGGGTTGGGCTGTGTGCTGAT
GCAAGAGGGTAAAGTGGTTGCTTATGTATCGCAACAGCTTAAACCACATGAAGTTAACTATCCTA
CTCATGATTTGGATTTGGCAGCGGTAATCTTTACGCTTAAGATTTAGAGACATTACCTGTACGGA
GAAAGGTGTATTATATACACAGATCATAAGAGTCTTAAGTACTTGCTGACTT
Found at i:84829567 original size:15 final size:16
Alignment explanation
Indices: 84829538--84829567 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
84829528 CAAACATGTT
84829538 TTAACACATTATCAAA
1 TTAACACATTATCAAA
84829554 TTAACACA-TATCAA
1 TTAACACATTATCAA
84829568 CAAGGAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:84834987 original size:28 final size:28
Alignment explanation
Indices: 84834918--84835014 Score: 121
Period size: 28 Copynumber: 3.6 Consensus size: 28
84834908 CATGGTTAGA
* * *
84834918 CCATGGCAATGTGCTAAGTGAAGTACGA
1 CCATGGCAATGTGCTAAGTGAAATAAGT
84834946 CCATGGC-A--T-CTAAGTGAAATAAGT
1 CCATGGCAATGTGCTAAGTGAAATAAGT
*
84834970 CCTTGGCAATGTGCTAAGTGAAATAAGT
1 CCATGGCAATGTGCTAAGTGAAATAAGT
*
84834998 CCATGGCATTGTGCTAA
1 CCATGGCAATGTGCTAA
84835015 TTGAGAAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
24 18 0.31
25 2 0.03
27 2 0.03
28 37 0.63
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (28 bp):
CCATGGCAATGTGCTAAGTGAAATAAGT
Found at i:84841637 original size:47 final size:48
Alignment explanation
Indices: 84841566--84841790 Score: 221
Period size: 47 Copynumber: 4.8 Consensus size: 48
84841556 TGGATAAGGT
*
84841566 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATATCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAA
* * *
84841613 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCGAA
* * * ** *
84841661 GCCGATG-CATGTCCCAAAAAT-GTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAA
* * * * *
84841707 GCCAATG-CATGTCCTAGACAT-GTCTTACACTAGCTCTTGTCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAA
* * *
84841752 TGCAGATGCCATGTCCTAGACATGGTCGTACACTGGCTC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
84841791 TCATAATATG
Statistics
Matches: 147, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
45 1 0.01
46 60 0.41
47 66 0.45
48 20 0.14
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAA
Found at i:84841812 original size:47 final size:45
Alignment explanation
Indices: 84841706--84841836 Score: 151
Period size: 47 Copynumber: 2.8 Consensus size: 45
84841696 TACGTCTCGA
*
84841706 GGCCAATGCATGTCCTAGACATGTCTTACACTAGCTCTTGTCTCAAT
1 GGCCAATGCATGTCCTAGACATGTCTTACACTAGCTC-T-TCTAAAT
* *
84841753 -G-CAGATGCCATGTCCTAGACATGGTCGTACACTGGCTC-TCATAATAT
1 GGCCA-ATG-CATGTCCTAGACAT-GTCTTACACTAGCTCTTC-TAA-AT
84841800 GGCCAATGCATGTCCTAGACATGTCTTACACTAGCTC
1 GGCCAATGCATGTCCTAGACATGTCTTACACTAGCTC
84841837 ACACTCAGAT
Statistics
Matches: 72, Mismatches: 5, Indels: 15
0.78 0.05 0.16
Matches are distributed among these distances:
45 4 0.06
46 19 0.26
47 30 0.42
48 17 0.24
49 2 0.03
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (45 bp):
GGCCAATGCATGTCCTAGACATGTCTTACACTAGCTCTTCTAAAT
Found at i:84841826 original size:140 final size:140
Alignment explanation
Indices: 84841574--84841831 Score: 324
Period size: 140 Copynumber: 1.8 Consensus size: 140
84841564 GTGCCGATGC
*
84841574 CATGTCCCAAACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAAACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTC
* * * *
84841639 TTACACTGACTATCATCTCGTAGCCGATGCATGTCCCAAAAATGTCTTACACTGGCTTACGTCTC
66 GTACACTGACTATCATATCATAGCCAATGCATGTCCCAAAAATGTCTTACACTGGCTTACGTCTC
84841704 GAGGCCAATG
131 GAGGCCAATG
* * * * *
84841714 CATGTCCTAGACAT-GTCTTACACTAGCTCTTGTCTCAA-TGCAGATGCCATGTCCTAGACATGG
1 CATGTCCCAAACATGGTCTTACACTAGCTCATATCTCAAGT-C-GATGCCATGTCCCAGACATGG
* * * * * *
84841777 TCGTACACTGGCTCTCATAAT-ATGGCCAATGCATGTCCTAGACATGTCTTACACT
64 TCGTACACTGACTATCAT-ATCATAGCCAATGCATGTCCCAAAAATGTCTTACACT
84841832 AGCTCACACT
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
138 1 0.01
139 22 0.22
140 75 0.76
141 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (140 bp):
CATGTCCCAAACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTC
GTACACTGACTATCATATCATAGCCAATGCATGTCCCAAAAATGTCTTACACTGGCTTACGTCTC
GAGGCCAATG
Found at i:84851360 original size:47 final size:48
Alignment explanation
Indices: 84851291--84851514 Score: 225
Period size: 47 Copynumber: 4.8 Consensus size: 48
84851281 GATAAGGTGC
84851291 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCCAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCCAGT
* * *
84851338 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-CAGT
* * *
84851386 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCT-CAAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCCAGT
* * * *
84851430 ACCGATGCCATGTCCCAGACATGGTCTTACACAGGCTCTTATAATGT--GGT
1 --CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC--ATCATCTCCAGT
* *
84851480 CGATG-TATGTCCCAGACAT-GTCTTACACTAGCTCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA
84851515 CACTTAAATG
Statistics
Matches: 148, Mismatches: 19, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
44 2 0.01
46 37 0.25
47 80 0.54
48 25 0.17
50 1 0.01
51 3 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCCAGT
Found at i:84851458 original size:94 final size:93
Alignment explanation
Indices: 84851289--84851514 Score: 278
Period size: 94 Copynumber: 2.4 Consensus size: 93
84851279 TGGATAAGGT
* *
84851289 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCCAGTCGATGCCATGTCCCAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATATCTCCAATCGATGCCATGTCCCAG
* *
84851354 ACATGGTCTTACACTGACTATCAT-CTCGTA
64 ACATGGTCTTACACAGACTATCATAAT-GTA
*
84851384 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC-TCGTCT-CAATACCGATGCCATGTCCCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCAT-ATCTCCAAT--CGATGCCATGTCCCA
* * * *
84851447 GACATGGTCTTACACAGGCTCTTATAATGTG
63 GACATGGTCTTACACAGACTATCATAATGTA
* *
84851478 GTCGATGTATGTCCCAGACATGTCTTACACTAGCTCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCA
84851515 CACTTAAATG
Statistics
Matches: 115, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
92 4 0.03
93 17 0.15
94 86 0.75
95 8 0.07
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (93 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATATCTCCAATCGATGCCATGTCCCAGAC
ATGGTCTTACACAGACTATCATAATGTA
Found at i:84856955 original size:37 final size:37
Alignment explanation
Indices: 84856883--84856957 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
84856873 AATTTAGAGA
84856883 GAAATGAGAGGATGGATGAATGCATGTGTTAAGGGAT
1 GAAATGAGAGGATGGATGAATGCATGTGTTAAGGGAT
* * *
84856920 GAAATGAAGAAGGATTGATGGATG-AT-TGTTGAGGGAT
1 GAAATG-AG-AGGATGGATGAATGCATGTGTTAAGGGAT
84856957 G
1 G
84856958 TAGAGGGTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 17 0.52
38 4 0.12
39 12 0.36
ACGTcount: A:0.35, C:0.01, G:0.39, T:0.25
Consensus pattern (37 bp):
GAAATGAGAGGATGGATGAATGCATGTGTTAAGGGAT
Found at i:84859432 original size:44 final size:44
Alignment explanation
Indices: 84859369--84859456 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
84859359 AAGAGAAGAG
84859369 AAAAAGGTGTATCATCTGGTAATATCTGGAGTCAGACATTTAGT
1 AAAAAGGTGTATCATCTGGTAATATCTGGAGTCAGACATTTAGT
84859413 AAAAAGGTGTATCATCTGGTAATATCTGGAGTCAGACATTTAGT
1 AAAAAGGTGTATCATCTGGTAATATCTGGAGTCAGACATTTAGT
84859457 TAGATGAAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (44 bp):
AAAAAGGTGTATCATCTGGTAATATCTGGAGTCAGACATTTAGT
Found at i:84864819 original size:42 final size:42
Alignment explanation
Indices: 84864771--84864934 Score: 188
Period size: 42 Copynumber: 3.9 Consensus size: 42
84864761 TTAGGGTTAC
* * * * *
84864771 TGAGATTACGTCTAAGACCATACCTGGGATATGACATCTATA
1 TGAGATTTCATCTAAGACCATATCTGGGATATGGCATCGATA
*
84864813 TGAGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTTCATCTAAGACCATATCTGGGATATGGCATCGATA
* * *
84864855 TGAGACTTC-GCGTAAGACCATAGT-TGGGCTATTGGCATCGATA
1 TGAGATTTCATC-TAAGACCATA-TCTGGGATA-TGGCATCGATA
* *
84864898 CGAGATTTCATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTTCATCTAAGACCATATCTGGGATATGGCAT
84864935 TGGTTTGGTA
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
42 67 0.66
43 35 0.34
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (42 bp):
TGAGATTTCATCTAAGACCATATCTGGGATATGGCATCGATA
Found at i:84883446 original size:27 final size:26
Alignment explanation
Indices: 84883412--84883486 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 26
84883402 CCCCCAGTTG
84883412 TAAAATTACCAAAGTACCCCTGATTTA
1 TAAAATTACCAAA-TACCCCTGATTTA
* ** *
84883439 TAAAATTACCCAAAT-TCTTTGATTTG
1 TAAAATTA-CCAAATACCCCTGATTTA
84883465 TAAAATTACCGAAATACCCCTG
1 TAAAATTACC-AAATACCCCTG
84883487 TAAGGTAGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
25 2 0.05
26 19 0.50
27 12 0.32
28 5 0.13
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (26 bp):
TAAAATTACCAAATACCCCTGATTTA
Found at i:84884076 original size:27 final size:27
Alignment explanation
Indices: 84883468--84884094 Score: 704
Period size: 27 Copynumber: 23.3 Consensus size: 27
84883458 TGATTTGTAA
*
84883468 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
84883495 AATTACTGAAATACCCCTATAAGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84883522 AATTACCGAAATACCCCTATAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
84883549 AATTACTGAAATGCCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
84883576 AATTACCGAAATACCCTTGTAAGGTAC
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
84883603 AATTATTGAAATACTCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
84883630 AATTACCAAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
84883657 AATTACTAAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * **
84883684 AAATACTG-AATACCCCTGTAGTTTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
84883710 AATTACTGAAATATCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84883737 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84883764 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** * *
84883791 AACTACTAAAATACCCCTATATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
84883818 AATTTTCAAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84883845 AATTACCGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
84883872 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
84883899 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
84883926 AATTATCTAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84883953 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84883980 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84884007 AATTATCGAAATACCCTTGTAGGGTAGG
1 AATTACCGAAATACCCCTGTAGGGTA-G
*
84884035 AA-TACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84884061 AATTACCGAGAA-A-CCCTCGTGGGGTAA
1 AATTACCGA-AATACCCCT-GTAGGGTAG
84884088 AATTACC
1 AATTACC
84884095 ATTTTACCTC
Statistics
Matches: 516, Mismatches: 79, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
26 28 0.05
27 483 0.94
28 5 0.01
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:84884086 original size:54 final size:54
Alignment explanation
Indices: 84883468--84884069 Score: 789
Period size: 54 Copynumber: 11.2 Consensus size: 54
84883458 TGATTTGTAA
* * *
84883468 AATTACCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTATAAGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * *
84883522 AATTACCGAAATACCCCTATAGAGTAGAATTACTGAAATGCCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * * * *
84883576 AATTACCGAAATACCCTTGTAAGGTACAATTATTGAAATACTCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * * * *
84883630 AATTACCAAAATACCCTTGTAAGGTAGAATTACTAAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * ** *
84883684 AAATACTG-AATACCCCTGTAGTTTAGAATTACTGAAATATCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
*
84883737 AATTACCGAAATACCCCTGTAGGGTAAAATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* ** * * * *
84883791 AACTACTAAAATACCCCTATATGGTAGAATT-TTCAAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACT-GAAATACCCCTGTAAGGTAG
* * * *
84883845 AATTACCGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* *
84883899 AATTACCGAAATACCCCTGTAGGGTAGAATTATCT-AAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTA-CTGAAATACCCCTGTAAGGTAG
* *
84883953 AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * *
84884007 AATTATCGAAATACCCTTGTAGGGTAGGAA-TACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTA-GAATTACTGAAATACCCCTGTAAGGTAG
84884061 AATTACCGA
1 AATTACCGA
84884070 GAAACCCTCG
Statistics
Matches: 479, Mismatches: 63, Indels: 12
0.86 0.11 0.02
Matches are distributed among these distances:
53 47 0.10
54 428 0.89
55 4 0.01
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (54 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
Found at i:84884904 original size:6 final size:6
Alignment explanation
Indices: 84884886--84884969 Score: 64
Period size: 6 Copynumber: 13.8 Consensus size: 6
84884876 ATTCGGTTAC
* * * * * *
84884886 CTGATA CTGATT CTTATT CTGATT CTG-TCAC CTAATT ATGATT CTGGTT
1 CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT
*
84884935 CTGATT CTAATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
84884970 AATGTTTCTT
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
5 2 0.03
6 54 0.90
7 3 0.05
8 1 0.02
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:84885382 original size:25 final size:25
Alignment explanation
Indices: 84885354--84885416 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
84885344 ATTCCCATTA
* *
84885354 TGATTTTGATTCTGTTACCTGATAC
1 TGATTCTGATTCTGTCACCTGATAC
*
84885379 TGATTCTGATTCTGTCACCTGATTC
1 TGATTCTGATTCTGTCACCTGATAC
84885404 TGATTCTGATTCT
1 TGATTCTGATTCT
84885417 AGTTCTGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.48
Consensus pattern (25 bp):
TGATTCTGATTCTGTCACCTGATAC
Found at i:84885389 original size:6 final size:6
Alignment explanation
Indices: 84885354--84885425 Score: 51
Period size: 6 Copynumber: 11.7 Consensus size: 6
84885344 ATTCCCATTA
* * *
84885354 TGATTT TGATTC TG-TTACC TGATAC TGATTC TGATTC TG-TCACC TGATTC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGAT--TC TGATTC
84885404 TGATTC TGATTC T-AGTTC TGAT
1 TGATTC TGATTC TGA-TTC TGAT
84885426 AATGTTTCTT
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
5 4 0.08
6 40 0.75
7 7 0.13
8 2 0.04
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.47
Consensus pattern (6 bp):
TGATTC
Found at i:84887405 original size:14 final size:13
Alignment explanation
Indices: 84887385--84887416 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
84887375 AATATTTGAC
84887385 TTGTTCTTAATTA
1 TTGTTCTTAATTA
84887398 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
84887412 TTGTT
1 TTGTT
84887417 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:84888726 original size:42 final size:42
Alignment explanation
Indices: 84888667--84888827 Score: 187
Period size: 42 Copynumber: 3.8 Consensus size: 42
84888657 TTAGGGTTAC
* * * *
84888667 TGAGATTACGTGTAAGACCATATTTGGGATATGGCATCTATA
1 TGAGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
* * **
84888709 TGAGATTTCGTGTAAGACCATATATGGGATATGATATCGATA
1 TGAGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
* * *
84888751 TGAGACTTCATGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGATTTCATGTAAGACCATATCTGGGATA-TGGCATCGATA
* * *
84888794 CGAGATTTCATTTAAGACCATATCTAGGATATGG
1 TGAGATTTCATGTAAGACCATATCTGGGATATGG
84888828 AATTGGTATG
Statistics
Matches: 100, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 66 0.66
43 34 0.34
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (42 bp):
TGAGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:84893165 original size:40 final size:39
Alignment explanation
Indices: 84893134--84893343 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
84893124 GGACTAAGAT
* *
84893134 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
84893174 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
84893214 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
84893254 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
84893294 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
84893333 CCGAAGGCATT
1 CCGAAGGCATT
84893344 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:84893297 original size:120 final size:120
Alignment explanation
Indices: 84893081--84893343 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
84893071 TTGAATGCTG
* *
84893081 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
84893145 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
84893201 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
84893264 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
84893320 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
84893344 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:84893363 original size:79 final size:80
Alignment explanation
Indices: 84893134--84893378 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
84893124 GGACTAAGAT
* * * * * * * ** *
84893134 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
84893197 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
84893214 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
84893279 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
84893294 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
84893358 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
84893372 CCGAAGG
1 CCGAAGG
84893379 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:84899996 original size:40 final size:40
Alignment explanation
Indices: 84899913--84900175 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
84899903 TTGAATGCTG
* * * * * *
84899913 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
84899953 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
84899993 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
84900033 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
84900073 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
84900113 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
84900152 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
84900176 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:84900195 original size:79 final size:80
Alignment explanation
Indices: 84899952--84900210 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
84899942 AAGTGAATAT
* * * * * *
84899952 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
84900016 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
84900032 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
84900097 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
84900112 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
84900176 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
84900191 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
84900211 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:84906742 original size:5 final size:5
Alignment explanation
Indices: 84906732--84906757 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
84906722 TAATAAATAA
84906732 TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT T
84906758 GTAAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:84911096 original size:43 final size:43
Alignment explanation
Indices: 84911046--84911202 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 43
84911036 TATCCCAGAT
* * *
84911046 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCTAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCTAGAC
* * * * *
84911089 AGGGTCTTACACGAAAT-AGATTAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACA-TATCGATGCCAATGTCCTAGAC
* * *
84911132 ATGGTCTTACACGTAATCTCAATAT-AATGCCAATGTTCTAGAC
1 ATGGTCTTACACGTAATCAC-ATATCGATGCCAATGTCCTAGAC
*
84911175 ATGGTCTTACATGTAATCACATATCGAT
1 ATGGTCTTACACGTAATCACATATCGAT
84911203 AACCTAAAGT
Statistics
Matches: 91, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
42 6 0.07
43 82 0.90
44 2 0.02
45 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCTAGAC
Found at i:84922494 original size:20 final size:20
Alignment explanation
Indices: 84922469--84922511 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
84922459 TTTTGAAAGG
84922469 GCCTTTGTGGCATTCTGTTA
1 GCCTTTGTGGCATTCTGTTA
*
84922489 GCCTTTGTGGCTTTCTGTTA
1 GCCTTTGTGGCATTCTGTTA
84922509 GCC
1 GCC
84922512 GCTATGGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.07, C:0.23, G:0.26, T:0.44
Consensus pattern (20 bp):
GCCTTTGTGGCATTCTGTTA
Found at i:84927019 original size:23 final size:23
Alignment explanation
Indices: 84926992--84927050 Score: 118
Period size: 23 Copynumber: 2.6 Consensus size: 23
84926982 TGTCCTTAGT
84926992 ACACGGGCGTGTGCTCTATACTC
1 ACACGGGCGTGTGCTCTATACTC
84927015 ACACGGGCGTGTGCTCTATACTC
1 ACACGGGCGTGTGCTCTATACTC
84927038 ACACGGGCGTGTG
1 ACACGGGCGTGTG
84927051 GAGCCTTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.17, C:0.29, G:0.31, T:0.24
Consensus pattern (23 bp):
ACACGGGCGTGTGCTCTATACTC
Found at i:84929205 original size:27 final size:27
Alignment explanation
Indices: 84929167--84929456 Score: 379
Period size: 27 Copynumber: 10.8 Consensus size: 27
84929157 GTGTACTGCA
*
84929167 ACCCTCATGTGATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
84929194 ACCCTCAAGTGATAAAATGA-GAATTTT
1 ACCCTTATGTGATAAAATGACG-ATTTT
* * *
84929221 ACCGTCATATGATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
84929248 ACCCCTATGTGATAAAATGATGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
*
84929275 -CCCTTATATGATAAAATGTA-GATTTT
1 ACCCTTATGTGATAAAATG-ACGATTTT
84929301 ACCCTTATGTGATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
*
84929328 GCCCTTATGTGATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
*
84929355 GCCCTTATGTGATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
84929382 GCCCTTACGTGATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* * *
84929409 GCCCTTACGTGATAAAATGATGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
84929436 GCCCTTATGTGATCAAATGAC
1 ACCCTTATGTGATAAAATGAC
84929457 CAAAATACCC
Statistics
Matches: 240, Mismatches: 18, Indels: 10
0.90 0.07 0.04
Matches are distributed among these distances:
26 24 0.10
27 215 0.90
28 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (27 bp):
ACCCTTATGTGATAAAATGACGATTTT
Found at i:84929515 original size:27 final size:27
Alignment explanation
Indices: 84929450--84929564 Score: 108
Period size: 27 Copynumber: 4.3 Consensus size: 27
84929440 TTATGTGATC
**
84929450 AAATGACCAAAATACCCTC-ATAGGGTA
1 AAATGACTGAAATACCC-CAATAGGGTA
*
84929477 AAATGACCGAAATACCCCAATAGGGTA
1 AAATGACTGAAATACCCCAATAGGGTA
* * *
84929504 GAATGACTGAAATA-CACATGTAGGGTA
1 AAATGACTGAAATACCCCA-ATAGGGTA
* ** *
84929531 AAATGACTGTAATACCCCGGTAAGGTA
1 AAATGACTGAAATACCCCAATAGGGTA
84929558 AAATGAC
1 AAATGAC
84929565 AGATTTTTTC
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
26 4 0.05
27 69 0.92
28 2 0.03
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.19
Consensus pattern (27 bp):
AAATGACTGAAATACCCCAATAGGGTA
Found at i:84934054 original size:29 final size:28
Alignment explanation
Indices: 84934021--84934078 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
84934011 GTGTGCTACG
*
84934021 AGGAAGCGAAAAATAAGGTGTGGGTCCT
1 AGGAAGCAAAAAATAAGGTGTGGGTCCT
* *
84934049 ANGGAAGTAAAAAATAAGGTGTGTGTCCT
1 A-GGAAGCAAAAAATAAGGTGTGGGTCCT
84934078 A
1 A
84934079 AACTCATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.38, C:0.09, G:0.31, T:0.21
Consensus pattern (28 bp):
AGGAAGCAAAAAATAAGGTGTGGGTCCT
Found at i:84938007 original size:20 final size:20
Alignment explanation
Indices: 84937971--84938008 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
84937961 TAGCAAATGG
*
84937971 GAAAGAAAGGAAGAAAAGGA
1 GAAAGAAAGGAAAAAAAGGA
84937991 GAAAGGAAA-GAAAAAAAG
1 GAAA-GAAAGGAAAAAAAG
84938009 AAAAAACTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (20 bp):
GAAAGAAAGGAAAAAAAGGA
Found at i:84939356 original size:18 final size:18
Alignment explanation
Indices: 84939335--84939395 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
84939325 AATGACTGAC
84939335 TGTTACTGAATAATTGAT
1 TGTTACTGAATAATTGAT
* *
84939353 TGTTACCGAATAACT-AGT
1 TGTTACTGAATAATTGA-T
* * *
84939371 TGCTATTGAATAATTGAA
1 TGTTACTGAATAATTGAT
84939389 TGTTACT
1 TGTTACT
84939396 AAATGAAATT
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
17 1 0.03
18 30 0.94
19 1 0.03
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:84944271 original size:27 final size:27
Alignment explanation
Indices: 84944212--84944271 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
84944202 GGATAGTCTA
*
84944212 GGCCCAATTGATATTATTATGGGCTAT
1 GGCCCAAATGATATTATTATGGGCTAT
* * *
84944239 GACCCAAATGATATT-GTATTGGGCTTT
1 GGCCCAAATGATATTATTA-TGGGCTAT
84944266 GGCCCA
1 GGCCCA
84944272 TATATACTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.33
Consensus pattern (27 bp):
GGCCCAAATGATATTATTATGGGCTAT
Found at i:84948899 original size:19 final size:19
Alignment explanation
Indices: 84948840--84948899 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 19
84948830 TGGGCCACAT
* *
84948840 TGGGATGAAATAGGCTGTG
1 TGGGCTGAAATGGGCTGTG
* * * *
84948859 TGGGC-CACACGGGCT-CG
1 TGGGCTGAAATGGGCTGTG
84948876 TGGGCTGAAATGGGCTGTG
1 TGGGCTGAAATGGGCTGTG
84948895 TGGGC
1 TGGGC
84948900 CACATAGGCT
Statistics
Matches: 29, Mismatches: 10, Indels: 4
0.67 0.23 0.09
Matches are distributed among these distances:
17 6 0.21
18 13 0.45
19 10 0.34
ACGTcount: A:0.17, C:0.17, G:0.45, T:0.22
Consensus pattern (19 bp):
TGGGCTGAAATGGGCTGTG
Found at i:84948925 original size:36 final size:36
Alignment explanation
Indices: 84948847--84948925 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 36
84948837 CATTGGGATG
* * * **
84948847 AAATAGGCTGTGTGGGCCACACGGGCTCGTGGGCTG
1 AAATGGGCTGTGTGGGCCACACAGGCTCGTAGGCCC
* *
84948883 AAATGGGCTGTGTGGGCCACATAGGCTTGTAGGCCC
1 AAATGGGCTGTGTGGGCCACACAGGCTCGTAGGCCC
*
84948919 ACATGGG
1 AAATGGG
84948926 TAAACCACAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.19, C:0.22, G:0.39, T:0.20
Consensus pattern (36 bp):
AAATGGGCTGTGTGGGCCACACAGGCTCGTAGGCCC
Found at i:84950229 original size:27 final size:27
Alignment explanation
Indices: 84950169--84950233 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
84950159 ATACCCCCAG
*
84950169 TTGTAAAATTACCAAAGTACCCCTGGT
1 TTGTAAAATTACCAAAGTACCCCTGAT
* *
84950196 TTATAAAATTACCCAAA-TA-TCCTCGAT
1 TTGTAAAATTA-CCAAAGTACCCCT-GAT
84950223 TTGTAAAATTA
1 TTGTAAAATTA
84950234 TTGAAATACC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 3 0.09
27 24 0.75
28 5 0.16
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.34
Consensus pattern (27 bp):
TTGTAAAATTACCAAAGTACCCCTGAT
Found at i:84950240 original size:27 final size:28
Alignment explanation
Indices: 84950194--84950275 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 28
84950184 AGTACCCCTG
* ** *
84950194 GTTTATAAAATTACCCAAATATCCTCGA
1 GTTTACAAAATTACTGAAATACCCTCGA
** *
84950222 -TTTGTAAAATTATTGAAATACCCTC-A
1 GTTTACAAAATTACTGAAATACCCTCGA
84950248 GTTTACAAAATTACTGAAATACCCTCGA
1 GTTTACAAAATTACTGAAATACCCTCGA
84950276 CTATGTTGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
26 1 0.02
27 42 0.95
28 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (28 bp):
GTTTACAAAATTACTGAAATACCCTCGA
Found at i:84950244 original size:54 final size:54
Alignment explanation
Indices: 84950169--84950275 Score: 119
Period size: 54 Copynumber: 2.0 Consensus size: 54
84950159 ATACCCCCAG
* * *
84950169 TTGTAAAATTACCAAAGTACCC-CTGGTTTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTACCAAAGTACCCTC-AGTTTACAAAATTACCCAAATACCCTCGAT
** **
84950223 TTGTAAAATTATTGAAA-TACCCTCAGTTTACAAAATTACTGAAATACCCTCGA
1 TTGTAAAATTA-CCAAAGTACCCTCAGTTTACAAAATTACCCAAATACCCTCGA
84950276 CTATGTTGAT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
54 40 0.91
55 4 0.09
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (54 bp):
TTGTAAAATTACCAAAGTACCCTCAGTTTACAAAATTACCCAAATACCCTCGAT
Found at i:84954771 original size:40 final size:40
Alignment explanation
Indices: 84954672--84954820 Score: 192
Period size: 40 Copynumber: 3.7 Consensus size: 40
84954662 TCGAATTTTT
* **
84954672 GCACACTAAGTGCCAATACATAGCCAAAACTAT-TTTAATCC
1 GCACACTAAGTGCC-ATACATAGCCAAAGCTATCTCGAAT-C
* *
84954713 TGCACACTAAGTGTCATACATAGCTAAAGCTATCTCGAATC
1 -GCACACTAAGTGCCATACATAGCCAAAGCTATCTCGAATC
* * *
84954754 ACACACTAAGTGCCATACATAGCCGAAGCTATCTCGAACC
1 GCACACTAAGTGCCATACATAGCCAAAGCTATCTCGAATC
84954794 GCACACTAAGTGCCATACATAGCCAAA
1 GCACACTAAGTGCCATACATAGCCAAA
84954821 TTTTTGTAAA
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
40 60 0.64
41 17 0.18
42 17 0.18
ACGTcount: A:0.37, C:0.28, G:0.13, T:0.21
Consensus pattern (40 bp):
GCACACTAAGTGCCATACATAGCCAAAGCTATCTCGAATC
Found at i:84960046 original size:18 final size:18
Alignment explanation
Indices: 84960023--84960075 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
84960013 GATAAATCTT
84960023 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
*
84960041 AATCAAGGATTGACTCCC
1 AATCAAGGATTTACTCCC
*
84960059 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
84960076 TATATTAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:84960369 original size:18 final size:18
Alignment explanation
Indices: 84960342--84960376 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
84960332 GATAAATCCT
84960342 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
*
84960360 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
84960377 TATATTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:84970221 original size:55 final size:55
Alignment explanation
Indices: 84970145--84970257 Score: 154
Period size: 55 Copynumber: 2.1 Consensus size: 55
84970135 CGAGCCTGCC
* * *
84970145 AAAACAACACGAGCATGCGACACGCCCGTGTGGAAGAACCGTGGGCGAACCTGTT
1 AAAACAACACGAGCATGCGACACGCCCGTATGGAACAACCATGGGCGAACCTGTT
* * * * *
84970200 AAAACAACACGGGCGTTCGACACGCCCGTATGGAACACCCATGGTCGAACCTGTT
1 AAAACAACACGAGCATGCGACACGCCCGTATGGAACAACCATGGGCGAACCTGTT
84970255 AAA
1 AAA
84970258 TTAACATGGG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.32, C:0.28, G:0.26, T:0.14
Consensus pattern (55 bp):
AAAACAACACGAGCATGCGACACGCCCGTATGGAACAACCATGGGCGAACCTGTT
Found at i:84975776 original size:20 final size:20
Alignment explanation
Indices: 84975730--84975769 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
84975720 TGCATAAAGG
84975730 GAAAAAGTTGTGATTTGCTA
1 GAAAAAGTTGTGATTTGCTA
84975750 GAAAAAGTTGTGATTTGCTA
1 GAAAAAGTTGTGATTTGCTA
84975770 ACCAAAGGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (20 bp):
GAAAAAGTTGTGATTTGCTA
Found at i:84976886 original size:49 final size:49
Alignment explanation
Indices: 84976829--84977001 Score: 147
Period size: 49 Copynumber: 3.6 Consensus size: 49
84976819 TGTTGTGTGT
* *
84976829 CAGTGTAAGACCTGTC-GTGGACATGGCATCGACAC-CGATAAATGAGAGC
1 CAGTGTAAGACCTATCTG-GGACATGGCATCGAC-CTCGATAAATGAAAGC
* * * * * *
84976878 CAGTGTAAGACCTATTTGGGACACGGCATTGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAAATGAAAGC
* * * * * **
84976927 CAGTATAAGACCTCTCTGGGACATGGCATCGACTTTGAT--TTGCTAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAAATGAAAGC
*
84976974 CAGTGTAAGACCATGTCTGGGACATGGC
1 CAGTGTAAGACC-TATCTGGGACATGGC
84977002 GTTGGCATCT
Statistics
Matches: 99, Mismatches: 22, Indels: 7
0.77 0.17 0.05
Matches are distributed among these distances:
47 15 0.15
48 15 0.15
49 68 0.69
50 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAAATGAAAGC
Found at i:84978471 original size:27 final size:27
Alignment explanation
Indices: 84978439--84978630 Score: 210
Period size: 27 Copynumber: 7.2 Consensus size: 27
84978429 ACATATATCA
84978439 CATAAGGGCAAAATAGTCATTTTACCT
1 CATAAGGGCAAAATAGTCATTTTACCT
** *
84978466 CATAAGGGCAAAACGGACATTTTACCT
1 CATAAGGGCAAAATAGTCATTTTACCT
** *
84978493 CATAAGGGCAAAATTTTCATTTTACCA
1 CATAAGGGCAAAATAGTCATTTTACCT
* *
84978520 CATAAGGGCAAAATAGTTATTTTACCA
1 CATAAGGGCAAAATAGTCATTTTACCT
* *
84978547 CA-AA-GGCAAAACAGTCATTTTATCT
1 CATAAGGGCAAAATAGTCATTTTACCT
* * *
84978572 CATAAGGGTAAAATCA-TCATTTTATCA
1 CATAAGGGCAAAAT-AGTCATTTTACCT
* * *
84978599 CATAAGGGAAAAACAGTCATTTTATCT
1 CATAAGGGCAAAATAGTCATTTTACCT
84978626 CATAA
1 CATAA
84978631 AGGTTCAGGT
Statistics
Matches: 140, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
25 19 0.14
26 5 0.04
27 115 0.82
28 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.29
Consensus pattern (27 bp):
CATAAGGGCAAAATAGTCATTTTACCT
Found at i:84978585 original size:79 final size:81
Alignment explanation
Indices: 84978437--84978622 Score: 259
Period size: 79 Copynumber: 2.3 Consensus size: 81
84978427 ACACATATAT
* *
84978437 CACATAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAAAACGGACATTTTACCTCATAAGGGC
1 CACATAAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAACAGACATTTTACCTCATAAGGGC
**
84978502 AAAATTTTCATTTTAC
66 AAAATCATCATTTTAC
* * * *
84978518 CACATAAGGGCAAAATAGTTATTTTACCACA-AA-GGCAAAACAGTCATTTTATCTCATAAGGGT
1 CACATAAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAACAGACATTTTACCTCATAAGGGC
*
84978581 AAAATCATCATTTTAT
66 AAAATCATCATTTTAC
* *
84978597 CACATAAGGGAAAAACAGTCATTTTA
1 CACATAAGGGCAAAATAGTCATTTTA
84978623 TCTCATAAAG
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
79 62 0.67
80 2 0.02
81 29 0.31
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (81 bp):
CACATAAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAACAGACATTTTACCTCATAAGGGC
AAAATCATCATTTTAC
Found at i:84986956 original size:49 final size:49
Alignment explanation
Indices: 84986895--84987025 Score: 147
Period size: 49 Copynumber: 2.7 Consensus size: 49
84986885 CTTGTTGTGT
* * * *
84986895 GTCAGTGAAAGACCTGTTTGGGACATGGCATCGACAC-CGATAAATGAGA
1 GTCAGTGTAAGACCTGTTTGGGACACGACATCGAC-CTCGATAAATGAAA
* * * *
84986944 GTCAGTGTAAGACTTGTCTGGGACACGACATCGGCCTCGATATATGAAA
1 GTCAGTGTAAGACCTGTTTGGGACACGACATCGACCTCGATAAATGAAA
* * *
84986993 GTCAGTATAATACCTTTTTGGGACACGACATCG
1 GTCAGTGTAAGACCTGTTTGGGACACGACATCG
84987026 CTTTGATGTG
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
48 1 0.01
49 67 0.99
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTTTGGGACACGACATCGACCTCGATAAATGAAA
Found at i:85006697 original size:40 final size:39
Alignment explanation
Indices: 85006653--85006757 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
85006643 AGTGACCATA
*
85006653 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
85006693 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
85006731 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
85006758 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:85006714 original size:39 final size:40
Alignment explanation
Indices: 85006613--85006776 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
85006603 TTGAATGATG
* *
85006613 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
85006653 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
85006692 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
85006732 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
85006772 TCCGG
1 TCCGG
85006777 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:85006776 original size:79 final size:80
Alignment explanation
Indices: 85006613--85006763 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
85006603 TTGAATGATG
*
85006613 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
85006678 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
85006693 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
85006755 TTGAACGAG
64 TTGAACGAG
85006764 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:85014806 original size:79 final size:81
Alignment explanation
Indices: 85014670--85014854 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
85014660 TTGAATGATG
*
85014670 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
85014734 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
85014749 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
85014811 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
85014829 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
85014855 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:85014868 original size:40 final size:40
Alignment explanation
Indices: 85014671--85014854 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
85014661 TGAATGATGT
* * * *
85014671 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
85014711 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
85014751 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
85014789 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
85014830 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
85014855 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:85014876 original size:79 final size:79
Alignment explanation
Indices: 85014723--85014887 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
85014713 GGACTAAGAT
* **
85014723 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
85014788 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
85014802 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
85014865 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
85014881 CCGAAGG
1 CCGAAGG
85014888 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:85023308 original size:39 final size:40
Alignment explanation
Indices: 85023263--85023447 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
85023253 GCTCCTCGTT
* * *
85023263 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
85023303 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
85023342 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
85023382 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
85023423 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
85023448 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:85023363 original size:40 final size:39
Alignment explanation
Indices: 85023230--85023447 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
85023220 AAATCACGTA
* * **
85023230 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
85023269 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
85023308 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
85023348 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
85023388 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
85023428 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
85023448 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:85043384 original size:18 final size:18
Alignment explanation
Indices: 85043361--85043431 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
85043351 AGGACGTGTC
85043361 ATTCATTTTCAAAACGTT
1 ATTCATTTTCAAAACGTT
*
85043379 ATTCATTATCATAAA-GTT
1 ATTCATTTTCA-AAACGTT
* * *
85043397 ATAC-TCTTTCATAATGTT
1 ATTCAT-TTTCAAAACGTT
*
85043415 ATTAATTTTCAAAACGT
1 ATTCATTTTCAAAACGT
85043432 CACTTATTGC
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
17 3 0.07
18 34 0.83
19 4 0.10
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (18 bp):
ATTCATTTTCAAAACGTT
Found at i:85046834 original size:44 final size:44
Alignment explanation
Indices: 85046775--85046897 Score: 176
Period size: 44 Copynumber: 2.8 Consensus size: 44
85046765 ACCCCAAACT
* * *
85046775 CCCAAACCTCTTTACTTTCCCCCCAAAATTTTACTCCTTCAACC
1 CCCAAAACTTTTTACTTTCCCCCCAAAATTTTACTCCATCAACC
* *
85046819 CCTC-AAACTTTTTACTTTCCCTCTAAAATTTTACTCCATCAACC
1 CC-CAAAACTTTTTACTTTCCCCCCAAAATTTTACTCCATCAACC
*
85046863 CCCAAAACTTTTTATTTTCCCCCCAAAATTTTACT
1 CCCAAAACTTTTTACTTTCCCCCCAAAATTTTACT
85046898 TCTCACCCTT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 1 0.01
44 67 0.97
45 1 0.01
ACGTcount: A:0.27, C:0.37, G:0.00, T:0.37
Consensus pattern (44 bp):
CCCAAAACTTTTTACTTTCCCCCCAAAATTTTACTCCATCAACC
Found at i:85047341 original size:19 final size:19
Alignment explanation
Indices: 85047317--85047353 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
85047307 AGTTAATATC
*
85047317 AAATTTGATTATGGTGGGA
1 AAATTTGATTACGGTGGGA
85047336 AAATTTGATTACGGTGGG
1 AAATTTGATTACGGTGGG
85047354 TGACAGTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.03, G:0.32, T:0.35
Consensus pattern (19 bp):
AAATTTGATTACGGTGGGA
Found at i:85050310 original size:46 final size:46
Alignment explanation
Indices: 85050184--85050437 Score: 205
Period size: 46 Copynumber: 5.4 Consensus size: 46
85050174 CGATTCTATA
* * * *
85050184 TCCCAGACACGGTCTTACACTGGCTCATATCTC-AAGTCGATGCCATG
1 TCCCAGACA-TGTCTTACACTGGCTTACATCTCGAAGCCGATG-CATG
* * * *
85050231 TCCCAGACACGGTCTTACATTGAC-TATCATCTCGTAGCCGATGCATG
1 TCCCAGACA-TGTCTTACACTGGCTTA-CATCTCGAAGCCGATGCATG
* * *
85050278 TCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCTGATGCATG
1 TCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCCGATGCATG
* * *
85050324 TCCTAGACATGTCTTACACTAGCTCT-CGTCTC-AATGCCGATGCCATG
1 TCCCAGACATGTCTTACACTGGCT-TACATCTCGAA-GCCGATG-CATG
* * ** *
85050371 TCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCAATGCATG
1 TCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAAGCCGATGCATG
85050418 TCCCAGACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
85050438 AGCTCACAAA
Statistics
Matches: 172, Mismatches: 26, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 72 0.42
47 68 0.40
48 30 0.17
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCCGATGCATG
Found at i:85050419 original size:94 final size:92
Alignment explanation
Indices: 85050267--85050442 Score: 239
Period size: 94 Copynumber: 1.9 Consensus size: 92
85050257 TCATCTCGTA
* * * ** *
85050267 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCTGATGCATGTCCTAGAC
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATATCGAGGCCAATGCATGTCCCAGAC
85050332 ATGTCTTACACTAGCTCTCGTCTCAAT
66 ATGTCTTACACTAGCTCTCGTCTCAAT
*
85050359 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCAATGCATGTCCC
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCCAATGCATGTCCC
85050422 AGACATGTCTTACACTAGCTC
62 AGACATGTCTTACACTAGCTC
85050443 ACAAACAAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
92 7 0.10
93 13 0.18
94 51 0.70
95 2 0.03
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATATCGAGGCCAATGCATGTCCCAGAC
ATGTCTTACACTAGCTCTCGTCTCAAT
Found at i:85053036 original size:19 final size:19
Alignment explanation
Indices: 85053012--85053061 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
85053002 GGTATAGAGC
85053012 ACACGCCCGTGTGCTAGGG
1 ACACGCCCGTGTGCTAGGG
85053031 ACACGCCCGTGTGCTAGGG
1 ACACGCCCGTGTGCTAGGG
85053050 ACACGCCCGTGT
1 ACACGCCCGTGT
85053062 CCCGAACCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.16
Consensus pattern (19 bp):
ACACGCCCGTGTGCTAGGG
Found at i:85054267 original size:21 final size:20
Alignment explanation
Indices: 85054243--85054281 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
85054233 ATAATAAATC
85054243 ATAAACATTTTTGTAAAATTT
1 ATAAACATTTTT-TAAAATTT
**
85054264 ATAATGATTTTTTAAAAT
1 ATAAACATTTTTTAAAAT
85054282 CAAAGTAGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (20 bp):
ATAAACATTTTTTAAAATTT
Found at i:85055625 original size:46 final size:46
Alignment explanation
Indices: 85055549--85055907 Score: 447
Period size: 46 Copynumber: 7.8 Consensus size: 46
85055539 TGATGTCATA
* * * *
85055549 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATGTCAGGTTGCCATG
* *
85055595 GTATCTTTCAACCATGGTCTTATTCATTTTC-TCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCAT-GTCAGGTTGCCATG
* * *
85055642 GTATCTTTCAACCATGGTCTTATTTATCTTC--GTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCAT-TTCATGTCAGGTTGCCATG
85055687 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
* *
85055733 GTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
* *
85055779 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
* * * *
85055825 GTATCTTTCAACCATGGTCTTACACATTCCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
* * * * * *
85055871 TTATTTTTCAACCTTGGTCTTACACATTCCATATCAG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAG
85055908 AGAGCACACT
Statistics
Matches: 290, Mismatches: 18, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
44 3 0.01
45 39 0.13
46 206 0.71
47 42 0.14
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
Found at i:85058599 original size:28 final size:28
Alignment explanation
Indices: 85058562--85058621 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
85058552 TATTACAAAC
*
85058562 ACTAACACCTTATCTTACAACTTGGCAA
1 ACTAACACCTTATCTTACAACTTGGAAA
85058590 ACTAACACCTTATCTTACAACTTGGAAA
1 ACTAACACCTTATCTTACAACTTGGAAA
85058618 ACTA
1 ACTA
85058622 GCCCTTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.07, T:0.28
Consensus pattern (28 bp):
ACTAACACCTTATCTTACAACTTGGAAA
Found at i:85068243 original size:25 final size:24
Alignment explanation
Indices: 85068157--85068220 Score: 101
Period size: 24 Copynumber: 2.7 Consensus size: 24
85068147 AAGGCTATGC
** *
85068157 GGCACTATGTGTGCGAGATTACAT
1 GGCACTATGTGTGCGAGAAAACGT
85068181 GGCACTATGTGTGCGAGAAAACGT
1 GGCACTATGTGTGCGAGAAAACGT
85068205 GGCACTATGTGTGCGA
1 GGCACTATGTGTGCGA
85068221 ATAAGTAAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGAAAACGT
Found at i:85078121 original size:24 final size:24
Alignment explanation
Indices: 85078094--85078153 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
85078084 AAGGTTATGC
85078094 GGCACTATGTGTGCGAGAAAAAGT
1 GGCACTATGTGTGCGAGAAAAAGT
*
85078118 GGCACTATGTGTGCGAGAAAACGT
1 GGCACTATGTGTGCGAGAAAAAGT
85078142 GGCACTATGTGT
1 GGCACTATGTGT
85078154 ACAAATAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.23
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGAAAAAGT
Found at i:85086927 original size:46 final size:46
Alignment explanation
Indices: 85086768--85086939 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
85086758 AACCCGCCCC
* * * * *
85086768 TAAGTGAACTCGGACTCAACTCAAAGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
85086814 TGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
85086862 TCA-CGAACTCGGACT-AACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
85086906 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
85086940 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
42 6 0.06
43 2 0.02
44 2 0.02
45 10 0.10
46 64 0.62
47 11 0.11
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:85086942 original size:92 final size:93
Alignment explanation
Indices: 85086773--85086942 Score: 270
Period size: 92 Copynumber: 1.8 Consensus size: 93
85086763 GCCCCTAAGT
* * * *
85086773 GAACTCGGACTCAACTCAAAGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
85086838 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
85086866 GAACTCGGACT-AACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
85086930 CGAGTTCGGATGC
66 CGAGTTCGGATGC
85086943 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 59 0.84
93 11 0.16
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:85086958 original size:46 final size:45
Alignment explanation
Indices: 85086770--85086958 Score: 122
Period size: 46 Copynumber: 4.1 Consensus size: 45
85086760 CCCGCCCCTA
* * * * * * *
85086770 AGTGAACTCGGACTCAACTCAAAGAGCTCGGGCGTTCGCATCCAT-G
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCTCAACCATCT
85086816 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * *
85086863 CA-CGAACTCGGACT-AACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
*
85086908 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
85086954 AGTGA
1 AGTGA
85086959 CATGTCACTT
Statistics
Matches: 112, Mismatches: 15, Indels: 32
0.70 0.09 0.20
Matches are distributed among these distances:
43 1 0.01
44 12 0.11
45 13 0.12
46 70 0.62
47 11 0.10
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:85087396 original size:30 final size:30
Alignment explanation
Indices: 85087362--85087421 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
85087352 ATTTAATACG
85087362 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
85087392 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
85087422 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:85109622 original size:37 final size:37
Alignment explanation
Indices: 85109552--85109623 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
85109542 TTGAAACATG
* *
85109552 CCAATCGCTTATAAGAGCTAATCCACCCGATAACACA
1 CCAATCGCTTATAAGAGCTAATCCAACCAATAACACA
*
85109589 CCAATCGCTTATAAGAGCTAATCTAACCAATAACA
1 CCAATCGCTTATAAGAGCTAATCCAACCAATAACA
85109624 TGCCACGACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.40, C:0.29, G:0.10, T:0.21
Consensus pattern (37 bp):
CCAATCGCTTATAAGAGCTAATCCAACCAATAACACA
Found at i:85113595 original size:70 final size:71
Alignment explanation
Indices: 85113459--85113596 Score: 172
Period size: 70 Copynumber: 2.0 Consensus size: 71
85113449 CTTTATTCGC
* * *
85113459 CTAGAACTGGACACAAGATGGTGTCAGTTTATTCAACTAGTGCAGGGCACACCTATCTTCAGTTT
1 CTAGAACTGGACACAAGATGGTGTAAGTTTATTCAACTAGTGAAGGGCACACCTATCATCAGTTT
85113524 ATCTAA
66 ATCTAA
* * *** *
85113530 CTAGCACTGG-CACAAGATGTTGTAAGTTTATTTGGCTAGTGAAGGGCACATCTATCATC-GATT
1 CTAGAACTGGACACAAGATGGTGTAAGTTTATTCAACTAGTGAAGGGCACACCTATCATCAG-TT
85113593 TATC
65 TATC
85113597 CGACTAGCGC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
69 1 0.02
70 47 0.82
71 9 0.16
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (71 bp):
CTAGAACTGGACACAAGATGGTGTAAGTTTATTCAACTAGTGAAGGGCACACCTATCATCAGTTT
ATCTAA
Found at i:85113603 original size:70 final size:71
Alignment explanation
Indices: 85113450--85113609 Score: 171
Period size: 70 Copynumber: 2.3 Consensus size: 71
85113440 ACATCGTCAC
* * * * *
85113450 TTTATTCGCCTAGAACTGGACACAAGATGGTGTCAGTTTATTCAACTAGTGCAGGGCACACCTAT
1 TTTATCCGACTAGCACTGGACACAAGATGGTGTAAGTTTATTCAACTAGTGAAGGGCACACCTAT
*
85113515 CTTCAG
66 CATCAG
** * *** *
85113521 TTTATCTAACTAGCACTGG-CACAAGATGTTGTAAGTTTATTTGGCTAGTGAAGGGCACATCTAT
1 TTTATCCGACTAGCACTGGACACAAGATGGTGTAAGTTTATTCAACTAGTGAAGGGCACACCTAT
85113585 CATC-G
66 CATCAG
*
85113590 ATTTATCCGACTAGCGCTGG
1 -TTTATCCGACTAGCACTGG
85113610 GTGCAATACT
Statistics
Matches: 72, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
69 1 0.01
70 57 0.79
71 14 0.19
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (71 bp):
TTTATCCGACTAGCACTGGACACAAGATGGTGTAAGTTTATTCAACTAGTGAAGGGCACACCTAT
CATCAG
Found at i:85115419 original size:49 final size:49
Alignment explanation
Indices: 85115346--85115557 Score: 165
Period size: 49 Copynumber: 4.4 Consensus size: 49
85115336 ATGCCAACGT
* *
85115346 CATGTCCCAGACATGGTCTTACACTGGCTTTCATGTAGCGAG-GATGATGC
1 CATGTCCCAGACA-GGTCTTACACTGGCTCTCATCTAGCG-GTGATGATGC
* * ** *
85115396 CATGTCTCAGATAGGTCTTACACTGGCTCTCATCTATTGGTGTTGATGC
1 CATGTCCCAGACAGGTCTTACACTGGCTCTCATCTAGCGGTGATGATGC
* * * * *
85115445 CATGTCCCAGACAGGTCTTACACTAG--CACA-CGA-C-GAGATGACGC
1 CATGTCCCAGACAGGTCTTACACTGGCTCTCATCTAGCGGTGATGATGC
* * *
85115489 CATGTCCCAAACAGGTCTTACACTAGCT-T-ATCTA-CCGTGAGGCTGATG-
1 CATGTCCCAGACAGGTCTTACACTGGCTCTCATCTAGCGGTGA---TGATGC
*
85115537 CATGTCCCAGACATGTCTTAC
1 CATGTCCCAGACAGGTCTTAC
85115558 GCTAGATCTT
Statistics
Matches: 131, Mismatches: 23, Indels: 18
0.76 0.13 0.10
Matches are distributed among these distances:
44 33 0.25
45 3 0.02
46 5 0.04
47 3 0.02
48 20 0.15
49 56 0.43
50 11 0.08
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (49 bp):
CATGTCCCAGACAGGTCTTACACTGGCTCTCATCTAGCGGTGATGATGC
Found at i:85115511 original size:93 final size:95
Alignment explanation
Indices: 85115346--85115562 Score: 221
Period size: 93 Copynumber: 2.3 Consensus size: 95
85115336 ATGCCAACGT
* * * * * * *
85115346 CATGTCCCAGACATGGTCTTACACTGGCTTTCATGTAGCGAGGATGATGCCATGTCTCAGATAGG
1 CATGTCCCAGACA-GGTCTTACACTAGC-TACACGTAGCGAGGATGACGCCATGTCCCAAACAGG
* * *
85115411 TCTTACACTGGCTCTCATCTA-TTG-GTGTTGATG
64 TCTTACACTAGCT-T-ATCTACGTGAG-GCTGATG
85115444 CCATGTCCCAGACAGGTCTTACACTAGC-ACACG-A-CGA-GATGACGCCATGTCCCAAACAGGT
1 -CATGTCCCAGACAGGTCTTACACTAGCTACACGTAGCGAGGATGACGCCATGTCCCAAACAGGT
85115505 CTTACACTAGCTTATCTACCGTGAGGCTGATG
65 CTTACACTAGCTTATCTA-CGTGAGGCTGATG
* *
85115537 CATGTCCCAGACATGTCTTACGCTAG
1 CATGTCCCAGACAGGTCTTACACTAG
85115563 ATCTTGTCTC
Statistics
Matches: 103, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
91 5 0.05
92 25 0.24
93 39 0.38
94 4 0.04
95 1 0.01
96 3 0.03
98 13 0.13
99 13 0.13
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (95 bp):
CATGTCCCAGACAGGTCTTACACTAGCTACACGTAGCGAGGATGACGCCATGTCCCAAACAGGTC
TTACACTAGCTTATCTACGTGAGGCTGATG
Found at i:85115663 original size:46 final size:49
Alignment explanation
Indices: 85115529--85115664 Score: 149
Period size: 46 Copynumber: 2.9 Consensus size: 49
85115519 TCTACCGTGA
* * *
85115529 GGCTGATGCATGTCCCAGACATGTCTTACGCTAG-A-TCTTGTCTCGAT
1 GGCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATATCTCGAT
* * * *
85115576 GGC-GATGGATGTCCCAGACATGTCTTACATTGGCTCTCATAT-T-G-T
1 GGCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATATCTCGAT
* *
85115621 GGCTGATGCATTTCCCAGACATGTCTTACACTAGCACACATATC
1 GGCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATATC
85115665 ACCCATTATC
Statistics
Matches: 72, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
45 4 0.06
46 60 0.83
47 4 0.06
48 4 0.06
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (49 bp):
GGCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATATCTCGAT
Found at i:85126578 original size:49 final size:49
Alignment explanation
Indices: 85126499--85126623 Score: 153
Period size: 49 Copynumber: 2.5 Consensus size: 49
85126489 AGATGCCAAC
* * *
85126499 GCCATGTCCTAGACATGGTCTTACACTGGCTTTTATGTAGCGAG-GCCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTTTCATCTAGCG-GTGCCGAT
* * *
85126549 GCCATGTCCCAGACAGGTCTTATACTGGCTTTCATCTATCGGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTTTCATCTAGCGGTGCCGAT
* *
85126598 GCCATGTTCCAGACAAGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
85126624 AACACACGAC
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.02
49 50 0.77
50 14 0.22
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.30
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTTTCATCTAGCGGTGCCGAT
Found at i:85126790 original size:48 final size:46
Alignment explanation
Indices: 85126636--85126855 Score: 176
Period size: 48 Copynumber: 4.7 Consensus size: 46
85126626 CACACGACAA
* * **
85126636 GCTGATGCCATGTCCCAGACAAGTCTTACACTAGCT-TGTCTACTGCGAG
1 GCTGATG-CATGTCCCAGACATGTCTTACACTGGCTCT-AATACT--GAG
* ** * ** * *
85126685 GCTGATGCATGTCCCAGACGTGTCTTATGCTAGCTCTTGT-CTCAAA
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCTCTAATACT-GAG
* * * *
85126731 GCCGATGCATGTCCTAAACATGTCTTACATTGGCT-TAAATATCTCGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCTCT-AATA-CT-GAG
* * *
85126779 GCTGATGCATGTCCCGGACATGTCTTACACTGGCTCTCATACTGTG
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCTCTAATACTGAG
85126825 GCTGATGCATGTCCCAGACATGTCTTACACT
1 GCTGATGCATGTCCCAGACATGTCTTACACT
85126856 AGCACACATA
Statistics
Matches: 139, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
45 1 0.01
46 62 0.45
47 4 0.03
48 63 0.45
49 9 0.06
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (46 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTGGCTCTAATACTGAG
Found at i:85126845 original size:46 final size:47
Alignment explanation
Indices: 85126636--85126858 Score: 211
Period size: 46 Copynumber: 4.7 Consensus size: 47
85126626 CACACGACAA
* *
85126636 GCTGATGCCATGTCCCAGACAAGTCTTACACTAGCTTGTC-TACTGCGAG
1 GCTGATG-CATGTCCCAGACATGTCTTACACTAGC-TCTCATACT-CGAG
* ** ** * *
85126685 GCTGATGCATGTCCCAGACGTGTCTTATGCTAGCTCTTGT-CTCAAA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATACTCGAG
* * * * * *
85126731 GCCGATGCATGTCCTAAACATGTCTTACATTGGCT-TAAATATCTCGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATA-CTCGAG
* * *
85126779 GCTGATGCATGTCCCGGACATGTCTTACACTGGCTCTCATACT-GTG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATACTCGAG
85126825 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
85126859 ACACATATCA
Statistics
Matches: 140, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 64 0.46
47 6 0.04
48 61 0.44
49 8 0.06
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.30
Consensus pattern (47 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATACTCGAG
Found at i:85126867 original size:94 final size:95
Alignment explanation
Indices: 85126634--85126867 Score: 224
Period size: 94 Copynumber: 2.5 Consensus size: 95
85126624 AACACACGAC
* **
85126634 AAGCTGATGCCATGTCCCAGACAAGTCTTACACTAGCTTGTC-TA-CTGCGAGGCTGATGCATGT
1 AAGCTGATG-CATGTCCCAGACATGTCTTACACTAGC-TCACATATCTGCGAGGCTGATGCATGT
* ** **
85126697 CCCAGACGTGTCTTATGCTAGCTCTTGTCTCA
64 CCCAGACATGTCTTACACTAGCTCTCATCTCA
* * * * * * *
85126729 AAGCCGATGCATGTCCTAAACATGTCTTACATTGGCTTAAATATCT-CGAGGCTGATGCATGTCC
1 AAGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCACATATCTGCGAGGCTGATGCATGTCC
* * *
85126793 CGGACATGTCTTACACTGGCTCTCATACT-G
66 CAGACATGTCTTACACTAGCTCTCAT-CTCA
** *
85126823 TGGCTGATGCATGTCCCAGACATGTCTTACACTAGCACACATATC
1 AAGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCACATATC
85126868 ACTCATTATC
Statistics
Matches: 109, Mismatches: 27, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
93 1 0.01
94 96 0.88
95 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.29
Consensus pattern (95 bp):
AAGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCACATATCTGCGAGGCTGATGCATGTCC
CAGACATGTCTTACACTAGCTCTCATCTCA
Done.