Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 179 of 199
Found at i:51729140 original size:15 final size:17
Alignment explanation
Indices: 51729120--51729156 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
51729110 ATATTAAAGA
51729120 ATAATA-TTAAA-AATC
1 ATAATACTTAAATAATC
*
51729135 ATAATACTTAAATAATT
1 ATAATACTTAAATAATC
51729152 ATAAT
1 ATAAT
51729157 TCCATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 6 0.32
16 5 0.26
17 8 0.42
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAATACTTAAATAATC
Found at i:51731849 original size:2 final size:2
Alignment explanation
Indices: 51731842--51731884 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
51731832 TTATTGTATT
51731842 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51731884 T
1 T
51731885 TTTAAATCGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:51735742 original size:12 final size:12
Alignment explanation
Indices: 51735725--51735756 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
51735715 TACCAGTGTA
51735725 ACTTTCATAATC
1 ACTTTCATAATC
*
51735737 ACTTTCATATTC
1 ACTTTCATAATC
51735749 ACTTTCAT
1 ACTTTCAT
51735757 GGTATCTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (12 bp):
ACTTTCATAATC
Found at i:51745949 original size:20 final size:19
Alignment explanation
Indices: 51745924--51745964 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
51745914 AAATTAAGAG
51745924 TTATTT-TTTAATTTCATGTA
1 TTATTTATTT-ATTTCAT-TA
51745944 TTATTTATTTATTTCATTA
1 TTATTTATTTATTTCATTA
51745963 TT
1 TT
51745965 TTTCACATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 13 0.65
21 3 0.15
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.68
Consensus pattern (19 bp):
TTATTTATTTATTTCATTA
Found at i:51746705 original size:17 final size:17
Alignment explanation
Indices: 51746678--51746723 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 17
51746668 AAAGTTTAGG
51746678 GGGGAAATAAAAAGTTTT
1 GGGGAAAT-AAAAGTTTT
51746696 GGGG-AATAAAAG-TTT
1 GGGGAAATAAAAGTTTT
51746711 GAGGGAAAGTAAA
1 G-GGGAAA-TAAA
51746724 TAGGGGGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.16
16 8 0.32
17 5 0.20
18 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.22
Consensus pattern (17 bp):
GGGGAAATAAAAGTTTT
Found at i:51746843 original size:30 final size:31
Alignment explanation
Indices: 51746804--51746863 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
51746794 AGAGGTGGGA
*
51746804 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
51746835 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
51746864 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:51746973 original size:5 final size:5
Alignment explanation
Indices: 51746963--51746997 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
51746953 TTGGGGGGTT
51746963 GGGAG GGGAG GGGAG GGGAG GGGAG GGGAG GGGAG
1 GGGAG GGGAG GGGAG GGGAG GGGAG GGGAG GGGAG
51746998 TAAAAGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.80, T:0.00
Consensus pattern (5 bp):
GGGAG
Found at i:51747574 original size:12 final size:13
Alignment explanation
Indices: 51747557--51747586 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
51747547 AATATGTCTA
51747557 AATTTAATA-TTT
1 AATTTAATATTTT
51747569 AATTTAATATTTT
1 AATTTAATATTTT
51747582 AATTT
1 AATTT
51747587 TAATTTGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
AATTTAATATTTT
Found at i:51747988 original size:29 final size:31
Alignment explanation
Indices: 51747956--51748021 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 31
51747946 TATAAATTTG
*
51747956 AAATTTAA-TCTCTATACTTTT-AT-TTTCAA
1 AAATTTAATTCT-TATACTTTTCATATTACAA
*
51747985 AAATTTAATTCTTTTACTTTTCATATTACAA
1 AAATTTAATTCTTATACTTTTCATATTACAA
51748016 AAATTT
1 AAATTT
51748022 GTTGGTGTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 16 0.50
30 5 0.16
31 11 0.34
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (31 bp):
AAATTTAATTCTTATACTTTTCATATTACAA
Found at i:51750530 original size:48 final size:46
Alignment explanation
Indices: 51750427--51750519 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
51750417 TGACACATCA
* *
51750427 ACACATATATAAAAGTTTTATTGATATTAAATACTAAGCCATATCT
1 ACACATATATAAAAGTTTCATTGATATCAAATACTAAGCCATATCT
51750473 ACACATATATAAAAGTTTCATTGATATCAAATACTAAGCCATATCT
1 ACACATATATAAAAGTTTCATTGATATCAAATACTAAGCCATATCT
51750519 A
1 A
51750520 TACACTTATA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.34
Consensus pattern (46 bp):
ACACATATATAAAAGTTTCATTGATATCAAATACTAAGCCATATCT
Found at i:51755008 original size:9 final size:9
Alignment explanation
Indices: 51754994--51755023 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
51754984 ATTAAATAGT
51754994 TCGAGTTAA
1 TCGAGTTAA
51755003 TCGAGTTAA
1 TCGAGTTAA
*
51755012 TCAAGTTAA
1 TCGAGTTAA
51755021 TCG
1 TCG
51755024 GATCAACTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (9 bp):
TCGAGTTAA
Found at i:51756935 original size:21 final size:22
Alignment explanation
Indices: 51756893--51756937 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
51756883 ACACCAAAAC
* *
51756893 AGGCTTTTAGCGGTGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
51756915 AGGCCTTTAGCGGCG-TTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
51756936 AG
1 AG
51756938 CGCCGCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.11, C:0.16, G:0.29, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:51757032 original size:43 final size:44
Alignment explanation
Indices: 51756980--51757207 Score: 234
Period size: 43 Copynumber: 5.3 Consensus size: 44
51756970 GCGTCGCAAA
*
51756980 AAACGCCGCTAAAGACCAAT-ACATTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAGACCAATGACATTTAGCGGCGCTTTTCCCAC
* * * *
51757023 AAACGCCGCTAAAGACCAAT-ACCTTTAGCGGTGTTTTTCTCAC
1 AAACGCCGCTAAAGACCAATGACATTTAGCGGCGCTTTTCCCAC
* * * *
51757066 AAACGCCGCAAAAG-CCCATGACCA-TTAGCGTCGCTTTTCCCAT
1 AAACGCCGCTAAAGACCAATGA-CATTTAGCGGCGCTTTTCCCAC
* * *
51757109 AAATGCCGCTAAAG-CCCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAATGACATTTAGCGGCGCTTTTCCCAC
* * * * * *
51757152 AAACGCCGCTAAAGACC-ATGACCTTTAGTGACGCTTCTCGCAA
1 AAACGCCGCTAAAGACCAATGACATTTAGCGGCGCTTTTCCCAC
*
51757195 AAACGCTGCTAAA
1 AAACGCCGCTAAA
51757208 AACATAGCCT
Statistics
Matches: 156, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
42 5 0.03
43 148 0.95
44 3 0.02
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.22
Consensus pattern (44 bp):
AAACGCCGCTAAAGACCAATGACATTTAGCGGCGCTTTTCCCAC
Found at i:51757187 original size:86 final size:86
Alignment explanation
Indices: 51756980--51757187 Score: 258
Period size: 86 Copynumber: 2.4 Consensus size: 86
51756970 GCGTCGCAAA
* *
51756980 AAACGCCGCTAAAGACCAAT-ACATTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAATA
1 AAACGCCGCTAAAGACC-ATGACCTTTAGCGACGCTTTTACCACAAACGCCGCTAAAGACCAATA
* * *
51757044 CCTTTAGCGGTGTTTTTCTCAC
65 CCTTTAGCGGCGCTTTTCCCAC
* * * * * * * *
51757066 AAACGCCGCAAAAGCCCATGACCATTAGCGTCGCTTTTCCCATAAATGCCGCTAAAG-CCCATGA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTACCACAAACGCCGCTAAAGACCAAT-A
51757130 CCTTTAGCGGCGCTTTTCCCAC
65 CCTTTAGCGGCGCTTTTCCCAC
*
51757152 AAACGCCGCTAAAGACCATGACCTTTAGTGACGCTT
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTT
51757188 CTCGCAAAAA
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
85 6 0.06
86 97 0.94
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.23
Consensus pattern (86 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTACCACAAACGCCGCTAAAGACCAATAC
CTTTAGCGGCGCTTTTCCCAC
Found at i:51759237 original size:15 final size:15
Alignment explanation
Indices: 51759217--51759246 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51759207 GCATTGACAC
*
51759217 AAAAAATTCAGACCA
1 AAAAAATTCAAACCA
51759232 AAAAAATTCAAACCA
1 AAAAAATTCAAACCA
51759247 TATGGCTATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.20, G:0.03, T:0.13
Consensus pattern (15 bp):
AAAAAATTCAAACCA
Found at i:51760894 original size:7 final size:7
Alignment explanation
Indices: 51760882--51760936 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 7
51760872 ACTAATTAAT
51760882 CTAAACC
1 CTAAACC
51760889 CTAAACC
1 CTAAACC
*
51760896 CTAAACG
1 CTAAACC
51760903 CT-AACC
1 CTAAACC
51760909 C-AAATCC
1 CTAAA-CC
51760916 CT-AACC
1 CTAAACC
*
51760922 CTTAACCC
1 C-TAAACC
51760930 CTAAACC
1 CTAAACC
51760937 TTATTTAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
6 9 0.23
7 26 0.67
8 4 0.10
ACGTcount: A:0.38, C:0.44, G:0.02, T:0.16
Consensus pattern (7 bp):
CTAAACC
Found at i:51760901 original size:14 final size:13
Alignment explanation
Indices: 51760882--51760929 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
51760872 ACTAATTAAT
51760882 CTAAACCCTAAACC
1 CTAAACCCT-AACC
*
51760896 CTAAACGCTAACC
1 CTAAACCCTAACC
51760909 C-AAATCCCTAACC
1 CTAAA-CCCTAACC
*
51760922 CTTAACCC
1 CTAAACCC
51760930 CTAAACCTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.10
13 16 0.55
14 10 0.34
ACGTcount: A:0.38, C:0.44, G:0.02, T:0.17
Consensus pattern (13 bp):
CTAAACCCTAACC
Found at i:51761030 original size:22 final size:21
Alignment explanation
Indices: 51761004--51761052 Score: 80
Period size: 22 Copynumber: 2.3 Consensus size: 21
51760994 ATCGAATTCT
51761004 TAAACCCTAAATCACTAACCCC
1 TAAACCCTAAATCAC-AACCCC
*
51761026 TAAACCCTAAATCACAACCCT
1 TAAACCCTAAATCACAACCCC
51761047 TAAACC
1 TAAACC
51761053 AGAATCCCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (21 bp):
TAAACCCTAAATCACAACCCC
Found at i:51761181 original size:14 final size:14
Alignment explanation
Indices: 51761137--51761172 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
51761127 TCCTAAATTG
51761137 ACCATATACCTTAA
1 ACCATATACCTTAA
*
51761151 ACCATATACCCTAA
1 ACCATATACCTTAA
51761165 ACCATATA
1 ACCATATA
51761173 TATTAAACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (14 bp):
ACCATATACCTTAA
Found at i:51761478 original size:41 final size:41
Alignment explanation
Indices: 51761429--51761590 Score: 270
Period size: 41 Copynumber: 4.0 Consensus size: 41
51761419 AACTAAAAGC
* *
51761429 CTGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGAT
1 CTGAGCATCAGCGGCGCTTTTTCAAAAACGCCGCTAAAGAT
* *
51761470 CTGAGCATTAGCAGCGCTTTTTCAAAAACGCCGCTAAAGAT
1 CTGAGCATCAGCGGCGCTTTTTCAAAAACGCCGCTAAAGAT
*
51761511 CTTAGCATCAGCGGCGCTTTTTCAAAAACGCCGCTAAAGAT
1 CTGAGCATCAGCGGCGCTTTTTCAAAAACGCCGCTAAAGAT
*
51761552 CTGAGCATCAGCGGCGTTTTTTCAAAAACGCCGCTAAAG
1 CTGAGCATCAGCGGCGCTTTTTCAAAAACGCCGCTAAAG
51761591 CCCCGAAAGG
Statistics
Matches: 114, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 114 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (41 bp):
CTGAGCATCAGCGGCGCTTTTTCAAAAACGCCGCTAAAGAT
Found at i:51761959 original size:20 final size:19
Alignment explanation
Indices: 51761936--51761974 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
51761926 AAAAACAAAA
*
51761936 AAAAACCTGCAAAAAGCTGG
1 AAAAACCTG-AAAAAACTGG
*
51761956 AAAAAGCTGAAAAAACTGG
1 AAAAACCTGAAAAAACTGG
51761975 GTCAGGCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.54, C:0.15, G:0.21, T:0.10
Consensus pattern (19 bp):
AAAAACCTGAAAAAACTGG
Found at i:51762261 original size:12 final size:12
Alignment explanation
Indices: 51762244--51762287 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
51762234 TTTTAGTTAG
*
51762244 TATTATTATTTT
1 TATTATTATTGT
51762256 TATTATTATTGT
1 TATTATTATTGT
* *
51762268 TATTGTTGTTGT
1 TATTATTATTGT
*
51762280 TAGTATTA
1 TATTATTA
51762288 AGATGTTATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (12 bp):
TATTATTATTGT
Found at i:51763170 original size:18 final size:18
Alignment explanation
Indices: 51763139--51763181 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
51763129 GATATGGTTG
* *
51763139 GTGGTGAAGTAGAAGGTA
1 GTGGCGAAGAAGAAGGTA
* *
51763157 TTGGCGAAGAAGAATGTA
1 GTGGCGAAGAAGAAGGTA
51763175 GTGGCGA
1 GTGGCGA
51763182 TCATTGGGAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.42, T:0.21
Consensus pattern (18 bp):
GTGGCGAAGAAGAAGGTA
Found at i:51767877 original size:16 final size:15
Alignment explanation
Indices: 51767856--51767885 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
51767846 AATAAAAATA
51767856 TATTATTTTCATATTT
1 TATTATTTT-ATATTT
51767872 TATTATTTTATATT
1 TATTATTTTATATT
51767886 ATTTCAGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTTTATATTT
Found at i:51768576 original size:24 final size:24
Alignment explanation
Indices: 51768547--51768634 Score: 72
Period size: 24 Copynumber: 3.5 Consensus size: 24
51768537 ATGTACATAT
51768547 CATAACATAAATACATATAATGTA
1 CATAACATAAATACATATAATGTA
*
51768571 CATAACATCAA-A-ATATATATGCTA
1 CATAACATAAATACATATA-ATG-TA
* * *
51768595 AATAAAATATTAAAATACGTATAATGTA
1 CAT--AACA-T-AAATACATATAATGTA
51768623 CATAACATAAAT
1 CATAACATAAAT
51768635 TTTTAACATA
Statistics
Matches: 49, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
22 5 0.10
23 4 0.08
24 18 0.37
25 1 0.02
26 6 0.12
27 1 0.02
28 6 0.12
29 4 0.08
30 4 0.08
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.30
Consensus pattern (24 bp):
CATAACATAAATACATATAATGTA
Found at i:51768765 original size:36 final size:36
Alignment explanation
Indices: 51768690--51768861 Score: 144
Period size: 41 Copynumber: 4.8 Consensus size: 36
51768680 TTACATTTTA
* *
51768690 TTCTTTTTTTTTC-C-T-TCCTTCCCTCTTC-TT-C
1 TTCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCC
51768721 TTCTTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCC
1 TTC-TTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCC
* * *
51768758 TTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTCTTCTTCTTC
1 TTC---TT-TTT-TTTTCTCTTCTCCTTTCCTTTTCTT-TCC
*
51768800 TTCTTTCTTTTTT-TTTTCTCCTTTCCTTTTCTTTCC
1 TTCTTT-TTTTTTCTCTTCTCCTTTCCTTTTCTTTCC
* *
51768836 TTCTTTTTCTTTCT-TTC-CCTCTCCTT
1 TTCTTTTTTTTTCTCTTCTCCTTTCCTT
51768862 CTCCCCCCCC
Statistics
Matches: 118, Mismatches: 10, Indels: 23
0.78 0.07 0.15
Matches are distributed among these distances:
31 3 0.03
32 10 0.08
33 1 0.01
34 9 0.08
35 19 0.16
36 11 0.09
37 22 0.19
38 5 0.04
39 7 0.06
40 3 0.03
41 23 0.19
42 5 0.04
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (36 bp):
TTCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCC
Found at i:51768826 original size:78 final size:75
Alignment explanation
Indices: 51768690--51768851 Score: 254
Period size: 78 Copynumber: 2.1 Consensus size: 75
51768680 TTACATTTTA
51768690 TTCTTT-TTTTTTCCTTCCTTCCCTCTTCTTCTTCTTTTTTTTTTCTCTTCTCCTTTCCTTTTCT
1 TTCTTTCTTTTTTCCTTCCTTCCCTCTTCTTCTTCTTTTTTTTTTCTCTTCTCCTTTCCTTTTCT
51768754 TTCCTTCTTT
66 TTCCTTCTTT
* * * *
51768764 TTCTTTCTTTTTTCTTCTCCTTTCCTCTTCTTCTTCTTCTTTCTTTTTTTTTTCTCCTTTCCTTT
1 TTCTTTCTTTTTTCCT-TCCTTCCCTCTTCTTCTTCTT-TTT-TTTTTCTCTTCTCCTTTCCTTT
51768829 TCTTTCCTTCTTT
63 TCTTTCCTTCTTT
51768842 TTCTTTCTTT
1 TTCTTTCTTT
51768852 CCCTCTCCTT
Statistics
Matches: 80, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
74 6 0.08
75 8 0.10
76 20 0.25
77 3 0.04
78 43 0.54
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (75 bp):
TTCTTTCTTTTTTCCTTCCTTCCCTCTTCTTCTTCTTTTTTTTTTCTCTTCTCCTTTCCTTTTCT
TTCCTTCTTT
Found at i:51769015 original size:24 final size:25
Alignment explanation
Indices: 51768983--51769029 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
51768973 TGTTTTTTGT
51768983 ATATTTTGGT-AATTAAAAAAAATA
1 ATATTTTGGTAAATTAAAAAAAATA
51769007 ATATTTTGGTAAATTAAAAAAAA
1 ATATTTTGGTAAATTAAAAAAAA
51769030 GAGATAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (25 bp):
ATATTTTGGTAAATTAAAAAAAATA
Found at i:51774662 original size:22 final size:22
Alignment explanation
Indices: 51774619--51774671 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
51774609 TTTTTTTAAA
* *
51774619 AATATTTATATTATTTTAATTT
1 AATATTTATATAATTTAAATTT
51774641 AATATTTA-ATAATTTAATATTT
1 AATATTTATATAATTTAA-ATTT
**
51774663 TTTATTTAT
1 AATATTTAT
51774672 TAAAATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
AATATTTATATAATTTAAATTT
Found at i:51775179 original size:34 final size:34
Alignment explanation
Indices: 51775140--51775212 Score: 146
Period size: 34 Copynumber: 2.1 Consensus size: 34
51775130 CAAATGATAG
51775140 TGTTAATTATTTCCATTAATACATGACATGTATA
1 TGTTAATTATTTCCATTAATACATGACATGTATA
51775174 TGTTAATTATTTCCATTAATACATGACATGTATA
1 TGTTAATTATTTCCATTAATACATGACATGTATA
51775208 TGTTA
1 TGTTA
51775213 TAAACTAGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (34 bp):
TGTTAATTATTTCCATTAATACATGACATGTATA
Found at i:51779532 original size:28 final size:28
Alignment explanation
Indices: 51779492--51779569 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 28
51779482 CTCACTCATT
* *
51779492 TGTTAGAAAGAGTACGGAATCTAAGGAA
1 TGTTAGAAAGAGTACAGAATCTAAAGAA
*
51779520 TGTTAGAAGGAGTACAGAATCTAAAGAA
1 TGTTAGAAAGAGTACAGAATCTAAAGAA
*
51779548 TGTTAGAAAGAGTACACAATCT
1 TGTTAGAAAGAGTACAGAATCT
51779570 GTAAATAGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (28 bp):
TGTTAGAAAGAGTACAGAATCTAAAGAA
Found at i:51779806 original size:138 final size:138
Alignment explanation
Indices: 51779555--51779832 Score: 529
Period size: 138 Copynumber: 2.0 Consensus size: 138
51779545 GAATGTTAGA
51779555 AAGAGTACACAATCTGTAAATAGATACAATTTCTGCTCTGCTATGGTTTCTATCCTTGCAGCTAA
1 AAGAGTACACAATCTGTAAATAGATACAATTTCTGCTCTGCTATGGTTTCTATCCTTGCAGCTAA
*
51779620 AAAGGATAACTTTTAGTTATTTCCCTCTCACATTTCTAAAGTTAACGTTTTCATCACTTATTTTT
66 AAAGGATAACTTTTAGTTATTTCCCTCTCACATTTCTAAAATTAACGTTTTCATCACTTATTTTT
*
51779685 GTCAGGTT
131 GTCAAGTT
51779693 AAGAGTACACAATCTGTAAATAGATACAATTTCTGCTCTGCTATGGTTTCTATCCTTGCAGCTAA
1 AAGAGTACACAATCTGTAAATAGATACAATTTCTGCTCTGCTATGGTTTCTATCCTTGCAGCTAA
*
51779758 AAAGGATAACTTTTAGTTATTTCCCTCTCACATTTCTAAAATTTACGTTTTCATCACTTATTTTT
66 AAAGGATAACTTTTAGTTATTTCCCTCTCACATTTCTAAAATTAACGTTTTCATCACTTATTTTT
51779823 GTCAAGTT
131 GTCAAGTT
51779831 AA
1 AA
51779833 CGTTTTCATC
Statistics
Matches: 137, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
138 137 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (138 bp):
AAGAGTACACAATCTGTAAATAGATACAATTTCTGCTCTGCTATGGTTTCTATCCTTGCAGCTAA
AAAGGATAACTTTTAGTTATTTCCCTCTCACATTTCTAAAATTAACGTTTTCATCACTTATTTTT
GTCAAGTT
Found at i:51785901 original size:31 final size:31
Alignment explanation
Indices: 51785863--51785924 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
51785853 AGGCAAATTA
51785863 CAAGAGTAACTGAATCCTAATAAAACTCTTT
1 CAAGAGTAACTGAATCCTAATAAAACTCTTT
*
51785894 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAACTGAATCCTAATAAAACTCTTT
51785925 AAAATTATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.31
Consensus pattern (31 bp):
CAAGAGTAACTGAATCCTAATAAAACTCTTT
Found at i:51787372 original size:20 final size:20
Alignment explanation
Indices: 51787349--51787386 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51787339 TTATACTTTT
*
51787349 TAAAATAGCTTTACTTTAGG
1 TAAAATAGATTTACTTTAGG
*
51787369 TAAAATATATTTACTTTA
1 TAAAATAGATTTACTTTA
51787387 ATAATAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (20 bp):
TAAAATAGATTTACTTTAGG
Found at i:51792962 original size:23 final size:21
Alignment explanation
Indices: 51792934--51792978 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
51792924 AATTTGAAGG
*
51792934 ACCAAACTCTAATAAATTTTTAT
1 ACCAAA-TCT-ATAAATATTTAT
*
51792957 ACCAAATCTGTAAATATTTAT
1 ACCAAATCTATAAATATTTAT
51792978 A
1 A
51792979 TTTAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
22 3 0.15
23 6 0.30
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.38
Consensus pattern (21 bp):
ACCAAATCTATAAATATTTAT
Found at i:51793103 original size:48 final size:48
Alignment explanation
Indices: 51793027--51793122 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
51793017 CAAAACCGCC
51793027 TTTCCTGATACCACTAGAAATCGAGTTGTTACAACGATAACTTTTCTT
1 TTTCCTGATACCACTAGAAATCGAGTTGTTACAACGATAACTTTTCTT
* *
51793075 TTTCCTGATACCACTAGAAATCGGGTTGTTACAATGATAACTTTTCTT
1 TTTCCTGATACCACTAGAAATCGAGTTGTTACAACGATAACTTTTCTT
51793123 ATCAAGTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.39
Consensus pattern (48 bp):
TTTCCTGATACCACTAGAAATCGAGTTGTTACAACGATAACTTTTCTT
Found at i:51793433 original size:21 final size:22
Alignment explanation
Indices: 51793392--51793432 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
51793382 AACGTATTGA
51793392 TTCAAATATTATAATATAAAATC
1 TTCAAATA-TATAATATAAAATC
51793415 TTCAAATA-ATAAT-TAAAA
1 TTCAAATATATAATATAAAA
51793433 AATTTTAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 5 0.28
23 8 0.44
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (22 bp):
TTCAAATATATAATATAAAATC
Found at i:51793649 original size:2 final size:2
Alignment explanation
Indices: 51793642--51793673 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
51793632 TTATATCTTT
51793642 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51793674 NNNNNNNNNN
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51794316 original size:20 final size:20
Alignment explanation
Indices: 51794240--51794317 Score: 52
Period size: 20 Copynumber: 3.8 Consensus size: 20
51794230 TAAATTAGTT
*
51794240 AATTAAAATATGTTTTAAAAA
1 AATTAAAAT-TGTTTAAAAAA
* *
51794261 AATTATAA-CG-TTAATATTAAA
1 AATTAAAATTGTTTAA-A--AAA
* * *
51794282 ATTTAAAAATATTTAAAAAA
1 AATTAAAATTGTTTAAAAAA
51794302 AATTAAAATTGTTTAA
1 AATTAAAATTGTTTAA
51794318 TTTTCAATTA
Statistics
Matches: 42, Mismatches: 10, Indels: 11
0.67 0.16 0.17
Matches are distributed among these distances:
18 3 0.07
19 2 0.05
20 16 0.38
21 16 0.38
22 1 0.02
23 4 0.10
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.38
Consensus pattern (20 bp):
AATTAAAATTGTTTAAAAAA
Found at i:51795091 original size:45 final size:45
Alignment explanation
Indices: 51795040--51795130 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 45
51795030 AGGAAGTACC
* *
51795040 ACAAGTAAAGTTAAAGGTTTAACAAGTGT-TATATAGGG-TATAATA
1 ACAAGTAAAGTCAAAAG-TTAACAAGTGTAT-TATAGGGTTATAATA
**
51795085 ACAAGTAGGGTCAAAAGTTAACAAGTGTATTATAGGGTTATAATA
1 ACAAGTAAAGTCAAAAGTTAACAAGTGTATTATAGGGTTATAATA
51795130 A
1 A
51795131 ATAATAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.44, C:0.05, G:0.21, T:0.30
Consensus pattern (45 bp):
ACAAGTAAAGTCAAAAGTTAACAAGTGTATTATAGGGTTATAATA
Found at i:51801551 original size:300 final size:301
Alignment explanation
Indices: 51801008--51801592 Score: 879
Period size: 300 Copynumber: 1.9 Consensus size: 301
51800998 ATAGGCCTTC
51801008 TCCAAATCGATCTTAATAACCATCCATATTTTGTGTTTGCTTCTCATGGAATAAATAACTTCTTG
1 TCCAAATCGATCTTAATAACCATCCATATTTTGTGTTTGCTTCTCATGGAATAAATAACTTCTTG
* * * *
51801073 GACGACTATGATATTGTTAGTGATGTTCCTTCCAGCAAAAAAACCCACCTGTTCTAGGTCAATGA
66 GACGACTATGATATTGTTAGTGATATTACTTCCAGCAAAAAAACCCACATGTTCTAGGCCAATGA
* * * * * *
51801138 TTCTAGGAAAAACAACCTTATATTTGTTCGGAATGGTATTTATGACTTGCATGTAAAGAACTGAA
131 TTCTAGGAAAAACAACCTTATATCTATTCAGAATGATATTTAGGACCTGCATGTAAAGAACTGAA
* *
51801203 CACAAGTTTATTGGGCGAAATTGTGCAAACTTTGTGCAATTAAAGGGTAGAAGGGATATATTAGA
196 CACAAGTTTATTGGGCGAAATTGTGCAAACTTTGTGCAATTAAAGGGTAGAAGGGATATATCAAA
51801268 GGGTACTTTATTGTCATGGAATTAACAGGCATAATAGCTTA
261 GGGTACTTTATTGTCATGGAATTAACAGGCATAATAGCTTA
* * ** * *
51801309 TCCAAATCTATCTTGATGGCCATCCATCTTTTGTGTTTGCTTCTCATGG-ATGAATAACTTCTTG
1 TCCAAATCGATCTTAATAACCATCCATATTTTGTGTTTGCTTCTCATGGAATAAATAACTTCTTG
* * * * *
51801373 GGCGATTATGATATTGTTAGTGATATTACTTCCAG-AAATAAAACCCGCATTTTCTGGGCCAATG
66 GACGACTATGATATTGTTAGTGATATTACTTCCAGCAAA-AAAACCCACATGTTCTAGGCCAATG
* *
51801437 ATTCTAGGAAAAACAACCTTATATCTATTCAGAATGATCTTTAGGACCTGCTTGTAAAGAACTGA
130 ATTCTAGGAAAAACAACCTTATATCTATTCAGAATGATATTTAGGACCTGCATGTAAAGAACTGA
* *
51801502 ACACAAGTTTATTGGGTGAAATTGTGCAAAGTTCT-TGCAATTAAAGGGTAGAAGGGATATATCA
195 ACACAAGTTTATTGGGCGAAATTGTGCAAACTT-TGTGCAATTAAAGGGTAGAAGGGATATATCA
*
51801566 AAGGGTATTTTATTGTCATGGAATTAA
259 AAGGGTACTTTATTGTCATGGAATTAA
51801593 AAGGTAGAAT
Statistics
Matches: 254, Mismatches: 28, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
299 3 0.01
300 206 0.81
301 45 0.18
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (301 bp):
TCCAAATCGATCTTAATAACCATCCATATTTTGTGTTTGCTTCTCATGGAATAAATAACTTCTTG
GACGACTATGATATTGTTAGTGATATTACTTCCAGCAAAAAAACCCACATGTTCTAGGCCAATGA
TTCTAGGAAAAACAACCTTATATCTATTCAGAATGATATTTAGGACCTGCATGTAAAGAACTGAA
CACAAGTTTATTGGGCGAAATTGTGCAAACTTTGTGCAATTAAAGGGTAGAAGGGATATATCAAA
GGGTACTTTATTGTCATGGAATTAACAGGCATAATAGCTTA
Found at i:51806382 original size:50 final size:50
Alignment explanation
Indices: 51806267--51806552 Score: 352
Period size: 50 Copynumber: 5.8 Consensus size: 50
51806257 GATAATAACA
* * ** *
51806267 TGCCAAAGCCATGTCCCAGATATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * **
51806318 TGCCCATGCTATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
51806368 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
51806418 TGCCAATGCCATGTTCCAGTCATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
51806468 TGCCAACGCCATGTCCCAGACAT-G---TA-A--GAACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
51806511 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
51806553 TTACCCAAAT
Statistics
Matches: 200, Mismatches: 28, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
43 35 0.17
44 1 0.00
45 1 0.00
46 2 0.01
47 2 0.01
48 1 0.00
49 1 0.00
50 126 0.63
51 31 0.16
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:51806923 original size:30 final size:30
Alignment explanation
Indices: 51806889--51806947 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
51806879 CCCTCGACTC
51806889 AAACTTTGTA-AAAATTACGA-TTTTGCCCCT
1 AAACTTT-TACAAAATTAC-ATTTTTGCCCCT
*
51806919 AAACTTTTACATAATTACATTTTTGCCCC
1 AAACTTTTACAAAATTACATTTTTGCCCC
51806948 AAGGCCCTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTACAAAATTACATTTTTGCCCCT
Found at i:51809699 original size:18 final size:16
Alignment explanation
Indices: 51809659--51809757 Score: 69
Period size: 15 Copynumber: 6.1 Consensus size: 16
51809649 GAAATGATAA
51809659 TAAATAATAATAA-AG
1 TAAATAATAATAATAG
*
51809674 TAAGTAATAATAATAG
1 TAAATAATAATAATAG
*
51809690 ATACAATAATAGTAATAG
1 -TA-AATAATAATAATAG
* * *
51809708 CAATATTAAAAATAA-AA
1 TAA-A-TAATAATAATAG
* *
51809725 TAAAAAATAATGATAG
1 TAAATAATAATAATAG
*
51809741 TAAA-AATAATGATAG
1 TAAATAATAATAATAG
51809756 TA
1 TA
51809758 CTATTGAAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
15 31 0.47
16 9 0.14
17 7 0.11
18 19 0.29
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (16 bp):
TAAATAATAATAATAG
Found at i:51810565 original size:13 final size:13
Alignment explanation
Indices: 51810547--51810571 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51810537 GAAAATAATC
51810547 ATAATAAAAAATA
1 ATAATAAAAAATA
51810560 ATAATAAAAAAT
1 ATAATAAAAAAT
51810572 CCTATATCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
ATAATAAAAAATA
Found at i:51810692 original size:36 final size:36
Alignment explanation
Indices: 51810645--51810725 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
51810635 AGGGCGACTT
*
51810645 GCTGCAACGTTCGCGGAGTTGCTGTGCATGGGTGAG
1 GCTGCTACGTTCGCGGAGTTGCTGTGCATGGGTGAG
* *
51810681 GCTGCTACGTTCGCGGAGTTGCTTTGCGTGGGTGAG
1 GCTGCTACGTTCGCGGAGTTGCTGTGCATGGGTGAG
*
51810717 ACTGCTACG
1 GCTGCTACG
51810726 ACAGAGGCGG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.12, C:0.21, G:0.40, T:0.27
Consensus pattern (36 bp):
GCTGCTACGTTCGCGGAGTTGCTGTGCATGGGTGAG
Found at i:51810803 original size:14 final size:14
Alignment explanation
Indices: 51810771--51810813 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
51810761 GTTCTTCCAA
51810771 ATTGGG-CTAGGGT
1 ATTGGGCCTAGGGT
*
51810784 -TTGGGCCTAGTGT
1 ATTGGGCCTAGGGT
*
51810797 ATTGGGCCAAGGGT
1 ATTGGGCCTAGGGT
51810811 ATT
1 ATT
51810814 TGGGTAATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 5 0.20
13 6 0.24
14 14 0.56
ACGTcount: A:0.16, C:0.12, G:0.40, T:0.33
Consensus pattern (14 bp):
ATTGGGCCTAGGGT
Found at i:51813003 original size:22 final size:22
Alignment explanation
Indices: 51812975--51813024 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
51812965 TTAATTTTTT
51812975 TAAAAAAATTAAATTAAAAA-AA
1 TAAAAAAA-TAAATTAAAAAGAA
* *
51812997 TAAAAAAATAATTTAAAAAGTA
1 TAAAAAAATAAATTAAAAAGAA
51813019 TAAAAA
1 TAAAAA
51813025 TTATAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (22 bp):
TAAAAAAATAAATTAAAAAGAA
Found at i:51813009 original size:20 final size:20
Alignment explanation
Indices: 51812975--51813037 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
51812965 TTAATTTTTT
51812975 TAAAAAAATTAAATTAAAAAAA
1 TAAAAAAA-T-AATTAAAAAAA
* *
51812997 TAAAAAAATAATTTAAAAAG
1 TAAAAAAATAATTAAAAAAA
* *
51813017 TATAAAAATTA-TAAAAAAA
1 TAAAAAAATAATTAAAAAAA
51813036 TA
1 TA
51813038 TTTTTAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
19 8 0.23
20 18 0.51
21 1 0.03
22 8 0.23
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (20 bp):
TAAAAAAATAATTAAAAAAA
Found at i:51823867 original size:19 final size:20
Alignment explanation
Indices: 51823843--51823881 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
51823833 TAAATCAGTT
51823843 TATTATCTACA-TTA-AATTC
1 TATTAT-TACAGTTAGAATTC
51823862 TATTATTACAGTTAGAATTC
1 TATTATTACAGTTAGAATTC
51823882 GAATCGATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (20 bp):
TATTATTACAGTTAGAATTC
Found at i:51824209 original size:24 final size:24
Alignment explanation
Indices: 51824177--51824225 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
51824167 ATAATGTCTT
51824177 AAACTCGTATTCTTAATTCGTTAA
1 AAACTCGTATTCTTAATTCGTTAA
51824201 AAACTCGTATTCTTAATTCGTTAA
1 AAACTCGTATTCTTAATTCGTTAA
51824225 A
1 A
51824226 CTGATGAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (24 bp):
AAACTCGTATTCTTAATTCGTTAA
Found at i:51825042 original size:20 final size:18
Alignment explanation
Indices: 51825017--51825060 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
51825007 ATTATTATAT
*
51825017 TTTTTTAAAATATTTATGTA
1 TTTTTTAAAAT-TTT-TGAA
*
51825037 TTTTTTATAATTTTTGAA
1 TTTTTTAAAATTTTTGAA
51825055 TTTTTT
1 TTTTTT
51825061 GGAATTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 3 0.14
20 10 0.45
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTTTAAAATTTTTGAA
Found at i:51838446 original size:11 final size:11
Alignment explanation
Indices: 51838432--51838498 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
51838422 ATTTTTTAAA
51838432 TTTTAAAATAT
1 TTTTAAAATAT
51838443 TTTTAAAATAT
1 TTTTAAAATAT
** *
51838454 TTTTTTATTAT
1 TTTTAAAATAT
51838465 TATTT---A-A-
1 T-TTTAAAATAT
51838472 TTTTAAAATAT
1 TTTTAAAATAT
51838483 TTTTAAAATACT
1 TTTTAAAATA-T
51838495 TTTT
1 TTTT
51838499 TTAATTTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
6 3 0.07
7 1 0.02
8 1 0.02
9 1 0.02
10 1 0.02
11 30 0.67
12 8 0.18
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:51838732 original size:17 final size:14
Alignment explanation
Indices: 51838698--51838725 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51838688 GTTTGGAGGC
51838698 AGTTTGCTTGATGA
1 AGTTTGCTTGATGA
51838712 AGTTTGCTTGATGA
1 AGTTTGCTTGATGA
51838726 TAAAGTTGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (14 bp):
AGTTTGCTTGATGA
Found at i:51845181 original size:30 final size:30
Alignment explanation
Indices: 51845147--51845288 Score: 124
Period size: 30 Copynumber: 4.7 Consensus size: 30
51845137 TTCCTCAATT
* *
51845147 GTCGGCTCTTTTGTGGCTTCTGCATGGACA
1 GTCGGCGCTTCTGTGGCTTCTGCATGGACA
* *
51845177 GTCGGCGCTTCTGCGGCTT-TGGCATGGGCA
1 GTCGGCGCTTCTGTGGCTTCT-GCATGGACA
* * * * * *
51845207 GTCGCCACTTTTGCGACTTCTCCATGGACA
1 GTCGGCGCTTCTGTGGCTTCTGCATGGACA
* * * * * *
51845237 GTCGACGTTTCTGTGGCTTTTGCATAGTCC
1 GTCGGCGCTTCTGTGGCTTCTGCATGGACA
51845267 GTCGGCGCTTCTGTGGCTTCTG
1 GTCGGCGCTTCTGTGGCTTCTG
51845289 TATAAACCGT
Statistics
Matches: 86, Mismatches: 24, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
29 1 0.01
30 84 0.98
31 1 0.01
ACGTcount: A:0.09, C:0.27, G:0.30, T:0.34
Consensus pattern (30 bp):
GTCGGCGCTTCTGTGGCTTCTGCATGGACA
Found at i:51845287 original size:60 final size:60
Alignment explanation
Indices: 51845147--51845287 Score: 156
Period size: 60 Copynumber: 2.4 Consensus size: 60
51845137 TTCCTCAATT
* * * *
51845147 GTCGGCTCTTTTGTGGCTTCTGCATGGACAGTCGGCGCTTCTGCGGCTTTGGCATGGGCA
1 GTCGGCACTTTTGTGGCTTCTCCATGGACAGTCGACGCTTCTGCGGCTTTGGCATAGGCA
* * * * * * * *
51845207 GTCGCCACTTTTGCGACTTCTCCATGGACAGTCGACGTTTCTGTGGCTTTTGCATAGTCC
1 GTCGGCACTTTTGTGGCTTCTCCATGGACAGTCGACGCTTCTGCGGCTTTGGCATAGGCA
* *
51845267 GTCGGCGCTTCTGTGGCTTCT
1 GTCGGCACTTTTGTGGCTTCT
51845288 GTATAAACCG
Statistics
Matches: 64, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
60 64 1.00
ACGTcount: A:0.09, C:0.27, G:0.30, T:0.34
Consensus pattern (60 bp):
GTCGGCACTTTTGTGGCTTCTCCATGGACAGTCGACGCTTCTGCGGCTTTGGCATAGGCA
Found at i:51846189 original size:105 final size:102
Alignment explanation
Indices: 51845987--51846451 Score: 357
Period size: 105 Copynumber: 4.5 Consensus size: 102
51845977 CTTTTTATTG
** ** *
51845987 TGTATAAAGTCGGTGCCGGCCATTGTCAGGCCACCCTTAATTTTTTTTACTTTTTTCGTATATTG
1 TGTATAAAGAGGGTGCCGGCCATTGTCAGGCCACCCCAAATTTTTTTTACTTTTTTCGTATACTG
** **
51846052 GTGCCGGTCATTGTTACACCAAAAGTAAAAAAAAAATTAT
66 GTGCCGCCCATTGACACACCAAAAGT-AAAAAAAAA--AT
* * *
51846092 TGTATAAAGGGGGTGCCTGCCATTTTCAGGCCACCCCAAATTTTGTTTTTACTTTTTTCGTATAC
1 TGTATAAAGAGGGTGCCGGCCATTGTCAGGCCACCCCAAA-TTT-TTTTTACTTTTTTCGTATAC
* * *
51846157 TAGTGCCGCCCATTGACAGAGCAAAAGTAAAAAAAAAAT
64 TGGTGCCGCCCATTGACACACCAAAAGTAAAAAAAAAAT
* * * * * *
51846196 TGTATAAATAGGGTGTCGGCCATTGCCAGGCCA-CTCGAATTTTTTTTACTTTTTTCGTATGCTG
1 TGTATAAAGAGGGTGCCGGCCATTGTCAGGCCACCCCAAATTTTTTTTACTTTTTTCGTATACTG
* *
51846260 GTGTCGGCCAATT-ACACACCAAAAGTAAAAAAAAAAATTAT
66 GTG-CCGCCCATTGACACACCAAAAGT--AAAAAAAAA--AT
** * * * * * * *
51846301 TGTAGGAAGTGGGTGTCGACCATTGCCAGG-C-CGCCAATTTTTTTTTACTTTTTTCGTATTCTG
1 TGTATAAAGAGGGTGCCGGCCATTGTCAGGCCACCCCAAATTTTTTTTACTTTTTTCGTATACTG
* * * * * * *
51846364 GTGCTGGCAATTGACAAAACAACA-TCCAAAAAAAAATT
66 GTGCCGCCCATTGACACACCAAAAGT--AAAAAAAAAAT
* * * * *
51846402 TCCGTATAAAG-GGGTGCCGTCCATTGACAGGCTAGCACCTAATTTTTTTT
1 T--GTATAAAGAGGGTGCCGGCCATTGTCAGGCCA-CCCCAAATTTTTTTT
51846452 TTCCTTTTTT
Statistics
Matches: 291, Mismatches: 55, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
101 36 0.12
102 27 0.09
103 36 0.12
104 67 0.23
105 73 0.25
106 12 0.04
107 40 0.14
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (102 bp):
TGTATAAAGAGGGTGCCGGCCATTGTCAGGCCACCCCAAATTTTTTTTACTTTTTTCGTATACTG
GTGCCGCCCATTGACACACCAAAAGTAAAAAAAAAAT
Found at i:51846293 original size:104 final size:102
Alignment explanation
Indices: 51845987--51846461 Score: 374
Period size: 104 Copynumber: 4.5 Consensus size: 102
51845977 CTTTTTATTG
* * *
51845987 TGTATAAAGTCGGTGCCGGCCATTGTCAGGCCACCCTTAA-TTTTTTTTACTTTTTTCGTATATT
1 TGTATAAA-TGGGTGCCGGCCATTGCCAGGCCACCC--AATTTTTTTTTACTTTTTTCGTATACT
* ** *
51846051 GGTGCCGGTCATTGTTACACCAAAAGTAAAAAAAAAATTAT
63 GGTG-CGGCCATTGACACACCAAAAGTAAAAAAAAAAATAT
* * **
51846092 TGTATAAAGGGGGTGCCTGCCATTTTCAGGCCACCCCAAATTTTGTTTTTACTTTTTTCGTATAC
1 TGTATAAA-TGGGTGCCGGCCATTGCCAGGCCA-CCC-AATTTT-TTTTTACTTTTTTCGTATAC
* * * *
51846157 TAGTGCCGCCCATTGACAGAGCAAAAGT--AAAAAAAAA-AT
62 TGGTG-CGGCCATTGACACACCAAAAGTAAAAAAAAAAATAT
* * *
51846196 TGTATAAATAGGGTGTCGGCCATTGCCAGGCCACTCGAA-TTTTTTTTACTTTTTTCGTATGCTG
1 TGTATAAAT-GGGTGCCGGCCATTGCCAGGCCAC-CCAATTTTTTTTTACTTTTTTCGTATACTG
51846260 GTGTCGGCCAATT-ACACACCAAAAGTAAAAAAAAAAATTAT
64 GTG-CGGCC-ATTGACACACCAAAAGTAAAAAAAAAAA-TAT
* * * * * *
51846301 TGTAGGAAGTGGGTGTCGACCATTGCCAGGCC-GCCAATTTTTTTTTACTTTTTTCGTATTCTGG
1 TGTA-TAAATGGGTGCCGGCCATTGCCAGGCCACCCAATTTTTTTTTACTTTTTTCGTATACTGG
* * * * **
51846365 TGCTGGCAATTGACAAAACAACA-TCCAAAAAAAAAT-T
65 TGC-GGCCATTGACACACCAAAAGTAAAAAAAAAAATAT
* * * * *
51846402 TCCGTATAAAGGGGTGCCGTCCATTGACAGGCTAGCACCTAATTTTTTTTTTCCTTTTTT
1 T--GTATAAATGGGTGCCGGCCATTGCCAGGC---CACCCAA-TTTTTTTTTACTTTTTT
51846462 TCTTGTTTTC
Statistics
Matches: 302, Mismatches: 47, Indels: 40
0.78 0.12 0.10
Matches are distributed among these distances:
101 40 0.13
102 27 0.09
103 32 0.11
104 68 0.23
105 67 0.22
106 12 0.04
107 56 0.19
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (102 bp):
TGTATAAATGGGTGCCGGCCATTGCCAGGCCACCCAATTTTTTTTTACTTTTTTCGTATACTGGT
GCGGCCATTGACACACCAAAAGTAAAAAAAAAAATAT
Found at i:51848234 original size:24 final size:25
Alignment explanation
Indices: 51848207--51848274 Score: 122
Period size: 24 Copynumber: 2.8 Consensus size: 25
51848197 TAGAGGGTTA
51848207 GCGGGAGGGATATTATCCTCT-GTT
1 GCGGGAGGGATATTATCCTCTCGTT
51848231 GCGGGAGGGATATTATCCT-TCGTT
1 GCGGGAGGGATATTATCCTCTCGTT
51848255 GCGGGAGGGATATTATCCTC
1 GCGGGAGGGATATTATCCTC
51848275 ATCATTCTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
23 1 0.02
24 41 0.98
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.31
Consensus pattern (25 bp):
GCGGGAGGGATATTATCCTCTCGTT
Found at i:51848576 original size:30 final size:30
Alignment explanation
Indices: 51848542--51848626 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
51848532 ATTGTCGGCT
* *
51848542 CTTCTGTGGCTTTTGCATGGACAGTCGACG
1 CTTCTGTGGCTTCTGCATGGACAGTCGACA
* * *
51848572 CTTCTGCGGCTTCGGCATGGACAGTCGGCA
1 CTTCTGTGGCTTCTGCATGGACAGTCGACA
* *
51848602 CTTCTGTAGCTTCTACATGGACAGT
1 CTTCTGTGGCTTCTGCATGGACAGT
51848627 GGGCGTTTCT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.31
Consensus pattern (30 bp):
CTTCTGTGGCTTCTGCATGGACAGTCGACA
Found at i:51848644 original size:30 final size:30
Alignment explanation
Indices: 51848587--51848664 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
51848577 GCGGCTTCGG
* ** *
51848587 CATGGACAGTCGGCACTTCTGTAGCTTCTA
1 CATGGACAGTGGGCGTTTCTATAGCTTCTA
*
51848617 CATGGACAGTGGGCGTTTCTATGGCTTCTA
1 CATGGACAGTGGGCGTTTCTATAGCTTCTA
** *
51848647 CATAAACCGTGGGCGTTT
1 CATGGACAGTGGGCGTTT
51848665 TTGAGGCTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.31
Consensus pattern (30 bp):
CATGGACAGTGGGCGTTTCTATAGCTTCTA
Found at i:51853248 original size:65 final size:60
Alignment explanation
Indices: 51853168--51853289 Score: 172
Period size: 65 Copynumber: 1.9 Consensus size: 60
51853158 CAAAATTAAA
* *
51853168 ATAAAATTTATAAAAACTATTTAAAATAAAAAATTAGAATGAGTTTTAATTAAAGGTCTAAAATT
1 ATAAAATTTATAAAAACTATTGAAAAT-AAAAA-TACAAT-A--TTTAATTAAAGGTCTAAAATT
*
51853233 ATAAAATTTATAAAAACTATTGCAAATAAAAATACAATATTTAATTAAAGGTCTAAA
1 ATAAAATTTATAAAAACTATTGAAAATAAAAATACAATATTTAATTAAAGGTCTAAA
51853290 TTCAAATGCA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
60 18 0.33
62 1 0.02
63 5 0.09
64 5 0.09
65 25 0.46
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (60 bp):
ATAAAATTTATAAAAACTATTGAAAATAAAAATACAATATTTAATTAAAGGTCTAAAATT
Found at i:51853995 original size:18 final size:18
Alignment explanation
Indices: 51853972--51854012 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
51853962 CTACCTTCTT
51853972 CTTCCGCCTCCACCCCTA
1 CTTCCGCCTCCACCCCTA
51853990 CTTCCGCCTCCACCCCTA
1 CTTCCGCCTCCACCCCTA
51854008 CTTCC
1 CTTCC
51854013 CTCTTGCTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.10, C:0.61, G:0.05, T:0.24
Consensus pattern (18 bp):
CTTCCGCCTCCACCCCTA
Found at i:51888833 original size:15 final size:15
Alignment explanation
Indices: 51888810--51888839 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51888800 TTCTCTTTGA
*
51888810 TGCGTAAGAGTGTTC
1 TGCGCAAGAGTGTTC
51888825 TGCGCAAGAGTGTTC
1 TGCGCAAGAGTGTTC
51888840 CCTTCGTCTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (15 bp):
TGCGCAAGAGTGTTC
Found at i:51894040 original size:19 final size:18
Alignment explanation
Indices: 51894016--51894062 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
51894006 TCTGTAATTT
*
51894016 CTGTATTTGTATTTTGTAC
1 CTGTATTTGTA-TCTGTAC
*
51894035 CTGTATTCTGTATCTGTAT
1 CTGTATT-TGTATCTGTAC
51894054 CTGTATTTG
1 CTGTATTTG
51894063 GGGTGGGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 19 0.76
20 4 0.16
ACGTcount: A:0.15, C:0.13, G:0.17, T:0.55
Consensus pattern (18 bp):
CTGTATTTGTATCTGTAC
Found at i:51899846 original size:2 final size:2
Alignment explanation
Indices: 51899839--51899864 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
51899829 GTCAATTTGC
51899839 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
51899865 CAAAGGAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51904748 original size:2 final size:2
Alignment explanation
Indices: 51904741--51904771 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
51904731 TACCTCAATC
51904741 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
51904772 TTCGTGTGGT
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:51906043 original size:6 final size:6
Alignment explanation
Indices: 51906029--51906078 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
51906019 TTCGGGGGGC
* * * *
51906029 TTGACT TTGATT TTGATT TTGATT TTGACT TTGACTT TTAATT TTTATT
1 TTGATT TTGATT TTGATT TTGATT TTGATT TTGA-TT TTGATT TTGATT
51906078 T
1 T
51906079 ATTTGTGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
6 34 0.89
7 4 0.11
ACGTcount: A:0.18, C:0.06, G:0.12, T:0.64
Consensus pattern (6 bp):
TTGATT
Found at i:51907610 original size:9 final size:9
Alignment explanation
Indices: 51907589--51907646 Score: 89
Period size: 9 Copynumber: 6.4 Consensus size: 9
51907579 TTTGGTTAAA
51907589 AATTAACCG
1 AATTAACCG
* *
51907598 AATTACCCA
1 AATTAACCG
51907607 AATTAACCG
1 AATTAACCG
51907616 AATTAACCG
1 AATTAACCG
*
51907625 AATTACCCG
1 AATTAACCG
51907634 AATTAACCG
1 AATTAACCG
51907643 AATT
1 AATT
51907647 GAATCACTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.43, C:0.24, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:51907623 original size:27 final size:27
Alignment explanation
Indices: 51907589--51907646 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
51907579 TTTGGTTAAA
51907589 AATTAACCGAATTACCCAAATTAACCG
1 AATTAACCGAATTACCCAAATTAACCG
*
51907616 AATTAACCGAATTACCCGAATTAACCG
1 AATTAACCGAATTACCCAAATTAACCG
51907643 AATT
1 AATT
51907647 GAATCACTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.43, C:0.24, G:0.09, T:0.24
Consensus pattern (27 bp):
AATTAACCGAATTACCCAAATTAACCG
Found at i:51907765 original size:13 final size:13
Alignment explanation
Indices: 51907749--51907786 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
51907739 AATTTTTATG
51907749 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
51907762 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
51907775 ATTGGGTTGGGT
1 ATTGGGTTGGGT
51907787 TGAATACTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.13, C:0.00, G:0.47, T:0.39
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:51908351 original size:27 final size:27
Alignment explanation
Indices: 51908313--51908372 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
51908303 AATTGTTATT
*
51908313 TAACTTGTTTATGATTTTGATAAAAAA
1 TAACTTGTTTATGATTGTGATAAAAAA
*
51908340 TAACTTGTTTATTATTGTGATAAAAAA
1 TAACTTGTTTATGATTGTGATAAAAAA
*
51908367 AAACTT
1 TAACTT
51908373 TCTTTGTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (27 bp):
TAACTTGTTTATGATTGTGATAAAAAA
Found at i:51910252 original size:3 final size:3
Alignment explanation
Indices: 51910244--51910287 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
51910234 ACTAGTTACC
51910244 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
51910288 TGGGGCAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:51910861 original size:30 final size:29
Alignment explanation
Indices: 51910805--51910862 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
51910795 TCCATGGACC
* *
51910805 AAAATGAAAATAAAAGGAAATTAAATAGA
1 AAAATGAAAATAAAAGAAAATAAAATAGA
51910834 AAAATAGAAAATATAAA-AAAATAAAATAG
1 AAAAT-GAAAATA-AAAGAAAATAAAATAG
51910863 GACAAATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.20
30 17 0.68
31 3 0.12
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (29 bp):
AAAATGAAAATAAAAGAAAATAAAATAGA
Found at i:51912350 original size:44 final size:44
Alignment explanation
Indices: 51912287--51912555 Score: 146
Period size: 44 Copynumber: 5.9 Consensus size: 44
51912277 ATTTAGTCTC
* * * * *
51912287 AATCTACTCCGCTGTAACTTCAAGGAGATAAGACTTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAGCTTT
* * * **
51912331 AATTTGCTCCACTGCAACTTTAAGTAGATTTGTAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAG--ACTTGTAGCTTT
* * * * *
51912377 AACCTGTTCCACTACAACTTC-AGGAAAATAAGATTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAAGG-AGATAAGACTTGTAGCTTT
* *
51912421 AATCTGCTTCACTGCAATTTCAAGGAGATAAAGTTTATAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAAGGAGAT-AAG------ACTTGTAGCTTT
** * * * * * * *
51912472 AATCTATTCCACTACAACTTCAGGGAAATATGA-TTAACTATCTTC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGACTT--GTAGCTTT
* * * *
51912517 AATCTGATCTACTGCAACTTCAGGGAGATAAGATTTGTA
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTA
51912556 TCTGGTAGCT
Statistics
Matches: 166, Mismatches: 45, Indels: 28
0.69 0.19 0.12
Matches are distributed among these distances:
43 2 0.01
44 57 0.34
45 40 0.24
46 32 0.19
50 2 0.01
51 33 0.20
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAGCTTT
Found at i:51921853 original size:3 final size:3
Alignment explanation
Indices: 51921845--51921885 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
51921835 AACATGAAAT
51921845 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
51921886 TGGGGAAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:51925945 original size:9 final size:9
Alignment explanation
Indices: 51925921--51925981 Score: 61
Period size: 9 Copynumber: 6.8 Consensus size: 9
51925911 TAATATTATC
*
51925921 AATAATAGC
1 AATAATAGT
*
51925930 AACAATAGT
1 AATAATAGT
*
51925939 AATAATATT
1 AATAATAGT
*
51925948 AATAATAAT
1 AATAATAGT
51925957 AA-AAGTAGT
1 AATAA-TAGT
*
51925966 AATAGTAGT
1 AATAATAGT
51925975 AATAATA
1 AATAATA
51925982 ATAGTGATAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
8 2 0.05
9 39 0.93
10 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (9 bp):
AATAATAGT
Found at i:51925965 original size:27 final size:29
Alignment explanation
Indices: 51925909--51925984 Score: 86
Period size: 27 Copynumber: 2.7 Consensus size: 29
51925899 TATATAAGCG
51925909 AATAATATT-ATCAATAATAGCAACAATAGT
1 AATAATATTAAT-AATAATA-CAACAATAGT
*
51925939 AATAATATTAATAATAATA-AA-AGTAGT
1 AATAATATTAATAATAATACAACAATAGT
* *
51925966 AATAGTAGTAATAATAATA
1 AATAATATTAATAATAATA
51925985 GTGATAATAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 22 0.52
28 2 0.05
30 16 0.38
31 2 0.05
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.32
Consensus pattern (29 bp):
AATAATATTAATAATAATACAACAATAGT
Found at i:51925975 original size:12 final size:12
Alignment explanation
Indices: 51925933--51925993 Score: 68
Period size: 12 Copynumber: 5.1 Consensus size: 12
51925923 TAATAGCAAC
51925933 AATAGTAATAAT
1 AATAGTAATAAT
* *
51925945 ATTAATAATAAT
1 AATAGTAATAAT
* *
51925957 AAAAGTAGTAAT
1 AATAGTAATAAT
*
51925969 AGTAGTAATAAT
1 AATAGTAATAAT
*
51925981 AATAGTGATAAT
1 AATAGTAATAAT
51925993 A
1 A
51925994 CCAACACAAT
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (12 bp):
AATAGTAATAAT
Found at i:51927384 original size:21 final size:21
Alignment explanation
Indices: 51927360--51927430 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
51927350 AACAGAAACC
51927360 CATAAGGGTTGAATGGAAGCT
1 CATAAGGGTTGAATGGAAGCT
* * * *
51927381 CATAAGAGCTGAATGGAAACC
1 CATAAGGGTTGAATGGAAGCT
*
51927402 CATAAGGGTTAAACT-GAAGCT
1 CATAAGGGTTGAA-TGGAAGCT
*
51927423 CAAAAGGG
1 CATAAGGG
51927431 CTAAACGGAA
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 38 0.97
22 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.28, T:0.18
Consensus pattern (21 bp):
CATAAGGGTTGAATGGAAGCT
Found at i:51927385 original size:42 final size:42
Alignment explanation
Indices: 51927333--51927457 Score: 137
Period size: 42 Copynumber: 3.0 Consensus size: 42
51927323 ATGATGTACA
* * * *
51927333 GAAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTGAA-T
1 GAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAAACT
* *
51927374 GGAAGCTCATAAGAGCTGAATGGAAACCCATAAGGGTTAAACT
1 -GAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAAACT
* * *
51927417 GAAGCTCAAAAGGGCTAAACGGAAACTCATTAA-GGTTAAAC
1 GAAGCTCATAAGAGCTAAACGGAAACCCA-TAAGGGTTAAAC
51927458 AAAAACTCCT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 66 0.94
43 4 0.06
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (42 bp):
GAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAAACT
Found at i:51927435 original size:21 final size:21
Alignment explanation
Indices: 51927395--51927445 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
51927385 AGAGCTGAAT
* * *
51927395 GGAAACCCATAAGGGTTAAAC
1 GGAAACTCAAAAGGGCTAAAC
* *
51927416 TGAAGCTCAAAAGGGCTAAAC
1 GGAAACTCAAAAGGGCTAAAC
51927437 GGAAACTCA
1 GGAAACTCA
51927446 TTAAGGTTAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.14
Consensus pattern (21 bp):
GGAAACTCAAAAGGGCTAAAC
Found at i:51931381 original size:144 final size:144
Alignment explanation
Indices: 51931216--51931508 Score: 577
Period size: 144 Copynumber: 2.0 Consensus size: 144
51931206 ATATATATGT
51931216 ATATATATACTAGCCTATACATGCCATAAGTTCAAAATGAATTTTTTTTTAAATACCGAAAGTAG
1 ATATATATACTAGCCTATACATGCCATAAGTTCAAAATGAATTTTTTTTTAAATACCGAAAGTAG
51931281 TCGACAGTGTGATTGACTTCACTGATAATCCCAGGGCATGTAACGACCTCCAAAATCTATAAAAT
66 TCGACAGTGTGATTGACTTCACTGATAATCCCAGGGCATGTAACGACCTCCAAAATCTATAAAAT
51931346 ATTGACAAATAAAA
131 ATTGACAAATAAAA
51931360 ATATATATACTAGCCTATACATGCCATAAGTTCAAAATGAATTTTTTTTTAAATACCGAAAGTAG
1 ATATATATACTAGCCTATACATGCCATAAGTTCAAAATGAATTTTTTTTTAAATACCGAAAGTAG
51931425 TCGACAGTGTGATTGACTTCACTGATAATCCCAGGGCATGTAACGACCTCCAAAATCTATAAAAT
66 TCGACAGTGTGATTGACTTCACTGATAATCCCAGGGCATGTAACGACCTCCAAAATCTATAAAAT
*
51931490 ATTGACAAATAAAT
131 ATTGACAAATAAAA
51931504 ATATA
1 ATATA
51931509 CAAAGTAAGC
Statistics
Matches: 148, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 148 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (144 bp):
ATATATATACTAGCCTATACATGCCATAAGTTCAAAATGAATTTTTTTTTAAATACCGAAAGTAG
TCGACAGTGTGATTGACTTCACTGATAATCCCAGGGCATGTAACGACCTCCAAAATCTATAAAAT
ATTGACAAATAAAA
Found at i:51931965 original size:41 final size:40
Alignment explanation
Indices: 51931906--51932096 Score: 233
Period size: 41 Copynumber: 4.7 Consensus size: 40
51931896 CACCAACATG
* **
51931906 AAGCCTGCTAGGC-CTAAAGCCTGATTTGGTACACCGGC-AT
1 AAGCCTGCTAGGCAC-AAAGCCTGAATTAAT-CACCGGCAAT
* * * *
51931946 GAAGCCTGCTAGACATAAAGTCTGAAATAACTCACCGGCAAT
1 -AAGCCTGCTAGGCACAAAGCCTGAATTAA-TCACCGGCAAT
51931988 AAGCCTGCTAGGCACAAAGCCTGAATTAATTCACCGGCAAT
1 AAGCCTGCTAGGCACAAAGCCTGAATTAA-TCACCGGCAAT
*
51932029 AAGCCTGCTAGGCACAAAGCCTGAATTAATTCACCTGCAAT
1 AAGCCTGCTAGGCACAAAGCCTGAATTAA-TCACCGGCAAT
*
51932070 AAGCCTGCTAGGCACAAAGCTTGAATT
1 AAGCCTGCTAGGCACAAAGCCTGAATT
51932097 TCAGTGATAC
Statistics
Matches: 133, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
41 130 0.98
42 3 0.02
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (40 bp):
AAGCCTGCTAGGCACAAAGCCTGAATTAATCACCGGCAAT
Found at i:51939187 original size:37 final size:41
Alignment explanation
Indices: 51939090--51939187 Score: 98
Period size: 40 Copynumber: 2.5 Consensus size: 41
51939080 ACACATCAGT
* *
51939090 TTGGCACCCAGTGCCTCAAC-GAAAAATTCGAAGTAATAAG
1 TTGGCACCCAGTGCCTCATCGGAAAAACTCGAAGTAATAAG
* * * **
51939130 TTGACACCTAGTGTCTCATCGGCTAAACT-GAAGT-A-AA-
1 TTGGCACCCAGTGCCTCATCGGAAAAACTCGAAGTAATAAG
51939167 TTGGCACCCAGTGCCTCATCG
1 TTGGCACCCAGTGCCTCATCG
51939188 ACTCGAAGTC
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
37 18 0.38
38 2 0.04
39 1 0.02
40 21 0.45
41 5 0.11
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (41 bp):
TTGGCACCCAGTGCCTCATCGGAAAAACTCGAAGTAATAAG
Found at i:51940556 original size:42 final size:42
Alignment explanation
Indices: 51940510--51940591 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
51940500 GGGTTGAACA
* * *
51940510 GAAGCTCATAGGAGCTAAACGGAAATCCA-TAAGGGTTAAATT
1 GAAGCTCAAAAGAGCTAAACGGAAACCCATTAA-GGTTAAATT
*
51940552 GAAGCTTAAAAGAGCTAAACGGAAACCCATTAAGGTTAAA
1 GAAGCTCAAAAGAGCTAAACGGAAACCCATTAAGGTTAAA
51940592 CAGAAACTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.91
43 3 0.09
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.20
Consensus pattern (42 bp):
GAAGCTCAAAAGAGCTAAACGGAAACCCATTAAGGTTAAATT
Found at i:51948103 original size:6 final size:6
Alignment explanation
Indices: 51948092--51948117 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
51948082 CTGTGTGTTC
51948092 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
51948118 CTTTGCGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:51959698 original size:58 final size:58
Alignment explanation
Indices: 51959608--51959724 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
51959598 ATGGAGAAAG
51959608 TATGTCAATTATTCTTTTGAGGTCAAACAGTTCCCTCTAAAGAGCCTTCATTAGCTCT
1 TATGTCAATTATTCTTTTGAGGTCAAACAGTTCCCTCTAAAGAGCCTTCATTAGCTCT
51959666 TATGTCAATTATTCTTTTGAGGTCAAACAGTTCCCTCTAAAGAGCCTTCATTAGCTCT
1 TATGTCAATTATTCTTTTGAGGTCAAACAGTTCCCTCTAAAGAGCCTTCATTAGCTCT
51959724 T
1 T
51959725 TCCTCCATAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (58 bp):
TATGTCAATTATTCTTTTGAGGTCAAACAGTTCCCTCTAAAGAGCCTTCATTAGCTCT
Found at i:51964046 original size:15 final size:15
Alignment explanation
Indices: 51964011--51964058 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
51964001 TAATAGTACA
*
51964011 CAACCAAACACAAACC
1 CAACCAAAC-CCAACC
*
51964027 AAACCAAACCCAACC
1 CAACCAAACCCAACC
*
51964042 CAACCCAACCCAACC
1 CAACCAAACCCAACC
51964057 CA
1 CA
51964059 GTGACGGGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 20 0.71
16 8 0.29
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (15 bp):
CAACCAAACCCAACC
Found at i:51964057 original size:5 final size:5
Alignment explanation
Indices: 51964023--51964058 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
51964013 ACCAAACACA
* *
51964023 AACCA AACCA AACCC AACCC AACCC AACCC AACCC A
1 AACCC AACCC AACCC AACCC AACCC AACCC AACCC A
51964059 GTGACGGGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.47, C:0.53, G:0.00, T:0.00
Consensus pattern (5 bp):
AACCC
Found at i:51966796 original size:2 final size:2
Alignment explanation
Indices: 51966789--51966815 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
51966779 ATGTAGGATG
51966789 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
51966816 TATAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:51971720 original size:17 final size:17
Alignment explanation
Indices: 51971691--51971732 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
51971681 GCATAAATAA
*
51971691 AAAATTAAATAAATT-G
1 AAAATAAAATAAATTAG
51971707 AAAATAAAATTAAATTAG
1 AAAATAAAA-TAAATTAG
*
51971725 GAAATAAA
1 AAAATAAA
51971733 TTCATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 6 0.27
18 8 0.36
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (17 bp):
AAAATAAAATAAATTAG
Found at i:51973545 original size:58 final size:58
Alignment explanation
Indices: 51973421--51973545 Score: 128
Period size: 58 Copynumber: 2.2 Consensus size: 58
51973411 CAAATCGAAC
*
51973421 AAAAAAAAAGATTAGATACCAAATTAGAAAAACGAGTCAAGTTCAGGTACCAAATTAG
1 AAAAAAAAAGATTAGATACCAAATTAGAAAAACGAGTCAAATTCAGGTACCAAATTAG
*** * * * * **
51973479 ACCCAAAAAGTTTA-AGTACCAACTTAAGAAAAA-GTGTCAAATTTAGGTATTAAATTAG
1 AAAAAAAAAGATTAGA-TACCAAATT-AGAAAAACGAGTCAAATTCAGGTACCAAATTAG
51973537 AAAAAAAAA
1 AAAAAAAAA
51973546 TGTCAAGTCC
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
57 1 0.02
58 44 0.85
59 7 0.13
ACGTcount: A:0.54, C:0.11, G:0.14, T:0.22
Consensus pattern (58 bp):
AAAAAAAAAGATTAGATACCAAATTAGAAAAACGAGTCAAATTCAGGTACCAAATTAG
Found at i:51975078 original size:20 final size:20
Alignment explanation
Indices: 51975053--51975106 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
51975043 TCCTACTTCA
51975053 AGTTCATTCAGCTCAACCAT
1 AGTTCATTCAGCTCAACCAT
* * **
51975073 AGTTCATTGAGCTCATCTTT
1 AGTTCATTCAGCTCAACCAT
*
51975093 AGCTCATTCAGCTC
1 AGTTCATTCAGCTC
51975107 GTCTTCGTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (20 bp):
AGTTCATTCAGCTCAACCAT
Found at i:51976662 original size:21 final size:22
Alignment explanation
Indices: 51976636--51976680 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
51976626 ATTTTGTTTG
51976636 ATAAATT-A-AATGCAAAACTAA
1 ATAAATTCACAAT-CAAAACTAA
51976657 ATAAATTCACAATCAAAACTAA
1 ATAAATTCACAATCAAAACTAA
51976679 AT
1 AT
51976681 TTATTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 12 0.55
23 3 0.14
ACGTcount: A:0.60, C:0.13, G:0.02, T:0.24
Consensus pattern (22 bp):
ATAAATTCACAATCAAAACTAA
Found at i:51981426 original size:5 final size:5
Alignment explanation
Indices: 51981416--51981441 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
51981406 TGCACTCAAA
51981416 ATATT ATATT ATATT ATATT ATATT A
1 ATATT ATATT ATATT ATATT ATATT A
51981442 ATAAATAATT
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:51984824 original size:22 final size:22
Alignment explanation
Indices: 51984776--51984824 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
51984766 AAAAATGAAA
*
51984776 AATATATTTTTATATTAATATT
1 AATATATTTTTATATAAATATT
* *
51984798 GATATATTTTTACT-TAAATTTT
1 AATATATTTTTA-TATAAATATT
51984820 AATAT
1 AATAT
51984825 TTTAACAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
AATATATTTTTATATAAATATT
Found at i:51986743 original size:15 final size:16
Alignment explanation
Indices: 51986725--51986758 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
51986715 TAATATTTTA
51986725 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
*
51986740 AAATTATTAAAATAAT
1 AAATTATAAAAATAAT
51986756 AAA
1 AAA
51986759 ATTACATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:51986775 original size:16 final size:16
Alignment explanation
Indices: 51986756--51986786 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51986746 TTAAAATAAT
51986756 AAAATTACATTTTGAG
1 AAAATTACATTTTGAG
*
51986772 AAAATTATATTTTGA
1 AAAATTACATTTTGA
51986787 CAATATTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (16 bp):
AAAATTACATTTTGAG
Found at i:51992369 original size:6 final size:6
Alignment explanation
Indices: 51992355--51992388 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
51992345 AATATAATAT
* *
51992355 ATATAG ATATCG ATATCG ATATCG ATATAG ATAT
1 ATATCG ATATCG ATATCG ATATCG ATATCG ATAT
51992389 ATGTTATGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (6 bp):
ATATCG
Found at i:51992375 original size:12 final size:12
Alignment explanation
Indices: 51992355--51992388 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
51992345 AATATAATAT
51992355 ATATAGATATCG
1 ATATAGATATCG
*
51992367 ATATCGATATCG
1 ATATAGATATCG
51992379 ATATAGATAT
1 ATATAGATAT
51992389 ATGTTATGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (12 bp):
ATATAGATATCG
Found at i:51998706 original size:18 final size:18
Alignment explanation
Indices: 51998662--51998708 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
51998652 ATAAAAATTG
*
51998662 TATTTAATTATAAATATAA
1 TATTTAA-TATAAATAAAA
*
51998681 T-TAATAATATAAATAAAA
1 TAT-TTAATATAAATAAAA
51998699 TATTTAATAT
1 TATTTAATAT
51998709 CGGAAACAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTTAATATAAATAAAA
Found at i:52008683 original size:75 final size:76
Alignment explanation
Indices: 52008593--52008744 Score: 270
Period size: 76 Copynumber: 2.0 Consensus size: 76
52008583 TACATAGCAT
* *
52008593 ACCTAAGCTAGTCATTGATTTAAC-TTTTTTCCATTTTAGTTTTATGATATTTGTTATACATAAT
1 ACCTAAGCTACTCATTGATTTAACTTTTTTTCCATTTTAGTTTTATGATATTTGTTAGACATAAT
52008657 AACTCTTTTTA
66 AACTCTTTTTA
*
52008668 ACCTAAGCTACTCATTGATTTAACTTTTTTTCCATTTTAGTTTTATGATATTTGTTAGGCATAAT
1 ACCTAAGCTACTCATTGATTTAACTTTTTTTCCATTTTAGTTTTATGATATTTGTTAGACATAAT
52008733 AACTCTTTTTA
66 AACTCTTTTTA
52008744 A
1 A
52008745 ATATTTAATA
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
75 23 0.32
76 50 0.68
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.50
Consensus pattern (76 bp):
ACCTAAGCTACTCATTGATTTAACTTTTTTTCCATTTTAGTTTTATGATATTTGTTAGACATAAT
AACTCTTTTTA
Found at i:52014905 original size:16 final size:17
Alignment explanation
Indices: 52014884--52014924 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
52014874 AATTTTTTTG
52014884 TTTTTATAAAAAATA-A
1 TTTTTATAAAAAATATA
*
52014900 TTTTTAAAAAAAATATA
1 TTTTTATAAAAAATATA
*
52014917 TATTTATA
1 TTTTTATA
52014925 TGAGTCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTTTATAAAAAATATA
Found at i:52015486 original size:12 final size:12
Alignment explanation
Indices: 52015469--52015502 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
52015459 ATTAATGTAA
52015469 AATTATTTTGTT
1 AATTATTTTGTT
52015481 AATTATTTTGTT
1 AATTATTTTGTT
*
52015493 -AGTATTTTGT
1 AATTATTTTGT
52015503 GCTTTGTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.65
Consensus pattern (12 bp):
AATTATTTTGTT
Found at i:52015591 original size:99 final size:97
Alignment explanation
Indices: 52015488--52015701 Score: 222
Period size: 99 Copynumber: 2.2 Consensus size: 97
52015478 GTTAATTATT
* * *
52015488 TTGTTAGTA-TTTTGTGCTTTGTGATTTTTTAGTAATGTAAATTTAAAAAATATATATTTTTATA
1 TTGTTAGTAGTTTAGGGCTTTGTGATTTTTTAGTAATGTAAATTTAAAAAA-A-A-A--TTTACA
52015552 GTTATTATT-TTAGTAATTTATGATTA-GTT-TATAAA
61 GTTATT-TTGTTAGTAATTTATGATTAGGTTATATAAA
* * ****
52015587 TTGTTAGTGTTTAGTTTAGGGTTTTGTGATTTTTTAGTAATGTAATTTTTTTTAAAAATTTACAG
1 TTGTTA--G--TAGTTTAGGGCTTTGTGATTTTTTAGTAATGTAAATTTAAAAAAAAATTTACAG
52015652 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAA
62 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAA
52015688 TTGTTAGT-GTTTAG
1 TTGTTAGTAGTTTAG
52015702 TTTAGTGTTT
Statistics
Matches: 98, Mismatches: 9, Indels: 19
0.78 0.07 0.15
Matches are distributed among these distances:
96 6 0.06
97 1 0.01
98 2 0.02
99 35 0.36
100 3 0.03
101 14 0.14
102 1 0.01
103 3 0.03
104 33 0.34
ACGTcount: A:0.29, C:0.01, G:0.15, T:0.55
Consensus pattern (97 bp):
TTGTTAGTAGTTTAGGGCTTTGTGATTTTTTAGTAATGTAAATTTAAAAAAAAATTTACAGTTAT
TTTGTTAGTAATTTATGATTAGGTTATATAAA
Found at i:52015617 original size:104 final size:101
Alignment explanation
Indices: 52015505--52015728 Score: 301
Period size: 101 Copynumber: 2.2 Consensus size: 101
52015495 TATTTTGTGC
*
52015505 TTTGTGATTTTTTAGTAATGTAAATTTAAAAAATATATATTTTTATAGTTATTATT-TTAGTAAT
1 TTTGTGATTTTTTAGTAATGTAAATTTAAAAAA-A-A-A--TTTACAGTTATT-TTGTTAGTAAT
52015569 TTATGATTA-GTT-TATAAATTGTTAGTGTTTAGTTTAGGGT
60 TTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGGGT
* ****
52015609 TTTGTGATTTTTTAGTAATGTAATTTTTTTTAAAAATTTACAGTTATTTTGTTAGTAATTTATGA
1 TTTGTGATTTTTTAGTAATGTAAATTTAAAAAAAAATTTACAGTTATTTTGTTAGTAATTTATGA
*
52015674 TTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGT
66 TTAGGTTATATAAATTGTTAGTGTTTAGTTTAGGGT
*
52015710 TTTGTGATTTTTTATTAAT
1 TTTGTGATTTTTTAGTAAT
52015729 TTAATTTTTT
Statistics
Matches: 109, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
98 2 0.02
99 28 0.26
100 3 0.03
101 46 0.42
102 1 0.01
103 1 0.01
104 28 0.26
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (101 bp):
TTTGTGATTTTTTAGTAATGTAAATTTAAAAAAAAATTTACAGTTATTTTGTTAGTAATTTATGA
TTAGGTTATATAAATTGTTAGTGTTTAGTTTAGGGT
Found at i:52015737 original size:16 final size:16
Alignment explanation
Indices: 52015716--52015780 Score: 62
Period size: 16 Copynumber: 4.0 Consensus size: 16
52015706 GTGTTTTGTG
52015716 ATTTTTTATTAATTTA
1 ATTTTTTATTAATTTA
52015732 ATTTTTT-TATAATTTA
1 ATTTTTTAT-TAATTTA
*
52015748 A-TTTTTATTTATTTTA
1 ATTTTTTA-TTAATTTA
* *
52015764 CAATTTTTATTGATTTA
1 -ATTTTTTATTAATTTA
52015781 TTGAAGTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
15 6 0.15
16 21 0.51
17 8 0.20
18 6 0.15
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (16 bp):
ATTTTTTATTAATTTA
Found at i:52015739 original size:17 final size:16
Alignment explanation
Indices: 52015717--52015753 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 16
52015707 TGTTTTGTGA
52015717 TTTTTTATTAATTTAAT
1 TTTTTTA-TAATTTAAT
52015734 TTTTTTATAATTTAAT
1 TTTTTTATAATTTAAT
52015750 TTTT
1 TTTT
52015754 ATTTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTTATAATTTAAT
Found at i:52015747 original size:99 final size:99
Alignment explanation
Indices: 52015546--52015739 Score: 318
Period size: 101 Copynumber: 1.9 Consensus size: 99
52015536 AATATATATT
*
52015546 TTTATAGTTATTATTTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTAGTTTAGGGTTT
1 TTTACAGTTATTATTTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTAGTTTAGGGTTT
52015611 TGTGATTTTTTAGTAATGTAATTTTTTTTAAAAA
66 TGTGATTTTTTAGTAATGTAATTTTTTTTAAAAA
*
52015645 TTTACAGTTATT-TTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTG
1 TTTACAGTTATTATT-TTAGTAATTTATGATTA-GTT-TATAAATTGTTAGTGTTTAGTTTAGGG
* *
52015709 TTTTGTGATTTTTTATTAATTTAATTTTTTT
63 TTTTGTGATTTTTTAGTAATGTAATTTTTTT
52015740 ATAATTTAAT
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
98 2 0.02
99 28 0.32
100 3 0.03
101 55 0.62
ACGTcount: A:0.26, C:0.01, G:0.15, T:0.58
Consensus pattern (99 bp):
TTTACAGTTATTATTTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTAGTTTAGGGTTT
TGTGATTTTTTAGTAATGTAATTTTTTTTAAAAA
Found at i:52015762 original size:23 final size:21
Alignment explanation
Indices: 52015724--52015769 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
52015714 TGATTTTTTA
*
52015724 TTAATTTAATTTTTTTATAAT
1 TTAATTTAATTTTTTTACAAT
*
52015745 TTAATTTTTATTTATTTTACAAT
1 TTAA-TTTAATTT-TTTTACAAT
52015768 TT
1 TT
52015770 TTATTGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 7 0.33
23 10 0.48
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TTAATTTAATTTTTTTACAAT
Found at i:52015997 original size:22 final size:22
Alignment explanation
Indices: 52015969--52016019 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
52015959 TTATGGGAAA
52015969 TACGTTAGCCATGAGAGCTTAG
1 TACGTTAGCCATGAGAGCTTAG
* *
52015991 TACGTTAGCCATGAGGGTTTAG
1 TACGTTAGCCATGAGAGCTTAG
*
52016013 TTCGTTA
1 TACGTTA
52016020 AACATGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (22 bp):
TACGTTAGCCATGAGAGCTTAG
Found at i:52018224 original size:76 final size:76
Alignment explanation
Indices: 52018009--52018304 Score: 411
Period size: 76 Copynumber: 3.9 Consensus size: 76
52017999 ATATTTAAAA
* * *
52018009 AATGACTTTTT-GCCATTTTAGTTTTTAATTTTAGGGGTTTTTTTGCAATTTAAATAGTCAACCT
1 AATGACTTTTTCGCCATTTCAGTTATTAATTTTAGGGGTTTTTTTGCAATTTAAATAGTCAACTT
52018073 TGTATTTATGT
66 TGTATTTATGT
* * * * *
52018084 AATGAC-TTTTCACTAATTCAGTAATTAATTTTA-GGGTTTTTTTGCAATTTAAATAGTCAGCTT
1 AATGACTTTTTCGCCATTTCAGTTATTAATTTTAGGGGTTTTTTTGCAATTTAAATAGTCAACTT
*
52018147 TGTATTTAGGT
66 TGTATTTATGT
* *
52018158 AATGACTTTTTCAG-CATTTCATTTATTAATTTTAGGGTTTTTTTTGCAATTTAAATAGTCAACT
1 AATGACTTTTTC-GCCATTTCAGTTATTAATTTTAGGGGTTTTTTTGCAATTTAAATAGTCAACT
52018222 TTGTATTTATGT
65 TTGTATTTATGT
* * * * *
52018234 AATGACTTTTTCGTCATTTCAGTTATTAATTTTTGGGGTTTTTTTGTAATTTAAATAATAAACTT
1 AATGACTTTTTCGCCATTTCAGTTATTAATTTTAGGGGTTTTTTTGCAATTTAAATAGTCAACTT
52018299 TGTATT
66 TGTATT
52018305 ATTTACGTAA
Statistics
Matches: 193, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
74 48 0.25
75 44 0.23
76 101 0.52
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (76 bp):
AATGACTTTTTCGCCATTTCAGTTATTAATTTTAGGGGTTTTTTTGCAATTTAAATAGTCAACTT
TGTATTTATGT
Found at i:52018276 original size:150 final size:150
Alignment explanation
Indices: 52018009--52018304 Score: 404
Period size: 150 Copynumber: 2.0 Consensus size: 150
52017999 ATATTTAAAA
*
52018009 AATGACTTTTTGCCATTTTAGTTTTTAATTTTAGGGGTTTTTTTGCAATTTAAATAGTCAACCTT
1 AATGACTTTTTGCCATTTCAGTTTTTAATTTTAGGGGTTTTTTTGCAATTTAAATAGTCAACCTT
52018074 GTATTTATGTAATGACTTTTCACTAATTCAGTAATTAATTTTAGGGT-TTTTTTGCAATTTAAAT
66 GTATTTATGTAATGACTTTTCACTAATTCAGTAATTAATTTTAGGGTGTTTTTTGCAATTTAAAT
* * *
52018138 AGTCAGCTTTGTATTTAGGT
131 AATAAACTTTGTATTTAGGT
*
52018158 AATGACTTTTT-CAGCATTTCA-TTTATTAATTTTAGGGTTTTTTTTGCAATTTAAATAGTCAAC
1 AATGACTTTTTGC--CATTTCAGTTT-TTAATTTTAGGGGTTTTTTTGCAATTTAAATAGTCAAC
* * * * * *
52018221 TTTGTATTTATGTAATGACTTTTTC-GTCATTTCAGTTATTAATTTTTGGG-GTTTTTTTGTAAT
63 CTTGTATTTATGTAATGAC-TTTTCACT-AATTCAGTAATTAATTTTAGGGTG-TTTTTTGCAAT
52018284 TTAAATAATAAACTTTGTATT
125 TTAAATAATAAACTTTGTATT
52018305 ATTTACGTAA
Statistics
Matches: 129, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
148 1 0.01
149 14 0.11
150 62 0.48
151 24 0.19
152 28 0.22
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (150 bp):
AATGACTTTTTGCCATTTCAGTTTTTAATTTTAGGGGTTTTTTTGCAATTTAAATAGTCAACCTT
GTATTTATGTAATGACTTTTCACTAATTCAGTAATTAATTTTAGGGTGTTTTTTGCAATTTAAAT
AATAAACTTTGTATTTAGGT
Found at i:52019579 original size:38 final size:38
Alignment explanation
Indices: 52019510--52019582 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
52019500 CGGATCTCCA
* * *
52019510 TGGCACACCGAAACTCCTAATGGTGATAATTAATCCTT
1 TGGCACACCGAAACGCCTAATGGCGACAATTAATCCTT
*
52019548 TGGCACACCGAAACGCCTAATGGCGGCAATTAATC
1 TGGCACACCGAAACGCCTAATGGCGACAATTAATC
52019583 ATTTCCCTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (38 bp):
TGGCACACCGAAACGCCTAATGGCGACAATTAATCCTT
Found at i:52021376 original size:19 final size:19
Alignment explanation
Indices: 52021322--52021376 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
52021312 AATCAGAAGC
* *
52021322 TAACAAAATTAATAAC--C
1 TAACAAAATTACTAACAAA
* **
52021339 TAACAAAATAACTTTCAAA
1 TAACAAAATTACTAACAAA
52021358 TAACAAAATTACTAACAAA
1 TAACAAAATTACTAACAAA
52021377 ACTCTCCATT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
17 12 0.43
19 16 0.57
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (19 bp):
TAACAAAATTACTAACAAA
Found at i:52027741 original size:18 final size:17
Alignment explanation
Indices: 52027708--52027746 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
52027698 TTTTATAAAT
52027708 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
52027726 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
52027743 TGTG
1 TGTG
52027747 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:52038429 original size:6 final size:6
Alignment explanation
Indices: 52038420--52038455 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
52038410 CATGAACAAT
52038420 CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA
52038456 TCAAGGGAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
CATATA
Found at i:52041042 original size:21 final size:21
Alignment explanation
Indices: 52041008--52041070 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
52040998 TAGAAATTAT
*
52041008 AAAAGATCATTAAAAATATTTA
1 AAAAAATCA-TAAAAATATTTA
* *
52041030 AAAAAATCATAAAAAAAGTTA
1 AAAAAATCATAAAAATATTTA
* *
52041051 TAAAAATCATAAGAAT-TTTA
1 AAAAAATCATAAAAATATTTA
52041071 TCAAGATGCT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 3 0.09
21 23 0.68
22 8 0.24
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAAAATCATAAAAATATTTA
Found at i:52041273 original size:23 final size:21
Alignment explanation
Indices: 52041223--52041274 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
52041213 GAAATAGATC
*
52041223 TAATATCTATTGTTTAAAAAA
1 TAATATTTATTGTTTAAAAAA
*
52041244 TACTATTTATTGTTTAACAAAA
1 TAATATTTATTGTTTAA-AAAA
52041266 TTAATATTT
1 -TAATATTT
52041275 TTGAAGTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 15 0.58
22 4 0.15
23 7 0.27
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (21 bp):
TAATATTTATTGTTTAAAAAA
Done.