Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, whole genome shotgun sequence
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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 118 of 129
Found at i:19873484 original size:24 final size:24
Alignment explanation
Indices: 19873447--19873507 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
19873437 GAAATTGAAA
*
19873447 ACAA-TAATAAAAATTATAATAGTT
1 ACAATTAA-AAAAATTATAATAATT
* *
19873471 ACGATTAAAAAAATTATTATAATT
1 ACAATTAAAAAAATTATAATAATT
*
19873495 ATAATTAAAAAAA
1 ACAATTAAAAAAA
19873508 ATTTTAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (24 bp):
ACAATTAAAAAAATTATAATAATT
Found at i:19874344 original size:12 final size:12
Alignment explanation
Indices: 19874327--19874356 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
19874317 ACACCTTTCT
19874327 TTTGTTTGTTCG
1 TTTGTTTGTTCG
*
19874339 TTTGTTTGTTGG
1 TTTGTTTGTTCG
19874351 TTTGTT
1 TTTGTT
19874357 CGTTTTTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.03, G:0.27, T:0.70
Consensus pattern (12 bp):
TTTGTTTGTTCG
Found at i:19874378 original size:5 final size:5
Alignment explanation
Indices: 19874368--19874412 Score: 72
Period size: 5 Copynumber: 9.0 Consensus size: 5
19874358 GTTTTTGGTT
* *
19874368 GAAAA GAAAA GAAAA GAAAA GAAAA TAAAA GAAAG GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
19874413 TCGCTGAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (5 bp):
GAAAA
Found at i:19881842 original size:31 final size:31
Alignment explanation
Indices: 19881800--19881863 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
19881790 ATATACAGCA
* *
19881800 GGCTTTGGGTTTCAAA-TCCATGGATCAATTG
1 GGCTTTAGGTTTCAAACACCA-GGATCAATTG
19881831 GGCTTTAGGTTTCAAACACCAGGATCAATTG
1 GGCTTTAGGTTTCAAACACCAGGATCAATTG
19881862 GG
1 GG
19881864 TACACATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 27 0.90
32 3 0.10
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (31 bp):
GGCTTTAGGTTTCAAACACCAGGATCAATTG
Found at i:19883340 original size:21 final size:22
Alignment explanation
Indices: 19883298--19883341 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
19883288 TTCTTAGCAA
* *
19883298 TCCTTTTTTTTCTCCTTGTCCC
1 TCCTTTTTTTGCTCCTTATCCC
*
19883320 TCCTTTTTTTGC-CTTTATCCC
1 TCCTTTTTTTGCTCCTTATCCC
19883341 T
1 T
19883342 GAAAGAAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.02, C:0.34, G:0.05, T:0.59
Consensus pattern (22 bp):
TCCTTTTTTTGCTCCTTATCCC
Found at i:19884959 original size:12 final size:12
Alignment explanation
Indices: 19884944--19884969 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19884934 TTAATAAAAG
19884944 TTTTATATAGAT
1 TTTTATATAGAT
19884956 TTTTATATAGAT
1 TTTTATATAGAT
19884968 TT
1 TT
19884970 GGGAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (12 bp):
TTTTATATAGAT
Found at i:19889431 original size:15 final size:15
Alignment explanation
Indices: 19889413--19889444 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19889403 TGTTTTGTGG
19889413 GTTTGATTTTTTTTT
1 GTTTGATTTTTTTTT
*
19889428 GTTTTATTTTTTTTT
1 GTTTGATTTTTTTTT
19889443 GT
1 GT
19889445 GCACATTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.00, G:0.12, T:0.81
Consensus pattern (15 bp):
GTTTGATTTTTTTTT
Found at i:19892367 original size:20 final size:20
Alignment explanation
Indices: 19892329--19892367 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19892319 AGATTATGCC
*
19892329 ATTTATTTTTATTGTTAATG
1 ATTTATTCTTATTGTTAATG
19892349 ATTTATTCTT-TTGTATAAT
1 ATTTATTCTTATTGT-TAAT
19892368 TGTTATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.64
Consensus pattern (20 bp):
ATTTATTCTTATTGTTAATG
Found at i:19906151 original size:16 final size:16
Alignment explanation
Indices: 19906130--19906162 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19906120 AGTAGATTGA
*
19906130 TCATATTGTATAAAGT
1 TCATATTATATAAAGT
19906146 TCATATTATATAAAGT
1 TCATATTATATAAAGT
19906162 T
1 T
19906163 TATTTATCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (16 bp):
TCATATTATATAAAGT
Found at i:19907059 original size:20 final size:20
Alignment explanation
Indices: 19907034--19907071 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
19907024 CAAACATCAA
*
19907034 TATACCTATAAACTCAAACT
1 TATACCTATAAACCCAAACT
19907054 TATACCTATAAACCCAAA
1 TATACCTATAAACCCAAA
19907072 ACCAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (20 bp):
TATACCTATAAACCCAAACT
Found at i:19907087 original size:22 final size:23
Alignment explanation
Indices: 19907061--19907105 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
19907051 ACTTATACCT
19907061 ATAAACCCAAAACCAAAT-TATA
1 ATAAACCCAAAACCAAATCTATA
** *
19907083 ATAAATGCAAACCCAAATCTATA
1 ATAAACCCAAAACCAAATCTATA
19907106 CTTACAAACC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.56, C:0.22, G:0.02, T:0.20
Consensus pattern (23 bp):
ATAAACCCAAAACCAAATCTATA
Found at i:19909731 original size:59 final size:59
Alignment explanation
Indices: 19909669--19909844 Score: 239
Period size: 60 Copynumber: 3.0 Consensus size: 59
19909659 TTTATACAAA
* *
19909669 AAAAATTGATACTTTCAA-TTTTTCTAAAAAATGCTTTTTTAAAAATTTTATTTTCAAG
1 AAAAATTGATACTTTTAACTTTTTCTCAAAAATGCTTTTTTAAAAATTTTATTTTCAAG
* * * *
19909727 AAAAATAGATACTTTTAACTTTTCCTCAAAAATCCCTTTTTT-GAAATATTTATTTTCAAG
1 AAAAATTGATACTTTTAACTTTTTCTCAAAAAT-GCTTTTTTAAAAAT-TTTATTTTCAAG
* * *
19909787 AAAAATTAATACTTTTAACTTTTTCTCAAAAATGCTTTTTTAAACATTTTATTATCAA
1 AAAAATTGATACTTTTAACTTTTTCTCAAAAATGCTTTTTTAAAAATTTTATTTTCAA
19909845 TTTTTCCTTA
Statistics
Matches: 101, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
58 16 0.16
59 33 0.33
60 52 0.51
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (59 bp):
AAAAATTGATACTTTTAACTTTTTCTCAAAAATGCTTTTTTAAAAATTTTATTTTCAAG
Found at i:19909858 original size:100 final size:98
Alignment explanation
Indices: 19909746--19909942 Score: 290
Period size: 98 Copynumber: 2.0 Consensus size: 98
19909736 TACTTTTAAC
*
19909746 TTTTCCTCAAAAATCCCTTTTTTGA-AATATTTATTTTCAAGAAAAATTAATACTTTTAACTTTT
1 TTTTCCTCAAAAATCCCTTTTTTGAGAA-ATTTATTTTCAAGAAAAATT--TACTTTCAACTTTT
*
19909810 TCTCAAAAATGCTTTTTT-AAACATTTTATTATCAAT
63 TCTCAAAAATGCTTTTTTGAAA-AATTTATTATCAAT
* * *
19909846 TTTTCCTTAAAAATGCCTTTTTTGAGAAGTTTATTTTCAAGAAAAATTTACTTTCAACTTTTTCT
1 TTTTCCTCAAAAATCCCTTTTTTGAGAAATTTATTTTCAAGAAAAATTTACTTTCAACTTTTTCT
*
19909911 CAAAAATGCTTTTTTGAAAAATTTATTTTCAA
66 CAAAAATGCTTTTTTGAAAAATTTATTATCAA
19909943 AGAAAATTAA
Statistics
Matches: 89, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
98 42 0.47
99 3 0.03
100 42 0.47
101 2 0.02
ACGTcount: A:0.34, C:0.13, G:0.05, T:0.48
Consensus pattern (98 bp):
TTTTCCTCAAAAATCCCTTTTTTGAGAAATTTATTTTCAAGAAAAATTTACTTTCAACTTTTTCT
CAAAAATGCTTTTTTGAAAAATTTATTATCAAT
Found at i:19909965 original size:59 final size:57
Alignment explanation
Indices: 19909841--19910007 Score: 189
Period size: 59 Copynumber: 2.9 Consensus size: 57
19909831 CATTTTATTA
* *
19909841 TCAA-TTTTTCCTTAAAAATGCCTTTTTTGAGAAGTTTATTTTCAAGAAAAATTTACTT
1 TCAACTTTTT-CTTAAAAATG-CTTTTTTGAAAAATTTATTTTCAAGAAAAATTTACTT
*
19909899 TCAACTTTTTCTCAAAAATGCTTTTTTGAAAAATTTATTTTCAA-AGAAAATTAATACTT
1 TCAACTTTTTCTTAAAAATGCTTTTTTGAAAAATTTATTTTCAAGA-AAAATT--TACTT
* *
19909958 TCAACTTTTTCTTAAAAAT-ATTTTTTAAAAAAATTTTTATTTT-AAGAAAA
1 TCAACTTTTTCTTAAAAATGCTTTTTT-GAAAAA--TTTATTTTCAAGAAAA
19910008 TCGTTGAAAA
Statistics
Matches: 95, Mismatches: 6, Indels: 14
0.83 0.05 0.12
Matches are distributed among these distances:
56 1 0.01
57 28 0.29
58 19 0.20
59 33 0.35
60 5 0.05
61 9 0.09
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.46
Consensus pattern (57 bp):
TCAACTTTTTCTTAAAAATGCTTTTTTGAAAAATTTATTTTCAAGAAAAATTTACTT
Found at i:19910577 original size:20 final size:20
Alignment explanation
Indices: 19910540--19910580 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
19910530 CTGGAATTTT
* *
19910540 CAAAAAATTTACACAAAATA
1 CAAAAAATTCACAAAAAATA
*
19910560 CAAAAAATTCCCAAAAAATA
1 CAAAAAATTCACAAAAAATA
19910580 C
1 C
19910581 TAATACTCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.63, C:0.20, G:0.00, T:0.17
Consensus pattern (20 bp):
CAAAAAATTCACAAAAAATA
Found at i:19911509 original size:86 final size:86
Alignment explanation
Indices: 19911388--19912140 Score: 440
Period size: 86 Copynumber: 8.8 Consensus size: 86
19911378 TAGACAGAAT
** ** *
19911388 CGAAGAAGGATTTGACATAAGTTGAAATCCGAAAACAAGATGACTTGGATGGAATC-AAGCTCTG
1 CGAAGAAGGATTTGACATAAGTCAAAATCTAAAAACAAGATGACCTGGATGGAATCGAAG-TCTG
* *
19911452 AAATGAATACCTTGGACTAGAC
65 AAATAAATAACTTGGACTAGAC
* * *
19911474 CGAAGAAGGATTTGACATAAGTTAAAATCTAAAAACCAA-ATGACCTGAACT-GAACCGAAGTCT
1 CGAAGAAGGATTTGACATAAGTCAAAATCTAAAAA-CAAGATGACCTGGA-TGGAATCGAAGTCT
*
19911537 GAAA-AGAATAACTTAGACTA-AGC
64 GAAATA-AATAACTTGGACTAGA-C
* * * * * * *
19911560 TGAAGAAGGATCT-AGCATAGGTCAAAATTTAAAAACAAAATAACCTAGACT-GAATCGAAGTCT
1 CGAAGAAGGATTTGA-CATAAGTCAAAATCTAAAAACAAGATGACCTGGA-TGGAATCGAAGTCT
* * *
19911623 AAAATAAATAACTTGGA-TTGAAT
64 GAAATAAATAACTTGGACTAG-AC
* * * * * * *
19911646 TGAAGAAAGATCT-AGCATATGCCAAAATC-AAATA-AA-ATGACCTGGATGAAATCGAAG-CTT
1 CGAAGAAGGATTTGA-CATAAGTCAAAATCTAAAAACAAGATGACCTGGATGGAATCGAAGTC-T
*
19911706 GAAACAAATAACTTGGACTA-AGC
64 GAAATAAATAACTTGGACTAGA-C
** * * * * *
19911729 CGAAGAAATATTTGACATAAGTCAAAATCCAAAAACAAGATGACTTAGAT-AAAACTGAAGTCT-
1 CGAAGAAGGATTTGACATAAGTCAAAATCTAAAAACAAGATGACCTGGATGGAATC-GAAGTCTG
**
19911792 AGAATAAATAACTTAAACT-GAAC
65 A-AATAAATAACTTGGACTAG-AC
** * * * * * * * ** * *
19911815 TAAAAAAAGATCTGGCGTAAGCCAAAATCTAAAATA-AA-ATGACTTGGATTAAACCAAAGTCTG
1 CGAAGAAGGATTTGACATAAGTCAAAATCTAAAA-ACAAGATGACCTGGATGGAATCGAAGTCTG
* *
19911878 AAATAAATAACTTAGA-TTGAAC
65 AAATAAATAACTTGGACTAG-AC
* * * * * * *
19911900 CAAAAAAAGATTTGACATAAGTCAAAAT-TCAAAAATAAGATGACCTAGATGAAATCGAAGTCTA
1 CGAAGAAGGATTTGACATAAGTCAAAATCT-AAAAACAAGATGACCTGGATGGAATCGAAGTCTG
* * * **
19911964 AAATGAATACCTTGAACTAGGT
65 AAATAAATAACTTGGACTAGAC
* * * * * * *
19911986 CGAAGAAGGATTTGACATAAGTCGAAATCTAAAAATAAAATGACATGGATTGAACCAAAGTCTGA
1 CGAAGAAGGATTTGACATAAGTCAAAATCTAAAAACAAGATGACCTGGATGGAATCGAAGTCTGA
*
19912051 AA-AGAATAACTTGGACTA-AGT
66 AATA-AATAACTTGGACTAGA-C
** * * * *
19912072 TAAAGAAGGATTTGGCATAGGTTAAAATCT-AAAAC-AGAATGACCTGGATGGAATCAAAGTCTG
1 CGAAGAAGGATTTGACATAAGTCAAAATCTAAAAACAAG-ATGACCTGGATGGAATCGAAGTCTG
19912135 AAATAA
65 AAATAA
19912141 CCTTGATTGA
Statistics
Matches: 527, Mismatches: 104, Indels: 73
0.75 0.15 0.10
Matches are distributed among these distances:
82 3 0.01
83 54 0.10
84 12 0.02
85 110 0.21
86 333 0.63
87 15 0.03
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.22
Consensus pattern (86 bp):
CGAAGAAGGATTTGACATAAGTCAAAATCTAAAAACAAGATGACCTGGATGGAATCGAAGTCTGA
AATAAATAACTTGGACTAGAC
Found at i:19911882 original size:32 final size:31
Alignment explanation
Indices: 19911836--19911904 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
19911826 CTGGCGTAAG
* *
19911836 CCAAAATCTAAAATAAAATGACTTGGATTAAA
1 CCAAAATCTAAAAT-AAATAACTTAGATTAAA
* * *
19911868 CCAAAGTCTGAAATAAATAACTTAGATTGAA
1 CCAAAATCTAAAATAAATAACTTAGATTAAA
19911899 CCAAAA
1 CCAAAA
19911905 AAAGATTTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
31 19 0.61
32 12 0.39
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.23
Consensus pattern (31 bp):
CCAAAATCTAAAATAAATAACTTAGATTAAA
Found at i:19911942 original size:171 final size:170
Alignment explanation
Indices: 19911396--19912140 Score: 526
Period size: 171 Copynumber: 4.4 Consensus size: 170
19911386 ATCGAAGAAG
** * * * ** * *
19911396 GATTTGACATAAGTTGAAATCCGAAAACAAGATGACTTGGATGGAATC-AAGCTCTGAAATGAAT
1 GATTTGACATAAGTCAAAATCCAAAAACAAGATGACCTAGATAAAATCGAAG-TCTAAAATAAAT
* * * * * * ** * *
19911460 ACCTTGGACT-AGACCGAAGAAGGATTTGACATAAGTTAAAATCTAAAA-ACCAAATGACCTGAA
65 AACTTGAACTGA-ACTGAAGAAAGATCTGGCATAAGCCAAAATCTAAAATA--AAATGACATGGA
* * * ** * *
19911523 CTGAACCGAAGTCTGAAAAGAATAACTTAGACTAAGCTGAAGAAG
127 TTAAACCAAAGTCTGAAAA-AATAACTTAGACTAAGCCAAAAAAA
* * ** * * *
19911568 GATCT-AGCATAGGTCAAAATTTAAAAACAAAATAACCTAGACT-GAATCGAAGTCTAAAATAAA
1 GATTTGA-CATAAGTCAAAATCCAAAAACAAGATGACCTAGA-TAAAATCGAAGTCTAAAATAAA
* * * * * * *
19911631 TAACTTGGATTGAATTGAAGAAAGATCTAGCATATGCCAAAATC--AAATAAAATGACCTGGATG
64 TAACTTGAACTGAACTGAAGAAAGATCTGGCATAAGCCAAAATCTAAAATAAAATGACATGGATT
* * * * *
19911694 AAATCGAAG-CTTGAAACAAATAACTTGGACTAAGCCGAAGAAA
129 AAACCAAAGTC-TGAAA-AAATAACTTAGACTAAGCCAAAAAAA
* * *
19911737 TATTTGACATAAGTCAAAATCCAAAAACAAGATGACTTAGATAAAA-CTGAAGTCTAGAATAAAT
1 GATTTGACATAAGTCAAAATCCAAAAACAAGATGACCTAGATAAAATC-GAAGTCTAAAATAAAT
* * * * *
19911801 AACTTAAACTGAACTAAAAAAAGATCTGGCGTAAGCCAAAATCTAAAATAAAATGACTTGGATTA
65 AACTTGAACTGAACTGAAGAAAGATCTGGCATAAGCCAAAATCTAAAATAAAATGACATGGATTA
*
19911866 AACCAAAGTCTGAAATAAATAACTTAGATTGAA-CCAAAAAAA
130 AACCAAAGTCTGAAA-AAATAACTTAGACT-AAGCCAAAAAAA
* * * *
19911908 GATTTGACATAAGTCAAAATTCAAAAATAAGATGACCTAGATGAAATCGAAGTCTAAAATGAATA
1 GATTTGACATAAGTCAAAATCCAAAAACAAGATGACCTAGATAAAATCGAAGTCTAAAATAAATA
* ** * * * * *
19911973 CCTTGAACT-AGGTCGAAGAAGGATTTGACATAAGTCGAAATCTAAAAATAAAATGACATGGATT
66 ACTTGAACTGAACT-GAAGAAAGATCTGGCATAAGCCAAAATCT-AAAATAAAATGACATGGATT
* * ** * *
19912037 GAACCAAAGTCTGAAAAGAATAACTTGGACTAAGTTAAAGAAG
129 AAACCAAAGTCTGAAAA-AATAACTTAGACTAAGCCAAAAAAA
* * * * * ** * *
19912080 GATTTGGCATAGGTTAAAAT-CTAAAAC-AGAATGACCTGGATGGAATCAAAGTCTGAAATAA
1 GATTTGACATAAGTCAAAATCCAAAAACAAG-ATGACCTAGATAAAATCGAAGTCTAAAATAA
19912141 CCTTGATTGA
Statistics
Matches: 456, Mismatches: 97, Indels: 41
0.77 0.16 0.07
Matches are distributed among these distances:
168 3 0.01
169 127 0.28
170 9 0.02
171 168 0.37
172 144 0.32
173 5 0.01
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (170 bp):
GATTTGACATAAGTCAAAATCCAAAAACAAGATGACCTAGATAAAATCGAAGTCTAAAATAAATA
ACTTGAACTGAACTGAAGAAAGATCTGGCATAAGCCAAAATCTAAAATAAAATGACATGGATTAA
ACCAAAGTCTGAAAAAATAACTTAGACTAAGCCAAAAAAA
Found at i:19913029 original size:49 final size:50
Alignment explanation
Indices: 19912966--19913114 Score: 214
Period size: 49 Copynumber: 3.0 Consensus size: 50
19912956 TTTTTTTGAA
*
19912966 AACTCAAACTGTCCTTTATAGGTTTTCAATTTGAGCT-TTTTTTTTTTTT
1 AACTCAAACTGTCCTTTATGGGTTTTCAATTTGAGCTCTTTTTTTTTTTT
* * *
19913015 AACTCAAACCGTCC-TTACGGGTTTTCAATTTAAGCTCTTTTTTTTTTTT
1 AACTCAAACTGTCCTTTATGGGTTTTCAATTTGAGCTCTTTTTTTTTTTT
*
19913064 AACTCAAGCTG-CTCTTTATGGGTTTTCAATTTGAGCTCTTTTTTTTCTTTT
1 AACTCAAACTGTC-CTTTATGGGTTTTCAATTTGAGCTCTTTTTTTT-TTTT
19913115 TTTTTAAACT
Statistics
Matches: 88, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
48 20 0.23
49 35 0.40
50 29 0.33
51 4 0.05
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.52
Consensus pattern (50 bp):
AACTCAAACTGTCCTTTATGGGTTTTCAATTTGAGCTCTTTTTTTTTTTT
Found at i:19923523 original size:59 final size:59
Alignment explanation
Indices: 19923422--19923677 Score: 311
Period size: 59 Copynumber: 4.3 Consensus size: 59
19923412 TTCTTAAAGC
* *
19923422 ATTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATGCTTTTTTGAAA
1 ATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATGCTTTTTTGAAA
* ** * *
19923481 ATTTTATTTTCAAGAAAAATAAATACTTTCAATTTTTTCTTAAAAATCCCTTTTTTG-AA
1 ATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAAT-GCTTTTTTGAAA
* *
19923540 ATCTTTATTTTTAAGGAAAATTGATACATTCAAC-TTTTCTTTAAAAATG-TTTTTTGAAA
1 AT-TTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTC-TTAAAAATGCTTTTTTGAAA
* * * *
19923599 ATTTTATTTTTAAGAAAAATTGATACTTTTAACTTTTTCTCAAAAATACTTTTTTTTGGAA
1 ATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATGC--TTTTTTGAAA
* *
19923660 TTTTTACTTTTAAGAAAA
1 ATTTTATTTTTAAGAAAA
19923678 TCATTGAAAA
Statistics
Matches: 167, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
58 42 0.25
59 59 0.35
60 41 0.25
61 25 0.15
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (59 bp):
ATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATGCTTTTTTGAAA
Found at i:19923653 original size:118 final size:120
Alignment explanation
Indices: 19923424--19923678 Score: 372
Period size: 119 Copynumber: 2.1 Consensus size: 120
19923414 CTTAAAGCAT
*
19923424 TTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATGCTTTTTTGAAAATTTTATT
1 TTTATTTTTAAGGAAAATTGATACATTCAACTTTTCCTTAAAAATGCTTTTTTGAAAATTTTATT
* * *
19923489 TTCAAGAAAAATAAATACTTTCAATTTTTTCTTAAAAAT-CCCTTTTTTGAAATC
66 TTCAAGAAAAATAAATACTTTCAACTTTTTCTCAAAAATACTCTTTTTTGAAATC
*
19923543 TTTATTTTTAAGGAAAATTGATACATTCAACTTTTCTTTAAAAATG-TTTTTTGAAAATTTTATT
1 TTTATTTTTAAGGAAAATTGATACATTCAACTTTTCCTTAAAAATGCTTTTTTGAAAATTTTATT
* ** * * * *
19923607 TTTAAGAAAAATTGATACTTTTAACTTTTTCTCAAAAATACTTTTTTTTGGAATT
66 TTCAAGAAAAATAAATACTTTCAACTTTTTCTCAAAAATACTCTTTTTTGAAATC
*
19923662 TTTACTTTTAA-GAAAAT
1 TTTATTTTTAAGGAAAAT
19923679 CATTGAAAAA
Statistics
Matches: 122, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
118 57 0.47
119 65 0.53
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (120 bp):
TTTATTTTTAAGGAAAATTGATACATTCAACTTTTCCTTAAAAATGCTTTTTTGAAAATTTTATT
TTCAAGAAAAATAAATACTTTCAACTTTTTCTCAAAAATACTCTTTTTTGAAATC
Found at i:19925248 original size:31 final size:31
Alignment explanation
Indices: 19925208--19925292 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
19925198 ATCATGATTA
* *
19925208 TGAATAATCTTTTTTATTATTATACTATATG
1 TGAACAATCTTTTTTATTACTATACTATATG
* *
19925239 TGAACAATCTTTTTTGTTACTATACTGTATG
1 TGAACAATCTTTTTTATTACTATACTATATG
*
19925270 TGAACAATCTTTTTCATTACTAT
1 TGAACAATCTTTTTTATTACTAT
19925293 GTTATAGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (31 bp):
TGAACAATCTTTTTTATTACTATACTATATG
Found at i:19927005 original size:27 final size:27
Alignment explanation
Indices: 19926975--19927029 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
19926965 AGAAACTAGG
19926975 ATTCCTATACTAAAAACCCGAAAAAGA
1 ATTCCTATACTAAAAACCCGAAAAAGA
* *
19927002 ATTCCTATACTTAAAACCTGAAAAAGA
1 ATTCCTATACTAAAAACCCGAAAAAGA
19927029 A
1 A
19927030 CACTGCCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.51, C:0.20, G:0.07, T:0.22
Consensus pattern (27 bp):
ATTCCTATACTAAAAACCCGAAAAAGA
Found at i:19938848 original size:3 final size:3
Alignment explanation
Indices: 19938832--19938894 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
19938822 TTGAGCTTGA
* * *
19938832 AAT AAT AA- ATAT AAT AAT -AT AAA AAT AAT ATAT CAT AAT AA- ATT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
19938876 AAT AAT AAT AGAT AAT AAT
1 AAT AAT AAT A-AT AAT AAT
19938895 TAACAATTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
2 4 0.08
3 38 0.79
4 6 0.12
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19938859 original size:14 final size:14
Alignment explanation
Indices: 19938836--19938921 Score: 50
Period size: 14 Copynumber: 5.9 Consensus size: 14
19938826 GCTTGAAATA
*
19938836 ATAAATATAATAAT
1 ATAAAAATAATAAT
19938850 ATAAAAATAATATAT
1 ATAAAAATAATA-AT
19938865 CATAATAAATTAATAAT
1 -ATAA-AAA-TAATAAT
* *
19938882 A-ATAGATAATAAT
1 ATAAAAATAATAAT
* *
19938895 -TAACAATTAATAAC
1 ATAA-AAATAATAAT
* *
19938909 GTAAAAAAAATAA
1 ATAAAAATAATAA
19938922 AATACATTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
13 8 0.14
14 27 0.48
15 6 0.11
16 5 0.09
17 5 0.09
18 5 0.09
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.30
Consensus pattern (14 bp):
ATAAAAATAATAAT
Found at i:19938882 original size:24 final size:23
Alignment explanation
Indices: 19938831--19938894 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
19938821 GTTGAGCTTG
19938831 AAATAATAAATATAATAATATAA
1 AAATAATAAATATAATAATATAA
*
19938854 AAATAATATATCATAATAA-ATTAA
1 AAATAATAAAT-ATAATAATA-TAA
* *
19938878 TAATAATAGATAATAAT
1 AAATAATAAAT-ATAAT
19938895 TAACAATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 11 0.31
24 24 0.69
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
AAATAATAAATATAATAATATAA
Found at i:19953137 original size:7 final size:7
Alignment explanation
Indices: 19953125--19953174 Score: 57
Period size: 7 Copynumber: 6.9 Consensus size: 7
19953115 TAGACACTAT
19953125 TTTATTA
1 TTTATTA
19953132 TTTATTA
1 TTTATTA
19953139 TTTATT-
1 TTTATTA
19953145 TTTATTTA
1 TTTA-TTA
*
19953153 TTTTATTT
1 -TTTATTA
19953161 TTTATTTA
1 TTTA-TTA
19953169 TTTATT
1 TTTATT
19953175 TTTCTTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
6 4 0.11
7 21 0.57
8 8 0.22
9 4 0.11
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTATTA
Found at i:19953143 original size:4 final size:4
Alignment explanation
Indices: 19953125--19953175 Score: 58
Period size: 4 Copynumber: 13.8 Consensus size: 4
19953115 TAGACACTAT
19953125 TTTA -TTA TTTA -TTA TTTA -TT- TTTA TTTA TTTTA TTT- TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA
19953169 TTTA TTT
1 TTTA TTT
19953176 TTCTTTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
3 13 0.32
4 24 0.59
5 4 0.10
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:19953154 original size:29 final size:30
Alignment explanation
Indices: 19953122--19953186 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
19953112 GTGTAGACAC
19953122 TATTTTATTATTTA-TTATTTATTTTTATT
1 TATTTTATTATTTATTTATTTATTTTTATT
* *
19953151 TATTTTATTTTTTATTTATTTATTTTTCTT
1 TATTTTATTATTTATTTATTTATTTTTATT
*
19953181 TTTTTT
1 TATTTT
19953187 TCTGGCAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 13 0.41
30 19 0.59
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (30 bp):
TATTTTATTATTTATTTATTTATTTTTATT
Found at i:19953157 original size:15 final size:14
Alignment explanation
Indices: 19953125--19953177 Score: 72
Period size: 14 Copynumber: 3.6 Consensus size: 14
19953115 TAGACACTAT
19953125 TTTATTATTTA-TTA
1 TTTATT-TTTATTTA
19953139 TTTATTTTTATTTA
1 TTTATTTTTATTTA
19953153 TTTTATTTTTTATTTA
1 -TTTA-TTTTTATTTA
19953169 TTTATTTTT
1 TTTATTTTT
19953178 CTTTTTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.11
14 14 0.39
15 8 0.22
16 10 0.28
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTATTTTTATTTA
Found at i:19953182 original size:26 final size:26
Alignment explanation
Indices: 19953129--19953187 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
19953119 CACTATTTTA
*
19953129 TTATTTATTATTTATTTTTATTTATT
1 TTATTTTTTATTTATTTTTATTTATT
*
19953155 TTATTTTTTATTTATTTATT-TTTCTT
1 TTATTTTTTATTTATTT-TTATTTATT
19953181 TT-TTTTT
1 TTATTTTT
19953188 CTGGCAGCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 23 0.77
27 2 0.07
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (26 bp):
TTATTTTTTATTTATTTTTATTTATT
Found at i:19953183 original size:20 final size:20
Alignment explanation
Indices: 19953124--19953176 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
19953114 GTAGACACTA
19953124 TTTTA-TTATTTA--TTATT
1 TTTTATTTATTTATTTTATT
*
19953141 TATT-TTTATTTATTTTATT
1 TTTTATTTATTTATTTTATT
19953160 TTTTATTTATTTATTTT
1 TTTTATTTATTTATTTT
19953177 TCTTTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 10 0.33
19 8 0.27
20 12 0.40
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTATTTATTTATTTTATT
Found at i:19954102 original size:21 final size:21
Alignment explanation
Indices: 19954063--19954103 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19954053 TTTTTTAAAA
* **
19954063 AAATTTTATTTTTTTTATTTT
1 AAATTTTATTATTAATATTTT
19954084 AAATTTTATTATTAATATTT
1 AAATTTTATTATTAATATTT
19954104 AAGCATGTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
AAATTTTATTATTAATATTTT
Found at i:19957416 original size:17 final size:17
Alignment explanation
Indices: 19957391--19957424 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
19957381 TAAAGCCCAA
19957391 GTAACGAACTATGTGGG
1 GTAACGAACTATGTGGG
*
19957408 GTAATGAACTATGTGGG
1 GTAACGAACTATGTGGG
19957425 ACAATAGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.09, G:0.35, T:0.26
Consensus pattern (17 bp):
GTAACGAACTATGTGGG
Found at i:19960862 original size:82 final size:82
Alignment explanation
Indices: 19960720--19960900 Score: 263
Period size: 82 Copynumber: 2.2 Consensus size: 82
19960710 ACATTTTGGG
* * *
19960720 GATATCCGAGTTTAAAGTTTGAATTTACACTTGTATTTTTTTAGTGATGATATTCGAGACATTTT
1 GATATCCGAGTTTAAAGTTTGAATTTACACTTGCATTTTCTTAGTGATGATATTCAAGACATTTT
**
19960785 CAAAATCACTTGGTGGT
66 CAAAATCACTCAGTGGT
* * * * *
19960802 GATATTCGAGTTTAAAGTTTGAATTTGCATTTGCATTTTCTTGGTGGTGATATTCAAGACATTTT
1 GATATCCGAGTTTAAAGTTTGAATTTACACTTGCATTTTCTTAGTGATGATATTCAAGACATTTT
19960867 CAAAATCACTCAGTGGT
66 CAAAATCACTCAGTGGT
19960884 GATATCCGAGTATTAAA
1 GATATCCGAGT-TTAAA
19960901 AAAGTCATTT
Statistics
Matches: 87, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
82 82 0.94
83 5 0.06
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.41
Consensus pattern (82 bp):
GATATCCGAGTTTAAAGTTTGAATTTACACTTGCATTTTCTTAGTGATGATATTCAAGACATTTT
CAAAATCACTCAGTGGT
Found at i:19961075 original size:42 final size:42
Alignment explanation
Indices: 19960909--19961105 Score: 169
Period size: 42 Copynumber: 4.7 Consensus size: 42
19960899 AAAAAGTCAT
* * *
19960909 TTGCATCTTTTCGATGGTGATATCCGAGTATCAAGGTTTGAG
1 TTGCATCTTTTCGGTGGTGATATCCAAGTATCAAGGTTTGAA
* * * * * * *
19960951 TTACATTTTTTCGATAGTGATATCTAAGTGTCAAGGTTTAAA
1 TTGCATCTTTTCGGTGGTGATATCCAAGTATCAAGGTTTGAA
* * * * * **
19960993 TTACATCTTCTCAGTGGTGATATCCAAGTGTTAATATTTGAA
1 TTGCATCTTTTCGGTGGTGATATCCAAGTATCAAGGTTTGAA
* *** *
19961035 TTGCATCTTCTCGGTGGTGATATTTGAGTATTAAGGTTTGAA
1 TTGCATCTTTTCGGTGGTGATATCCAAGTATCAAGGTTTGAA
* * *
19961077 TTGTATATTTTCGGTGGTGATATTCAAGT
1 TTGCATCTTTTCGGTGGTGATATCCAAGT
19961106 TTTCTTTGAT
Statistics
Matches: 124, Mismatches: 31, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 124 1.00
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.42
Consensus pattern (42 bp):
TTGCATCTTTTCGGTGGTGATATCCAAGTATCAAGGTTTGAA
Found at i:19961273 original size:48 final size:49
Alignment explanation
Indices: 19961206--19961338 Score: 162
Period size: 48 Copynumber: 2.7 Consensus size: 49
19961196 GATGATTTAA
* *
19961206 TTTAAAATTATTGAGCCTCTACTTAAATG-AGCTTTTTCCAAAATGAATC
1 TTTAAAGTTATTGAGCCTCTACTTAAA-GAAGCCTTTTCCAAAATGAATC
* *
19961255 TTTAAAGTTATTG-GCCTCTACTTAGAGAAGCCTTTTCCAATATGAATC
1 TTTAAAGTTATTGAGCCTCTACTTAAAGAAGCCTTTTCCAAAATGAATC
* * * * *
19961303 TTTAAAGTTGTTGAGCTTCTAATTAGAGGAGCCTTT
1 TTTAAAGTTATTGAGCCTCTACTTAAAGAAGCCTTT
19961339 AAATTTTTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
47 1 0.01
48 42 0.57
49 31 0.42
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (49 bp):
TTTAAAGTTATTGAGCCTCTACTTAAAGAAGCCTTTTCCAAAATGAATC
Found at i:19961495 original size:16 final size:15
Alignment explanation
Indices: 19961477--19961537 Score: 56
Period size: 14 Copynumber: 4.2 Consensus size: 15
19961467 ATTTTATTAT
19961477 TTTATTATTTTTTTC
1 TTTATTATTTTTTTC
**
19961492 TTT-TCCTTTTTTTC
1 TTTATTATTTTTTTC
19961506 ATTTATTATTTTTTT-
1 -TTTATTATTTTTTTC
**
19961521 TTCCTT-TTTTTTTC
1 TTTATTATTTTTTTC
19961535 TTT
1 TTT
19961538 CTTTTTCTAG
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
13 7 0.19
14 15 0.42
15 6 0.17
16 8 0.22
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTATTATTTTTTTC
Found at i:19961534 original size:38 final size:39
Alignment explanation
Indices: 19961469--19961544 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 39
19961459 TAGACACCAT
19961469 TTTATTATTTTATTATTTTTTTCTTTTCCTT-TTTTTCA
1 TTTATTATTTTATTATTTTTTTCTTTTCCTTCTTTTTCA
* *
19961507 TTTATTATTTT-TT-TTTCCTTTTTTTTTCTTTCTTTTTC
1 TTTATTATTTTATTATTT--TTTTCTTTTCCTTCTTTTTC
19961545 TAGCAACGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
36 3 0.09
37 2 0.06
38 22 0.67
39 6 0.18
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (39 bp):
TTTATTATTTTATTATTTTTTTCTTTTCCTTCTTTTTCA
Found at i:19962447 original size:21 final size:21
Alignment explanation
Indices: 19962408--19962448 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19962398 TTTTTTAAAA
**
19962408 AAATTTTATTATTGTTATTTT
1 AAATTTTATTATTAATATTTT
19962429 AAATTTTATTATTAATATTT
1 AAATTTTATTATTAATATTT
19962449 AAGCATGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
AAATTTTATTATTAATATTTT
Found at i:19964464 original size:30 final size:30
Alignment explanation
Indices: 19964430--19964486 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
19964420 CAGTTAAAAC
*
19964430 TTTAAATATCTATTTTCACTTAATTAATTT
1 TTTAAATATCTATTTTCACTCAATTAATTT
* *
19964460 TTTAAATATTTATTTTTACTCAATTAA
1 TTTAAATATCTATTTTCACTCAATTAA
19964487 CCCTCAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (30 bp):
TTTAAATATCTATTTTCACTCAATTAATTT
Found at i:19965173 original size:12 final size:12
Alignment explanation
Indices: 19965156--19965180 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19965146 CCGTTACGTA
19965156 AGATGTCACATG
1 AGATGTCACATG
19965168 AGATGTCACATG
1 AGATGTCACATG
19965180 A
1 A
19965181 CTACTTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (12 bp):
AGATGTCACATG
Found at i:19967158 original size:18 final size:18
Alignment explanation
Indices: 19967135--19967178 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
19967125 TTTTTCATTT
*
19967135 TTTATTACCTATTTTTAA
1 TTTATTACCTAATTTTAA
**
19967153 TTTATTAGTTAATTTTAA
1 TTTATTACCTAATTTTAA
19967171 TATTATTA
1 T-TTATTA
19967179 TTTTATAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTATTACCTAATTTTAA
Found at i:19968934 original size:98 final size:96
Alignment explanation
Indices: 19968814--19968992 Score: 234
Period size: 98 Copynumber: 1.8 Consensus size: 96
19968804 TTAAAATATA
* ** *
19968814 AAAAAGACTCATCTCAACAGAGGCTCAACAATTTTAAAAATTTTATCTTGAAAAGGGCTCATCTC
1 AAAAAGACTCATCTCAACAGAGGCTCAACAACTTT-AAAA-TCCATCTTGAAAA-AGCTCATCTC
* *
19968879 AGCAGAGGCTTAATGACTTAAAAAATTTCATTTG
63 AGCAGAGGCTCAATAACTTAAAAAATTTCATTTG
* * * *
19968913 AAAAAG-CTCTTCTCAATAGAGGCTCAACAACTTTAAAATCCATCTTGAAAAAGCTCCTCTTAGC
1 AAAAAGACTCATCTCAACAGAGGCTCAACAACTTTAAAATCCATCTTGAAAAAGCTCATCTCAGC
19968977 AGAGGCTCAATAACTT
66 AGAGGCTCAATAACTT
19968993 TAAGATTTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
95 24 0.34
96 11 0.16
97 4 0.06
98 25 0.36
99 6 0.09
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (96 bp):
AAAAAGACTCATCTCAACAGAGGCTCAACAACTTTAAAATCCATCTTGAAAAAGCTCATCTCAGC
AGAGGCTCAATAACTTAAAAAATTTCATTTG
Found at i:19968964 original size:47 final size:48
Alignment explanation
Indices: 19968814--19969000 Score: 180
Period size: 47 Copynumber: 3.9 Consensus size: 48
19968804 TTAAAATATA
* *
19968814 AAAAAGACTCATCTCAACAGAGGCTCAACAATTTTAAAAATTTTATCTTG
1 AAAAAG-CTCATCTCAACAGAGGCTCAACAACTTT-AAAATTTCATCTTG
* * * ** *
19968864 AAAAGGGCTCATCTCAGCAGAGGCTTAATGACTTAAAAAATTTCAT-TTG
1 AAAA-AGCTCATCTCAACAGAGGCTCAACAACTT-TAAAATTTCATCTTG
* * *
19968913 AAAAAGCTCTTCTCAATAGAGGCTCAACAACTTTAAAA-TCCATCTTG
1 AAAAAGCTCATCTCAACAGAGGCTCAACAACTTTAAAATTTCATCTTG
* * * * *
19968960 AAAAAGCTCCTCTTAGCAGAGGCTCAATAACTTTAAGATTT
1 AAAAAGCTCATCTCAACAGAGGCTCAACAACTTTAAAATTT
19969001 AAAATCTGAA
Statistics
Matches: 109, Mismatches: 24, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
46 4 0.04
47 39 0.36
48 23 0.21
49 7 0.06
50 35 0.32
51 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (48 bp):
AAAAAGCTCATCTCAACAGAGGCTCAACAACTTTAAAATTTCATCTTG
Found at i:19969112 original size:50 final size:49
Alignment explanation
Indices: 19969037--19969161 Score: 142
Period size: 49 Copynumber: 2.5 Consensus size: 49
19969027 AACTTAAATT
* * * * * *
19969037 TCAGCAGAAGCTCAACAATTTTAAAATTTAAAATATGAAATAGGCACTTC
1 TCAGCAGAGGCTCAACAACTTTAAAATTTAAAAT-TAAAAAAAGCACCTC
* ** *
19969087 TCAGCAGAGGCTCAACAACTTTAAAATTTTATCTTAAAAAAAGCTCCTC
1 TCAGCAGAGGCTCAACAACTTTAAAATTTAAAATTAAAAAAAGCACCTC
*
19969136 TCAACAGAGGCTCAACAACTTTAAAA
1 TCAGCAGAGGCTCAACAACTTTAAAA
19969162 ATTTCATCTT
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
49 35 0.55
50 29 0.45
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.26
Consensus pattern (49 bp):
TCAGCAGAGGCTCAACAACTTTAAAATTTAAAATTAAAAAAAGCACCTC
Found at i:19969153 original size:49 final size:49
Alignment explanation
Indices: 19969085--19969181 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 49
19969075 AATAGGCACT
* *
19969085 TCTCAGCAGAGGCTCAACAACTTT-AAAATTTTATCTTAAAAAAAGCTCC
1 TCTCAACAGAGGCTCAACAACTTTAAAAATTTCATCTT-AAAAAAGCTCC
*
19969134 TCTCAACAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTC
1 TCTCAACAGAGGCTCAACAACTTTAAAAATTTCATCTTAAAAAAGCTC
19969182 TAAATCGAGT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 32 0.73
50 12 0.27
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (49 bp):
TCTCAACAGAGGCTCAACAACTTTAAAAATTTCATCTTAAAAAAGCTCC
Found at i:19969953 original size:19 final size:19
Alignment explanation
Indices: 19969929--19969966 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
19969919 TGAGTCATTA
19969929 TTTTTCATTTTTTACTTTT
1 TTTTTCATTTTTTACTTTT
* *
19969948 TTTTTCTTTTTTTTCTTTT
1 TTTTTCATTTTTTACTTTT
19969967 AAGCAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTCATTTTTTACTTTT
Found at i:19982505 original size:10 final size:10
Alignment explanation
Indices: 19982490--19982531 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
19982480 GGTTCGATTT
19982490 TTTATATATA
1 TTTATATATA
19982500 TTTATATATA
1 TTTATATATA
*
19982510 TTTATTTA-A
1 TTTATATATA
*
19982519 TTTTTAT-TA
1 TTTATATATA
19982528 TTTA
1 TTTA
19982532 ATTTATTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 10 0.37
10 17 0.63
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTATATATA
Found at i:19982528 original size:14 final size:15
Alignment explanation
Indices: 19982511--19982545 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
19982501 TTATATATAT
19982511 TTATTTAATTT-TTA
1 TTATTTAATTTATTA
19982525 TTATTTAATTTATTA
1 TTATTTAATTTATTA
19982540 TT-TTTA
1 TTATTTA
19982546 TGTGATTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTTAATTTATTA
Found at i:19982531 original size:18 final size:20
Alignment explanation
Indices: 19982496--19982546 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
19982486 ATTTTTTATA
*
19982496 TATATTTATATATATTT-ATT
1 TATATTTTTAT-TATTTAATT
19982516 TA-ATTTTTATTATTTAATT
1 TATATTTTTATTATTTAATT
19982535 TATTATTTTTAT
1 TA-TATTTTTAT
19982547 GTGATTGGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.19
19 12 0.44
20 2 0.07
21 8 0.30
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TATATTTTTATTATTTAATT
Found at i:19982865 original size:22 final size:24
Alignment explanation
Indices: 19982835--19982880 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
19982825 ATTGATAATA
*
19982835 TATTAAAT-A-TAAATTTTTATTT
1 TATTAAATAATTAAATTTATATTT
*
19982857 TATTTAATAATTAAATTTATATTT
1 TATTAAATAATTAAATTTATATTT
19982881 GATATATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 12 0.60
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TATTAAATAATTAAATTTATATTT
Found at i:19985186 original size:23 final size:25
Alignment explanation
Indices: 19985141--19985186 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
19985131 TTTGTTATAT
19985141 ATATTATTATTTATAAAAAATTAAC
1 ATATTATTATTTATAAAAAATTAAC
*
19985166 ATATT-TTATTT-TAAAACATTA
1 ATATTATTATTTATAAAAAATTA
19985187 TATTTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 6 0.30
25 5 0.25
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (25 bp):
ATATTATTATTTATAAAAAATTAAC
Found at i:19986409 original size:12 final size:11
Alignment explanation
Indices: 19986387--19986416 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
19986377 TGATTAATTG
19986387 ATTAAAATAAA
1 ATTAAAATAAA
19986398 ATTAAGAATAAA
1 ATTAA-AATAAA
19986410 ATTAAAA
1 ATTAAAA
19986417 GTAATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (11 bp):
ATTAAAATAAA
Found at i:19986963 original size:83 final size:83
Alignment explanation
Indices: 19986819--19986979 Score: 223
Period size: 83 Copynumber: 1.9 Consensus size: 83
19986809 TCCCAGTTCT
* * * *
19986819 CAACCTCAAAGAAAGGGACTGAGAATGAAACAGATCATTAAAAGCCAAATTCAACAGCCATTCCT
1 CAACCTCAAAGAAAGGGACAGAGAATGAAACAGATCATGAAAAGCCAAATGCAACAACCATTCCT
19986884 CTACATATATATAGTCCC
66 CTACATATATATAGTCCC
* * * * *
19986902 CAACCTCGAAGAAAGGGACAGAGAATGAGACAGATCGTGAAATGCCAAATGCAAGAACCATTCCT
1 CAACCTCAAAGAAAGGGACAGAGAATGAAACAGATCATGAAAAGCCAAATGCAACAACCATTCCT
* *
19986967 GTATATATATATA
66 CTACATATATATA
19986980 TATATGACGA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
83 67 1.00
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (83 bp):
CAACCTCAAAGAAAGGGACAGAGAATGAAACAGATCATGAAAAGCCAAATGCAACAACCATTCCT
CTACATATATATAGTCCC
Found at i:19987339 original size:18 final size:18
Alignment explanation
Indices: 19987316--19987350 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19987306 AATTAATTTA
*
19987316 TTAATATAATATAAATAT
1 TTAATAAAATATAAATAT
*
19987334 TTAATAAAATATTAATA
1 TTAATAAAATATAAATA
19987351 CATATAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAATAAAATATAAATAT
Found at i:19987431 original size:29 final size:29
Alignment explanation
Indices: 19987396--19987468 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
19987386 TAGAAAAAAT
** *
19987396 TAAAAAATTTGAAATGTTTTTAAAAATTA
1 TAAAAAATAAGAAATATTTTTAAAAATTA
19987425 TAAAAAATAAGAAATATTTTTAAAAATTA
1 TAAAAAATAAGAAATATTTTTAAAAATTA
* * *
19987454 CAAAAATTAAAAAAT
1 TAAAAAATAAGAAAT
19987469 TTATCAAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (29 bp):
TAAAAAATAAGAAATATTTTTAAAAATTA
Found at i:19987482 original size:19 final size:17
Alignment explanation
Indices: 19987446--19987484 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
19987436 AAATATTTTT
19987446 AAAAATTACAAAAATTA
1 AAAAATTACAAAAATTA
*
19987463 AAAAATTTATCAAAACTTA
1 AAAAA-TTA-CAAAAATTA
19987482 AAA
1 AAA
19987485 TTTTTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 3 0.16
19 11 0.58
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAATTACAAAAATTA
Found at i:19987490 original size:19 final size:19
Alignment explanation
Indices: 19987455--19987522 Score: 59
Period size: 18 Copynumber: 3.6 Consensus size: 19
19987445 TAAAAATTAC
**
19987455 AAAAA-TTAAAAAATTTAT
1 AAAAACTTAAAATTTTTAT
*
19987473 CAAAACTTAAAATTTTTA-
1 AAAAACTTAAAATTTTTAT
* *
19987491 AAAAACCTCAAATTTTTAAT
1 AAAAACTTAAAATTTTT-AT
*
19987511 AAAAATTTAAAA
1 AAAAACTTAAAA
19987523 AATTCAAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
18 18 0.47
19 11 0.29
20 9 0.24
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAACTTAAAATTTTTAT
Found at i:19987615 original size:24 final size:25
Alignment explanation
Indices: 19987588--19987639 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
19987578 CTTTAAAAAA
* *
19987588 TTTATAA-TATAAAATATAAATTCT
1 TTTATAATTAAAAAATATAAATTAT
*
19987612 TTTATAATTAAAAAATCTAAATTAT
1 TTTATAATTAAAAAATATAAATTAT
19987637 TTT
1 TTT
19987640 TAAAAATCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTATAATTAAAAAATATAAATTAT
Found at i:19987644 original size:19 final size:19
Alignment explanation
Indices: 19987622--19987673 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
19987612 TTTATAATTA
19987622 AAAAATCT-AAATTATTT-TT
1 AAAAATCTGAAA--ATTTATT
19987641 AAAAATCTGAAAATTTATT
1 AAAAATCTGAAAATTTATT
*
19987660 AAAAATCTTAAAAT
1 AAAAATCTGAAAAT
19987674 ACAACCATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 4 0.13
19 23 0.77
20 3 0.10
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAAATCTGAAAATTTATT
Found at i:19989035 original size:14 final size:15
Alignment explanation
Indices: 19989016--19989044 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19989006 AAGAATGCAA
19989016 TTATGGTTT-AAAAT
1 TTATGGTTTGAAAAT
19989030 TTATGGTTTGAAAAT
1 TTATGGTTTGAAAAT
19989045 AAAATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.48
Consensus pattern (15 bp):
TTATGGTTTGAAAAT
Found at i:19995436 original size:14 final size:13
Alignment explanation
Indices: 19995402--19995492 Score: 73
Period size: 14 Copynumber: 6.9 Consensus size: 13
19995392 GTTTTTATTG
*
19995402 TATATAATTAATTA
1 TATAT-ATTAATAA
19995416 T-TA-ATTAATAA
1 TATATATTAATAA
19995427 TATCATATTAATAA
1 TAT-ATATTAATAA
19995441 TAT-TATT-ATAA
1 TATATATTAATAA
*
19995452 TTTATATTAATAAA
1 TATATATTAAT-AA
19995466 TTATAATATTAATAA
1 -TAT-ATATTAATAA
* *
19995481 TTTAAATTAATA
1 TATATATTAATA
19995493 TATCAAAATT
Statistics
Matches: 64, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
11 14 0.22
12 9 0.14
13 13 0.20
14 16 0.25
15 4 0.06
16 8 0.12
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (13 bp):
TATATATTAATAA
Found at i:19995481 original size:29 final size:28
Alignment explanation
Indices: 19995402--19995492 Score: 86
Period size: 29 Copynumber: 3.4 Consensus size: 28
19995392 GTTTTTATTG
*
19995402 TATA-TAATTAATTAT-TAATTAATAATAT
1 TATATTAATAAATTATAT-ATTAATAAT-T
*
19995430 CATATTAAT-AA-TAT-TATT-ATAATT
1 TATATTAATAAATTATATATTAATAATT
19995454 TATATTAATAAATTATAATATTAATAATT
1 TATATTAATAAATTAT-ATATTAATAATT
*
19995483 TAAATTAATA
1 TATATTAATA
19995493 TATCAAAATT
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
24 9 0.17
25 7 0.13
26 6 0.11
27 4 0.07
28 9 0.17
29 19 0.35
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (28 bp):
TATATTAATAAATTATATATTAATAATT
Found at i:19998545 original size:17 final size:17
Alignment explanation
Indices: 19998525--19998563 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
19998515 TAAAAAAATC
*
19998525 TTATATTTATATTTAT-A
1 TTATATTT-TATATATGA
19998542 TTATATTTTATATATGA
1 TTATATTTTATATATGA
19998559 TTATA
1 TTATA
19998564 AATTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTATATTTTATATATGA
Found at i:20003960 original size:21 final size:21
Alignment explanation
Indices: 20003926--20003986 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
20003916 TTTATACTTG
*
20003926 AATTTAATTC-AATAAAA-AT
1 AATTTTATTCTAATAAAATAT
*
20003945 AATTTTTATTCTAATAAAATTCT
1 AA-TTTTATTCTAATAAAA-TAT
20003968 AATTTTATTCTAATAAAAT
1 AATTTTATTCTAATAAAAT
20003987 TTTTATAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
19 2 0.06
20 7 0.19
21 8 0.22
22 16 0.44
23 3 0.08
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.46
Consensus pattern (21 bp):
AATTTTATTCTAATAAAATAT
Found at i:20003992 original size:17 final size:17
Alignment explanation
Indices: 20003945--20003992 Score: 51
Period size: 22 Copynumber: 2.5 Consensus size: 17
20003935 CAATAAAAAT
20003945 AATTTTTATTCTAATAA
1 AATTTTTATTCTAATAA
20003962 AATTCTAATTTTATTCTAATAA
1 AA---T--TTTTATTCTAATAA
20003984 AATTTTTAT
1 AATTTTTAT
20003993 AATTTATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
17 8 0.31
19 1 0.04
20 1 0.04
22 16 0.62
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (17 bp):
AATTTTTATTCTAATAA
Found at i:20011124 original size:2 final size:2
Alignment explanation
Indices: 20011117--20011144 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
20011107 TGATTCGAAC
20011117 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
20011145 AATTAGATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20022052 original size:20 final size:20
Alignment explanation
Indices: 20022027--20022075 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
20022017 CATAACTTCG
20022027 TATAAAATA-TAATATAAATA
1 TATAAAATATTAATAT-AATA
* **
20022047 TATAAATTATTAATATTTTA
1 TATAAAATATTAATATAATA
20022067 TATAAAATA
1 TATAAAATA
20022076 AATGTACGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TATAAAATATTAATATAATA
Found at i:20028215 original size:10 final size:10
Alignment explanation
Indices: 20028191--20028220 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
20028181 AATTTTATCA
20028191 ATTAAAATA-
1 ATTAAAATAT
20028200 ATTAAAATAT
1 ATTAAAATAT
20028210 ATTAAAATAT
1 ATTAAAATAT
20028220 A
1 A
20028221 AAAATTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:20029133 original size:12 final size:12
Alignment explanation
Indices: 20029116--20029167 Score: 72
Period size: 12 Copynumber: 4.3 Consensus size: 12
20029106 ATATTATTTT
20029116 TTTAATTTTATA
1 TTTAATTTTATA
20029128 TTTAATTTTATA
1 TTTAATTTTATA
20029140 TATT--TTTATATA
1 T-TTAATTT-TATA
20029152 TTTAATTTTATA
1 TTTAATTTTATA
20029164 TTTA
1 TTTA
20029168 TATTAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
11 5 0.14
12 26 0.72
13 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTAATTTTATA
Found at i:20029160 original size:36 final size:35
Alignment explanation
Indices: 20029099--20029167 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
20029089 CTTAATTTGA
* *
20029099 TTTATATATATTATTTTTTTAATTTTATATTTAAT
1 TTTATATATATTATATATTTAATTTTATATTTAAT
*
20029134 TTTATATATTTTTATATATTTAATTTTATATTTA
1 TTTATATA-TATTATATATTTAATTTTATATTTA
20029168 TATTAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 8 0.27
36 22 0.73
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (35 bp):
TTTATATATATTATATATTTAATTTTATATTTAAT
Found at i:20029168 original size:30 final size:30
Alignment explanation
Indices: 20029098--20029170 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
20029088 ACTTAATTTG
* * *
20029098 ATTTATATATAT-TATTTTTTTAATTTTAT
1 ATTTATATTTATATATTTTTATAATTTAAT
20029127 ATTTA-ATTTTATATATTTTTATATATTTAAT
1 ATTTATA-TTTATATATTTTTATA-ATTTAAT
20029158 -TTTATATTTATAT
1 ATTTATATTTATAT
20029171 TAAAAATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
28 1 0.03
29 9 0.24
30 20 0.54
31 7 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (30 bp):
ATTTATATTTATATATTTTTATAATTTAAT
Found at i:20029182 original size:18 final size:18
Alignment explanation
Indices: 20029161--20029211 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 18
20029151 ATTTAATTTT
20029161 ATATTTATATTAAAAATA
1 ATATTTATATTAAAAATA
20029179 ATATTTTATATTTAAAAAATA
1 ATA-TTTATA-TT-AAAAATA
20029200 ATATTT-TATTAA
1 ATATTTATATTAA
20029212 TTTCGAGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.07
18 5 0.17
19 8 0.27
20 5 0.17
21 10 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTTATATTAAAAATA
Found at i:20029188 original size:25 final size:21
Alignment explanation
Indices: 20029164--20029208 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
20029154 TAATTTTATA
20029164 TTTATA-TT-AAAAATAATAT
1 TTTATATTTAAAAAATAATAT
20029183 TTTATATTTAAAAAATAATAT
1 TTTATATTTAAAAAATAATAT
20029204 TTTAT
1 TTTAT
20029209 TAATTTCGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 16 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTATATTTAAAAAATAATAT
Found at i:20029608 original size:11 final size:12
Alignment explanation
Indices: 20029592--20029657 Score: 55
Period size: 12 Copynumber: 5.3 Consensus size: 12
20029582 TATATATATA
20029592 AATTATTT-TTT
1 AATTATTTATTT
20029603 AATTATTTATTT
1 AATTATTTATTT
*
20029615 AATT-TTATATAT
1 AATTATT-TATTT
*
20029627 ATTTATATATATTT
1 AATTAT-T-TATTT
*
20029641 TATATATTTATTT
1 AAT-TATTTATTT
20029654 AATT
1 AATT
20029658 TTGTATTTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
11 10 0.23
12 15 0.34
13 8 0.18
14 8 0.18
15 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
AATTATTTATTT
Found at i:20029631 original size:10 final size:10
Alignment explanation
Indices: 20029618--20029651 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
20029608 TTTATTTAAT
20029618 TTTATATATA
1 TTTATATATA
20029628 TTTATATATA
1 TTTATATATA
20029638 TTT-TATATA
1 TTTATATATA
20029647 TTTAT
1 TTTAT
20029652 TTAATTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTATATATA
Found at i:20029682 original size:18 final size:17
Alignment explanation
Indices: 20029661--20029710 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 17
20029651 TTTAATTTTG
20029661 TATTTGTATTAAAAATAA
1 TATTT-TATTAAAAATAA
20029679 TATTTTATATTTAAAAAATAA
1 TA-TTT-TA-TT-AAAAATAA
20029700 TATTTTATTAA
1 TATTTTATTAA
20029711 TTTTAGATCG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 2 0.07
18 4 0.14
19 7 0.25
20 5 0.18
21 10 0.36
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
TATTTTATTAAAAATAA
Found at i:20029694 original size:19 final size:20
Alignment explanation
Indices: 20029667--20029707 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
20029657 TTTGTATTTG
20029667 TATT-AAAAATAATATTTTA
1 TATTAAAAAATAATATTTTA
20029686 TATTTAAAAAATAATATTTTA
1 TA-TTAAAAAATAATATTTTA
20029707 T
1 T
20029708 TAATTTTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 2 0.10
20 2 0.10
21 16 0.80
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTAAAAAATAATATTTTA
Found at i:20030974 original size:18 final size:18
Alignment explanation
Indices: 20030948--20030982 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20030938 AAGGTCATAT
20030948 ATTAGAAATAAATAAAAA
1 ATTAGAAATAAATAAAAA
* *
20030966 ATTATAAATATATAAAA
1 ATTAGAAATAAATAAAA
20030983 TTTAAATATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
ATTAGAAATAAATAAAAA
Found at i:20030996 original size:13 final size:13
Alignment explanation
Indices: 20030956--20031005 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
20030946 ATATTAGAAA
*
20030956 TAAATAAAAAATT
1 TAAATATAAAATT
20030969 ATAAATATATAAAATT
1 -T-AA-ATATAAAATT
*
20030985 TAAATATCAAATT
1 TAAATATAAAATT
20030998 TAAATATA
1 TAAATATA
20031006 TCGTGAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 16 0.52
14 3 0.10
15 3 0.10
16 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAATATAAAATT
Found at i:20031007 original size:15 final size:15
Alignment explanation
Indices: 20030964--20031007 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 15
20030954 AATAAATAAA
*
20030964 AAATTATAAATATATA
1 AAATT-TAAATATATC
20030980 AAATTT-AA-ATATC
1 AAATTTAAATATATC
20030993 AAATTTAAATATATC
1 AAATTTAAATATATC
20031008 GTGAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 10 0.40
14 4 0.16
15 6 0.24
16 5 0.20
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATTTAAATATATC
Found at i:20031323 original size:21 final size:21
Alignment explanation
Indices: 20031290--20031331 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
20031280 TTTAATATAT
20031290 TTAAATATATTT-ATATATAAA
1 TTAAATATATTTAAT-TATAAA
* *
20031311 TTAATTATTTTTAATTATAAA
1 TTAAATATATTTAATTATAAA
20031332 AATTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAAATATATTTAATTATAAA
Found at i:20039296 original size:2 final size:2
Alignment explanation
Indices: 20039289--20039319 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
20039279 TAATCTCTAC
20039289 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20039320 AAGGTGCAAT
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20042912 original size:23 final size:23
Alignment explanation
Indices: 20042882--20042927 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
20042872 AAACAAATCA
20042882 ATACATTGTGGTTTGTTACACTT
1 ATACATTGTGGTTTGTTACACTT
20042905 ATACATTGTGGTTTGTTACACTT
1 ATACATTGTGGTTTGTTACACTT
20042928 TGTTTTGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (23 bp):
ATACATTGTGGTTTGTTACACTT
Found at i:20053878 original size:19 final size:20
Alignment explanation
Indices: 20053856--20053903 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
20053846 TATTTTCCTT
20053856 TGTATTTTTTTATTTTTAA-
1 TGTATTTTTTTATTTTTAAG
*
20053875 TGTATTTGTTTATTTTTAAG
1 TGTATTTTTTTATTTTTAAG
*
20053895 AGTATTTTT
1 TGTATTTTT
20053904 ACATGAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (20 bp):
TGTATTTTTTTATTTTTAAG
Found at i:20053944 original size:13 final size:14
Alignment explanation
Indices: 20053928--20053960 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
20053918 AAAATAATAT
20053928 AAAAAA-ATTTTAA
1 AAAAAATATTTTAA
20053941 AAAAAATATTTTAA
1 AAAAAATATTTTAA
20053955 AGAAAA
1 A-AAAA
20053961 GGTTGAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 8 0.44
15 4 0.22
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
AAAAAATATTTTAA
Found at i:20054026 original size:60 final size:59
Alignment explanation
Indices: 20053930--20054216 Score: 335
Period size: 60 Copynumber: 4.8 Consensus size: 59
20053920 AATAATATAA
* * * *
20053930 AAAAATTTTAAAAAAAATATTTTAAAGAAAAGGTTGAAAGTATCAATTTTTATTGAAAAT
1 AAAAATTTTAAAAAATAT-TTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
* * *
20053990 AAAAATTTCTAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAAAATTT-TAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
* * * ***
20054050 AAAATTTTTAAAAGATATTTTTT-AGAAAAAGTTGAAAGTATCAATTTTTTTTTTTAAT
1 AAAAATTTTAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
* * * * *
20054108 AAAAATTTCTAAAAAATATTTTTTGAGTAAAAGCTGAAAGTCTCAATTTTTCTTAAAAAT
1 AAAAATTT-TAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
** * *
20054168 -AAAATTTTTGAAAATATTCTTTAAGAAAAAGTTAAAAGTATCAATTTTT
1 AAAAATTTTAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTT
20054217 TTTATATAAA
Statistics
Matches: 192, Mismatches: 32, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
58 70 0.36
59 35 0.18
60 78 0.41
61 9 0.05
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (59 bp):
AAAAATTTTAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
Found at i:20054217 original size:118 final size:117
Alignment explanation
Indices: 20053942--20054219 Score: 412
Period size: 118 Copynumber: 2.4 Consensus size: 117
20053932 AAATTTTAAA
* * *
20053942 AAAAATATTTTAAAGAAAAGGTTGAAAGTATCAATTTTTATTGAAAATAAAAATTTCTAAAAAAT
1 AAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTTTTGAAAATAAAAATTTCTAAAAAAT
* *
20054007 ATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTT
66 ATTTTTTGAGGAAAAGCTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTT
* ***
20054059 AAAAGATATTTTTTAGAAAAAGTTGAAAGTATCAATTTTTTTTTTTAATAAAAATTTCTAAAAAA
1 AAAA-ATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTTTTGAAAATAAAAATTTCTAAAAAA
* * *
20054124 TATTTTTTGAGTAAAAGCTGAAAGTCTCAATTTTTCTTAAAAATAAAATTTTT
65 TATTTTTTGAGGAAAAGCTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTT
* *
20054177 GAAAATATTCTTTAAGAAAAAGTTAAAAGTATCAATTTTTTTT
1 AAAAATATT-TTTAAGAAAAAGTTGAAAGTATCAATTTTTTTT
20054220 ATATAAAAGC
Statistics
Matches: 144, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
117 9 0.06
118 135 0.94
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.41
Consensus pattern (117 bp):
AAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTTTTGAAAATAAAAATTTCTAAAAAAT
ATTTTTTGAGGAAAAGCTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTT
Found at i:20054226 original size:23 final size:23
Alignment explanation
Indices: 20054200--20054250 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
20054190 AAGAAAAAGT
*
20054200 TAAAAGTATCAAT-TTTTTTTATA
1 TAAAAGCATCAATGTTTTTTT-TA
* *
20054223 TAAAAGCATGAGTGTTTTTTTTA
1 TAAAAGCATCAATGTTTTTTTTA
20054246 TAAAA
1 TAAAA
20054251 CAAAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (23 bp):
TAAAAGCATCAATGTTTTTTTTA
Found at i:20055378 original size:93 final size:93
Alignment explanation
Indices: 20055217--20055392 Score: 244
Period size: 93 Copynumber: 1.9 Consensus size: 93
20055207 AATTTGTGAC
* * * ** * *
20055217 CTAACTATTTTGTTTGTTTTATTTTGTGCATTTGCTTACATCATTTTCATAAGTAACATCGTGTA
1 CTAACTATTTTGTTTGTTTGACTTTATGCATTTGCACACATCATTATCATAAGTAACATCGTGCA
*
20055282 TCTGCATTACTTTCATTTCATCTATTAT
66 TCTGCATCACTTTCATTTCATCTATTAT
**
20055310 CTAACTATTTTGTTTGTTTGACTTTATGCATTTGCACACATCATTATCATATTTAACATCGTGCA
1 CTAACTATTTTGTTTGTTTGACTTTATGCATTTGCACACATCATTATCATAAGTAACATCGTGCA
* *
20055375 TCTGTATCAGTTTCATTT
66 TCTGCATCACTTTCATTT
20055393 TTAAGGAAAG
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.49
Consensus pattern (93 bp):
CTAACTATTTTGTTTGTTTGACTTTATGCATTTGCACACATCATTATCATAAGTAACATCGTGCA
TCTGCATCACTTTCATTTCATCTATTAT
Found at i:20055457 original size:60 final size:58
Alignment explanation
Indices: 20055390--20055543 Score: 209
Period size: 60 Copynumber: 2.6 Consensus size: 58
20055380 ATCAGTTTCA
* * *
20055390 TTTTTAAGGAAAGGTTGAAACTATCAATTTTTTTTGAAAATAAAAATTTTTAAAAAATAT
1 TTTTTAAGGAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAAATTTTT-AAAAA-AT
* * *
20055450 TTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTTTTAAAAAT
1 TTTTTAAGGAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAAATTTTTAAAAAAT
** *
20055508 GCTTTAAGAAAAAGTTGAAAATATCAATTTTTCTTG
1 TTTTTAAGGAAAAGTTGAAAATATCAATTTTTCTTG
20055544 TATAAAAGCA
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
58 33 0.39
59 4 0.05
60 47 0.56
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (58 bp):
TTTTTAAGGAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAAATTTTTAAAAAAT
Found at i:20057674 original size:93 final size:95
Alignment explanation
Indices: 20057510--20057694 Score: 313
Period size: 93 Copynumber: 2.0 Consensus size: 95
20057500 CCTTAAAAAC
*
20057510 ATTGATGCAAAATAATGACACAATATATATAAAAAAAAAATTCTTGCAAAACAATGGTATATAAA
1 ATTGATGCAAAATAATGACACAATATATATAAAAAAAAAATTCTTCCAAAACAATGGTATATAAA
*
20057575 CATGAGATCTTTTCATTTCAATCAACATAT
66 CATGAGATCTTTTCATTTCAACCAACATAT
20057605 ATTGATGCAAAATAATGACA-AA-ATATATAAACAAAAAAA-TCTTCCAAAACAATGGTATATAA
1 ATTGATGCAAAATAATGACACAATATATATAAA-AAAAAAATTCTTCCAAAACAATGGTATATAA
*
20057667 ACTTGAGATCTTTTCATTTCAACCAACA
65 ACATGAGATCTTTTCATTTCAACCAACA
20057695 ATAGAACAAA
Statistics
Matches: 86, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
93 57 0.66
94 9 0.10
95 20 0.23
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.29
Consensus pattern (95 bp):
ATTGATGCAAAATAATGACACAATATATATAAAAAAAAAATTCTTCCAAAACAATGGTATATAAA
CATGAGATCTTTTCATTTCAACCAACATAT
Found at i:20059171 original size:30 final size:30
Alignment explanation
Indices: 20059114--20059180 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
20059104 TATATTAGGA
** *
20059114 TTTATTTAGTTACAAATTAAAATTTAAATG
1 TTTATTTAAATACAAATTAAAATTTAAAGG
20059144 TTTATTTAAATACAAATT-AAATATTAAAGG
1 TTTATTTAAATACAAATTAAAAT-TTAAAGG
*
20059174 ATTATTT
1 TTTATTT
20059181 GAATTTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (30 bp):
TTTATTTAAATACAAATTAAAATTTAAAGG
Found at i:20062071 original size:2 final size:2
Alignment explanation
Indices: 20062064--20062110 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
20062054 TGAAGTAATG
20062064 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
20062106 AT AT A
1 AT AT A
20062111 AGAAATGAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20069073 original size:5 final size:5
Alignment explanation
Indices: 20069063--20069087 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
20069053 AGGTTTATTG
20069063 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
20069088 ACTTATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:20074674 original size:21 final size:20
Alignment explanation
Indices: 20074635--20074675 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
20074625 ATTTTTTCGG
* *
20074635 CGTATTTTTCCAGATTCCGA
1 CGTATTTTTCCAAAATCCGA
20074655 CGTATTTTTTCCAAAATCCGA
1 CGTA-TTTTTCCAAAATCCGA
20074676 TGAAAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.39
Consensus pattern (20 bp):
CGTATTTTTCCAAAATCCGA
Found at i:20075203 original size:62 final size:63
Alignment explanation
Indices: 20075126--20075294 Score: 245
Period size: 62 Copynumber: 2.7 Consensus size: 63
20075116 AAACCATTTT
* *
20075126 TTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTC-CAAAAAAAAAAAA
1 TTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAGTTCTCAAAAAAAAAAAA
* * * *
20075188 TTTTTAGGGAAAAGTTAAAAGTA-CTAATTTTTCTTAAAAAT-AAAGTTCTCAAAAAAAAAATA
1 TTTTTAAGGAAAAGTTGAAAGTATC-AATTTTCCTTAAAAATAAAAGTTCTCAAAAAAAAAAAA
*
20075250 TTTTTAAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAA
1 TTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAA
20075295 AGAAAACCTT
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
61 7 0.08
62 82 0.88
63 4 0.04
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.33
Consensus pattern (63 bp):
TTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAGTTCTCAAAAAAAAAAAA
Found at i:20076003 original size:12 final size:12
Alignment explanation
Indices: 20075986--20076010 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20075976 TTTCCATTCA
20075986 TTTTATTTATGC
1 TTTTATTTATGC
20075998 TTTTATTTATGC
1 TTTTATTTATGC
20076010 T
1 T
20076011 GCAAACTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (12 bp):
TTTTATTTATGC
Found at i:20078802 original size:12 final size:12
Alignment explanation
Indices: 20078785--20078809 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20078775 TTATTTGAGT
20078785 AAAAAAAAAACA
1 AAAAAAAAAACA
20078797 AAAAAAAAAACA
1 AAAAAAAAAACA
20078809 A
1 A
20078810 GTTGCTGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAACA
Found at i:20079480 original size:8 final size:8
Alignment explanation
Indices: 20079467--20079532 Score: 61
Period size: 8 Copynumber: 8.5 Consensus size: 8
20079457 AAGGAAGGAA
20079467 AAAAAATG
1 AAAAAATG
20079475 AAAAAA--
1 AAAAAATG
20079481 AAAAAA-G
1 AAAAAATG
*
20079488 AAAAAAAG
1 AAAAAATG
20079496 AGAAAGAATG
1 A-AAA-AATG
20079506 -AAAAATG
1 AAAAAATG
20079513 AAAAAA-G
1 AAAAAATG
20079520 AGAAAAATG
1 A-AAAAATG
20079529 AAAA
1 AAAA
20079533 TGAGAGAAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
6 6 0.12
7 12 0.24
8 24 0.48
9 5 0.10
10 3 0.06
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (8 bp):
AAAAAATG
Found at i:20079503 original size:14 final size:13
Alignment explanation
Indices: 20079465--20079494 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
20079455 AGAAGGAAGG
*
20079465 AAAAAAAATGAAA
1 AAAAAAAAAGAAA
20079478 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
20079491 AAAA
1 AAAA
20079495 GAGAAAGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.90, C:0.00, G:0.07, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:20079526 original size:17 final size:17
Alignment explanation
Indices: 20079505--20079542 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
20079495 GAGAAAGAAT
20079505 GAAAAATGAAAA-AAGA
1 GAAAAATGAAAATAAGA
*
20079521 GAAAAATGAAAATGAGA
1 GAAAAATGAAAATAAGA
20079538 GAAAA
1 GAAAA
20079543 GGAATGCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.08
Consensus pattern (17 bp):
GAAAAATGAAAATAAGA
Found at i:20080209 original size:49 final size:49
Alignment explanation
Indices: 20080128--20080227 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
20080118 CCTATGAGTT
* * *
20080128 GTGCTTAAATGATATGGGGCAATGGACAAAACTTGTTCTGGAATTGTTA
1 GTGCTTAAATGATATGAGGCAATAGACAAAACTTGTTCTGAAATTGTTA
*
20080177 GTGCTTAAATGATATGAGGCAATAGACGAAACTTGTTCTGAAATTGTTA
1 GTGCTTAAATGATATGAGGCAATAGACAAAACTTGTTCTGAAATTGTTA
20080226 GT
1 GT
20080228 ACTGAGAAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (49 bp):
GTGCTTAAATGATATGAGGCAATAGACAAAACTTGTTCTGAAATTGTTA
Found at i:20080269 original size:23 final size:23
Alignment explanation
Indices: 20080243--20080286 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
20080233 GAAGCCTATG
*
20080243 AATGGTGATCAGGTGATGAAAAT
1 AATGATGATCAGGTGATGAAAAT
*
20080266 AATGATGATCAGTTGATGAAA
1 AATGATGATCAGGTGATGAAA
20080287 CTTGTTCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.27
Consensus pattern (23 bp):
AATGATGATCAGGTGATGAAAAT
Found at i:20080663 original size:21 final size:21
Alignment explanation
Indices: 20080648--20080719 Score: 108
Period size: 21 Copynumber: 3.4 Consensus size: 21
20080638 CTCAAATGCG
**
20080648 AATCTTTGAATTTCAAATAAA
1 AATCTTTGAATTTCAAACGAA
*
20080669 AATCTTTAAATTTCAAACGAA
1 AATCTTTGAATTTCAAACGAA
*
20080690 AATCTTTGAATTTCAAACGAG
1 AATCTTTGAATTTCAAACGAA
20080711 AATCTTTGA
1 AATCTTTGA
20080720 GATGTGAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.36
Consensus pattern (21 bp):
AATCTTTGAATTTCAAACGAA
Found at i:20080950 original size:31 final size:31
Alignment explanation
Indices: 20080892--20080950 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
20080882 TTGCACATCT
* *
20080892 GAAATTTTGCGAATCAAATTCTGGTGAAACA
1 GAAATTTTGAGAATCAAATTCTAGTGAAACA
*
20080923 GAAATTTTGATAATCAAATT-TCAGTGAA
1 GAAATTTTGAGAATCAAATTCT-AGTGAA
20080951 TTCTTGTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 23 0.96
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (31 bp):
GAAATTTTGAGAATCAAATTCTAGTGAAACA
Found at i:20081366 original size:42 final size:43
Alignment explanation
Indices: 20081139--20081382 Score: 293
Period size: 42 Copynumber: 5.8 Consensus size: 43
20081129 TTTTTTCTGC
* * * *
20081139 AAGTTATGGTTGCCTCTGTTTAGAGGAGCATTTTATTTTTCCA
1 AAGTTGTGGTAGCCTCTATTTAGAGGAGCATTTTATTTTTTCA
* * *
20081182 GAGTTGTGGTTGCCTCTATTTAAAGGAGCATTTTATTTTTTCA
1 AAGTTGTGGTAGCCTCTATTTAGAGGAGCATTTTATTTTTTCA
* **
20081225 AAGTTGTGGTA-CCTCTGTTTAGAGGAGCATTTTGCTTTTTCA
1 AAGTTGTGGTAGCCTCTATTTAGAGGAGCATTTTATTTTTTCA
*
20081267 AAGTTGTGGTA-CCTCTGTTTAGAGGAGCATTTTATTTTTTCCA
1 AAGTTGTGGTAGCCTCTATTTAGAGGAGCATTTTATTTTTT-CA
*
20081310 AAGTTTTGGT-GCCTCTATTTAGAGGAAG-ATTTTATTTTTTCA
1 AAGTTGTGGTAGCCTCTATTTAGAGG-AGCATTTTATTTTTTCA
** *
20081352 AAGTCATTG-AGCCTCTATTTAGAGGAG-ATTT
1 AAGTTGTGGTAGCCTCTATTTAGAGGAGCATTT
20081383 GTTACTTTTT
Statistics
Matches: 179, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
41 6 0.03
42 88 0.49
43 83 0.46
44 2 0.01
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.44
Consensus pattern (43 bp):
AAGTTGTGGTAGCCTCTATTTAGAGGAGCATTTTATTTTTTCA
Found at i:20081367 original size:85 final size:86
Alignment explanation
Indices: 20081139--20081397 Score: 312
Period size: 85 Copynumber: 3.0 Consensus size: 86
20081129 TTTTTTCTGC
* * *
20081139 AAGTTATGGTTGCCTCTGTTTAGAGGAGCATTTTATTTTTCCAGAGTTGTGGTTGCCTCTATTTA
1 AAGTTATGG-TGCCTCTGTTTAGAGGAGCATTTTATTTTTTCAAAGTTGTGGTAGCCTCTATTTA
*
20081204 AAGGAGCATTTTATTTTTT-CA
65 GAGGAGCATTTTATTTTTTCCA
* * ** *
20081225 AAGTTGTGGTACCTCTGTTTAGAGGAGCATTTTGCTTTTTCAAAGTTGTGGTA-CCTCTGTTTAG
1 AAGTTATGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTTCAAAGTTGTGGTAGCCTCTATTTAG
20081289 AGGAGCATTTTATTTTTTCCA
66 AGGAGCATTTTATTTTTTCCA
* * ** *
20081310 AAGTTTTGGTGCCTCTATTTAGAGGAAG-ATTTTATTTTTTCAAAGTCATTG-AGCCTCTATTTA
1 AAGTTATGGTGCCTCTGTTTAGAGG-AGCATTTTATTTTTTCAAAGTTGTGGTAGCCTCTATTTA
*
20081373 GAGGAG-ATTTGTTACTTTTTCCA
65 GAGGAGCA-TT-TTATTTTTTCCA
20081396 AA
1 AA
20081398 AACAAAAAAT
Statistics
Matches: 149, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
84 29 0.19
85 97 0.65
86 23 0.15
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.44
Consensus pattern (86 bp):
AAGTTATGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTTCAAAGTTGTGGTAGCCTCTATTTAG
AGGAGCATTTTATTTTTTCCA
Found at i:20082417 original size:14 final size:14
Alignment explanation
Indices: 20082383--20082423 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
20082373 AAATTGAAAA
*
20082383 TAAAAAATAACAATT
1 TAAAAAA-AAAAATT
20082398 TCAAAAAAAAAAATT
1 T-AAAAAAAAAAATT
20082413 TAAAAAAAAAA
1 TAAAAAAAAAA
20082424 TTGAAAGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 10 0.42
15 8 0.33
16 6 0.25
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAAAAAAAAAATT
Found at i:20082419 original size:13 final size:13
Alignment explanation
Indices: 20082401--20082425 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20082391 AACAATTTCA
20082401 AAAAAAAAAATTT
1 AAAAAAAAAATTT
20082414 AAAAAAAAAATT
1 AAAAAAAAAATT
20082426 GAAAGTACTA
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAAAAAAATTT
Found at i:20082460 original size:60 final size:60
Alignment explanation
Indices: 20082385--20082577 Score: 228
Period size: 60 Copynumber: 3.2 Consensus size: 60
20082375 ATTGAAAATA
* *
20082385 AAAAATAACAA-TTTCAAAAAAAAAAATTTAAAAAAAAAATTGAAAGTACTAATTTTCCTT
1 AAAAATAA-AATTTTCAAAAAAAAAAATTTTAAAAAAAAGTTGAAAGTACTAATTTTCCTT
* * ** * *
20082445 GAAAATAAAATTTTCAAAAAAAAATATTTTGGAGAAAAGTTGGAAGTACTAATTTTCCTT
1 AAAAATAAAATTTTCAAAAAAAAAAATTTTAAAAAAAAGTTGAAAGTACTAATTTTCCTT
** *
20082505 AAAAATAAAATTCTAAAAAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTA-TCAATTTTCCTT
1 AAAAATAAAATT-TTCAAAAAAAAAA-A-TTTTAAAAAAAAGTTGAAAGTACT-AATTTTCCTT
20082568 AAAAATAAAA
1 AAAAATAAAA
20082578 AGAAAACCTT
Statistics
Matches: 111, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
59 2 0.02
60 60 0.54
61 10 0.09
62 2 0.02
63 37 0.33
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (60 bp):
AAAAATAAAATTTTCAAAAAAAAAAATTTTAAAAAAAAGTTGAAAGTACTAATTTTCCTT
Found at i:20085794 original size:13 final size:13
Alignment explanation
Indices: 20085776--20085801 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20085766 AGATTTATTG
20085776 TAAAATAAAATAA
1 TAAAATAAAATAA
20085789 TAAAATAAAATAA
1 TAAAATAAAATAA
20085802 AAACTTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
TAAAATAAAATAA
Found at i:20090949 original size:16 final size:17
Alignment explanation
Indices: 20090928--20090960 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
20090918 TTATTTAATA
20090928 TTAT-AATTAAAATTTT
1 TTATAAATTAAAATTTT
20090944 TTATAAAATTAAAATTT
1 TTAT-AAATTAAAATTT
20090961 CATGATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
18 11 0.73
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTATAAATTAAAATTTT
Found at i:20091023 original size:24 final size:25
Alignment explanation
Indices: 20090996--20091042 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
20090986 AAAAAGTCAT
*
20090996 AAAATAAAAT-TTTAAAATATAAAA
1 AAAATAAAATGTTAAAAATATAAAA
* *
20091020 AAAATTAGATGTTAAAAATATAA
1 AAAATAAAATGTTAAAAATATAA
20091043 TTTTGATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (25 bp):
AAAATAAAATGTTAAAAATATAAAA
Found at i:20091614 original size:17 final size:17
Alignment explanation
Indices: 20091580--20091631 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
20091570 GCTCGTCCTT
20091580 TTTTTTTAATTTCAATTTAA
1 TTTTTTTAA--TC-ATTTAA
*
20091600 TTTTTTTAATCATTTAT
1 TTTTTTTAATCATTTAA
20091617 TATTTTTTAAT-ATTT
1 T-TTTTTTAATCATTT
20091632 TAAAATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 10 0.33
18 11 0.37
20 9 0.30
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTTTAATCATTTAA
Found at i:20092225 original size:22 final size:24
Alignment explanation
Indices: 20092200--20092247 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
20092190 TTTTTTTACT
20092200 TTATT-AAA-TTTAAAT-ATAATAA
1 TTATTAAAATTTTAAATCAT-ATAA
20092222 TTATTAAAATTTTAAATCATATAA
1 TTATTAAAATTTTAAATCATATAA
20092246 TT
1 TT
20092248 TTTGTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.22
23 3 0.13
24 13 0.57
25 2 0.09
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TTATTAAAATTTTAAATCATATAA
Found at i:20092272 original size:5 final size:5
Alignment explanation
Indices: 20092256--20092305 Score: 68
Period size: 5 Copynumber: 10.0 Consensus size: 5
20092246 TTTTTGTATT
20092256 TTATA TTTATA TTATA TTTATA TTATA -T-TA TTATA TTATA TTATA TTATA
1 TTATA -TTATA TTATA -TTATA TTATA TTATA TTATA TTATA TTATA TTATA
20092306 AATTTGATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 27 0.66
6 10 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:20092272 original size:11 final size:11
Alignment explanation
Indices: 20092256--20092305 Score: 75
Period size: 11 Copynumber: 4.5 Consensus size: 11
20092246 TTTTTGTATT
20092256 TTATATTTATA
1 TTATATTTATA
20092267 TTATATTTATA
1 TTATATTTATA
20092278 TTATATTATTATA
1 TTATA-T-TTATA
20092291 TTATA-TTATA
1 TTATATTTATA
20092301 TTATA
1 TTATA
20092306 AATTTGATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.27
11 16 0.43
12 1 0.03
13 10 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATATTTATA
Found at i:20092291 original size:13 final size:13
Alignment explanation
Indices: 20092262--20092299 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
20092252 TATTTTATAT
20092262 TTATATTATA-T-
1 TTATATTATATTA
20092273 TTATATTATATTA
1 TTATATTATATTA
20092286 TTATATTATATTA
1 TTATATTATATTA
20092299 T
1 T
20092300 ATTATAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 10 0.40
12 1 0.04
13 14 0.56
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATATTATATTA
Done.