Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 260 of 279
Found at i:84783182 original size:16 final size:17
Alignment explanation
Indices: 84783156--84783188 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
84783146 AGATTAGCCC
84783156 TTTCTTTTTTCTTTTTT
1 TTTCTTTTTTCTTTTTT
84783173 TTTC-TTTTTCTTTTTT
1 TTTCTTTTTTCTTTTTT
84783189 GTAACTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTCTTTTTTCTTTTTT
Found at i:84786659 original size:46 final size:46
Alignment explanation
Indices: 84786595--84787040 Score: 622
Period size: 46 Copynumber: 10.3 Consensus size: 46
84786585 TGACAAGTGG
* ** * *
84786595 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
*
84786641 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
84786687 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
84786733 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
84786779 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
84786825 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
84786871 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
*
84786917 AAAGTGATAA--G-T-G-----GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
*
84786954 AAAGTGATAA--G-T-G-----GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
*
84786991 AAAGTGATAA--G-T-G-----GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
84787028 AAAGTGATAAGTG
1 AAAGTGATAAGTG
84787041 GCTACACTTA
Statistics
Matches: 390, Mismatches: 8, Indels: 11
0.95 0.02 0.03
Matches are distributed among these distances:
37 107 0.27
39 1 0.00
42 1 0.00
43 1 0.00
44 1 0.00
46 279 0.72
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
Found at i:84786810 original size:138 final size:137
Alignment explanation
Indices: 84786529--84787073 Score: 663
Period size: 138 Copynumber: 4.2 Consensus size: 137
84786519 TTTGAGTACT
* ** *
84786529 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC-----
* ** * *
84786594 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
61 -AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT-GTAGC
84786659 TTTAGCTACACTTA
124 TTTAGCTACACTTA
84786673 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
84786738 GATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGC
66 GATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG-TAGCTTTAGC
84786803 TACACTTA
130 TACACTTA
84786811 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
84786876 GATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAA--GT-G-----GCT
66 GATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGTAGCTTTAGCT
84786933 ACACTTA
131 ACACTTA
* *
84786940 TCTGATCAAGAAACAAAGTGATAA--G-T-G-----GCTACACTTATCTGATCAAGAAACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
*
84786996 GATAA--G-T-G-----GCTACACTTATCTGATCAAGAAACAAAGTGATAA--GT-G-----GCT
66 GATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGTAGCTTTAGCT
84787044 ACACTTA
131 ACACTTA
*
84787051 TCTGATCAAGAAACAAAGTGATA
1 TCTGATCAAGAGACAAAGTGATA
84787074 GGTGGCTACA
Statistics
Matches: 388, Mismatches: 12, Indels: 35
0.89 0.03 0.08
Matches are distributed among these distances:
111 69 0.18
116 1 0.00
117 1 0.00
118 1 0.00
120 33 0.09
125 1 0.00
126 1 0.00
127 1 0.00
129 33 0.09
134 1 0.00
135 1 0.00
136 1 0.00
137 1 0.00
138 187 0.48
144 56 0.14
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.27
Consensus pattern (137 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
GATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGTAGCTTTAGCT
ACACTTA
Found at i:84786937 original size:37 final size:37
Alignment explanation
Indices: 84786893--84787112 Score: 390
Period size: 37 Copynumber: 6.0 Consensus size: 37
84786883 GATAGCTTTA
*
84786893 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
84786930 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
84786967 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
84787004 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
84787041 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
84787078 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
84787113 ATCATACGTA
Statistics
Matches: 178, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
35 11 0.06
36 4 0.02
37 163 0.92
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:84789228 original size:46 final size:45
Alignment explanation
Indices: 84789161--84789358 Score: 247
Period size: 46 Copynumber: 4.6 Consensus size: 45
84789151 TTTGAGTACT
* *
84789161 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
84789207 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
84789243 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
84789289 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
84789334 TCTGATCAAG-G-ACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
84789359 ATCATACGTA
Statistics
Matches: 136, Mismatches: 6, Indels: 23
0.82 0.04 0.14
Matches are distributed among these distances:
36 28 0.21
38 1 0.01
39 2 0.01
40 3 0.02
41 1 0.01
42 4 0.03
43 14 0.10
44 2 0.01
45 23 0.17
46 58 0.43
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:84789243 original size:36 final size:36
Alignment explanation
Indices: 84789197--84789269 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
84789187 GGTAGCTTTA
84789197 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
84789233 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
84789269 G
1 G
84789270 GTAGCCTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:84789264 original size:82 final size:82
Alignment explanation
Indices: 84789161--84789315 Score: 274
Period size: 82 Copynumber: 1.9 Consensus size: 82
84789151 TTTGAGTACT
* *
84789161 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGT
84789226 GATAAGTGCTATACTTA
66 GATAAGTGCTATACTTA
* *
84789243 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGT
84789308 GATAAGTG
66 GATAAGTG
84789316 GTAGCCTAGC
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 69 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTATACTTA
Found at i:84791097 original size:28 final size:28
Alignment explanation
Indices: 84791049--84791124 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 28
84791039 GAGTTTTAAT
*
84791049 GAAATTGTCAATTATGGGTTAAAT-TGA
1 GAAATTGTAAATTATGGGTTAAATGTGA
* *
84791076 GAAATGTGTAAATTGTGTGTTAAATGTGA
1 GAAAT-TGTAAATTATGGGTTAAATGTGA
84791105 GAAATTGTGAAATGTATGGG
1 GAAATTGT-AAAT-TATGGG
84791125 CTGATATGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 5 0.12
28 19 0.47
29 12 0.30
30 4 0.10
ACGTcount: A:0.36, C:0.01, G:0.28, T:0.36
Consensus pattern (28 bp):
GAAATTGTAAATTATGGGTTAAATGTGA
Found at i:84793355 original size:20 final size:21
Alignment explanation
Indices: 84793330--84793368 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
84793320 AAATATATGT
84793330 TTATTTAATTTC-ATTTTTAA
1 TTATTTAATTTCTATTTTTAA
84793350 TTATTTAATTTCTATTTTT
1 TTATTTAATTTCTATTTTT
84793369 TATTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (21 bp):
TTATTTAATTTCTATTTTTAA
Found at i:84794198 original size:44 final size:44
Alignment explanation
Indices: 84794125--84794213 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
84794115 ATATTTCGAT
* *
84794125 TATCTATTTGACACATGCATATAAGATGATCTATCAAAATCATG
1 TATCAATTTAACACATGCATATAAGATGATCTATCAAAATCATG
84794169 TATCAATTTAACACATGCATATAAGATGATCTATCAAAATCATG
1 TATCAATTTAACACATGCATATAAGATGATCTATCAAAATCATG
84794213 T
1 T
84794214 GAACATCAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (44 bp):
TATCAATTTAACACATGCATATAAGATGATCTATCAAAATCATG
Found at i:84810440 original size:9 final size:9
Alignment explanation
Indices: 84810426--84810501 Score: 116
Period size: 9 Copynumber: 8.4 Consensus size: 9
84810416 TTTGGTTAAA
84810426 AATTAACCG
1 AATTAACCG
84810435 AATTAACCG
1 AATTAACCG
*
84810444 AATTACCCG
1 AATTAACCG
84810453 AATTAACCG
1 AATTAACCG
* *
84810462 GATTAGCCG
1 AATTAACCG
84810471 AATTAACCG
1 AATTAACCG
*
84810480 AATTACCCG
1 AATTAACCG
84810489 AATTAACCG
1 AATTAACCG
84810498 AATT
1 AATT
84810502 GAATCACTAC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:84810476 original size:36 final size:36
Alignment explanation
Indices: 84810427--84810497 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
84810417 TTGGTTAAAA
84810427 ATTAACCGAATTAACCGAATTACCCGAATTAACCGG
1 ATTAACCGAATTAACCGAATTACCCGAATTAACCGG
*
84810463 ATTAGCCGAATTAACCGAATTACCCGAATTAACCG
1 ATTAACCGAATTAACCGAATTACCCGAATTAACCG
84810498 AATTGAATCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.23
Consensus pattern (36 bp):
ATTAACCGAATTAACCGAATTACCCGAATTAACCGG
Found at i:84810644 original size:18 final size:18
Alignment explanation
Indices: 84810608--84810647 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
84810598 TTTATGATTA
**
84810608 GGTTGGGTTGGGTAATTG
1 GGTTGGGTTGAATAATTG
*
84810626 GGTTGGGTTGAATACTTG
1 GGTTGGGTTGAATAATTG
84810644 GGTT
1 GGTT
84810648 TGGATTGGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.12, C:0.03, G:0.45, T:0.40
Consensus pattern (18 bp):
GGTTGGGTTGAATAATTG
Found at i:84811698 original size:11 final size:11
Alignment explanation
Indices: 84811682--84811708 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
84811672 AACTTTTCAA
84811682 AAAATACTACT
1 AAAATACTACT
84811693 AAAATACTACT
1 AAAATACTACT
84811704 AAAAT
1 AAAAT
84811709 GTTAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAATACTACT
Found at i:84811773 original size:6 final size:7
Alignment explanation
Indices: 84811756--84811781 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
84811746 TGCCAACTTT
84811756 TTTTTAA
1 TTTTTAA
84811763 TTTTTAA
1 TTTTTAA
84811770 TTTTTAA
1 TTTTTAA
84811777 TTTTT
1 TTTTT
84811782 TGAATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:84815804 original size:15 final size:15
Alignment explanation
Indices: 84815786--84815967 Score: 118
Period size: 15 Copynumber: 12.3 Consensus size: 15
84815776 CACTTATAAA
*
84815786 GTTCCCACATACAGG
1 GTTCGCACATACAGG
* * *
84815801 GTTCACACCTATAGG
1 GTTCGCACATACAGG
* *
84815816 GTTCGTACATA-TGG
1 GTTCGCACATACAGG
*
84815830 GTTCGCACCTACAGG
1 GTTCGCACATACAGG
* *
84815845 GTTCGTACATA-TGG
1 GTTCGCACATACAGG
* *
84815859 GTTCGCACCTACAAG
1 GTTCGCACATACAGG
* * *
84815874 ATTCGCGCATA-TGG
1 GTTCGCACATACAGG
**
84815888 GTTCGCACATGTAGG
1 GTTCGCACATACAGG
* * *
84815903 GTTCGCACCTATAGT
1 GTTCGCACATACAGG
** *
84815918 GTTCGCACATGTAGA
1 GTTCGCACATACAGG
**
84815933 GTTCGCACATGTAGG
1 GTTCGCACATACAGG
*
84815948 GTTCGCATATACAGG
1 GTTCGCACATACAGG
84815963 GTTCG
1 GTTCG
84815968 TGTATATAGG
Statistics
Matches: 128, Mismatches: 36, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
14 31 0.24
15 97 0.76
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (15 bp):
GTTCGCACATACAGG
Found at i:84815833 original size:14 final size:14
Alignment explanation
Indices: 84815814--84815863 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
84815804 CACACCTATA
84815814 GGGTTCGTACATAT
1 GGGTTCGTACATAT
* * *
84815828 GGGTTCGCACCTACA
1 GGGTTCGTACATA-T
84815843 GGGTTCGTACATAT
1 GGGTTCGTACATAT
84815857 GGGTTCG
1 GGGTTCG
84815864 CACCTACAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.30
Consensus pattern (14 bp):
GGGTTCGTACATAT
Found at i:84815868 original size:58 final size:59
Alignment explanation
Indices: 84815792--84815978 Score: 178
Period size: 58 Copynumber: 3.2 Consensus size: 59
84815782 TAAAGTTCCC
* * * *
84815792 ACATACAGGGTTCACACCTATAGGGTTCGTACATATGGGTTCGCACCTACAGGGTTCGT
1 ACATATAGGGTTCGCACCTATAGGGTTCGCACATATGGGTTCGCACATACAGGGTTCGT
* * * * ** *
84815851 ACATAT-GGGTTCGCACCTACAAGATTCGCGCATATGGGTTCGCACATGTAGGGTTCGC
1 ACATATAGGGTTCGCACCTATAGGGTTCGCACATATGGGTTCGCACATACAGGGTTCGT
* * * * * * *
84815909 ACCTATAGTGTTCGCACATGTAGAGTTCGCACATGTAGGGTTCGCATATACAGGGTTCGT
1 ACATATAGGGTTCGCACCTATAGGGTTCGCACATAT-GGGTTCGCACATACAGGGTTCGT
**
84815969 GTATATAGGG
1 ACATATAGGG
84815979 ATTGCATATT
Statistics
Matches: 97, Mismatches: 29, Indels: 3
0.75 0.22 0.02
Matches are distributed among these distances:
58 47 0.48
59 25 0.26
60 25 0.26
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (59 bp):
ACATATAGGGTTCGCACCTATAGGGTTCGCACATATGGGTTCGCACATACAGGGTTCGT
Found at i:84815924 original size:30 final size:30
Alignment explanation
Indices: 84815769--84815954 Score: 128
Period size: 29 Copynumber: 6.3 Consensus size: 30
84815759 TTCACACGAG
* * * * *
84815769 GGGTTCGCACTTATAAAGTTCCCACATACA
1 GGGTTCGCACATGTAGAGTTCGCACATATA
* * * * *
84815799 GGGTTCACACCTATAGGGTTCGTACATAT-
1 GGGTTCGCACATGTAGAGTTCGCACATATA
* ** * *
84815828 GGGTTCGCACCTACAGGGTTCGTACATAT-
1 GGGTTCGCACATGTAGAGTTCGCACATATA
* ** *
84815857 GGGTTCGCACCTACA-AGATTCGCGCATAT-
1 GGGTTCGCACATGTAGAG-TTCGCACATATA
* *
84815886 GGGTTCGCACATGTAGGGTTCGCACCTATA
1 GGGTTCGCACATGTAGAGTTCGCACATATA
* *
84815916 GTGTTCGCACATGTAGAGTTCGCACATGTA
1 GGGTTCGCACATGTAGAGTTCGCACATATA
84815946 GGGTTCGCA
1 GGGTTCGCA
84815955 TATACAGGGT
Statistics
Matches: 130, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
28 1 0.01
29 72 0.55
30 57 0.44
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (30 bp):
GGGTTCGCACATGTAGAGTTCGCACATATA
Found at i:84815967 original size:30 final size:29
Alignment explanation
Indices: 84815799--84815967 Score: 149
Period size: 29 Copynumber: 5.8 Consensus size: 29
84815789 CCCACATACA
* * * *
84815799 GGGTTCACACCTATAGGGTTCGTACATAT
1 GGGTTCGCACATACAGGGTTCGCACATAT
* *
84815828 GGGTTCGCACCTACAGGGTTCGTACATAT
1 GGGTTCGCACATACAGGGTTCGCACATAT
* * * *
84815857 GGGTTCGCACCTACAAGATTCGCGCATAT
1 GGGTTCGCACATACAGGGTTCGCACATAT
** *
84815886 GGGTTCGCACATGTAGGGTTCGCACCTAT
1 GGGTTCGCACATACAGGGTTCGCACATAT
* ** * *
84815915 AGTGTTCGCACATGTAGAGTTCGCACATGT
1 -GGGTTCGCACATACAGGGTTCGCACATAT
*
84815945 AGGGTTCGCATATACAGGGTTCG
1 -GGGTTCGCACATACAGGGTTCG
84815968 TGTATATAGG
Statistics
Matches: 117, Mismatches: 22, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
29 74 0.63
30 43 0.37
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (29 bp):
GGGTTCGCACATACAGGGTTCGCACATAT
Found at i:84815978 original size:15 final size:15
Alignment explanation
Indices: 84815810--84815987 Score: 76
Period size: 15 Copynumber: 12.1 Consensus size: 15
84815800 GGTTCACACC
* *
84815810 TATAGGGTTCGTACA
1 TATAGGGTTCGCATA
**
84815825 TAT-GGGTTCGCACC
1 TATAGGGTTCGCATA
* * *
84815839 TACAGGGTTCGTACA
1 TATAGGGTTCGCATA
**
84815854 TAT-GGGTTCGCACC
1 TATAGGGTTCGCATA
* * * **
84815868 TACAAGATTCGCGCA
1 TATAGGGTTCGCATA
*
84815883 TAT-GGGTTCGCACA
1 TATAGGGTTCGCATA
* **
84815897 TGTAGGGTTCGCACC
1 TATAGGGTTCGCATA
* *
84815912 TATAGTGTTCGCACA
1 TATAGGGTTCGCATA
* * *
84815927 TGTAGAGTTCGCACA
1 TATAGGGTTCGCATA
*
84815942 TGTAGGGTTCGCATA
1 TATAGGGTTCGCATA
* **
84815957 TACAGGGTTCGTGTA
1 TATAGGGTTCGCATA
84815972 TATAGGGATT-GCATA
1 TATAGGG-TTCGCATA
84815987 T
1 T
84815988 TAAAAATATG
Statistics
Matches: 126, Mismatches: 33, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
14 32 0.25
15 92 0.73
16 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (15 bp):
TATAGGGTTCGCATA
Found at i:84816005 original size:22 final size:22
Alignment explanation
Indices: 84815971--84816013 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
84815961 GGGTTCGTGT
*
84815971 ATATAGGGATTGCATATTAAAA
1 ATATAGGGATTGCATACTAAAA
* *
84815993 ATATGGGGTTTGCATACTAAA
1 ATATAGGGATTGCATACTAAA
84816014 TCCATAAAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.33
Consensus pattern (22 bp):
ATATAGGGATTGCATACTAAAA
Found at i:84818199 original size:31 final size:31
Alignment explanation
Indices: 84818164--84818252 Score: 160
Period size: 31 Copynumber: 2.9 Consensus size: 31
84818154 AAATTGCCCT
* *
84818164 TAACTTTTAATACCAAAATTACCCCTACTCG
1 TAACTTCTAATACCTAAATTACCCCTACTCG
84818195 TAACTTCTAATACCTAAATTACCCCTACTCG
1 TAACTTCTAATACCTAAATTACCCCTACTCG
84818226 TAACTTCTAATACCTAAATTACCCCTA
1 TAACTTCTAATACCTAAATTACCCCTA
84818253 TTTATTCCTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.35, C:0.30, G:0.02, T:0.33
Consensus pattern (31 bp):
TAACTTCTAATACCTAAATTACCCCTACTCG
Found at i:84821086 original size:25 final size:23
Alignment explanation
Indices: 84821037--84821092 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
84821027 CCACCATTGT
*
84821037 TTTTAAATCGTATTTATTGTATA
1 TTTTAAATCGTATTTATTATATA
* *
84821060 TTTTAAGTCGTATTCATATTATTTA
1 TTTTAAATCGTATT--TATTATATA
*
84821085 TTTAAAAT
1 TTTTAAAT
84821093 ATAATCTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 13 0.50
25 13 0.50
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.55
Consensus pattern (23 bp):
TTTTAAATCGTATTTATTATATA
Found at i:84832831 original size:3 final size:3
Alignment explanation
Indices: 84832818--84832862 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
84832808 GAAAGAATTC
*
84832818 GAT GGT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
84832863 AAAGCTGCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:84833581 original size:216 final size:216
Alignment explanation
Indices: 84833204--84833679 Score: 747
Period size: 216 Copynumber: 2.2 Consensus size: 216
84833194 AGCTTTATTG
* * *
84833204 TTGTTGGAAATCAATTGGACCGACTGATTAAACTAGTTGAACCATAATTATGAGGTTAGTCACTT
1 TTGTTGGAAATCAATTGGACCGACTGATTAAACTAGTTGAACCATAATGACGAGGTTAGCCACTT
*
84833269 TAATTATGTTGAAACTAGAGACTAACCTCCCTACTTTAATTTGCACACTTAGAAAGATTCGAGAA
66 TAATTATGTTGAAACTAGAGACTAACCTCCCTACTTTAATTTACACACTTAGAAAGATTCGAGAA
* * ** * *
84833334 CTTTGGGTGGAACTCGAATTTAGGGTCTCAAATTTCCAAAGCCTTATAAGTTATTTTTATATAAT
131 ATTTGGGTGGAACTCGAATTTAGGATCTCAAAGCTCCAAAACCTTATAAGTTATTTTTATAGAAT
*
84833399 TATGAACCGATGTATGTATAA
196 TATGAACCGATGTATATATAA
* *
84833420 TTGTTGGAAATCAATTGGACCGACTGATTTAACTAGTTGAACCATAATGACGAGGTTAGCCCCTT
1 TTGTTGGAAATCAATTGGACCGACTGATTAAACTAGTTGAACCATAATGACGAGGTTAGCCACTT
* *
84833485 TAATTATGTTGAAACTAGAGACTAACCTCCCTACTTTAATTTACACATTTAGAAGGATTC-AGAA
66 TAATTATGTTGAAACTAGAGACTAACCTCCCTACTTTAATTTACACACTTAGAAAGATTCGAG-A
* *
84833549 AATTTGGGTGGAATTCGAATTTAGGATCTCAAAGCTCCAAAACCTTATTAGTTATTTTTATAGAA
130 AATTTGGGTGGAACTCGAATTTAGGATCTCAAAGCTCCAAAACCTTATAAGTTATTTTTATAGAA
*
84833614 TTATTAACCGATGTATATATAA
195 TTATGAACCGATGTATATATAA
* * *
84833636 TTGTTGGAAATCAATCGGACCAACTAATTAAACTAGTTGAACCA
1 TTGTTGGAAATCAATTGGACCGACTGATTAAACTAGTTGAACCA
84833680 GAAATTGGTG
Statistics
Matches: 237, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
215 2 0.01
216 235 0.99
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (216 bp):
TTGTTGGAAATCAATTGGACCGACTGATTAAACTAGTTGAACCATAATGACGAGGTTAGCCACTT
TAATTATGTTGAAACTAGAGACTAACCTCCCTACTTTAATTTACACACTTAGAAAGATTCGAGAA
ATTTGGGTGGAACTCGAATTTAGGATCTCAAAGCTCCAAAACCTTATAAGTTATTTTTATAGAAT
TATGAACCGATGTATATATAA
Found at i:84833901 original size:19 final size:18
Alignment explanation
Indices: 84833851--84833902 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
84833841 TTTCCTAACT
*
84833851 ATTTATTAAATATTTTTAA
1 ATTT-TTAAAAATTTTTAA
* * *
84833870 ATATTTAAGAATTTTCTTA
1 ATTTTTAAAAATTTT-TAA
84833889 ATTTTTAAAAATTT
1 ATTTTTAAAAATTT
84833903 ATATAAATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 9 0.35
19 17 0.65
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTTTTAAAAATTTTTAA
Found at i:84842576 original size:196 final size:190
Alignment explanation
Indices: 84842305--84842795 Score: 518
Period size: 182 Copynumber: 2.6 Consensus size: 190
84842295 GTAATAGCTG
* * * * ** * *** *
84842305 TAGTTCTAACAAATG-CTTTGAATTAATCAAACACAAAGGGTGTGAGGTTTCATAAAAGTGTTTG
1 TAGTTCCAACAAA-GCCTTCGAACTAATCAAACACAGAGAATGCGAGGTTTCATAAAAGCAATGG
84842369 ATGATAATCACAAAACCCTAAATCCTCCCTAGCTAAATAACTCTAAAGAGTCTAAACCCATTAGC
65 ATGATAATCACAAAACCCTAAATCCTCCCTAGCTAAATAACTCT-AA-A-TCTAAACCCATTAGC
* * *
84842434 AAAGCTTTTGGTTCAAGTAAAGTCGGCCTTACACCGCAAACCC-AGCTCTCATCAACACCACAAT
127 AAAGCTCTTGGTTCAAGTAAAG--GG-CGT--ACCAC-AACCCTAGCTCTCATCAACACCACAAT
84842498 AACTA
186 AACTA
** *
84842503 TAGTTCTGACAAAGCCTTCGAA-TGAATCAAACACAGA-TATGCGAGG-TTCATAAAAGCAATGG
1 TAGTTCCAACAAAGCCTTCGAACT-AATCAAACACAGAGAATGCGAGGTTTCATAAAAGCAATGG
*
84842565 ATGATAATCACAAAACCCTAAATCCTCCCTAGCCAAATAA--C----TCTAAACCCATTAGCAAA
65 ATGATAATCACAAAACCCTAAATCCTCCCTAGCTAAATAACTCTAAATCTAAACCCATTAGCAAA
* * * *
84842624 GCTCTTGGTTCAAGTAAAGGGGGTACCACAACCCTAGCTCTCCTCAACACCATAATAGCTA
130 GCTCTTGGTTCAAGTAAAGGGCGTACCACAACCCTAGCTCTCATCAACACCACAATAACTA
** * *** *
84842685 TAGTTCCAATGAAGGCTTCGAACTAATCAAACACAGAGAATGCGAGGTTTCATAAAAGTGTTTGA
1 TAGTTCCAACAAAGCCTTCGAACTAATCAAACACAGAGAATGCGAGGTTTCATAAAAGCAATGGA
* * *
84842750 TGATAACCACAAAACCATAAATCCACCCTAGCTAAATAACTCTAAA
66 TGATAATCACAAAACCCTAAATCCTCCCTAGCTAAATAACTCTAAA
84842796 CCCATTGGCA
Statistics
Matches: 249, Mismatches: 32, Indels: 32
0.80 0.10 0.10
Matches are distributed among these distances:
181 5 0.02
182 57 0.23
183 9 0.04
184 49 0.20
185 2 0.01
186 1 0.00
187 36 0.14
194 1 0.00
196 51 0.20
197 8 0.03
198 30 0.12
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (190 bp):
TAGTTCCAACAAAGCCTTCGAACTAATCAAACACAGAGAATGCGAGGTTTCATAAAAGCAATGGA
TGATAATCACAAAACCCTAAATCCTCCCTAGCTAAATAACTCTAAATCTAAACCCATTAGCAAAG
CTCTTGGTTCAAGTAAAGGGCGTACCACAACCCTAGCTCTCATCAACACCACAATAACTA
Found at i:84842789 original size:184 final size:186
Alignment explanation
Indices: 84842296--84842877 Score: 604
Period size: 184 Copynumber: 3.1 Consensus size: 186
84842286 CCTTAAACCG
* * * * ** *
84842296 TAATAGCTGTAGTTCTAACAAATGCTTTGAATTAATCAAACACAAAGGGTGTGAGGTTTCATAAA
1 TAATAGCTATAGTTCTAACAAAGGCTTCGAA-TAATCAAACACAGAGAATGCGAGGTTTCATAAA
84842361 AGTGTTTGATGATAATCACAAAACCCTAAATCCTCCCTAGCTAAATAACTCTAAAGAGTCTAAAC
65 AGTGTTTGATGATAATCACAAAACCCTAAATCCTCCCTAGCTAAATAA--C-------TCTAAAC
* * *
84842426 CCATTAGCAAAGCTTTTGGTTCAAGTAAAGTCGGCCTTACACCGCAAACCCAGCTCTCATCAACA
121 CCATTAGCAAAGCTCTTGGTTCAAGTAAAG-CGGCCGTA-ACCACAAACCCAGCTCTCATCAACA
84842491 CCA
184 CCA
* * * * *
84842494 CAATAACTATAGTTCTGACAAAGCCTTCGAATGAATCAAACACAGA-TATGCGAGG-TTCATAAA
1 TAATAGCTATAGTTCTAACAAAGGCTTCGAAT-AATCAAACACAGAGAATGCGAGGTTTCATAAA
*** * *
84842557 AGCAATGGATGATAATCACAAAACCCTAAATCCTCCCTAGCCAAATAACTCTAAACCCATTAGCA
65 AGTGTTTGATGATAATCACAAAACCCTAAATCCTCCCTAGCTAAATAACTCTAAACCCATTAGCA
* *
84842622 AAGCTCTTGGTTCAAGTAAAG-GG-GGT-ACCAC-AACCCTAGCTCTCCTCAACACCA
130 AAGCTCTTGGTTCAAGTAAAGCGGCCGTAACCACAAACCC-AGCTCTCATCAACACCA
* **
84842676 TAATAGCTATAGTTCCAATGAAGGCTTCGAACTAATCAAACACAGAGAATGCGAGGTTTCATAAA
1 TAATAGCTATAGTTCTAACAAAGGCTTCGAA-TAATCAAACACAGAGAATGCGAGGTTTCATAAA
* * * *
84842741 AGTGTTTGATGATAACCACAAAACCATAAATCCACCCTAGCTAAATAACTCTAAACCCATTGGCA
65 AGTGTTTGATGATAATCACAAAACCCTAAATCCTCCCTAGCTAAATAACTCTAAACCCATTAGCA
* * ** * *
84842806 AAGCATCAT-GTTC-AGCAAAGGCATCCTTTAAACCACAAACCCAAGCTCTCATCAACACGA
130 AAGC-TCTTGGTTCAAGTAAA-GCGGCC-GT-AACCACAAACCC-AGCTCTCATCAACACCA
84842866 TAAATAGCTATA
1 T-AATAGCTATA
84842878 ATTCCAAACC
Statistics
Matches: 323, Mismatches: 47, Indels: 35
0.80 0.12 0.09
Matches are distributed among these distances:
181 5 0.02
182 57 0.18
183 14 0.04
184 74 0.23
185 5 0.02
187 37 0.11
189 5 0.02
190 21 0.07
191 10 0.03
194 1 0.00
196 51 0.16
197 7 0.02
198 36 0.11
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (186 bp):
TAATAGCTATAGTTCTAACAAAGGCTTCGAATAATCAAACACAGAGAATGCGAGGTTTCATAAAA
GTGTTTGATGATAATCACAAAACCCTAAATCCTCCCTAGCTAAATAACTCTAAACCCATTAGCAA
AGCTCTTGGTTCAAGTAAAGCGGCCGTAACCACAAACCCAGCTCTCATCAACACCA
Found at i:84846576 original size:357 final size:358
Alignment explanation
Indices: 84845876--84846563 Score: 801
Period size: 366 Copynumber: 1.9 Consensus size: 358
84845866 TTTGGATTCA
* * * * *
84845876 GGATTAATGAAATTGTTGTAGATTGCAATTTGTAACTTTATGCTCCGTTTGTTTGCTTGGAAATC
1 GGATTAATGAAATTATTGTAGATTGCAATTCGTAACTTCATGATCCGTTTGTTTGCTTGCAAATC
* * * *
84845941 ACGGAATAAGATAATTTAAATTCATAGCTATGATGAGATTGATCTCTGTTTTGAGTTTAATTGGA
66 ACAGAATAAGATAATTTAAATTCATAGCCATGAT-AGA-TGATCTCTGATTTGACTTTAATTGGA
* * *
84846006 GCTATACTTATGAATTTGTAACCTAGGGGGAAGGAAACTGAGGAATGAAAGGGAATGGAATGGAA
129 GATATACTTATGAATTTGTAACCTAGAGGGAAGG--A--GAGGAAT-AAAGGAAATGGAATGGAA
* * * *
84846071 TCAACATTGAAATGCATGTGCTTAGAGAATTGTTGGATGTGGTTCGAATGATGAAGATGATGAAA
189 TCAACATTGAAATGCATCTGCCTAGAGAAATGTTGCATGTGGTTCGAATGATGAAGATGATGAAA
* * *
84846136 TGTAGAATTTAGTTGAATTATCTTCTAGTAGAGGTTTAATACTGAGTTTTAAGTAAAAGTGCATG
254 TGTAGAATGTAGTTGAATTATCTTCTAGTAGAGGTTTAATACTGAATTTTAAGTAAAAGTGCACG
*
84846201 CGTAGAAATAATGTTTTGTATCATTTATTACTTAGCTTCC
319 CGTAGAAATAAGGTTTTGTATCATTTATTACTTAGCTTCC
*
84846241 GGATTAATGAAATTATTGTAGATTTGCAATTCGTAACTTCATGATCCGTTTGTTTTCTTGCAAAT
1 GGATTAATGAAATTATTGTAGA-TTGCAATTCGTAACTTCATGATCCGTTTGTTTGCTTGCAAAT
*** * * *
84846306 TGTATAATAAGGTATTTTAAATTCGA-AGCCATGAT-GA-GAT-T-T-ATTTGACTTTAATTGGA
65 CACAGAATAAGATAATTTAAATTC-ATAGCCATGATAGATGATCTCTGATTTGACTTTAATTGGA
*
84846365 GATATACTTAATGAATTTGTAACCTAGAGGGAAGG-GA-G-CT-AAGGAAATGGAATGGAATCAA
129 GATATACTT-ATGAATTTGTAACCTAGAGGGAAGGAGAGGAATAAAGGAAATGGAATGGAATCAA
* *
84846426 CATTGTTAAATGCATCTTCCT-GAGAAATGTTTCATGTGGATT-GAAT-AGTGAAGATGATGAAA
193 CATTG--AAATGCATCTGCCTAGAGAAATGTTGCATGTGG-TTCGAATGA-TGAAGATGATGAAA
* * *
84846488 TGTAGAATGTAGTTGAATTGTGTT-TTGTTATAACAGAGGTTTAATACTGAATTTTAAGTAAAAG
254 TGTAGAATGTAGTTGAATTATCTTCTAG---T---AGAGGTTTAATACTGAATTTTAAGTAAAAG
84846552 TGCACGCGTAGA
313 TGCACGCGTAGA
84846564 GGTGAGGTTT
Statistics
Matches: 278, Mismatches: 32, Indels: 34
0.81 0.09 0.10
Matches are distributed among these distances:
351 28 0.10
352 54 0.19
353 14 0.05
354 2 0.01
355 2 0.01
357 40 0.14
359 23 0.08
360 25 0.09
361 1 0.00
362 3 0.01
364 2 0.01
365 21 0.08
366 62 0.22
367 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.36
Consensus pattern (358 bp):
GGATTAATGAAATTATTGTAGATTGCAATTCGTAACTTCATGATCCGTTTGTTTGCTTGCAAATC
ACAGAATAAGATAATTTAAATTCATAGCCATGATAGATGATCTCTGATTTGACTTTAATTGGAGA
TATACTTATGAATTTGTAACCTAGAGGGAAGGAGAGGAATAAAGGAAATGGAATGGAATCAACAT
TGAAATGCATCTGCCTAGAGAAATGTTGCATGTGGTTCGAATGATGAAGATGATGAAATGTAGAA
TGTAGTTGAATTATCTTCTAGTAGAGGTTTAATACTGAATTTTAAGTAAAAGTGCACGCGTAGAA
ATAAGGTTTTGTATCATTTATTACTTAGCTTCC
Found at i:84846850 original size:2 final size:2
Alignment explanation
Indices: 84846845--84846884 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
84846835 TACACACACA
84846845 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
84846885 GAAATAGACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:84848751 original size:31 final size:30
Alignment explanation
Indices: 84848661--84848753 Score: 93
Period size: 31 Copynumber: 3.1 Consensus size: 30
84848651 TATACCATTA
* * *
84848661 GTACCTGTGTTTGGCTTCAATATTCAATTTG
1 GTACCTGAGTTTGG-TTTAATGTTCAATTTG
* *
84848692 GTACCTAAGTTT--TTT-TTGTTCCAATTTG
1 GTACCTGAGTTTGGTTTAATGTT-CAATTTG
84848720 GTACCTGAGTTTGGATTTAATGTTCAATTTG
1 GTACCTGAGTTTGG-TTTAATGTTCAATTTG
84848751 GTA
1 GTA
84848754 TCTAGACCAA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
27 3 0.06
28 20 0.40
31 23 0.46
32 4 0.08
ACGTcount: A:0.20, C:0.13, G:0.19, T:0.47
Consensus pattern (30 bp):
GTACCTGAGTTTGGTTTAATGTTCAATTTG
Found at i:84852828 original size:29 final size:30
Alignment explanation
Indices: 84852793--84852855 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
84852783 TTTAAATTGT
* * *
84852793 AATTTTATACA-AAATTTTTGATTTTATGC
1 AATTTTATACATAAAATTTTGATTTAATCC
*
84852822 AATTTTATATATAAAATTTTGATTTAATCC
1 AATTTTATACATAAAATTTTGATTTAATCC
84852852 AATT
1 AATT
84852856 CTCGTAAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.51
Consensus pattern (30 bp):
AATTTTATACATAAAATTTTGATTTAATCC
Found at i:84861493 original size:16 final size:17
Alignment explanation
Indices: 84861466--84861510 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
84861456 AAAAAGTATT
84861466 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
84861483 TTAAAAA-ATTTTAAAA
1 TTAAAAATATTTTAAAA
* *
84861499 ATAAATATATTT
1 TTAAAAATATTT
84861511 ATTATATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:84863256 original size:18 final size:18
Alignment explanation
Indices: 84863223--84863257 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
84863213 ATAACTTTTA
*
84863223 AAAGTAAAAACTAAAAAT
1 AAAGTAAAAACGAAAAAT
*
84863241 AAAGTAAAATCGAAAAA
1 AAAGTAAAAACGAAAAA
84863258 AGAAGAAAGA
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:0.71, C:0.06, G:0.09, T:0.14
Consensus pattern (18 bp):
AAAGTAAAAACGAAAAAT
Found at i:84864361 original size:28 final size:28
Alignment explanation
Indices: 84864301--84864360 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 28
84864291 TTCAATCACG
84864301 TTTTTAAGATAAAAAATAATATCTCTAT
1 TTTTTAAGATAAAAAATAATATCTCTAT
* *
84864329 TTTTTGAGAT-AAAAATAATATCTTTAT
1 TTTTTAAGATAAAAAATAATATCTCTAT
84864356 TTTTT
1 TTTTT
84864361 TTCTTTGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 21 0.70
28 9 0.30
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (28 bp):
TTTTTAAGATAAAAAATAATATCTCTAT
Found at i:84870764 original size:23 final size:23
Alignment explanation
Indices: 84870738--84870789 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
84870728 TATTTTCTAC
84870738 ATGTTACTTTTAGTAGCTTGTCA
1 ATGTTACTTTTAGTAGCTTGTCA
84870761 ATGTTACTTTTAGTAGCTTGTCA
1 ATGTTACTTTTAGTAGCTTGTCA
84870784 ATGTTA
1 ATGTTA
84870790 AAGTTGTTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.48
Consensus pattern (23 bp):
ATGTTACTTTTAGTAGCTTGTCA
Found at i:84872380 original size:2 final size:2
Alignment explanation
Indices: 84872339--84872363 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
84872329 GCATATCTAC
84872339 GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT G
84872364 CATATGTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:84872629 original size:4 final size:4
Alignment explanation
Indices: 84872622--84872653 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
84872612 TAAGCATGTT
84872622 TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA
84872654 AGCGTCTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:84874403 original size:31 final size:31
Alignment explanation
Indices: 84874344--84874404 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
84874334 CAATCAATTG
** *
84874344 ACTTAAATAAAAACTTTGTAATAGTTCAATA
1 ACTTAAATAAAAACTTTCAAATAATTCAATA
*
84874375 ACTTAAATAAAAATTTTCAAATAATTCAAT
1 ACTTAAATAAAAACTTTCAAATAATTCAAT
84874405 GAATATTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCAAATAATTCAATA
Found at i:84875773 original size:15 final size:16
Alignment explanation
Indices: 84875732--84875773 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
84875722 GCTTTTCAAG
*
84875732 TTGGGTTATTTTAGGT
1 TTGGGTTATTTTAGGA
* *
84875748 TTGGATCATTTT-GGA
1 TTGGGTTATTTTAGGA
84875763 TTGGGTTATTT
1 TTGGGTTATTT
84875774 CGGGTCATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.14, C:0.02, G:0.29, T:0.55
Consensus pattern (16 bp):
TTGGGTTATTTTAGGA
Found at i:84876267 original size:18 final size:17
Alignment explanation
Indices: 84876222--84876270 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
84876212 TTGAAAAGAA
84876222 ATATTTATTTTAATGTTT
1 ATATTT-TTTTAATGTTT
* *
84876240 TTAGTGTTTTTAATGTATT
1 ATA-TTTTTTTAATGT-TT
84876259 ATATTTTTTTAA
1 ATATTTTTTTAA
84876271 AAAATTACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (17 bp):
ATATTTTTTTAATGTTT
Found at i:84877576 original size:14 final size:14
Alignment explanation
Indices: 84877539--84877577 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
84877529 ACTGCTACTA
84877539 CAGAATTGATGGAG
1 CAGAATTGATGGAG
*
84877553 GAGAATTGATGGAAG
1 CAGAATTGATGG-AG
84877568 CAGAA-TGATG
1 CAGAATTGATG
84877578 CAATGGTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.38, C:0.05, G:0.36, T:0.21
Consensus pattern (14 bp):
CAGAATTGATGGAG
Found at i:84879843 original size:2 final size:2
Alignment explanation
Indices: 84879836--84879861 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
84879826 GTAAGTCTTT
84879836 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
84879862 AATTTATGAT
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):
TA
Found at i:84880844 original size:31 final size:30
Alignment explanation
Indices: 84880790--84880859 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
84880780 TTTTAGCTCC
* * *
84880790 TGAATTTGATAATTAGTTTCATTTTGG-CACT
1 TGAATTTG-CAATTAGGTCCATTTTGGTCA-T
84880821 TGAACTTTGCAATTAGGTCCATTTTGGTCAT
1 TGAA-TTTGCAATTAGGTCCATTTTGGTCAT
84880852 TGAATTTG
1 TGAATTTG
84880860 GATTTCATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 4 0.12
31 24 0.71
32 6 0.18
ACGTcount: A:0.24, C:0.11, G:0.19, T:0.46
Consensus pattern (30 bp):
TGAATTTGCAATTAGGTCCATTTTGGTCAT
Found at i:84889559 original size:20 final size:21
Alignment explanation
Indices: 84889519--84889560 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
84889509 ATAAATGTAC
84889519 ATATAAAATCTTTGAAATTTA
1 ATATAAAATCTTTGAAATTTA
84889540 ATATAAAATCTTTG-AATTTA
1 ATATAAAATCTTTGAAATTTA
84889560 A
1 A
84889561 CGTTGTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (21 bp):
ATATAAAATCTTTGAAATTTA
Found at i:84891181 original size:179 final size:178
Alignment explanation
Indices: 84890881--84891239 Score: 673
Period size: 179 Copynumber: 2.0 Consensus size: 178
84890871 GTGTCACATT
84890881 ATCAATACCTTAACTGAATCCAAATTCAGGGATAAGATCGGAAATGATTGCTTGGTTCCGAGACT
1 ATCAATACCTTAACTGAATCCAAATTCAGGGATAAGATCGGAAATGATTGCTTGGTTCCGAGACT
*
84890946 AATATAGACAAAAGAAAATTAAGGGATCAAATTGCGAAAAGTTGTCAAATTCAGAGACTAAATAT
66 AATATAGACAAAAGAAAATTAAGGGATCAAATTGCGAAAAATTGTCAAATTCAGAGACTAAATAT
84891011 TACTTTATCCCTAGAAAATAACCATATTGAACCCCCCAACATTTAACTC
131 TACTTTATCCCTAGAAAATAACCATATTGAA-CCCCCAACATTTAACTC
*
84891060 ATCAATACCTTAACTGAATCCAAATTCAGGGATAAGATCGGAAATGATTGTTTGGTTCCGAGACT
1 ATCAATACCTTAACTGAATCCAAATTCAGGGATAAGATCGGAAATGATTGCTTGGTTCCGAGACT
* *
84891125 AATATAGACAAAAGAAAATTAATGGATCAAATTGCGAAAAATTGTCAAATTCAGAGACTAAATGT
66 AATATAGACAAAAGAAAATTAAGGGATCAAATTGCGAAAAATTGTCAAATTCAGAGACTAAATAT
84891190 TACTTTATCCCTAGAAAATAACCATATTGAACCCCCAACATTTAACTC
131 TACTTTATCCCTAGAAAATAACCATATTGAACCCCCAACATTTAACTC
84891238 AT
1 AT
84891240 TGATGACAAG
Statistics
Matches: 176, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
178 19 0.11
179 157 0.89
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (178 bp):
ATCAATACCTTAACTGAATCCAAATTCAGGGATAAGATCGGAAATGATTGCTTGGTTCCGAGACT
AATATAGACAAAAGAAAATTAAGGGATCAAATTGCGAAAAATTGTCAAATTCAGAGACTAAATAT
TACTTTATCCCTAGAAAATAACCATATTGAACCCCCAACATTTAACTC
Found at i:84894653 original size:16 final size:16
Alignment explanation
Indices: 84894632--84894676 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
84894622 AATTGACTCA
84894632 AACTTGAAATGATTAG
1 AACTTGAAATGATTAG
* * *
84894648 AACTTGAAGTAATTTG
1 AACTTGAAATGATTAG
*
84894664 AACTTGTAATGAT
1 AACTTGAAATGAT
84894677 CTAACCTGAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.36
Consensus pattern (16 bp):
AACTTGAAATGATTAG
Found at i:84898535 original size:6 final size:6
Alignment explanation
Indices: 84898524--84898549 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
84898514 ATCCTCCCTA
84898524 CATTCT CATTCT CATTCT CATTCT CA
1 CATTCT CATTCT CATTCT CATTCT CA
84898550 AGATTCAACG
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:0.19, C:0.35, G:0.00, T:0.46
Consensus pattern (6 bp):
CATTCT
Found at i:84912260 original size:51 final size:52
Alignment explanation
Indices: 84912161--84912302 Score: 196
Period size: 51 Copynumber: 2.8 Consensus size: 52
84912151 AATTTTTAAA
*
84912161 AACATAATTATAATTTCGTCCCCATTAGTATTATTATTAAAAGACAAGTTCC
1 AACATAATTATAATTTCGTCCCCATTAGTATTATAATTAAAAGACAAGTTCC
** *
84912213 AACATAATTATAATTTCGT-CCCATTCTTATTATAATTAAAAGCCAAGTTCC
1 AACATAATTATAATTTCGTCCCCATTAGTATTATAATTAAAAGACAAGTTCC
* * * * *
84912264 AACATAATTATAATTTAGTACTCATTTGAATTATAATTA
1 AACATAATTATAATTTCGTCCCCATTAGTATTATAATTA
84912303 GGGTAAATTA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 46 0.57
52 34 0.43
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (52 bp):
AACATAATTATAATTTCGTCCCCATTAGTATTATAATTAAAAGACAAGTTCC
Found at i:84919041 original size:21 final size:21
Alignment explanation
Indices: 84919015--84919068 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
84919005 AAATAGGATG
*
84919015 GTCAATGTAAAAGGCTTTCCC
1 GTCAATGTAAAAGGCTTTCCA
*
84919036 GTCAATGTAAAAGGTTTTCCA
1 GTCAATGTAAAAGGCTTTCCA
84919057 GTCAATGTAAAA
1 GTCAATGTAAAA
84919069 TTACCTCCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (21 bp):
GTCAATGTAAAAGGCTTTCCA
Found at i:84920550 original size:20 final size:20
Alignment explanation
Indices: 84920527--84920569 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
84920517 TGGTGGAAAT
84920527 GTTAGTTAGTTGATTTTTGG
1 GTTAGTTAGTTGATTTTTGG
84920547 GTTAGTTAGTTGATTTTTGG
1 GTTAGTTAGTTGATTTTTGG
84920567 GTT
1 GTT
84920570 TAGAGACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.56
Consensus pattern (20 bp):
GTTAGTTAGTTGATTTTTGG
Found at i:84940311 original size:13 final size:13
Alignment explanation
Indices: 84940283--84940318 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
84940273 AAACGTCTAT
*
84940283 TTTTACAATATTTA
1 TTTTA-AATTTTTA
84940297 TTTTAAATTTTTA
1 TTTTAAATTTTTA
84940310 TTTTAAATT
1 TTTTAAATT
84940319 ATGACACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTAAATTTTTA
Found at i:84952631 original size:3 final size:3
Alignment explanation
Indices: 84952618--84952658 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
84952608 GGAACAGCAA
* *
84952618 AGG AAG AGG AGG AGG AGG AGG AGG AGG AGG A-G AGG TGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
84952659 CTTTGTTTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.34, C:0.00, G:0.63, T:0.02
Consensus pattern (3 bp):
AGG
Found at i:84955162 original size:149 final size:146
Alignment explanation
Indices: 84954967--84955260 Score: 410
Period size: 149 Copynumber: 2.0 Consensus size: 146
84954957 AGGATGTGGC
* * * * *
84954967 TTTTTTAATTTAATTATTCTTTGGAAACGATTTTGAGGGTTTTCCCGTTTGAATCTTCCACAATT
1 TTTTTTAATTTAATTATACTTTGGAAACAACTTTGAGGGTTTTCCCGTTTGAATCTTCAACAATC
* *
84955032 AGGGTTTTTTTCCGT-TGGAAATTAATGATTTATTTAATGTTGAGATAAAGGTATTCTTTTTTTT
66 AGGGTTTTTTT--GTATGGAAATTAATGATTTATTTAATGTTGAGATAAAGGGATTC-TTTTATT
*
84955096 TGTTGTAGTTGTTGGTTGA
128 TGTTGTAGTTCTTGGTTGA
* *
84955115 TTTTTTAAATTTATTTATAGTTTGGAAACAACTTTGAGGGTTTTCCCGTTTGAATCTTCAACAAT
1 TTTTTT-AATTTAATTATACTTTGGAAACAACTTTGAGGGTTTTCCCGTTTGAATCTTCAACAAT
* * * * *
84955180 CAGTGTTTTTTTTTATGGAATTTAATGATTTATTTGATGTTTAGATAAAGGGATTCTTTTATTTG
65 CAGGGTTTTTTTGTATGGAAATTAATGATTTATTTAATGTTGAGATAAAGGGATTCTTTTATTTG
84955245 TTGTAGTTCTTGGTTG
130 TTGTAGTTCTTGGTTG
84955261 GTTGATTGAT
Statistics
Matches: 129, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
147 24 0.19
148 43 0.33
149 62 0.48
ACGTcount: A:0.23, C:0.08, G:0.18, T:0.51
Consensus pattern (146 bp):
TTTTTTAATTTAATTATACTTTGGAAACAACTTTGAGGGTTTTCCCGTTTGAATCTTCAACAATC
AGGGTTTTTTTGTATGGAAATTAATGATTTATTTAATGTTGAGATAAAGGGATTCTTTTATTTGT
TGTAGTTCTTGGTTGA
Found at i:84959322 original size:31 final size:30
Alignment explanation
Indices: 84959287--84959349 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
84959277 TGTCAATATT
*
84959287 AAAATATAAAGATTAAATCTCAAATTTGAAC
1 AAAATATAAAGATTAAAACTCAAATTT-AAC
* *
84959318 AAAATATAAGGATTAAAACTGAAATTTAAC
1 AAAATATAAAGATTAAAACTCAAATTTAAC
84959348 AA
1 AA
84959350 TTCTTATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.27
Consensus pattern (30 bp):
AAAATATAAAGATTAAAACTCAAATTTAAC
Found at i:84959477 original size:26 final size:26
Alignment explanation
Indices: 84959442--84959495 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
84959432 AAGAACGGAC
84959442 AGGAGTCTAAATTATGTAAAAATCAA
1 AGGAGTCTAAATTATGTAAAAATCAA
84959468 AGGAGTCTAAATTATGTAAAAATCAA
1 AGGAGTCTAAATTATGTAAAAATCAA
84959494 AG
1 AG
84959496 CGTAGAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.26
Consensus pattern (26 bp):
AGGAGTCTAAATTATGTAAAAATCAA
Found at i:84959504 original size:25 final size:26
Alignment explanation
Indices: 84959450--84959505 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
84959440 ACAGGAGTCT
**
84959450 AAATTATGTAAAAATCAAAGGAGTCT
1 AAATTATGTAAAAATCAAAGGAGTAG
*
84959476 AAATTATGTAAAAATCAAA-GCGTAG
1 AAATTATGTAAAAATCAAAGGAGTAG
84959501 AAATT
1 AAATT
84959506 GAATATCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.27
Consensus pattern (26 bp):
AAATTATGTAAAAATCAAAGGAGTAG
Found at i:84969562 original size:26 final size:26
Alignment explanation
Indices: 84969523--84969575 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
84969513 ATCTGAGACA
*
84969523 AACAAAAGTAACTATTTTTGTAGTTT
1 AACAAAAGTAACTATTTTTATAGTTT
*
84969549 AACAAAAGTGACTATTTTTATAGTTT
1 AACAAAAGTAACTATTTTTATAGTTT
84969575 A
1 A
84969576 TCCATATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (26 bp):
AACAAAAGTAACTATTTTTATAGTTT
Found at i:84970785 original size:19 final size:19
Alignment explanation
Indices: 84970763--84970809 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
84970753 ATAAATAGTT
*
84970763 TTTAAAATTATTCTTAATA
1 TTTAAAATTATTATTAATA
* *
84970782 TTTAAAATTATTATTTATT
1 TTTAAAATTATTATTAATA
84970801 TTTAAAATT
1 TTTAAAATT
84970810 TTTAATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTAAAATTATTATTAATA
Found at i:84977344 original size:3 final size:3
Alignment explanation
Indices: 84977336--84977371 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
84977326 TAAAACCCCT
84977336 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
84977372 CCCTCGTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:84978687 original size:24 final size:25
Alignment explanation
Indices: 84978633--84978688 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
84978623 CTCGTATAAC
*
84978633 ATAGTTAAGCACATATGATCTGATTT
1 ATAGGTAAGCACATATGATC-GATTT
84978659 ATAGGTAAGCAC-TCATGATC-ATTT
1 ATAGGTAAGCACAT-ATGATCGATTT
*
84978683 TTAGGT
1 ATAGGT
84978689 GCATCAATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 9 0.33
25 1 0.04
26 17 0.63
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (25 bp):
ATAGGTAAGCACATATGATCGATTT
Found at i:84983706 original size:156 final size:156
Alignment explanation
Indices: 84983420--84983888 Score: 848
Period size: 156 Copynumber: 3.0 Consensus size: 156
84983410 GGAAAACCCT
* *
84983420 ACTGCTCCTGTATCTTATAATTCTGAGGAGGGAGTTGAATTGCTACCAAAGGTTTTAGATGATTG
1 ACTGCTCCTGTATCTTATAATTCTGAGGTGGGAGTTGAATTGCTACCAAAGGTTTTAGATGATTC
*
84983485 GACCATTGCCAACAGGATGGGTATGAATATGGAGCTGAACACTGAATTCCTACCATATCCTACAG
66 GACTATTGCCAACAGGATGGGTATGAATATGGAGCTGAACACTGAATTCCTACCATATCCTACAG
*
84983550 AAGATTCTACAAGTGCTAAAGAAATG
131 AAGATTCTACAAGTGCTAAAGAGATG
*
84983576 AGTGCTCCTGTATCTTATAATTCTGAGGTGGGAGTTGAATTGCTACCAAAGGTTTTAGATGATTC
1 ACTGCTCCTGTATCTTATAATTCTGAGGTGGGAGTTGAATTGCTACCAAAGGTTTTAGATGATTC
* *
84983641 GACTATTGCCAACAGGATCGGTATGAATATGGAGCTGAACACTGAATTGCTACCATATCCTACAG
66 GACTATTGCCAACAGGATGGGTATGAATATGGAGCTGAACACTGAATTCCTACCATATCCTACAG
84983706 AAGATTCTACAAGTGCTAAAGAGATG
131 AAGATTCTACAAGTGCTAAAGAGATG
*
84983732 ACTGCTCCTGTATTTTATAATTCTGAGGTGGGAGTTGAATTGCTACCAAAGGTTTTAGATGATTC
1 ACTGCTCCTGTATCTTATAATTCTGAGGTGGGAGTTGAATTGCTACCAAAGGTTTTAGATGATTC
* *
84983797 GACTATTGCCAACAGGATGGGAATGAATATGGAGCTGAACACTGAATTCCTAACATATCCTACAG
66 GACTATTGCCAACAGGATGGGTATGAATATGGAGCTGAACACTGAATTCCTACCATATCCTACAG
84983862 AAGATTCTACAAGTGCTAAAGAGATG
131 AAGATTCTACAAGTGCTAAAGAGATG
84983888 A
1 A
84983889 ACATTGAATT
Statistics
Matches: 300, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
156 300 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (156 bp):
ACTGCTCCTGTATCTTATAATTCTGAGGTGGGAGTTGAATTGCTACCAAAGGTTTTAGATGATTC
GACTATTGCCAACAGGATGGGTATGAATATGGAGCTGAACACTGAATTCCTACCATATCCTACAG
AAGATTCTACAAGTGCTAAAGAGATG
Found at i:84988382 original size:156 final size:156
Alignment explanation
Indices: 84988096--84988564 Score: 857
Period size: 156 Copynumber: 3.0 Consensus size: 156
84988086 GGAAAACCCT
* *
84988096 ACTGCTCCTGTATCTTATAATTCTGAGGAGGGAGTTGAATTGCTACCAAAGGTTTTAGATGATTG
1 ACTGCTCCTGTATCTTATAATTCTGAGGTGGGAGTTGAATTGCTACCAAAGGTTTTAGATGATTC
*
84988161 GACCATTGCCAACAGGATGGGTATGAATATGGAGCTGAACACTGAATTCCTACCATATCCTACAG
66 GACTATTGCCAACAGGATGGGTATGAATATGGAGCTGAACACTGAATTCCTACCATATCCTACAG
*
84988226 AAGATTCTACAAGTGCTAAAGAAATG
131 AAGATTCTACAAGTGCTAAAGAGATG
*
84988252 AGTGCTCCTGTATCTTATAATTCTGAGGTGGGAGTTGAATTGCTACCAAAGGTTTTAGATGATTC
1 ACTGCTCCTGTATCTTATAATTCTGAGGTGGGAGTTGAATTGCTACCAAAGGTTTTAGATGATTC
* *
84988317 GACTATTGCCAACAGGATCGGTATGAATATGGAGCTGAACACTGAATTGCTACCATATCCTACAG
66 GACTATTGCCAACAGGATGGGTATGAATATGGAGCTGAACACTGAATTCCTACCATATCCTACAG
84988382 AAGATTCTACAAGTGCTAAAGAGATG
131 AAGATTCTACAAGTGCTAAAGAGATG
84988408 ACTGCTCCTGTATCTTATAATTCTGAGGTGGGAGTTGAATTGCTACCAAAGGTTTTAGATGATTC
1 ACTGCTCCTGTATCTTATAATTCTGAGGTGGGAGTTGAATTGCTACCAAAGGTTTTAGATGATTC
* *
84988473 GACTATTGCCAACAGGATGGGAATGAATATGGAGCTGAACACTGAATTCCTAACATATCCTACAG
66 GACTATTGCCAACAGGATGGGTATGAATATGGAGCTGAACACTGAATTCCTACCATATCCTACAG
84988538 AAGATTCTACAAGTGCTAAAGAGATG
131 AAGATTCTACAAGTGCTAAAGAGATG
84988564 A
1 A
84988565 ACATTGAATT
Statistics
Matches: 301, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
156 301 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (156 bp):
ACTGCTCCTGTATCTTATAATTCTGAGGTGGGAGTTGAATTGCTACCAAAGGTTTTAGATGATTC
GACTATTGCCAACAGGATGGGTATGAATATGGAGCTGAACACTGAATTCCTACCATATCCTACAG
AAGATTCTACAAGTGCTAAAGAGATG
Found at i:84990966 original size:54 final size:54
Alignment explanation
Indices: 84990865--84990974 Score: 130
Period size: 54 Copynumber: 2.0 Consensus size: 54
84990855 TCCACTCCTC
* * *
84990865 CATCTCTTTAGGACCTGTAGAATCTTCACTAGGCTTTGGTAACAATTCAATGTT
1 CATCTCTTTAGCACCTGTAGAATCTTCACTAGGATATGGTAACAATTCAATGTT
* ** * ** *
84990919 CATCTCTTTAGCACTTGTAGAATCTTCTGTAGGATATGTTAGGAATTCAGTGTT
1 CATCTCTTTAGCACCTGTAGAATCTTCACTAGGATATGGTAACAATTCAATGTT
84990973 CA
1 CA
84990975 GCTCCATATT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (54 bp):
CATCTCTTTAGCACCTGTAGAATCTTCACTAGGATATGGTAACAATTCAATGTT
Found at i:84992150 original size:18 final size:18
Alignment explanation
Indices: 84992127--84992164 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
84992117 AATAATGTAA
*
84992127 ATGTTTTTATA-GTTCAAT
1 ATGTTTATATATGTT-AAT
84992145 ATGTTTATATATGTTAAT
1 ATGTTTATATATGTTAAT
84992163 AT
1 AT
84992165 TTGATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.55
Consensus pattern (18 bp):
ATGTTTATATATGTTAAT
Found at i:84993364 original size:21 final size:22
Alignment explanation
Indices: 84993338--84993383 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
84993328 ATAAAATGCT
* *
84993338 TTTTTCAT-GTAAAAATTCATG
1 TTTTTCATCATAAAAATTCAAG
*
84993359 TTTTTCCTCATAAAAATTCAAG
1 TTTTTCATCATAAAAATTCAAG
84993381 TTT
1 TTT
84993384 ATCTCTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.48
Consensus pattern (22 bp):
TTTTTCATCATAAAAATTCAAG
Found at i:84993393 original size:22 final size:22
Alignment explanation
Indices: 84993347--84993395 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
84993337 TTTTTTCATG
* *
84993347 TAAAAATTCATGTTTTTCCTCA
1 TAAAAATTCAAGTTTATCCTCA
84993369 TAAAAATTCAAGTTTAT-CTCTA
1 TAAAAATTCAAGTTTATCCTC-A
84993391 TAAAA
1 TAAAA
84993396 CCTAGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.41
Consensus pattern (22 bp):
TAAAAATTCAAGTTTATCCTCA
Found at i:84996767 original size:21 final size:20
Alignment explanation
Indices: 84996730--84996772 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
84996720 CATATATGAT
*
84996730 TTAATGGTCAATAAATTTAA
1 TTAATGGTCAATAAATTAAA
* *
84996750 TTAATGTTGCAATCAATTAAA
1 TTAATGGT-CAATAAATTAAA
84996771 TT
1 TT
84996773 TTACTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (20 bp):
TTAATGGTCAATAAATTAAA
Found at i:85007227 original size:21 final size:21
Alignment explanation
Indices: 85007203--85007242 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
85007193 TTATATTATT
*
85007203 AATTTTTTATATA-ATATTTAG
1 AATTATTTATA-ACATATTTAG
85007224 AATTATTTATAACATATTT
1 AATTATTTATAACATATTT
85007243 GAACTTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (21 bp):
AATTATTTATAACATATTTAG
Found at i:85010367 original size:14 final size:14
Alignment explanation
Indices: 85010348--85010383 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
85010338 AAACTGTTTG
85010348 GGTTTGAGGTTCGA
1 GGTTTGAGGTTCGA
85010362 GGTTTGAGGTTCGA
1 GGTTTGAGGTTCGA
85010376 GGTTTGAG
1 GGTTTGAG
85010384 ATTCAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.14, C:0.06, G:0.44, T:0.36
Consensus pattern (14 bp):
GGTTTGAGGTTCGA
Found at i:85012522 original size:51 final size:51
Alignment explanation
Indices: 85012450--85012549 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
85012440 AAATAATTAA
*
85012450 AAATAGGGATTTAAGATAAATTTA-AGAGGAAATTGAGAGCAAATTGAAATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAAATT
* * *
85012501 AAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAAATTGAAA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAAA
85012550 GGAAATTGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.24, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAAATT
Found at i:85012536 original size:22 final size:22
Alignment explanation
Indices: 85012511--85012564 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
85012501 AAATATGGAT
*
85012511 TTGAGAGAAATTTGGAAGGAAA
1 TTGAGAGAAATTTGAAAGGAAA
85012533 TTGAGAGCAAA-TTGAAAGGAAA
1 TTGAGAG-AAATTTGAAAGGAAA
85012555 TTGAGA-AAAT
1 TTGAGAGAAAT
85012565 AATTGAGAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 3 0.10
22 23 0.79
23 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.28, T:0.22
Consensus pattern (22 bp):
TTGAGAGAAATTTGAAAGGAAA
Found at i:85012776 original size:39 final size:40
Alignment explanation
Indices: 85012702--85012779 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 40
85012692 CAAGGGCGAG
* * *
85012702 CTATGTGGCAGCAAAACGCGTCCACGTCAGCGCGCTTTGC
1 CTATGTGGCAACAAAACGCGTCCACGTAAGAGCGCTTTGC
*
85012742 CTATGTGGCAACAAAGC-CGTCCACGTAAGAGCGCTTTG
1 CTATGTGGCAACAAAACGCGTCCACGTAAGAGCGCTTTG
85012780 TTGCCACGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 19 0.56
40 15 0.44
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.21
Consensus pattern (40 bp):
CTATGTGGCAACAAAACGCGTCCACGTAAGAGCGCTTTGC
Found at i:85014223 original size:23 final size:23
Alignment explanation
Indices: 85014196--85014241 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
85014186 ATTTACCCTA
*
85014196 TTTTATATTATTATAAA-TATAAT
1 TTTTATATGA-TATAAATTATAAT
*
85014219 TTTTATGTGATATAAATTATAAT
1 TTTTATATGATATAAATTATAAT
85014242 AAATTATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
TTTTATATGATATAAATTATAAT
Found at i:85014340 original size:17 final size:20
Alignment explanation
Indices: 85014313--85014353 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
85014303 TTTTACGAAC
85014313 TTTTTATATAT-TTT-TAAT
1 TTTTTATATATGTTTATAAT
85014331 TTTTTA-ATATGTTTATAAT
1 TTTTTATATATGTTTATAAT
85014350 TTTT
1 TTTT
85014354 AAATTATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
18 9 0.43
19 8 0.38
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTTTATATATGTTTATAAT
Found at i:85014340 original size:19 final size:19
Alignment explanation
Indices: 85014313--85014362 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
85014303 TTTTACGAAC
*
85014313 TTTTT-ATATATTTTTAAT
1 TTTTTAATATATTTATAAT
*
85014331 TTTTTAATATGTTTATAAT
1 TTTTTAATATATTTATAAT
*
85014350 TTTTAAAT-TATTT
1 TTTTTAATATATTT
85014363 GTGATATTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTTAATATATTTATAAT
Found at i:85015463 original size:21 final size:21
Alignment explanation
Indices: 85015422--85015465 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
85015412 CTCAGGTTCG
**
85015422 ACAACAACAACAGCAGCAGCA
1 ACAACAACAACAGCAAAAGCA
85015443 ACAACAACAACAAG-AAAAGCA
1 ACAACAACAAC-AGCAAAAGCA
85015464 AC
1 AC
85015466 CAAGAATGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.59, C:0.30, G:0.11, T:0.00
Consensus pattern (21 bp):
ACAACAACAACAGCAAAAGCA
Found at i:85020978 original size:10 final size:10
Alignment explanation
Indices: 85020963--85021001 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
85020953 ATAATAAAAA
85020963 ATATTTTTTT
1 ATATTTTTTT
**
85020973 ATATTTTTAAA
1 ATATTTTT-TT
85020984 ATATTTTTTT
1 ATATTTTTTT
85020994 ATATTTTT
1 ATATTTTT
85021002 AAAAATTGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
ATATTTTTTT
Found at i:85020986 original size:21 final size:21
Alignment explanation
Indices: 85020960--85021005 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
85020950 TATATAATAA
85020960 AAAATATTTTTTTATATTTTT
1 AAAATATTTTTTTATATTTTT
85020981 AAAATATTTTTTTATATTTTT
1 AAAATATTTTTTTATATTTTT
85021002 AAAA
1 AAAA
85021006 ATTGGTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
AAAATATTTTTTTATATTTTT
Found at i:85021830 original size:43 final size:44
Alignment explanation
Indices: 85021782--85021864 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
85021772 ATAATATATC
85021782 AAATACA-CAAAAAAATTAAAACAAATG-TTTCTCAACAAATTGA
1 AAATACATCAAAAAAATTAAAACAAATGTTTTC-CAACAAATTGA
* * * *
85021825 AAATACATTAAAAATATTGAAACATATGTTTTCCAACAAA
1 AAATACATCAAAAAAATTAAAACAAATGTTTTCCAACAAA
85021865 ATTTAAATAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
43 7 0.21
44 23 0.68
45 4 0.12
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.27
Consensus pattern (44 bp):
AAATACATCAAAAAAATTAAAACAAATGTTTTCCAACAAATTGA
Found at i:85022712 original size:113 final size:110
Alignment explanation
Indices: 85022488--85022704 Score: 278
Period size: 110 Copynumber: 1.9 Consensus size: 110
85022478 TTTTTGCTGT
*
85022488 AATGTAAACTTTGGGGTTCTTTTAATTTAGCTATATTTCATATTTCATTGTTTTATCCTTAAAAA
1 AATGTAAACTTTGGGGTTCTTTTAATTCAGCTATATTTCATATTTCATTGTTTTATCCTTAAAAA
* *
85022553 AATTGAATTTTTGATGCAAAATTGGGATAAATTTGGAGGCATTGA
66 AATTGAATTTTTGATGCAAAATTGGAATAAATTTGAAGGCATTGA
* * * *
85022598 AATGTAAGCTTCTGGGG-TCGTTTT-ATTCAGCTATATTTCGTGTTTCATGTGTTTTGTCCTTGA
1 AATGTAAACTT-TGGGGTTC-TTTTAATTCAGCTATATTTCATATTTCAT-TGTTTTATCCTT-A
* *
85022661 AAAAAATATGATTTTTTTATGCAAAATTGGAAATAAATTT-AAGG
62 AAAAAAT-TGAATTTTTGATGCAAAATTGG-AATAAATTTGAAGG
85022705 TTTTGAAAAT
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
110 33 0.36
111 20 0.22
112 8 0.09
113 23 0.25
114 8 0.09
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (110 bp):
AATGTAAACTTTGGGGTTCTTTTAATTCAGCTATATTTCATATTTCATTGTTTTATCCTTAAAAA
AATTGAATTTTTGATGCAAAATTGGAATAAATTTGAAGGCATTGA
Found at i:85024003 original size:31 final size:31
Alignment explanation
Indices: 85023934--85024003 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
85023924 ATAAAATAAT
** *
85023934 CATTGAATTATTTGAAAGTTTTCATTTAAAT
1 CATTGAATTATTCAAAAGTTTTCATTTAAAC
* * *
85023965 TACTGAATTATTCAAAAGTTTTCATTTAAGC
1 CATTGAATTATTCAAAAGTTTTCATTTAAAC
85023996 CATTGAAT
1 CATTGAAT
85024004 AAAAACTTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (31 bp):
CATTGAATTATTCAAAAGTTTTCATTTAAAC
Found at i:85026538 original size:12 final size:12
Alignment explanation
Indices: 85026521--85026551 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
85026511 AACTAGTTCC
85026521 AATTGATTTAAG
1 AATTGATTTAAG
*
85026533 AATTGATTTGAG
1 AATTGATTTAAG
85026545 AATTGAT
1 AATTGAT
85026552 ACGAATAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (12 bp):
AATTGATTTAAG
Found at i:85027089 original size:27 final size:28
Alignment explanation
Indices: 85027046--85027102 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
85027036 AATAAACATT
*
85027046 AAAAATTATTTTAAAAATAAAAAAATAA
1 AAAAAGTATTTTAAAAATAAAAAAATAA
*
85027074 AAAAAGTATTTT-AAAATTAAAAAATAA
1 AAAAAGTATTTTAAAAATAAAAAAATAA
85027101 AA
1 AA
85027103 TAAAAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 16 0.59
28 11 0.41
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (28 bp):
AAAAAGTATTTTAAAAATAAAAAAATAA
Found at i:85027579 original size:31 final size:32
Alignment explanation
Indices: 85027522--85027600 Score: 83
Period size: 31 Copynumber: 2.5 Consensus size: 32
85027512 TTAGGAATAA
* *
85027522 AATTTGAAAAGT-ATAAGACATAAAATTGACC
1 AATTTGAAAAATAAAAAGACATAAAATTGACC
* *
85027553 AATTTGAAAAATAAAAAGAC-TGAAATTGATC
1 AATTTGAAAAATAAAAAGACATAAAATTGACC
*
85027584 AAATT-AAAATATAAAAA
1 AATTTGAAAA-ATAAAAA
85027601 CTAAATCCAC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 4 0.10
31 31 0.76
32 6 0.15
ACGTcount: A:0.58, C:0.06, G:0.10, T:0.25
Consensus pattern (32 bp):
AATTTGAAAAATAAAAAGACATAAAATTGACC
Found at i:85028913 original size:60 final size:57
Alignment explanation
Indices: 85028841--85028959 Score: 132
Period size: 57 Copynumber: 2.0 Consensus size: 57
85028831 CAACTAATTT
* * *
85028841 CACATTGGGGCCTAAATTTTGTTTTTGTCCAAGTTT-GTCCCTAAACTTGGTAATTGTTCC
1 CACATTGAGGCCTAAA-CTT-TTTTT-TCCAA-TTTAGTCCCTAAACTTGGCAATTGTTCC
* ** *
85028901 CACATTGAGGCCTGAACTTTTTTTTCCAATTTAGTTTCTCAACTTGGCAATTGTTCC
1 CACATTGAGGCCTAAACTTTTTTTTCCAATTTAGTCCCTAAACTTGGCAATTGTTCC
85028958 CA
1 CA
85028960 GTTCCAATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
56 3 0.06
57 27 0.53
58 5 0.10
59 2 0.04
60 14 0.27
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (57 bp):
CACATTGAGGCCTAAACTTTTTTTTCCAATTTAGTCCCTAAACTTGGCAATTGTTCC
Found at i:85030581 original size:16 final size:16
Alignment explanation
Indices: 85030560--85030595 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
85030550 CAATAGATGA
85030560 AAGAACATTATCAAGG
1 AAGAACATTATCAAGG
85030576 AAGAACATTATCAAGG
1 AAGAACATTATCAAGG
85030592 AAGA
1 AAGA
85030596 CTGAGAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.53, C:0.11, G:0.19, T:0.17
Consensus pattern (16 bp):
AAGAACATTATCAAGG
Found at i:85033056 original size:20 final size:20
Alignment explanation
Indices: 85033011--85033057 Score: 80
Period size: 18 Copynumber: 2.5 Consensus size: 20
85033001 TACAAAAAAA
85033011 AAAACACGAGCTCGAAGATC
1 AAAACACGAGCTCGAAGATC
85033031 --AACACGAGCTCGAAGATC
1 AAAACACGAGCTCGAAGATC
85033049 AAAACACGA
1 AAAACACGA
85033058 TTTCGCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 18 0.72
20 7 0.28
ACGTcount: A:0.47, C:0.26, G:0.19, T:0.09
Consensus pattern (20 bp):
AAAACACGAGCTCGAAGATC
Found at i:85041131 original size:15 final size:15
Alignment explanation
Indices: 85041113--85041143 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
85041103 TTTCTAGCGG
85041113 AAATATTAATTTGGT
1 AAATATTAATTTGGT
85041128 AAATATTAATTTGGT
1 AAATATTAATTTGGT
85041143 A
1 A
85041144 GTCACACTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (15 bp):
AAATATTAATTTGGT
Found at i:85043238 original size:21 final size:22
Alignment explanation
Indices: 85043212--85043258 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
85043202 CTCTGCTCAA
*
85043212 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
85043233 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
85043255 ACTC
1 ACTC
85043259 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:85058512 original size:52 final size:52
Alignment explanation
Indices: 85058444--85058549 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
85058434 TTTTGGGAAA
85058444 AATGAGTGGAAGAATGTACCAATGAGATTTAAGGAAAGAATGTTTGGGTATC
1 AATGAGTGGAAGAATGTACCAATGAGATTTAAGGAAAGAATGTTTGGGTATC
*
85058496 AATGAGTGGAAGAATGTGCCAATGAGATTTAAGGAAAGAATGTTTGGGTATC
1 AATGAGTGGAAGAATGTACCAATGAGATTTAAGGAAAGAATGTTTGGGTATC
85058548 AA
1 AA
85058550 ATACAACTTA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.26
Consensus pattern (52 bp):
AATGAGTGGAAGAATGTACCAATGAGATTTAAGGAAAGAATGTTTGGGTATC
Found at i:85063621 original size:93 final size:93
Alignment explanation
Indices: 85063517--85063692 Score: 259
Period size: 94 Copynumber: 1.9 Consensus size: 93
85063507 ACGTAACGTT
85063517 TAATCTTTTGG-ATAAAAAAAAACATCA-GCAATCATCAATAATT-CCAACTTTAGCTAACAGCA
1 TAATCTTTTGGAATAAAAAAAAACAT-AGGCAATCATC-A-AATTACCAACTTTAGCTAACAGCA
* *
85063579 AGATCTCCAGTACAAGTTTACTAGGTAACGG
63 AGACCTCCAGTACAAATTTACTAGGTAACGG
* *
85063610 TAATCTTTTGGAATTAAAAGAAACATAGGCAATCATCAAATTAGCCAACTTTAGCTAACAGCAAG
1 TAATCTTTTGGAATAAAAAAAAACATAGGCAATCATCAAATTA-CCAACTTTAGCTAACAGCAAG
85063675 ACCTCCAGTACAAATTTA
65 ACCTCCAGTACAAATTTA
85063693 ACTTGCTTAA
Statistics
Matches: 75, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
92 4 0.05
93 13 0.17
94 58 0.77
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.27
Consensus pattern (93 bp):
TAATCTTTTGGAATAAAAAAAAACATAGGCAATCATCAAATTACCAACTTTAGCTAACAGCAAGA
CCTCCAGTACAAATTTACTAGGTAACGG
Found at i:85073535 original size:23 final size:23
Alignment explanation
Indices: 85073509--85073561 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
85073499 ATAAGTGCCA
85073509 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
85073532 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
85073555 CACTGAT
1 CACTGAT
85073562 CAATAACACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:85073661 original size:8 final size:8
Alignment explanation
Indices: 85073648--85073676 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
85073638 ACCCGGGACT
85073648 CACTGTAA
1 CACTGTAA
85073656 CACTGTAA
1 CACTGTAA
85073664 CACTGTAA
1 CACTGTAA
85073672 CACTG
1 CACTG
85073677 ATCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:85076807 original size:30 final size:31
Alignment explanation
Indices: 85076768--85076827 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
85076758 ATAATATAAA
*
85076768 TGGGAAGGGAATAAAAGTTTTAAGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAAGGGAAAAG
* **
85076799 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAAGGGAAAA
85076828 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAAGGGAAAAG
Found at i:85076998 original size:30 final size:30
Alignment explanation
Indices: 85076937--85076998 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
85076927 GGAGGGGAGG
* * **
85076937 GGAGTAAAAGTTTTGGGGGGAAAGTGGAAA
1 GGAGTAAAAGTTTTGAGGGAAAAGTAAAAA
85076967 GGAGTAAAAGTTTTGAGGGAAAAGTAAAAA
1 GGAGTAAAAGTTTTGAGGGAAAAGTAAAAA
85076997 GG
1 GG
85076999 TTTGGGAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.39, T:0.19
Consensus pattern (30 bp):
GGAGTAAAAGTTTTGAGGGAAAAGTAAAAA
Found at i:85077057 original size:9 final size:9
Alignment explanation
Indices: 85077040--85077076 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
85077030 TATAGTTTGA
*
85077040 TATTTGAAT
1 TATTCGAAT
85077049 TATTCGAAT
1 TATTCGAAT
*
85077058 TATTCGAGT
1 TATTCGAAT
85077067 TATTCGAAT
1 TATTCGAAT
85077076 T
1 T
85077077 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:85077147 original size:9 final size:9
Alignment explanation
Indices: 85077130--85077160 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
85077120 TCGAATTGAT
85077130 TCGAATAAC
1 TCGAATAAC
*
85077139 TCGATTAAC
1 TCGAATAAC
85077148 TCGAATAAC
1 TCGAATAAC
85077157 TCGA
1 TCGA
85077161 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:85077579 original size:23 final size:20
Alignment explanation
Indices: 85077529--85077567 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
85077519 TATTTAATTG
*
85077529 ATTATTTTAATGTTATTACC
1 ATTATTATAATGTTATTACC
85077549 ATTATTATATATGTTATTA
1 ATTATTATA-ATGTTATTA
85077568 ATCTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (20 bp):
ATTATTATAATGTTATTACC
Found at i:85081782 original size:9 final size:9
Alignment explanation
Indices: 85081768--85081795 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
85081758 TTTTGTTACA
85081768 ACAATTAAT
1 ACAATTAAT
85081777 ACAATTAAT
1 ACAATTAAT
85081786 ACAATTAAT
1 ACAATTAAT
85081795 A
1 A
85081796 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:85081882 original size:16 final size:16
Alignment explanation
Indices: 85081861--85081902 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
85081851 AATAATTTGA
*
85081861 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
*
85081877 TAATTTTAATAGCAAT
1 TAATTTTAATAACAAT
85081893 TAATTTTAAT
1 TAATTTTAAT
85081903 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:85082186 original size:54 final size:54
Alignment explanation
Indices: 85082104--85082211 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
85082094 TACAAATGAG
85082104 TCAAACCAGAGATCCATTAAAGAGAAAAGGGTTTTGGTTTCATCTTCTTCACTA
1 TCAAACCAGAGATCCATTAAAGAGAAAAGGGTTTTGGTTTCATCTTCTTCACTA
85082158 TCAAACCAGAGATCCATTAAAGAGAAAAGGGTTTTGGTTTCATCTTCTTCACTA
1 TCAAACCAGAGATCCATTAAAGAGAAAAGGGTTTTGGTTTCATCTTCTTCACTA
85082212 CTAAGCCCCC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (54 bp):
TCAAACCAGAGATCCATTAAAGAGAAAAGGGTTTTGGTTTCATCTTCTTCACTA
Found at i:85087039 original size:12 final size:13
Alignment explanation
Indices: 85087022--85087058 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
85087012 GAACCGGACA
85087022 CGAACCGAA-CTC
1 CGAACCGAAGCTC
85087034 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
85087046 CGAACCGTAGCTC
1 CGAACCGAAGCTC
85087059 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:85090639 original size:14 final size:14
Alignment explanation
Indices: 85090603--85090636 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
85090593 TCATCATTTG
85090603 CCTATAACCAAAAC
1 CCTATAACCAAAAC
85090617 CCTATAACCAAAAC
1 CCTATAACCAAAAC
85090631 CC-ATAA
1 CCTATAA
85090637 ACCCATATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:85095660 original size:21 final size:23
Alignment explanation
Indices: 85095612--85095662 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
85095602 GCCCAGCCCG
85095612 ATTTTTAATAAACACAAAAAAAT
1 ATTTTTAATAAACACAAAAAAAT
*
85095635 A-TTTTAA-AAATA-AAAAAAAT
1 ATTTTTAATAAACACAAAAAAAT
85095655 ATTTTTAA
1 ATTTTTAA
85095663 CGTATTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 9 0.35
21 10 0.38
22 6 0.23
23 1 0.04
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
ATTTTTAATAAACACAAAAAAAT
Found at i:85096934 original size:3 final size:3
Alignment explanation
Indices: 85096928--85096971 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
85096918 ATTTAATTTT
85096928 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
85096972 GCATTTGATC
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:85109580 original size:16 final size:16
Alignment explanation
Indices: 85109559--85109591 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
85109549 CAAACATAAG
85109559 TAACTAAAATATAATA
1 TAACTAAAATATAATA
85109575 TAACTAAAATATAATA
1 TAACTAAAATATAATA
85109591 T
1 T
85109592 GAGGTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (16 bp):
TAACTAAAATATAATA
Found at i:85114939 original size:20 final size:20
Alignment explanation
Indices: 85114916--85114953 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
85114906 TAAGTTTGAA
85114916 ATGTTA-CGTTTTAGTTACTT
1 ATGTTATCGTTTT-GTTACTT
85114936 ATGTTATCGTTTTGTTAC
1 ATGTTATCGTTTTGTTAC
85114954 GAATTGGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.18, C:0.11, G:0.16, T:0.55
Consensus pattern (20 bp):
ATGTTATCGTTTTGTTACTT
Found at i:85118471 original size:37 final size:36
Alignment explanation
Indices: 85118397--85118471 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 36
85118387 GTGGCATGCT
*
85118397 AATTAAAAATACATTAAAAATTAAATATTTCCCAATA
1 AATTAAAAATACATTAAAAATTAAATATTT-CAAATA
*
85118434 AATTAAAAATACATTAAAATATTATTATATTT-AAATA
1 AATTAAAAATACATTAAAA-ATTA-AATATTTCAAATA
85118471 A
1 A
85118472 CACTAAGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 24 0.71
38 4 0.12
39 6 0.18
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (36 bp):
AATTAAAAATACATTAAAAATTAAATATTTCAAATA
Found at i:85125588 original size:51 final size:51
Alignment explanation
Indices: 85125472--85125689 Score: 321
Period size: 51 Copynumber: 4.3 Consensus size: 51
85125462 CGGATCACAT
* * * * **
85125472 TTATCACTTTTCACTTGTCCCTGATCAAATAAGTGTAG-TTAAGCTACCGC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTAC
* * *
85125522 TTATCACTTGCCACTTGTCACTGATCAGATAAGTATAGCTGAAGCTACTAT
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTAC
*
85125573 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAAGCTACTAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTAC
* *
85125624 TTATTATTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTAC
85125675 TTATCACTTGTCACT
1 TTATCACTTGTCACT
85125690 GATCAGAAGT
Statistics
Matches: 149, Mismatches: 18, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
50 33 0.22
51 116 0.78
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTAC
Found at i:85134063 original size:4 final size:4
Alignment explanation
Indices: 85134046--85134123 Score: 67
Period size: 4 Copynumber: 20.0 Consensus size: 4
85134036 GAAGGAGAGG
* *
85134046 GAAA G-AA G-AA GAAA GAAA GAAA GAAA GAAA GAAAA GGAAA GGAGA GGAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA -GAAA GAAA
*
85134095 GAAA -AAA GAAA G-AA -AAA GAAG GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
85134124 AGGAAAGGAG
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
3 13 0.21
4 38 0.61
5 10 0.16
6 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:85134104 original size:34 final size:34
Alignment explanation
Indices: 85134058--85134185 Score: 114
Period size: 34 Copynumber: 3.6 Consensus size: 34
85134048 AAGAAGAAGA
85134058 AAGAAAGAAAGAAAGAAAGAA-AAGGAAAGGAGAGG
1 AAGAAA-AAAGAAAGAAA-AAGAAGGAAAGGAGAGG
* *
85134093 AAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGG
1 AAGAAAAAAGAAAGAAAAAGAAGGAAAGGAGAGG
* * * *
85134127 AAAGGAGAAGAGAAAAAAAGAAGAAGAAGAAGAGGGGAGG
1 -AA-GAAAAAAGAAAGAAA-AAGAAG--GAA-AGGAGAGG
*
85134167 AAGGAAAAAGAAAGAAAAA
1 AAGAAAAAAGAAAGAAAAA
85134186 AATGTAATTT
Statistics
Matches: 74, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
33 2 0.03
34 23 0.31
35 8 0.11
36 12 0.16
37 8 0.11
38 11 0.15
39 5 0.07
40 5 0.07
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (34 bp):
AAGAAAAAAGAAAGAAAAAGAAGGAAAGGAGAGG
Found at i:85134126 original size:44 final size:44
Alignment explanation
Indices: 85134048--85134158 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
85134038 AGGAGAGGGA
* *
85134048 AAGAAGAAGAAAGAAAG--AAAGAAAGAAAGAAAAGGAAAGGAG
1 AAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAG
*
85134090 AGGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAG
1 AAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAG
*
85134134 AAG-AGAAAAAA-AGAAGAAGAAGAAG
1 AAGAAGAAAAAAGA-AAGAAAAAGAAG
85134159 AGGGGAGGAA
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
42 16 0.26
43 19 0.31
44 26 0.43
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (44 bp):
AAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAG
Found at i:85135074 original size:285 final size:283
Alignment explanation
Indices: 85134558--85135502 Score: 1510
Period size: 285 Copynumber: 3.3 Consensus size: 283
85134548 AAAGTAAAAA
* *
85134558 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGGAAAAATTACGAA-AAAT
1 TATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGGAAAAAATACGAAGAAAT
* * * *
85134622 GGCCGAGGGAAGAGTGTTTTACAAAATTTTTAAAAAATTCAGAAATAATTAATACAAATATTTCA
66 GGCCGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCA
* *
85134687 AACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAATTTTTTTATTTAAAGTAA
131 AACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTTTTTATTGAAAGTAA
* * *
85134752 TAAAATTCGGGAAAATAATACGAGCAAATGACAGGAATAAG-TGGTTTTTTACACTAAATTAATT
196 TAAAATTCGAGAAAATAATACGAGCAAAGGGCAGGAATAAGAT--TTTTTTACACTAAATTAATT
85134816 TAAAAAACACACTAAATTAATAAATT
259 TAAAAAA-ACACTAAATTAATAAATT
*
85134842 TATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATACGGAGGAAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGGAAAAAATACGAAGAAAT
* * *
85134907 GGCGGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATATAGATATTTCA
66 GGCCGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCA
* * *
85134972 AACAAAATGTACTAAAATAATATAAAATAATAAAATACAAAAATAAAATTTTTTATTGAAATTAA
131 AACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTTTTTATTGAAAGTAA
**
85135037 TAAAATTAAAGAAAATAATACGAGCAAAGGGCAGGAATAAGAATTTTTTTTACACTAAATTAATT
196 TAAAATTCGAGAAAATAATACGAGCAAAGGGCAGGAATAAG-A-TTTTTTTACACTAAATTAATT
*
85135102 TTAAAAAACACTAAATTAATAAATT
259 TAAAAAAACACTAAATTAATAAATT
85135127 TATAAAATTAGAAATTATGATATTTTTTAAAAGTAATAAAATGCGGA-GAAAAAATACGAAGAAA
1 TATAAAATTAGAAATTATGATATTTTTT-AAAGTAATAAAATGCGGAGGAAAAAATACGAAGAAA
*
85135191 TGGCCGAAGTAAGAGTGTTTTACTAACTTTTTTAAAAATTCAGAAATAATTAATACAAATATTTC
65 TGGCCGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTC
85135256 AAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAAT-AAA-TTTTT-TTGAAAGTA
130 AAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTTTTTATTGAAAGTA
* *
85135318 ATAAAATTCGAGAAAATAATACGAGCAAAGGGCAAGAATAAGCTTTTTTTACACTAAATTAATTT
195 ATAAAATTCGAGAAAATAATACGAGCAAAGGGCAGGAATAAGATTTTTTTACACTAAATTAATTT
85135383 AAAAAAACACTAAATTAATAAATT
260 AAAAAAACACTAAATTAATAAATT
* * *
85135407 TATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGTGGAGAAAAAAAATATGAAGAAA
1 TATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAG-GAAAAAATACGAAGAAA
* *
85135472 TGGCTGAAGT-A-AGTGTTTTACTAATTTTTTT
65 TGGCCGAAGTAAGAGTGTTTTACTAAATTTTTT
85135503 TCAACATGCA
Statistics
Matches: 615, Mismatches: 39, Indels: 19
0.91 0.06 0.03
Matches are distributed among these distances:
279 36 0.06
280 74 0.12
281 24 0.04
282 47 0.08
283 5 0.01
284 60 0.10
285 325 0.53
286 43 0.07
288 1 0.00
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.31
Consensus pattern (283 bp):
TATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGGAAAAAATACGAAGAAAT
GGCCGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCA
AACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTTTTTATTGAAAGTAA
TAAAATTCGAGAAAATAATACGAGCAAAGGGCAGGAATAAGATTTTTTTACACTAAATTAATTTA
AAAAAACACTAAATTAATAAATT
Found at i:85136870 original size:113 final size:114
Alignment explanation
Indices: 85136560--85137199 Score: 625
Period size: 114 Copynumber: 5.6 Consensus size: 114
85136550 CGGCGTTTAC
* * * *
85136560 CCGCGAAATCTCTTAACCAAAACGCAGT-GTTTTCGTCTTGATGTATACTAGAATTAGTGGCGAT
1 CCGCAAAATATCTTAACCAAAACGCA-TAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCT
* * * * * *****
85136624 TATGGGAAAACGCCACTACA-G-C-GTATTACCGGCGGCTTCCAAAAAGCG
65 TACGGGAAAACGCCGCTAAAGGACAGTAATAGCGGC-GCTTTGTGGAAGCG
* * ** * * *
85136672 CCGCAAAATATCTTAACCAAAACGCATCGTTTCGGTCTTGATGTACCCTAAAAGTAGTGGCGTTT
1 CCGCAAAATATCTTAACCAAAACGCATAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTT
* * *
85136737 ACGGGAAAATGCCGTTAAAGGACAGTAATAGCGGCGCTTTTTGGAAGCG
66 ACGGGAAAACGCCGCTAAAGGACAGTAATAGCGGCGCTTTGTGGAAGCG
* * *
85136786 CCGCAAAATATCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTAT-CTTAGAATTAGTGGCGTT
1 CCGCAAAATATCTTAACCAAAACGCATAGTTTTGGTCTTGATGTATAC-TAGAATTAGTGGCGCT
* * * *
85136849 TATGGGAAAACGCCGCAAAAGGACAATAATAGCGGCGCTTTATGGAAGCG
65 TACGGGAAAACGCCGCTAAAGGACAGTAATAGCGGCGCTTTGTGGAAGCG
* * * * *
85136899 CCGCAAAATATCTGAACCAAAACACATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCACCT
1 CCGCAAAATATCTTAACCAAAACGCATAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTT
* ** * * * * * * *
85136964 ACAGTG-AAACGCCGCTAAATTATAGTATTAGCGGTGATTCGTGGCTAGCA
66 AC-GGGAAAACGCCGCTAAAGGACAGTAATAGCGGCGCTTTGTGG-AAGCG
*
85137014 CCGCAAAATATCTTAACCAAAACGCA-ACGTTTTGGTCTTGATGTATA-TAAAATTAGTGGCGCT
1 CCGCAAAATATCTTAACCAAAACGCATA-GTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCT
* * * * * * * *
85137077 TACAGTAAACCGCCGCGAAAGAATATTAATAACGGCGCTTTGTGAGAAGCG
65 TACGGGAAAACGCCGCTAAAGGACAGTAATAGCGGCGCTTTGTG-GAAGCG
* * *
85137128 CTGCAAAATATCTTAACCAAAACGCATAGTTTTTGTCTTGATGTATACTAGAATTAATGGCGCTT
1 CCGCAAAATATCTTAACCAAAACGCATAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTT
85137193 A-GGGAAA
66 ACGGGAAA
85137200 CACCGTTAAA
Statistics
Matches: 431, Mismatches: 83, Indels: 26
0.80 0.15 0.05
Matches are distributed among these distances:
111 1 0.00
112 69 0.16
113 97 0.23
114 188 0.44
115 76 0.18
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (114 bp):
CCGCAAAATATCTTAACCAAAACGCATAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTT
ACGGGAAAACGCCGCTAAAGGACAGTAATAGCGGCGCTTTGTGGAAGCG
Found at i:85137367 original size:198 final size:199
Alignment explanation
Indices: 85137010--85137374 Score: 497
Period size: 198 Copynumber: 1.8 Consensus size: 199
85137000 ATTCGTGGCT
* *
85137010 AGCACCGCAAAATATCTTAACCAAAACGCAACGTTTTGGTCTTGATGTATATAAAATTAGTGGCG
1 AGCACCGCAAAATATCTTAACCAAAACGCAAAGTTTTGGTCTTGAGGTATATAAAATTAGTGGCG
** * * * *
85137075 CTTACAGTAAACCGCCGCGAAAGAATATTAATAACGGCGCTTTGTGAGAAGCGCTGCAAAATATC
66 CTTACACAAAAACGCCACGAAAGAATAGTAATAACGGCGCTTTGTGAGAAGCGCCGCAAAATATC
*
85137140 TTAACCAAAACGCATAGTTTTTGTCTTGATGTATACTAGAATTAATGGCGCTTAGGGAAACACCG
131 TAAACCAAAACGCATAGTTTTTGTCTTGATGTATACTAGAATTAATGGCGCTTAGGGAAACACCG
85137205 TTAA
196 TTAA
*
85137209 AGCA-CGCAAAATATCTTAACCAAAACGCAAAG-TTTGGTCTTGAGGTATGTAAGAATTAGTGGC
1 AGCACCGCAAAATATCTTAACCAAAACGCAAAGTTTTGGTCTTGAGGTATATAA-AATTAGTGGC
* * * * ** * *
85137272 GCTTATCACAAAAACGCCACTAACGGATAGTATTTGCGTCGCTTTTTG-GAAGCGCCGCAAAATA
65 GCTTA-CACAAAAACGCCACGAAAGAATAGTAATAACGGCGCTTTGTGAGAAGCGCCGCAAAATA
85137336 TCTAAACCAAAACGCA-ACG-TTTTGTTCTTGATGTATACT
129 TCTAAACCAAAACGCATA-GTTTTTG-TCTTGATGTATACT
85137375 TGATTTAGTG
Statistics
Matches: 144, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
197 24 0.17
198 87 0.60
199 33 0.23
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (199 bp):
AGCACCGCAAAATATCTTAACCAAAACGCAAAGTTTTGGTCTTGAGGTATATAAAATTAGTGGCG
CTTACACAAAAACGCCACGAAAGAATAGTAATAACGGCGCTTTGTGAGAAGCGCCGCAAAATATC
TAAACCAAAACGCATAGTTTTTGTCTTGATGTATACTAGAATTAATGGCGCTTAGGGAAACACCG
TTAA
Found at i:85137872 original size:22 final size:22
Alignment explanation
Indices: 85137847--85137911 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
85137837 TTTATGATGT
* * *
85137847 AGGTTTTGGTGTTTTGGGTTTA
1 AGGTTTAGGAGTTTGGGGTTTA
85137869 AGGTTTAGGAGTTTGGGGTTTA
1 AGGTTTAGGAGTTTGGGGTTTA
*
85137891 AGGTTTAAG-GTTTGGGGTTTA
1 AGGTTTAGGAGTTTGGGGTTTA
85137912 TGCTACTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 12 0.31
22 27 0.69
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (22 bp):
AGGTTTAGGAGTTTGGGGTTTA
Found at i:85138377 original size:7 final size:7
Alignment explanation
Indices: 85138354--85138384 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
85138344 ATCTTAAGAT
85138354 TTTAGGG
1 TTTAGGG
85138361 TTTAGTGG
1 TTTAG-GG
85138369 TTTAGGG
1 TTTAGGG
85138376 TTTAGGG
1 TTTAGGG
85138383 TT
1 TT
85138385 AAATCCCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.13, C:0.00, G:0.39, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:85138380 original size:15 final size:14
Alignment explanation
Indices: 85138354--85138384 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
85138344 ATCTTAAGAT
85138354 TTTAGGGTTTAGTGG
1 TTTAGGGTTTAG-GG
85138369 TTTAGGGTTTAGGG
1 TTTAGGGTTTAGGG
85138383 TT
1 TT
85138385 AAATCCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.13, C:0.00, G:0.39, T:0.48
Consensus pattern (14 bp):
TTTAGGGTTTAGGG
Done.