Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold498
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: 1804022
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
File 3 of 17
Found at i:198856 original size:25 final size:24
Alignment explanation
Indices: 198787--198856 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
198777 ATTTAAAAAT
* *
198787 TATATTTATATATTTAAATTTTGA
1 TATATTTATATAATTAAATTTTAA
*
198811 TA-ATTTATATTATATAAATTTTAA
1 TATATTTATATAAT-TAAATTTTAA
*
198835 TATATTTATAATAATTATATTT
1 TATATTTAT-ATAATTAAATTT
198857 AAATTAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
23 9 0.24
24 13 0.34
25 12 0.32
26 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (24 bp):
TATATTTATATAATTAAATTTTAA
Found at i:200083 original size:17 final size:18
Alignment explanation
Indices: 200063--200104 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
200053 AATATTTTTT
200063 AATATATAAAAAATA-TA
1 AATATATAAAAAATATTA
* *
200080 AATAAAT-AAATATATTA
1 AATATATAAAAAATATTA
200097 AATATATA
1 AATATATA
200105 TTCGTATCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AATATATAAAAAATATTA
Found at i:200692 original size:13 final size:13
Alignment explanation
Indices: 200674--200699 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
200664 AATATGTATC
200674 AAATATAAATATT
1 AAATATAAATATT
200687 AAATATAAATATT
1 AAATATAAATATT
200700 TTAAAAAAAT
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATATAAATATT
Found at i:200969 original size:23 final size:22
Alignment explanation
Indices: 200926--200970 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
200916 TATATAATAT
* *
200926 TAATATAAAAATAATATTTTAA
1 TAATATAAAAATAACAATTTAA
*
200948 TAATATAGTAAATAACAATTTAA
1 TAATATA-AAAATAACAATTTAA
200971 GCTTTCAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
TAATATAAAAATAACAATTTAA
Found at i:203624 original size:19 final size:19
Alignment explanation
Indices: 203581--203623 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
203571 GGAATTTTTA
* *
203581 ATTTTAAAATTTTTATAGT
1 ATTTTTAAATTTTTATACT
*
203600 ATTTTTAAATTTTTTTACT
1 ATTTTTAAATTTTTATACT
203619 -TTTTT
1 ATTTTT
203624 TCGTCTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTTTAAATTTTTATACT
Found at i:203715 original size:18 final size:18
Alignment explanation
Indices: 203694--203734 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
203684 TACTATTTTT
203694 AAATTATAAACTAAAATC
1 AAATTATAAACTAAAATC
*
203712 AAATT-TCAACTAAAATC
1 AAATTATAAACTAAAATC
*
203729 TAATTA
1 AAATTA
203735 AATTCAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATTATAAACTAAAATC
Found at i:203958 original size:15 final size:15
Alignment explanation
Indices: 203938--203984 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
203928 CTTATAAATA
203938 AATAAAAATATATAT
1 AATAAAAATATATAT
203953 AATAAAAATATATAT
1 AATAAAAATATATAT
*
203968 TATATAAAATA-ATAT
1 AATA-AAAATATATAT
203983 AA
1 AA
203985 ATATATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 23 0.79
16 6 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AATAAAAATATATAT
Found at i:204066 original size:2 final size:2
Alignment explanation
Indices: 204059--204099 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
204049 ATTCTTTGCG
*
204059 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT GT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
204100 CAGGATCGGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.02, T:0.49
Consensus pattern (2 bp):
CT
Found at i:204506 original size:32 final size:31
Alignment explanation
Indices: 204440--204506 Score: 73
Period size: 31 Copynumber: 2.1 Consensus size: 31
204430 ATTTTATTAT
* ***
204440 TTTTAATATTATTAAATTAAAATGATATTTA
1 TTTTAATATTATCAAATTAAAATGATAAGAA
204471 TTTTAATATTATCAAATTTAAAA-GATAGAGAA
1 TTTTAATATTATCAAA-TTAAAATGATA-AGAA
204503 TTTT
1 TTTT
204507 TTTTAATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
31 19 0.63
32 11 0.37
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (31 bp):
TTTTAATATTATCAAATTAAAATGATAAGAA
Found at i:204746 original size:16 final size:16
Alignment explanation
Indices: 204727--204786 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
204717 AATTTAAATT
204727 ATTTTGAGTTCGGATC
1 ATTTTGAGTTCGGATC
*
204743 ATTTTGGGTTCGGATC
1 ATTTTGAGTTCGGATC
*
204759 ACTTT-AGATTCAGG-TC
1 ATTTTGAG-TTC-GGATC
*
204775 ATTTTGGGTTCG
1 ATTTTGAGTTCG
204787 AGTCATTTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
15 2 0.06
16 31 0.86
17 3 0.08
ACGTcount: A:0.17, C:0.13, G:0.27, T:0.43
Consensus pattern (16 bp):
ATTTTGAGTTCGGATC
Found at i:204793 original size:16 final size:16
Alignment explanation
Indices: 204727--204805 Score: 56
Period size: 16 Copynumber: 4.9 Consensus size: 16
204717 AATTTAAATT
*
204727 ATTTTGAGTTCG-GATC
1 ATTTTGGGTTCGAG-TC
204743 ATTTTGGGTTCG-GATC
1 ATTTTGGGTTCGAG-TC
* * *
204759 ACTTTAGATTC-AGGTC
1 ATTTTGGGTTCGA-GTC
204775 ATTTTGGGTTCGAGTC
1 ATTTTGGGTTCGAGTC
* *
204791 ATTTCGGATTCGAGT
1 ATTTTGGGTTCGAGT
204806 TGTTTCATGT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
16 49 0.96
17 2 0.04
ACGTcount: A:0.18, C:0.14, G:0.27, T:0.42
Consensus pattern (16 bp):
ATTTTGGGTTCGAGTC
Found at i:204898 original size:53 final size:54
Alignment explanation
Indices: 204815--204918 Score: 147
Period size: 53 Copynumber: 1.9 Consensus size: 54
204805 TTGTTTCATG
* * *
204815 TTCGAGTCAATCGAGTTTAACACTCGGGTT-AATCGAGTTCAGATCATTTTGGA
1 TTCGAGTCAATCGAGTTTAACACTCAGGTTAAATCAAGTTCAAATCATTTTGGA
* * *
204868 TTCGAGTTAATCGAGTTTAACATTCAGGTTAAATTAAGTTCAAATCATTTT
1 TTCGAGTCAATCGAGTTTAACACTCAGGTTAAATCAAGTTCAAATCATTTT
204919 AAGTTTAGGT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 27 0.61
54 17 0.39
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (54 bp):
TTCGAGTCAATCGAGTTTAACACTCAGGTTAAATCAAGTTCAAATCATTTTGGA
Found at i:205756 original size:19 final size:18
Alignment explanation
Indices: 205719--205762 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
205709 TTTTTTATTT
* *
205719 TTAAATAATAATTATATA
1 TTAAATAATAATCACATA
205737 TTAAATATATAATCACATA
1 TTAAATA-ATAATCACATA
205756 TTAAATA
1 TTAAATA
205763 GCTAATTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
TTAAATAATAATCACATA
Found at i:205873 original size:16 final size:16
Alignment explanation
Indices: 205854--205895 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
205844 AGTTCGAGTC
*
205854 ATTTCAAGTTCAGATT
1 ATTTCGAGTTCAGATT
*
205870 ATTTTCGA-TTCGGATT
1 A-TTTCGAGTTCAGATT
205886 ATTTCGAGTT
1 ATTTCGAGTT
205896 TAGGACATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 6 0.27
16 11 0.50
17 5 0.23
ACGTcount: A:0.24, C:0.12, G:0.17, T:0.48
Consensus pattern (16 bp):
ATTTCGAGTTCAGATT
Found at i:205920 original size:16 final size:16
Alignment explanation
Indices: 205901--205954 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
205891 GAGTTTAGGA
* *
205901 CATTTTAGATTGGAGT
1 CATTTTAGATTCGAAT
*
205917 CATTCTAGATTCGAAT
1 CATTTTAGATTCGAAT
* * *
205933 CATTTCAAATTTGAAT
1 CATTTTAGATTCGAAT
205949 CATTTT
1 CATTTT
205955 GAATTTAAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (16 bp):
CATTTTAGATTCGAAT
Found at i:205959 original size:16 final size:16
Alignment explanation
Indices: 205929--205980 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
205919 TTCTAGATTC
*
205929 GAATCATTTCAAATTT
1 GAATCATTTCGAATTT
*
205945 GAATCATTTTGAATTT
1 GAATCATTTCGAATTT
* *
205961 AAATCAATTCGAATTT
1 GAATCATTTCGAATTT
205977 GAAT
1 GAAT
205981 TATTAATTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (16 bp):
GAATCATTTCGAATTT
Found at i:210184 original size:14 final size:14
Alignment explanation
Indices: 210161--210217 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
210151 TAAAATATTA
210161 TTTAATTATATAAAT
1 TTTAA-TATATAAAT
210176 TTTAATATATTAATAAT
1 TTTAATATA-T-A-AAT
*
210193 TTATATTATATAAAT
1 TT-TAATATATAAAT
210208 TTTAATATAT
1 TTTAATATAT
210218 TTATATATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 11 0.31
15 11 0.31
16 2 0.06
17 6 0.17
18 6 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTAATATATAAAT
Found at i:210185 original size:27 final size:28
Alignment explanation
Indices: 210149--210247 Score: 103
Period size: 32 Copynumber: 3.4 Consensus size: 28
210139 TATAATCGTA
*
210149 TTTAAAATA-TTATTTAATTATATAAAT
1 TTTAATATATTTATTTAATTATATAAAT
210176 TTTAATATATTAATAATTTATATTATATAAAT
1 TTTAATATATT--T-ATTTA-ATTATATAAAT
* *
210208 TTTAATATATTTATATATTTATATAATAT
1 TTTAATATATTTATTTAATTATATAA-AT
210237 ATTT-ATATATT
1 -TTTAATATATT
210248 GTGATATATT
Statistics
Matches: 62, Mismatches: 3, Indels: 12
0.81 0.04 0.16
Matches are distributed among these distances:
27 8 0.13
28 9 0.15
29 13 0.21
30 5 0.08
31 5 0.08
32 22 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTAATATATTTATTTAATTATATAAAT
Found at i:210188 original size:8 final size:8
Alignment explanation
Indices: 210177--210247 Score: 53
Period size: 8 Copynumber: 9.2 Consensus size: 8
210167 TATATAAATT
210177 TTAATATA
1 TTAATATA
210185 TTAATA-A
1 TTAATATA
*
210192 TTTATATTA
1 TTAATA-TA
*
210201 TATAA-ATT
1 T-TAATATA
210209 TTAATATA
1 TTAATATA
*
210217 TTTATATA
1 TTAATATA
210225 TT--TATA
1 TTAATATA
210231 -TAATATA
1 TTAATATA
*
210238 TTTATATA
1 TTAATATA
210246 TT
1 TT
210248 GTGATATATT
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
5 1 0.02
6 4 0.08
7 13 0.26
8 27 0.54
9 3 0.06
10 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TTAATATA
Found at i:210202 original size:32 final size:33
Alignment explanation
Indices: 210154--210237 Score: 127
Period size: 32 Copynumber: 2.6 Consensus size: 33
210144 TCGTATTTAA
210154 AATATTATTTA-ATTATATAAATTTTAATATATT
1 AATA-TATTTATATTATATAAATTTTAATATATT
210187 AATA-ATTTATATTATATAAATTTTAATATATT
1 AATATATTTATATTATATAAATTTTAATATATT
* *
210219 TATATATTTATATAATATA
1 AATATATTTATATTATATA
210238 TTTATATATT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
31 5 0.11
32 25 0.53
33 17 0.36
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (33 bp):
AATATATTTATATTATATAAATTTTAATATATT
Found at i:210236 original size:21 final size:21
Alignment explanation
Indices: 210166--210247 Score: 77
Period size: 21 Copynumber: 4.0 Consensus size: 21
210156 TATTATTTAA
210166 TTATATAA-AT-TTTA-ATAT
1 TTATATAATATATTTATATAT
* *
210184 ATTA-ATAATTTATATTATATAAA
1 -TTATATAATATAT-TTATAT-AT
210207 TT-T-TAATATATTTATATAT
1 TTATATAATATATTTATATAT
210226 TTATATAATATATTTATATAT
1 TTATATAATATATTTATATAT
210247 T
1 T
210248 GTGATATATT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
18 4 0.08
19 7 0.14
20 8 0.16
21 27 0.53
22 4 0.08
23 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATATAATATATTTATATAT
Found at i:212319 original size:280 final size:280
Alignment explanation
Indices: 211813--212378 Score: 1123
Period size: 280 Copynumber: 2.0 Consensus size: 280
211803 GAATTGGGGG
*
211813 AAGAAAGAAAGAGAGATACCCCCGAAGTTCTTTTGTTACTTACTAATAAAATATAGTACTTAATT
1 AAGAGAGAAAGAGAGATACCCCCGAAGTTCTTTTGTTACTTACTAATAAAATATAGTACTTAATT
211878 GAAAGTACTAACTATCAACTTTTTTTCGGGTTCAAAGGAGGTTATAGTCTGAGGAATAGGGGAAT
66 GAAAGTACTAACTATCAACTTTTTTTCGGGTTCAAAGGAGGTTATAGTCTGAGGAATAGGGGAAT
211943 AGCTTGCACATGCTAGATTTAATCCTAGACTTGTTGAAGGTTACCACTTAAGGGTTGTTGAATGA
131 AGCTTGCACATGCTAGATTTAATCCTAGACTTGTTGAAGGTTACCACTTAAGGGTTGTTGAATGA
212008 ACCAACTGAGTTAAACTTTGAGTTCACAACCCAACTAAGAACTTGATATAGCATGTATATACTTG
196 ACCAACTGAGTTAAACTTTGAGTTCACAACCCAACTAAGAACTTGATATAGCATGTATATACTTG
212073 TTTTTGTTTGGGTAAAACTA
261 TTTTTGTTTGGGTAAAACTA
212093 AAGAGAGAAAGAGAGATACCCCCGAAGTTCTTTTGTTACTTACTAATAAAATATAGTACTTAATT
1 AAGAGAGAAAGAGAGATACCCCCGAAGTTCTTTTGTTACTTACTAATAAAATATAGTACTTAATT
212158 GAAAGTACTAACTATCAACTTTTTTTCGGGTTCAAAGGAGGTTATAGTCTGAGGAATAGGGGAAT
66 GAAAGTACTAACTATCAACTTTTTTTCGGGTTCAAAGGAGGTTATAGTCTGAGGAATAGGGGAAT
212223 AGCTTGCACATGCTAGATTTAATCCTAGACTTGTTGAAGGTTACCACTTAAGGGTTGTTGAATGA
131 AGCTTGCACATGCTAGATTTAATCCTAGACTTGTTGAAGGTTACCACTTAAGGGTTGTTGAATGA
212288 ACCAACTGAGTTAAACTTTGAGTTCACAACCCAACTAAGAACTTGATATAGCATGTATATACTTG
196 ACCAACTGAGTTAAACTTTGAGTTCACAACCCAACTAAGAACTTGATATAGCATGTATATACTTG
212353 TTTTTGTTTGGGTAAAACTA
261 TTTTTGTTTGGGTAAAACTA
212373 AAGAGA
1 AAGAGA
212379 ACCACAAAAG
Statistics
Matches: 285, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
280 285 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (280 bp):
AAGAGAGAAAGAGAGATACCCCCGAAGTTCTTTTGTTACTTACTAATAAAATATAGTACTTAATT
GAAAGTACTAACTATCAACTTTTTTTCGGGTTCAAAGGAGGTTATAGTCTGAGGAATAGGGGAAT
AGCTTGCACATGCTAGATTTAATCCTAGACTTGTTGAAGGTTACCACTTAAGGGTTGTTGAATGA
ACCAACTGAGTTAAACTTTGAGTTCACAACCCAACTAAGAACTTGATATAGCATGTATATACTTG
TTTTTGTTTGGGTAAAACTA
Found at i:213258 original size:2 final size:2
Alignment explanation
Indices: 213253--213283 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
213243 TGTTTTAGCA
213253 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
213284 AAATAAAAGT
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:213691 original size:21 final size:21
Alignment explanation
Indices: 213648--213688 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
213638 TAATATTTAT
213648 ATATTTTACTATAAAAAATAA
1 ATATTTTACTATAAAAAATAA
*
213669 ATA-TTTA-TATATAAAATAA
1 ATATTTTACTATAAAAAATAA
213688 A
1 A
213689 AATTAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 4 0.21
21 3 0.16
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
ATATTTTACTATAAAAAATAA
Found at i:216708 original size:2 final size:2
Alignment explanation
Indices: 216701--216725 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
216691 CTGGTACTGT
216701 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
216726 TGGATGTTTG
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:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:218545 original size:7 final size:7
Alignment explanation
Indices: 218533--218557 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
218523 TCCAGTTTTT
218533 ATTTTAA
1 ATTTTAA
218540 ATTTTAA
1 ATTTTAA
218547 ATTTTAA
1 ATTTTAA
218554 ATTT
1 ATTT
218558 AATTTAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTTAA
Found at i:218758 original size:21 final size:22
Alignment explanation
Indices: 218729--218769 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
218719 ATTAAACTCA
*
218729 TAAATTATTTA-AATCAATTAT
1 TAAAATATTTACAATCAATTAT
*
218750 TAAAATATTTACATTCAATT
1 TAAAATATTTACAATCAATT
218770 TACTAGGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAAATATTTACAATCAATTAT
Found at i:218972 original size:2 final size:2
Alignment explanation
Indices: 218965--218989 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
218955 TTTCTTTCAT
218965 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
218990 ATATATATAT
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:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:218994 original size:2 final size:2
Alignment explanation
Indices: 218989--219016 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
218979 TCTCTCTCTC
218989 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
219017 ATCTGCCATT
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:220205 original size:2 final size:2
Alignment explanation
Indices: 220198--220227 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
220188 TCATCAAAAT
*
220198 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
220228 CTTGTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:220458 original size:16 final size:16
Alignment explanation
Indices: 220437--220481 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
220427 TTTTTAAGTC
**
220437 ATTTTAAATTTTGATT
1 ATTTTAAATTTAAATT
*
220453 ATTTTAGATTTAAATT
1 ATTTTAAATTTAAATT
220469 ATTTTAAATTTAA
1 ATTTTAAATTTAA
220482 GTTGATTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (16 bp):
ATTTTAAATTTAAATT
Found at i:220897 original size:19 final size:21
Alignment explanation
Indices: 220875--220935 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 21
220865 AAGATTATAA
220875 TTTTATAATT-TTAATT-AT-T
1 TTTTATAATTATT-ATTAATAT
220894 TTTTATAATTATTATTAATAT
1 TTTTATAATTATTATTAATAT
* *
220915 TTATTATAATTAATAATAATA
1 TT-TTATAATTATTATTAATA
220936 ATATTTATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
19 13 0.36
20 4 0.11
21 3 0.08
22 16 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTATAATTATTATTAATAT
Found at i:220905 original size:6 final size:6
Alignment explanation
Indices: 220846--220961 Score: 53
Period size: 6 Copynumber: 18.8 Consensus size: 6
220836 ATTTTAAATA
* * **
220846 ATAATT ATAA-T ATAATA ATAAGATT ATAATTTT ATAATT TTAATT ATTTTTT
1 ATAATT ATAATT ATAATT AT-A-ATT ATAA--TT ATAATT ATAATT A-TAATT
* * *
220898 ATAATT ATTATT A-ATATT -T-ATT ATAATT AATAATA ATAA-T ATTTATT
1 ATAATT ATAATT ATA-ATT ATAATT ATAATT -ATAATT ATAATT A-TAATT
*
220945 ATATTT ATAATT ATAAT
1 ATAATT ATAATT ATAAT
220962 ACCAAATTTT
Statistics
Matches: 81, Mismatches: 16, Indels: 26
0.66 0.13 0.21
Matches are distributed among these distances:
4 3 0.04
5 7 0.09
6 48 0.59
7 13 0.16
8 10 0.12
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (6 bp):
ATAATT
Found at i:222233 original size:9 final size:9
Alignment explanation
Indices: 222219--222248 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
222209 AAAGTTTAAA
222219 TTTTATTAT
1 TTTTATTAT
222228 TTTTATTAT
1 TTTTATTAT
222237 TTTTATATAT
1 TTTTAT-TAT
222247 TT
1 TT
222249 AATTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.75
10 5 0.25
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTATTAT
Found at i:222279 original size:20 final size:22
Alignment explanation
Indices: 222235--222281 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
222225 TATTTTTATT
*
222235 ATTTTTATATATTTAATTTATA
1 ATTTTTATATATTTAATTTAAA
*
222257 ATTTTT-TATA-TTATTTTAAA
1 ATTTTTATATATTTAATTTAAA
222277 ATTTT
1 ATTTT
222282 AAAATTAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 13 0.57
21 4 0.17
22 6 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
ATTTTTATATATTTAATTTAAA
Found at i:223307 original size:15 final size:15
Alignment explanation
Indices: 223258--223305 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 15
223248 ATTGTTTGAG
223258 TAAATTATTTTTTAATT
1 TAAATTA-TTTTT-ATT
223275 TAAATTGA-TTTTATT
1 TAAATT-ATTTTTATT
223290 TAAATTATTATTTATT
1 TAAATTATT-TTTATT
223306 AATAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
14 1 0.04
15 10 0.36
16 10 0.36
17 6 0.21
18 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
TAAATTATTTTTATT
Found at i:223338 original size:16 final size:19
Alignment explanation
Indices: 223295--223336 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
223285 TTATTTAAAT
223295 TATTATTTATTAATAAAAA
1 TATTATTTATTAATAAAAA
*
223314 TATTATTTATTTATAAAAA
1 TATTATTTATTAATAAAAA
223333 TATT
1 TATT
223337 TAAATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TATTATTTATTAATAAAAA
Found at i:228670 original size:22 final size:23
Alignment explanation
Indices: 228631--228675 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
228621 GCACAAAAAT
**
228631 CCAAAAAAGAAATGAAAT-TAAA
1 CCAAAAAAGAAAAAAAATCTAAA
*
228653 CCAAACAAGAAAAAAAATCTAAA
1 CCAAAAAAGAAAAAAAATCTAAA
228676 ATAAAGCTTT
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:0.69, C:0.13, G:0.07, T:0.11
Consensus pattern (23 bp):
CCAAAAAAGAAAAAAAATCTAAA
Found at i:229290 original size:7 final size:7
Alignment explanation
Indices: 229278--229306 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
229268 AATTATTCAT
229278 ATTTATA
1 ATTTATA
229285 ATTTATA
1 ATTTATA
229292 ATTTATA
1 ATTTATA
229299 ATTTATA
1 ATTTATA
229306 A
1 A
229307 AAAATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATTTATA
Found at i:229574 original size:13 final size:13
Alignment explanation
Indices: 229534--229574 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
229524 CACTATATAG
*
229534 TTAAAAATTTTAA
1 TTAAAAATATTAA
229547 -TAAAAATATTAAA
1 TTAAAAATATT-AA
229560 TTAAAAATATTAA
1 TTAAAAATATTAA
229573 TT
1 TT
229575 CAAACAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 9 0.36
13 6 0.24
14 10 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TTAAAAATATTAA
Found at i:231416 original size:4 final size:4
Alignment explanation
Indices: 231407--231437 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
231397 TCTCCGTGCT
231407 TTTC TTTC TTTC TTTC TTTC TTTC TTCTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TT-TC TT
231438 CGTTTCAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:242908 original size:10 final size:8
Alignment explanation
Indices: 242875--242902 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
242865 TGTGAATATG
242875 ATATAAAT
1 ATATAAAT
242883 ATATAAAT
1 ATATAAAT
242891 ATATAAAT
1 ATATAAAT
242899 ATAT
1 ATAT
242903 TAAAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATAAAT
Found at i:242948 original size:32 final size:31
Alignment explanation
Indices: 242885--243001 Score: 67
Period size: 32 Copynumber: 4.0 Consensus size: 31
242875 ATATAAATAT
* ** *
242885 ATAAATATATAAATATATTAAAATTTTTATAAA
1 ATAAATAT-T-AATTTATTAACGTTTATATAAA
242918 ATAAAGTATTAATTTATTAACGTTTATAT-AA
1 ATAAA-TATTAATTTATTAACGTTTATATAAA
*
242949 AT--ATATTAA--AATT----TTTATA-AAA
1 ATAAATATTAATTTATTAACGTTTATATAAA
*
242971 TA-AATTATTAATTTATTAACGTTTATATAAA
1 -ATAAATATTAATTTATTAACGTTTATATAAA
243002 TATATAACAT
Statistics
Matches: 65, Mismatches: 7, Indels: 26
0.66 0.07 0.27
Matches are distributed among these distances:
22 8 0.12
23 1 0.02
24 6 0.09
26 6 0.09
28 6 0.09
29 1 0.02
30 6 0.09
31 7 0.11
32 15 0.23
33 6 0.09
34 3 0.05
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (31 bp):
ATAAATATTAATTTATTAACGTTTATATAAA
Found at i:242952 original size:52 final size:52
Alignment explanation
Indices: 242890--243022 Score: 227
Period size: 52 Copynumber: 2.6 Consensus size: 52
242880 AATATATAAA
242890 TATATAAATATATTAAAATTTTTATAAAATAAAGTATTAATTTATTAACGTT
1 TATATAAATATATTAAAATTTTTATAAAATAAAGTATTAATTTATTAACGTT
*
242942 TATATAAATATATTAAAATTTTTATAAAATAAATTATTAATTTATTAACGTT
1 TATATAAATATATTAAAATTTTTATAAAATAAAGTATTAATTTATTAACGTT
*
242994 TATATAAATATA-TAACA-TTTTA-AAAATAA
1 TATATAAATATATTAAAATTTTTATAAAATAA
243023 TGTTTAAACA
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
49 7 0.09
50 5 0.06
51 4 0.05
52 63 0.80
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (52 bp):
TATATAAATATATTAAAATTTTTATAAAATAAAGTATTAATTTATTAACGTT
Found at i:242957 original size:20 final size:20
Alignment explanation
Indices: 242932--243006 Score: 58
Period size: 20 Copynumber: 4.2 Consensus size: 20
242922 AGTATTAATT
242932 TATTAACGTTTATATAAATA
1 TATTAACGTTTATATAAATA
** *
242952 TATTAAAATTTTTATAAA-A
1 TATTAACGTTTATATAAATA
*
242971 TA--AA---TTAT-T-AATT
1 TATTAACGTTTATATAAATA
242984 TATTAACGTTTATATAAATA
1 TATTAACGTTTATATAAATA
243004 TAT
1 TAT
243007 AACATTTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 16
0.65 0.10 0.25
Matches are distributed among these distances:
12 2 0.05
13 3 0.07
14 3 0.07
15 2 0.05
17 2 0.05
18 4 0.10
19 4 0.10
20 21 0.51
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (20 bp):
TATTAACGTTTATATAAATA
Found at i:242983 original size:22 final size:23
Alignment explanation
Indices: 242931--242984 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
242921 AAGTATTAAT
** *
242931 TTATTAACGTTTATATAAATATA
1 TTATTAATTTTTATATAAATAAA
*
242954 TTA-AAATTTTTATA-AAATAAA
1 TTATTAATTTTTATATAAATAAA
242975 TTATTAATTT
1 TTATTAATTT
242985 ATTAACGTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 9 0.36
22 13 0.52
23 3 0.12
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TTATTAATTTTTATATAAATAAA
Found at i:244046 original size:13 final size:12
Alignment explanation
Indices: 243987--244047 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
243977 TTTTTTTAAA
243987 TTTAAAT-TTAAT
1 TTTAAATATT-AT
* *
243999 TATAAATATTAA
1 TTTAAATATTAT
* *
244011 TATAAATATTTT
1 TTTAAATATTAT
*
244023 TTTTAATATTAT
1 TTTAAATATTAT
244035 TTTAAATAATTAT
1 TTTAAAT-ATTAT
244048 ATAAATTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
12 32 0.82
13 7 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTAAATATTAT
Found at i:247721 original size:22 final size:26
Alignment explanation
Indices: 247696--247773 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 26
247686 TAAAATAATT
247696 TATTAT-TATTTAA-ATAA-TA-AAA
1 TATTATATATTTAATATAATTATAAA
247718 TATT-TATATTTAATTATAATTATAAA
1 TATTATATATTTAA-TATAATTATAAA
** *
247744 TATTA-ATATAAAATATTATT-TAAA
1 TATTATATATTTAATATAATTATAAA
247768 TATTAT
1 TATTAT
247774 TTAAATAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
21 1 0.02
22 11 0.24
24 13 0.28
25 8 0.17
26 13 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TATTATATATTTAATATAATTATAAA
Found at i:247740 original size:36 final size:34
Alignment explanation
Indices: 247699--247797 Score: 82
Period size: 36 Copynumber: 2.9 Consensus size: 34
247689 AATAATTTAT
*
247699 TATTATTTAAATAATAAAATATTTATATTTAATTA
1 TATTATTTAAATAATAAAATATAT-TATTTAATTA
*
247734 TAATTA-TAAATATTAATATAAA-ATATTATTTAA--A
1 T-ATTATTTAA-A-TAATA-AAATATATTATTTAATTA
* *
247768 TATTATTTAAATAATTAAATAAATT-TTTAA
1 TATTATTTAAATAATAAAATATATTATTTAA
247798 ATCGATTTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
31 8 0.15
32 8 0.15
33 5 0.09
34 5 0.09
35 4 0.08
36 12 0.23
37 8 0.15
38 3 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (34 bp):
TATTATTTAAATAATAAAATATATTATTTAATTA
Found at i:247755 original size:12 final size:11
Alignment explanation
Indices: 247738--247791 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
247728 TAATTATAAT
247738 TATAAATATTAA
1 TATAAATATT-A
247750 TATAAAATATTA
1 TAT-AAATATTA
*
247762 TTTAAATATTA
1 TATAAATATTA
*
247773 TTTAAATAATTA
1 TATAAAT-ATTA
*
247785 AATAAAT
1 TATAAAT
247792 TTTTAAATCG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 15 0.41
12 15 0.41
13 7 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TATAAATATTA
Found at i:247770 original size:11 final size:11
Alignment explanation
Indices: 247724--247780 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
247714 AAAATATTTA
*
247724 TATTTAATTAT
1 TATTTAAATAT
*
247735 AATTATAAATAT
1 TATT-TAAATAT
*
247747 TAATATAAAATAT
1 T-AT-TTAAATAT
247760 TATTTAAATAT
1 TATTTAAATAT
247771 TATTTAAATA
1 TATTTAAATA
247781 ATTAAATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
11 20 0.53
12 8 0.21
13 9 0.24
14 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TATTTAAATAT
Found at i:248993 original size:14 final size:16
Alignment explanation
Indices: 248962--248999 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
248952 TTTTAGAGTT
*
248962 AATGAAAAATTAAGAA
1 AATGAAAAATTAACAA
248978 AAT-AAAAA-TAACAA
1 AATGAAAAATTAACAA
248992 AATGAAAA
1 AATGAAAA
249000 GTACTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 8 0.40
15 9 0.45
16 3 0.15
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.16
Consensus pattern (16 bp):
AATGAAAAATTAACAA
Found at i:250443 original size:21 final size:23
Alignment explanation
Indices: 250413--250454 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
250403 GATAGCGAAG
*
250413 TTTGAATAT-AATATTTTTTAAT
1 TTTGAATATAAAAATTTTTTAAT
250435 TTTG-ATATAAAAATTTTTTA
1 TTTGAATATAAAAATTTTTTA
250455 TTTAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (23 bp):
TTTGAATATAAAAATTTTTTAAT
Found at i:250550 original size:24 final size:24
Alignment explanation
Indices: 250504--250550 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
250494 TTTTAAATAA
**
250504 TAATTTAAATTTTAAAATTAAATC
1 TAATTTAAATTTTAAAAAAAAATC
250528 TAATTTAAA-TTTAAATAAAAAAT
1 TAATTTAAATTTTAAA-AAAAAAT
250551 TTTAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TAATTTAAATTTTAAAAAAAAATC
Found at i:250975 original size:7 final size:7
Alignment explanation
Indices: 250962--251011 Score: 55
Period size: 7 Copynumber: 6.7 Consensus size: 7
250952 ATTAATCATC
250962 TTAAAAT
1 TTAAAAT
*
250969 ATAAAAT
1 TTAAAAT
250976 TTAATTAAT
1 TTAA--AAT
250985 TTAAAAT
1 TTAAAAT
250992 TTAAAATT
1 TTAAAA-T
*
251000 TTAATAT
1 TTAAAAT
251007 TTAAA
1 TTAAA
251012 TTTTTTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
7 23 0.64
8 6 0.17
9 7 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TTAAAAT
Found at i:251016 original size:15 final size:15
Alignment explanation
Indices: 250970--251015 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
250960 TCTTAAAATA
250970 TAAAATTTAATTAA-TT
1 TAAAATTTAA--AATTT
250986 TAAAATTTAAAATTT
1 TAAAATTTAAAATTT
*
251001 TAATATTT-AAATTT
1 TAAAATTTAAAATTT
251015 T
1 T
251016 TTTTATTGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 9 0.32
15 9 0.32
16 10 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAAAATTTAAAATTT
Found at i:251352 original size:16 final size:18
Alignment explanation
Indices: 251321--251353 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
251311 TTTGATACTT
251321 ATATTATATTTATTAAAA
1 ATATTATATTTATTAAAA
251339 ATATTAT-TTT-TTAAA
1 ATATTATATTTATTAAA
251354 TTTAATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 3 0.20
18 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATTATATTTATTAAAA
Found at i:251737 original size:17 final size:17
Alignment explanation
Indices: 251704--251745 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
251694 GTCTCAAATT
251704 AAAATTATAAATTATACA
1 AAAATTATAAA-TATACA
251722 AAAATTATGAAA-ATACA
1 AAAATTAT-AAATATACA
*
251739 TAAATTA
1 AAAATTA
251746 ATGTTTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 11 0.50
18 8 0.36
19 3 0.14
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAATTATAAATATACA
Found at i:251893 original size:2 final size:2
Alignment explanation
Indices: 251886--251912 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
251876 GTTACTTCTC
251886 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 A
251913 GGTTTCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:255409 original size:22 final size:22
Alignment explanation
Indices: 255379--255491 Score: 81
Period size: 23 Copynumber: 4.8 Consensus size: 22
255369 GTGGATTAGG
255379 AATAGATAATT-TTAAAATTTTT
1 AATA-ATAATTATTAAAATTTTT
*
255401 AATACATAAATATATTAAAATTTAT
1 AATA-AT-AAT-TATTAAAATTTTT
255426 -ATAATATATTATATAAAATATTTT
1 AATAATA-ATTAT-TAAAAT-TTTT
255450 AA-AATAATTATT-AAATTTATT
1 AATAATAATTATTAAAATTT-TT
*
255471 TATAAATCAATTTATTAAAAT
1 AAT-AAT-AA-TTATTAAAAT
255492 GTATTGATCA
Statistics
Matches: 74, Mismatches: 4, Indels: 22
0.74 0.04 0.22
Matches are distributed among these distances:
20 2 0.03
21 7 0.09
22 11 0.15
23 21 0.28
24 13 0.18
25 16 0.22
26 4 0.05
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (22 bp):
AATAATAATTATTAAAATTTTT
Found at i:255452 original size:10 final size:12
Alignment explanation
Indices: 255408--255464 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
255398 TTTAATACAT
255408 AAATA-TAT-TA
1 AAATATTATATA
255418 AAAT-TTATATA
1 AAATATTATATA
*
255429 ATATATTATATA
1 AAATATTATATA
255441 AAATATT-T-TA
1 AAATATTATATA
255451 AAATAATTAT-TA
1 AAAT-ATTATATA
255463 AA
1 AA
255465 TTTATTTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 13 0.32
11 9 0.22
12 18 0.45
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATATTATATA
Found at i:255737 original size:27 final size:25
Alignment explanation
Indices: 255705--255776 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 25
255695 TTATAATATA
255705 AAAATACATAAATTATTAAT-TTTAAT
1 AAAATA-ATAAA-TATTAATATTTAAT
*
255731 AATAATATTAAAATATTAATATTTAAT
1 AA-AATAAT-AAATATTAATATTTAAT
255758 -AAATAAATAAATATTAATA
1 AAAAT-AATAAATATTAATA
255777 AAATTTTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
25 14 0.35
26 13 0.32
27 13 0.32
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (25 bp):
AAAATAATAAATATTAATATTTAAT
Found at i:255760 original size:18 final size:18
Alignment explanation
Indices: 255739--255790 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
255729 ATAATAATAT
255739 TAAAATATTAATATTTAA
1 TAAAATATTAATATTTAA
* *
255757 TAAATAAATAAATA-TTAA
1 TAAA-ATATTAATATTTAA
*
255775 TAAAATTTTAA-ATTTA
1 TAAAATATTAATATTTA
255791 TTTTTAATTG
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
16 1 0.04
17 7 0.26
18 12 0.44
19 7 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATATTAATATTTAA
Found at i:256054 original size:19 final size:16
Alignment explanation
Indices: 256018--256057 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 16
256008 TTTTAAATTT
256018 TTATTATAAAATAAAA
1 TTATTATAAAATAAAA
256034 TTATTAATATAAATAATAA
1 TTATT-ATA-AAATAA-AA
256053 TTATT
1 TTATT
256058 TCATACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 3 0.14
18 6 0.29
19 7 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATTATAAAATAAAA
Found at i:256620 original size:37 final size:38
Alignment explanation
Indices: 256530--256634 Score: 99
Period size: 40 Copynumber: 2.7 Consensus size: 38
256520 TGAACAAAAA
* * *
256530 ATTATTTTATTATTTAAAATATATAAATATTTATTTTT
1 ATTATTTTAATAATTAAAATAAATAAATATTTATTTTT
* *
256568 ATATATTTTTTATAATTAAATTTAAATAAATA-TTA-TTTT
1 AT-TA-TTTTAATAATTAAA-ATAAATAAATATTTATTTTT
*
256607 ATTATTTTAATAA-TAATATAAATCAAAT
1 ATTATTTTAATAATTAAAATAAAT-AAAT
256635 TAAATTAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
35 5 0.09
36 7 0.13
37 8 0.15
38 4 0.07
39 8 0.15
40 14 0.25
41 9 0.16
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (38 bp):
ATTATTTTAATAATTAAAATAAATAAATATTTATTTTT
Found at i:257505 original size:13 final size:13
Alignment explanation
Indices: 257452--257495 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
257442 ATATATATAT
*
257452 ATATATTTAAAAAA
1 ATATA-TTAAATAA
*
257466 ATTAAATTAAATAA
1 A-TATATTAAATAA
257480 ATATATTAAATAA
1 ATATATTAAATAA
257493 ATA
1 ATA
257496 ATTTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 14 0.54
14 9 0.35
15 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATATTAAATAA
Found at i:257915 original size:19 final size:17
Alignment explanation
Indices: 257893--257932 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
257883 AATTTATATT
257893 ATTTTAAATATATAAAAAA
1 ATTTTAAA-AT-TAAAAAA
*
257912 ATTTTAAAATTAAATAA
1 ATTTTAAAATTAAAAAA
257929 ATTT
1 ATTT
257933 ATACCAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
18 2 0.10
19 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTTAAAATTAAAAAA
Found at i:258822 original size:34 final size:35
Alignment explanation
Indices: 258753--258822 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 35
258743 ATAAAGTAAT
* *
258753 TTAAATTATAAATTTAAATAAAATAAATTTTATTA
1 TTAAATGATAAATTTAAATAAAATAAATTTAATTA
258788 TTAAATGAT-AATTT-AATAAAA-ATAATTTAAATTA
1 TTAAATGATAAATTTAAATAAAATA-AATTT-AATTA
258822 T
1 T
258823 AAAAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
32 1 0.03
33 12 0.39
34 10 0.32
35 8 0.26
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (35 bp):
TTAAATGATAAATTTAAATAAAATAAATTTAATTA
Found at i:259281 original size:3 final size:3
Alignment explanation
Indices: 259273--259313 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
259263 GTTCTCTTAC
259273 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
259314 CTGTTTTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:262826 original size:11 final size:11
Alignment explanation
Indices: 262810--262873 Score: 55
Period size: 11 Copynumber: 5.9 Consensus size: 11
262800 ATCTTATTTA
262810 TATATTTATAT
1 TATATTTATAT
262821 TATATTTA-A-
1 TATATTTATAT
262830 TATATATTATAAT
1 TATAT-TTAT-AT
262843 TATATTTA-A-
1 TATATTTATAT
*
262852 AATATTATATAT
1 TATATT-TATAT
*
262864 TATGTTTATA
1 TATATTTATA
262874 ATATTCAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
9 10 0.23
10 7 0.16
11 13 0.30
12 8 0.19
13 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (11 bp):
TATATTTATAT
Found at i:262833 original size:22 final size:21
Alignment explanation
Indices: 262804--262878 Score: 79
Period size: 21 Copynumber: 3.7 Consensus size: 21
262794 AATATGATCT
262804 TATTT-AT-ATATTTATATTA
1 TATTTAATAATATTTATATTA
262823 TATTTAAT-ATATATTATAATTA
1 TATTTAATAATAT-TTAT-ATTA
262845 TATTTAA-AATATTATATATTA
1 TATTTAATAATATT-TATATTA
*
262866 TGTTT-ATAATATT
1 TATTTAATAATATT
262879 CAAAGTTTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 10
0.82 0.02 0.17
Matches are distributed among these distances:
19 5 0.10
20 7 0.14
21 19 0.39
22 18 0.37
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (21 bp):
TATTTAATAATATTTATATTA
Found at i:263652 original size:2 final size:2
Alignment explanation
Indices: 263645--263676 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
263635 TATGTAATAG
263645 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
263677 GCACGCCTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:264635 original size:20 final size:20
Alignment explanation
Indices: 264596--264651 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
264586 TATAATTTTT
*
264596 ATATTATAATTATATTTAAA
1 ATATTATAATTATATATAAA
264616 ATATTATATATT-TATAT-AA
1 ATATTATA-ATTATATATAAA
264635 AT-TT-TAATATATATATA
1 ATATTATAAT-TATATATA
264652 TTTATATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
16 2 0.06
17 3 0.10
18 7 0.23
19 4 0.13
20 12 0.39
21 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATTATAATTATATATAAA
Found at i:264640 original size:27 final size:27
Alignment explanation
Indices: 264610--264668 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
264600 TATAATTATA
264610 TTTAAAATATTATATATTTATA-TAAAT
1 TTTAAAATA-TATATATTTATATTAAAT
* *
264637 TTTAATATATATATATTTATATTATAT
1 TTTAAAATATATATATTTATATTAAAT
264664 TTTAA
1 TTTAA
264669 TTATTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 12 0.41
27 17 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TTTAAAATATATATATTTATATTAAAT
Found at i:264649 original size:26 final size:26
Alignment explanation
Indices: 264615--264669 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
264605 TTATATTTAA
264615 AATATTATATATTTATA-TAAATTTT
1 AATATTATATATTTATATTAAATTTT
*
264640 AATATATATATATTTATATTATATTTT
1 AATAT-TATATATTTATATTAAATTTT
264667 AAT
1 AAT
264670 TATTTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 5 0.19
26 12 0.44
27 10 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
AATATTATATATTTATATTAAATTTT
Found at i:265430 original size:33 final size:32
Alignment explanation
Indices: 265387--265492 Score: 79
Period size: 33 Copynumber: 3.1 Consensus size: 32
265377 TAAAAATTAA
*
265387 ATTTATATATAATATTAATATTATTTATATTT
1 ATTTAAATATAATATTAATATTATTTATATTT
* * *
265419 ATTTAAAATATAAAAATTTTAAATTTTATTTAAATTT
1 ATTT-AAATAT---AATATT-AATATTATTTATATTT
* * *
265456 ATCTATATATATTATCTAA-ATTTATTTATATTT
1 ATTTAAATATAATAT-TAATA-TTATTTATATTT
265489 ATTT
1 ATTT
265493 TATAAATAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
32 4 0.07
33 24 0.43
34 1 0.02
36 10 0.18
37 17 0.30
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (32 bp):
ATTTAAATATAATATTAATATTATTTATATTT
Found at i:265475 original size:23 final size:23
Alignment explanation
Indices: 265444--265491 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
265434 ATTTTAAATT
*
265444 TTATTTAAATTTATCTATATATA
1 TTATCTAAATTTATCTATATATA
* *
265467 TTATCTAAATTTATTTATATTTA
1 TTATCTAAATTTATCTATATATA
265490 TT
1 TT
265492 TTATAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TTATCTAAATTTATCTATATATA
Found at i:265488 original size:10 final size:10
Alignment explanation
Indices: 265436--265492 Score: 51
Period size: 10 Copynumber: 5.3 Consensus size: 10
265426 ATATAAAAAT
265436 TTTAAATTTTA
1 TTTAAA-TTTA
265447 TTTAAATTTA
1 TTTAAATTTA
*
265457 TCTATATATATTA
1 T-T-TAAAT-TTA
*
265470 TCTAAATTTA
1 TTTAAATTTA
*
265480 TTTATATTTA
1 TTTAAATTTA
265490 TTT
1 TTT
265493 TATAAATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
10 19 0.50
11 11 0.29
12 4 0.11
13 4 0.11
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTAAATTTA
Found at i:265498 original size:23 final size:23
Alignment explanation
Indices: 265444--265499 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
265434 ATTTTAAATT
*
265444 TTATTTAAATTTATCTATATATA
1 TTATATAAATTTATCTATATATA
* * *
265467 TTATCTAAATTTATTTATATTTA
1 TTATATAAATTTATCTATATATA
*
265490 TTTTATAAAT
1 TTATATAAAT
265500 AAATAATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.59
Consensus pattern (23 bp):
TTATATAAATTTATCTATATATA
Found at i:265538 original size:70 final size:70
Alignment explanation
Indices: 265390--265521 Score: 184
Period size: 69 Copynumber: 1.9 Consensus size: 70
265380 AAATTAAATT
*
265390 TATATATAATAT-T-AATATTATTTATATTTATTTAAAATATAAAAATTTTAAATTTTATTTAAA
1 TATATATATTATCTAAAT-TTATTTATATTTATTTAAAATATAAAAATTTTAAATTTTATTTAAA
265453 TTTATC
65 TTTATC
*
265459 TATATATATTATCTAAATTTATTTATATTTATTTTATAAATA-AATAA-TTTAAA-TTTATTTAA
1 TATATATATTATCTAAATTTATTTATATTTA-TTTA-AAATATAAAAATTTTAAATTTTATTTAA
265521 A
64 A
265522 CTCGTTTTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
69 21 0.37
70 20 0.35
71 11 0.19
72 5 0.09
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (70 bp):
TATATATATTATCTAAATTTATTTATATTTATTTAAAATATAAAAATTTTAAATTTTATTTAAAT
TTATC
Found at i:265574 original size:21 final size:22
Alignment explanation
Indices: 265545--265586 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
265535 TATTTTATCA
*
265545 TTTATTTTTTAA-AATATAATC
1 TTTAATTTTTAATAATATAATC
*
265566 TTTAATTTTTAATAATTTAAT
1 TTTAATTTTTAATAATATAAT
265587 AATTTACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTAATTTTTAATAATATAATC
Found at i:265586 original size:22 final size:23
Alignment explanation
Indices: 265526--265597 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 23
265516 TTTAAACTCG
* * *
265526 TTTTTATTATATTTTATCATTTAT
1 TTTTTAATA-ATTTAATCATTTAA
*
265550 TTTTTAA-AATATAATC-TTTAA
1 TTTTTAATAATTTAATCATTTAA
* *
265571 TTTTTAATAATTTAATAATTTAC
1 TTTTTAATAATTTAATCATTTAA
265594 TTTT
1 TTTT
265598 ATTAAATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
21 11 0.28
22 13 0.33
23 9 0.23
24 6 0.15
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTTAATAATTTAATCATTTAA
Found at i:268316 original size:41 final size:41
Alignment explanation
Indices: 268259--268340 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
268249 ACCAAAACAA
268259 AAGATACAGATTAAGAAAGAATTGAAATAATAAAGATGTGG
1 AAGATACAGATTAAGAAAGAATTGAAATAATAAAGATGTGG
268300 AAGATACAGATTAAGAAAGAATTGAAATAATAAAGATGTGG
1 AAGATACAGATTAAGAAAGAATTGAAATAATAAAGATGTGG
268341 CTCATTACCG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.54, C:0.02, G:0.22, T:0.22
Consensus pattern (41 bp):
AAGATACAGATTAAGAAAGAATTGAAATAATAAAGATGTGG
Found at i:272409 original size:19 final size:19
Alignment explanation
Indices: 272385--272422 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
272375 TTTTATTTTT
*
272385 ATAATTATAATTTTTTATA
1 ATAATTATAATTTATTATA
272404 ATAATTATAATTTATTATA
1 ATAATTATAATTTATTATA
272423 TCAATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATAATTATAATTTATTATA
Found at i:272840 original size:6 final size:6
Alignment explanation
Indices: 272829--272867 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
272819 ATTCAATTAT
272829 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TAT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TAT
272868 GAGTTTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATTTA
Found at i:273488 original size:19 final size:20
Alignment explanation
Indices: 273447--273486 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
273437 TATTATTATT
*
273447 ATTTTATATATTTAAATAAA
1 ATTTAATATATTTAAATAAA
273467 ATTTAATATATTTAAATAAA
1 ATTTAATATATTTAAATAAA
273487 TTATTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTAATATATTTAAATAAA
Found at i:273502 original size:14 final size:14
Alignment explanation
Indices: 273465--273502 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
273455 TATTTAAATA
*
273465 AAATTTAATATATTT
1 AAATTAAAT-TATTT
273480 AAA-TAAATTATTT
1 AAATTAAATTATTT
273493 AAATTAAATT
1 AAATTAAATT
273503 TATTCAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 8 0.38
14 10 0.48
15 3 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATTAAATTATTT
Found at i:275182 original size:2 final size:2
Alignment explanation
Indices: 275175--275205 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
275165 AAAAGCAGGA
275175 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
275206 AGAAGAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:278027 original size:6 final size:6
Alignment explanation
Indices: 278016--278069 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
278006 ATTGGTTATT
*
278016 TAAATA TAAATA T-AATA TAAATTA TTAAATA T-AATA -AATTA TAAATA
1 TAAATA TAAATA TAAATA TAAA-TA -TAAATA TAAATA TAAATA TAAATA
*
278063 TGAATA T
1 TAAATA T
278070 TATAATATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
5 12 0.30
6 20 0.50
7 4 0.10
8 4 0.10
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (6 bp):
TAAATA
Found at i:278052 original size:17 final size:17
Alignment explanation
Indices: 278016--278085 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 17
278006 ATTGGTTATT
278016 TAAA-TATAAATATAATA
1 TAAATTATAAATATAA-A
278033 TAAATTATTAAATAT-AA
1 TAAATTA-TAAATATAAA
*
278050 TAAATTATAAATATGAA
1 TAAATTATAAATATAAA
278067 T--ATTATAATATATTAAA
1 TAAATTATAA-ATA-TAAA
278084 TA
1 TA
278086 TGTTATATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
15 7 0.15
16 10 0.22
17 19 0.41
18 3 0.07
19 7 0.15
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (17 bp):
TAAATTATAAATATAAA
Found at i:278058 original size:24 final size:25
Alignment explanation
Indices: 278015--278061 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
278005 TATTGGTTAT
278015 TTAAATATAAATATAATATAAATTA
1 TTAAATATAAATATAATATAAATTA
278040 TTAAATAT-AATA-AATTATAAAT
1 TTAAATATAAATATAA-TATAAAT
278062 ATGAATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 2 0.10
24 11 0.52
25 8 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
TTAAATATAAATATAATATAAATTA
Found at i:278068 original size:22 final size:23
Alignment explanation
Indices: 278015--278087 Score: 59
Period size: 19 Copynumber: 3.4 Consensus size: 23
278005 TATTGGTTAT
* *
278015 TTAAATATAAATATAAT-ATAAA
1 TTAAATATGAATATAATAATATA
*
278037 TT--AT-TAAATATAATAA-AT-
1 TTAAATATGAATATAATAATATA
*
278055 TATAAATATGAATATTATAATATA
1 T-TAAATATGAATATAATAATATA
278079 TTAAATATG
1 TTAAATATG
278088 TTATATTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
18 1 0.02
19 12 0.29
20 3 0.07
21 2 0.05
22 12 0.29
23 10 0.24
24 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (23 bp):
TTAAATATGAATATAATAATATA
Found at i:278083 original size:39 final size:34
Alignment explanation
Indices: 278016--278086 Score: 97
Period size: 39 Copynumber: 1.9 Consensus size: 34
278006 ATTGGTTATT
278016 TAAATATAAATATAATATAAATTATTAAATATAA
1 TAAATATAAATATAATATAAATTATTAAATATAA
278050 TAAATTATAAATATGAATATTATAATATATTAAATAT
1 TAAA-TATAAATAT-AATA-TA-AAT-TATTAAATAT
278087 GTTATATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
34 4 0.12
35 9 0.28
36 4 0.12
37 2 0.06
38 3 0.09
39 10 0.31
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (34 bp):
TAAATATAAATATAATATAAATTATTAAATATAA
Found at i:278087 original size:23 final size:23
Alignment explanation
Indices: 278057--278104 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
278047 TAATAAATTA
278057 TAAATATG-AATATTATAATATAT
1 TAAATATGTAATATT-TAATATAT
* *
278080 TAAATATGTTATATTTATTATAT
1 TAAATATGTAATATTTAATATAT
278103 TA
1 TA
278105 TTTTTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
TAAATATGTAATATTTAATATAT
Found at i:278105 original size:5 final size:5
Alignment explanation
Indices: 278066--278163 Score: 60
Period size: 5 Copynumber: 19.4 Consensus size: 5
278056 ATAAATATGA
* * * *
278066 ATATT ATAAT ATATT A-AAT ATGTT ATATT -TATT ATATT AT-TT TTATAT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT-T
** *
278114 ATATTT ATATT ATATT -TAAA ATTATT AAATTT ATATT ATATT ATAATT
1 ATA-TT ATATT ATATT ATATT A-TATT ATA-TT ATATT ATATT AT-ATT
278162 AT
1 AT
278164 TTAAAGGTTA
Statistics
Matches: 70, Mismatches: 14, Indels: 17
0.69 0.14 0.17
Matches are distributed among these distances:
4 12 0.17
5 38 0.54
6 19 0.27
7 1 0.01
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:278113 original size:11 final size:11
Alignment explanation
Indices: 278083--278155 Score: 62
Period size: 11 Copynumber: 6.5 Consensus size: 11
278073 AATATATTAA
278083 ATATGTTATATT
1 ATAT-TTATATT
278095 -TA-TTATATT
1 ATATTTATATT
*
278104 ATTTTTATA-T
1 ATATTTATATT
278114 ATATTTATATT
1 ATATTTATATT
278125 ATATTTAAAATTATT
1 ATATTT---A-TATT
*
278140 AAATTTATATT
1 ATATTTATATT
278151 ATATT
1 ATATT
278156 ATAATTATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
9 7 0.14
10 10 0.20
11 22 0.44
12 1 0.02
14 1 0.02
15 9 0.18
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (11 bp):
ATATTTATATT
Found at i:278167 original size:26 final size:26
Alignment explanation
Indices: 278095--278168 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
278085 ATGTTATATT
** * *
278095 TATTATATTATTTTTATATATATTTA
1 TATTATATTATAATTATTTAAATTTA
*
278121 TATTATATTTAAAATTA-TTAAATTTA
1 TATTATA-TTATAATTATTTAAATTTA
278147 TATTATATTATAATTATTTAAA
1 TATTATATTATAATTATTTAAA
278169 GGTTAGATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 8 0.20
26 26 0.65
27 6 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TATTATATTATAATTATTTAAATTTA
Found at i:278968 original size:19 final size:20
Alignment explanation
Indices: 278946--278991 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
278936 ATAAAATAAG
*
278946 TATATCTATATGTA-TTTTA
1 TATATATATATGTATTTTTA
* *
278965 TATAAATATATTTATTTTTA
1 TATATATATATGTATTTTTA
278985 TATATAT
1 TATATAT
278992 TTTAAAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
TATATATATATGTATTTTTA
Found at i:278987 original size:31 final size:31
Alignment explanation
Indices: 278946--279016 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
278936 ATAAAATAAG
* *
278946 TATATCTATATGTATTTTATATAAA-TATA-TT
1 TATATTTATATATATTTTA-A-AAATTATATTT
*
278977 TATTTTTATATATATTTTAAAAATTATATTT
1 TATATTTATATATATTTTAAAAATTATATTT
279008 TATATTTAT
1 TATATTTAT
279017 TTTTGAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 3 0.09
30 5 0.15
31 26 0.76
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (31 bp):
TATATTTATATATATTTTAAAAATTATATTT
Found at i:279025 original size:25 final size:25
Alignment explanation
Indices: 278976--279050 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
278966 ATAAATATAT
278976 TTAT-TTTTATATATATTTTAAAAA
1 TTATATTTTATATATATTTTAAAAA
* **
279000 TTATATTTTATATTTATTTTTGAAA
1 TTATATTTTATATATATTTTAAAAA
**
279025 -TATATTGAATATGAATATTTTAAAAA
1 TTATATTTTATAT--ATATTTTAAAAA
279051 AATATATATT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
24 14 0.35
25 17 0.43
26 9 0.22
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (25 bp):
TTATATTTTATATATATTTTAAAAA
Found at i:279456 original size:23 final size:23
Alignment explanation
Indices: 279430--279473 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
279420 AATTATTATT
*
279430 ATTTA-ATAATAAAATTTATTTAA
1 ATTTATAT-ATAAAAATTATTTAA
279453 ATTTATATATAAAAATTATTT
1 ATTTATATATAAAAATTATTT
279474 CATAAATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTTATATATAAAAATTATTTAA
Found at i:280140 original size:21 final size:21
Alignment explanation
Indices: 280114--280156 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
280104 GCTTCCATAG
280114 TCCGTTGTTTATGGATATTGT
1 TCCGTTGTTTATGGATATTGT
280135 TCCGTTGTTTATGGATATTGT
1 TCCGTTGTTTATGGATATTGT
280156 T
1 T
280157 GGCTAAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.09, G:0.23, T:0.53
Consensus pattern (21 bp):
TCCGTTGTTTATGGATATTGT
Found at i:281118 original size:17 final size:18
Alignment explanation
Indices: 281093--281138 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
281083 TTTATTTTTA
* *
281093 TTTAATTTTAATTAAT-T
1 TTTATTTTTAATAAATAT
*
281110 TTTATTTTTTATAAATAT
1 TTTATTTTTAATAAATAT
281128 TTTATTTTTAA
1 TTTATTTTTAA
281139 ATTAGTAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATTTTTAATAAATAT
Found at i:282721 original size:6 final size:6
Alignment explanation
Indices: 282703--282762 Score: 60
Period size: 6 Copynumber: 10.8 Consensus size: 6
282693 TTAATTTAAA
*
282703 AAATTT AAAATTT AAATTT AAATTT AAATTT -AACTT -AATTT -AATTT
1 AAATTT -AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
282749 -AATTT --ATTT AAATT
1 AAATTT AAATTT AAATT
282763 ATTATTTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
4 4 0.08
5 18 0.37
6 21 0.43
7 6 0.12
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (6 bp):
AAATTT
Found at i:282745 original size:5 final size:5
Alignment explanation
Indices: 282711--282759 Score: 55
Period size: 5 Copynumber: 9.4 Consensus size: 5
282701 AAAAATTTAA
*
282711 AATTT AAATTT AAATTT AAATTT AACTT AATTT AATTT AATTT -ATTT
1 AATTT -AATTT -AATTT -AATTT AATTT AATTT AATTT AATTT AATTT
282758 AA
1 AA
282760 ATTATTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
4 4 0.10
5 19 0.47
6 17 0.43
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (5 bp):
AATTT
Found at i:282793 original size:13 final size:13
Alignment explanation
Indices: 282758--282794 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 13
282748 TAATTTATTT
282758 AAATTATTATTTAA
1 AAATTATT-TTTAA
282772 AAA-TA-TTTTAA
1 AAATTATTTTTAA
282783 AAATTATTTTTA
1 AAATTATTTTTA
282795 TTTTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 8 0.38
12 3 0.14
13 7 0.33
14 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AAATTATTTTTAA
Found at i:282825 original size:47 final size:50
Alignment explanation
Indices: 282741--282836 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 50
282731 TTTAACTTAA
* * *
282741 TTTAATTTAATTTATTTAAATTATTATTTAAAAATATTTTAAAAATTATT
1 TTTAATTTAAATTATTTAAAATATTATTTAAAAATATTTAAAAAATTATT
*
282791 TTTATTTTAAATTATTTAAAATA-TA-TT-AAAATATTTAAAAAATTAT
1 TTTAATTTAAATTATTTAAAATATTATTTAAAAATATTTAAAAAATTAT
282837 AAATAAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
47 18 0.43
48 2 0.05
49 2 0.05
50 20 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (50 bp):
TTTAATTTAAATTATTTAAAATATTATTTAAAAATATTTAAAAAATTATT
Found at i:282831 original size:10 final size:9
Alignment explanation
Indices: 282796--282830 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
282786 TTATTTTTAT
*
282796 TTTAAATTA
1 TTTAAAATA
282805 TTTAAAATA
1 TTTAAAATA
282814 TATTAAAATA
1 T-TTAAAATA
282824 TTTAAAA
1 TTTAAAA
282831 AATTATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
TTTAAAATA
Found at i:282839 original size:19 final size:19
Alignment explanation
Indices: 282797--282833 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
282787 TATTTTTATT
* *
282797 TTAAATTATTTAAAATATA
1 TTAAAATATTTAAAAAATA
282816 TTAAAATATTTAAAAAAT
1 TTAAAATATTTAAAAAAT
282834 TATAAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TTAAAATATTTAAAAAATA
Found at i:283082 original size:10 final size:10
Alignment explanation
Indices: 283067--283191 Score: 54
Period size: 10 Copynumber: 12.7 Consensus size: 10
283057 ATTCTTGAGT
283067 TATATATTTA
1 TATATATTTA
*
283077 TATATATTAA
1 TATATATTTA
*
283087 TATATTTTTA
1 TATATATTTA
*
283097 -AAATA-TT-
1 TATATATTTA
283104 T-TATATTTA
1 TATATATTTA
*
283113 TATAAATTT-
1 TATATATTTA
283122 TA-ATATATTA
1 TATATAT-TTA
283132 -ATA-ATTTA
1 TATATATTTA
*
283140 TA-AAATTTTAAAA
1 TATATA-TTT---A
*
283153 AATATATTTA
1 TATATATTTA
283163 TAT-TATATTA
1 TATATAT-TTA
283173 TATTATATTTA
1 TA-TATATTTA
283184 TATTATAT
1 TA-TATAT
283192 ATAATAATAT
Statistics
Matches: 87, Mismatches: 11, Indels: 33
0.66 0.08 0.25
Matches are distributed among these distances:
7 3 0.03
8 11 0.13
9 16 0.18
10 35 0.40
11 12 0.14
12 3 0.03
13 5 0.06
14 2 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
TATATATTTA
Found at i:283091 original size:18 final size:18
Alignment explanation
Indices: 283068--283217 Score: 68
Period size: 18 Copynumber: 8.5 Consensus size: 18
283058 TTCTTGAGTT
283068 ATATATTTATATATATTA
1 ATATATTTATATATATTA
283086 ATATATTT-T-TA-A--A
1 ATATATTTATATATATTA
*
283099 ATAT-TTTATATTTATATA
1 ATATATTTATATATAT-TA
283117 A-AT-TTTA-ATATATTA
1 ATATATTTATATATATTA
* *
283132 ATA-ATTTATAAAATTTTA
1 ATATATTTAT-ATATATTA
* * * *
283150 AAAAATATATTTATATTA
1 ATATATTTATATATATTA
*
283168 TATTATATTATATTTATATTA
1 -A-TATATT-TATATATATTA
* *
283189 TATATAATAATATAATATTA
1 -ATATATTTATAT-ATATTA
*
283209 ATAAATTTA
1 ATATATTTA
283218 ATTATTGTTA
Statistics
Matches: 99, Mismatches: 18, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
12 3 0.03
13 6 0.06
14 1 0.01
15 5 0.05
16 12 0.12
17 7 0.07
18 23 0.23
19 15 0.15
20 14 0.14
21 13 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATATTTATATATATTA
Found at i:283110 original size:26 final size:27
Alignment explanation
Indices: 283079--283167 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 27
283069 TATATTTATA
*
283079 TATATTAATAT-ATTTTTAAAATATTT
1 TATATTAATATAAATTTTAAAATATTT
* *
283105 TATATTTATATAAATTTTAATATA-TT
1 TATATTAATATAAATTTTAAAATATTT
* *
283131 AATAATTTATA-AAATTTTAAAAAATATATT
1 TAT-ATTAATATAAATTTT--AAAATAT-TT
283161 TATATTA
1 TATATTA
283168 TATTATATTA
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
26 21 0.42
27 17 0.34
28 5 0.10
29 3 0.06
30 4 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
TATATTAATATAAATTTTAAAATATTT
Found at i:283170 original size:5 final size:5
Alignment explanation
Indices: 283155--283191 Score: 56
Period size: 5 Copynumber: 7.0 Consensus size: 5
283145 TTTTAAAAAA
283155 TATATT TATAT TATAT TATAT TATATT TATAT TATAT
1 TATA-T TATAT TATAT TATAT TATA-T TATAT TATAT
283192 ATAATAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 21 0.70
6 9 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:283176 original size:16 final size:16
Alignment explanation
Indices: 283155--283191 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
283145 TTTTAAAAAA
283155 TATATT-TATATTATAT
1 TATATTATAT-TTATAT
283171 TATATTATATTTATAT
1 TATATTATATTTATAT
283187 TATAT
1 TATAT
283192 ATAATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATATTATATTTATAT
Found at i:283201 original size:21 final size:21
Alignment explanation
Indices: 283156--283201 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
283146 TTTAAAAAAT
*
283156 ATATTTATATTATATTATATT
1 ATATTTATATTATATTATATA
283177 ATATTTATATTATA-TATAATA
1 ATATTTATATTATATTAT-ATA
283198 ATAT
1 ATAT
283202 AATATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTTATATTATATTATATA
Found at i:283477 original size:30 final size:31
Alignment explanation
Indices: 283443--283502 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
283433 TTTAGTTTAA
*
283443 ATAAATATTTATATTATAAT-TTA-TAAATAT
1 ATAAATATTT-TATAATAATATTATTAAATAT
283473 ATAAATATTTTATAATAATATTATTAAATA
1 ATAAATATTTTATAATAATATTATTAAATA
283503 AATATTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 8 0.30
30 13 0.48
31 6 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (31 bp):
ATAAATATTTTATAATAATATTATTAAATAT
Found at i:283501 original size:31 final size:30
Alignment explanation
Indices: 283443--283521 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 30
283433 TTTAGTTTAA
*
283443 ATAAATATTTATATTATAATTTATAAATAT
1 ATAAATATTTATATAATAATTTATAAATAT
*
283473 ATAAATATTT-TATAATAATATTAT---TAA
1 ATAAATATTTATATAATAAT-TTATAAATAT
*
283500 ATAAATATTAATATAAT-ATTTA
1 ATAAATATTTATATAATAATTTA
283522 AATTTTAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
26 3 0.07
27 13 0.30
28 6 0.14
29 8 0.18
30 14 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
ATAAATATTTATATAATAATTTATAAATAT
Found at i:283506 original size:14 final size:15
Alignment explanation
Indices: 283473--283517 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 15
283463 TTATAAATAT
283473 ATAAATATT-TTATA
1 ATAAATATTATTATA
283487 AT-AATATTATTA-A
1 ATAAATATTATTATA
*
283500 ATAAATATTAATATA
1 ATAAATATTATTATA
283515 ATA
1 ATA
283518 TTTAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 9 0.33
14 14 0.52
15 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAAATATTATTATA
Found at i:283524 original size:23 final size:27
Alignment explanation
Indices: 283415--283519 Score: 85
Period size: 30 Copynumber: 3.9 Consensus size: 27
283405 ACATCTTCTC
*
283415 AATAAATA-TTAATAA-AATTTTAGTTTA
1 AATAAATATTTAATAATAATATTA--TTA
*
283442 AATAAATATTTATATTATAAT-TTATAAATA
1 AATAAATATTTA-ATAATAATATTAT---TA
* *
283472 TATAAATATTTTATAATAATATTATTA
1 AATAAATATTTAATAATAATATTATTA
283499 AATAAATA-TTAAT-ATAATATT
1 AATAAATATTTAATAATAATATT
283520 TAAATTTTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
25 8 0.12
26 4 0.06
27 18 0.28
28 3 0.05
29 13 0.20
30 19 0.29
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (27 bp):
AATAAATATTTAATAATAATATTATTA
Found at i:283577 original size:84 final size:88
Alignment explanation
Indices: 283415--283601 Score: 200
Period size: 86 Copynumber: 2.2 Consensus size: 88
283405 ACATCTTCTC
* * *
283415 AATAAATATTAATA-AA-ATTTTAGTTTAAATAAATATTTATATTATAATTTATAAATATATAAA
1 AATAAATATTAATATAATATTTAAATTTAAATAAATATTTATATGATAATTTATAAATATATAAA
283478 TATTTTATAATAATA-TT-ATTA
66 TATTTTATAATAATATTTAATTA
* **
283499 AATAAATATTAATATAATATTTAAATTTTAATAAAAGTATATTATATGAT-ATTTATTTATAT-T
1 AATAAATATTAATATAATATTTAAATTTAAAT-AAA-TAT-TTATATGATAATTTATAAATATAT
*
283562 AAA-ATTTT-TTA-AATATTTAATTA
63 AAATATTTTATAATAATATTTAATTA
283585 AA-AAAT-TT-ATATAATAT
1 AATAAATATTAATATAATAT
283602 AAAATTATTT
Statistics
Matches: 89, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
83 9 0.10
84 20 0.22
85 10 0.11
86 22 0.25
87 7 0.08
88 13 0.15
89 8 0.09
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (88 bp):
AATAAATATTAATATAATATTTAAATTTAAATAAATATTTATATGATAATTTATAAATATATAAA
TATTTTATAATAATATTTAATTA
Done.