Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000092.1 Hibiscus syriacus cultivar Beakdansim tig00000171_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 66476
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.34
Found at i:7253 original size:31 final size:31
Alignment explanation
Indices: 7188--7255 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
7178 ACAATGTAGA
*
7188 CACCTAAAAGTAAAACAGAGAAAACGTTAGG
1 CACCTAAAAGTAAAACAGAGAAAACGTTAAG
** **
7219 CACCTAAAAGTGTAACAGAGAAAATTTTAAG
1 CACCTAAAAGTAAAACAGAGAAAACGTTAAG
7250 CACCTA
1 CACCTA
7256 TTTTTAATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.18
Consensus pattern (31 bp):
CACCTAAAAGTAAAACAGAGAAAACGTTAAG
Found at i:8250 original size:20 final size:20
Alignment explanation
Indices: 8225--8264 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8215 CTTGTCAGAT
8225 CATAATCTGACAATGGAACA
1 CATAATCTGACAATGGAACA
8245 CATAATCTGACAATGGAACA
1 CATAATCTGACAATGGAACA
8265 GTTGTGAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (20 bp):
CATAATCTGACAATGGAACA
Found at i:17611 original size:7 final size:7
Alignment explanation
Indices: 17595--17623 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
17585 ATTCAGAAAC
17595 TTTT-TT
1 TTTTCTT
17601 TTTTCTT
1 TTTTCTT
17608 TTTTCTT
1 TTTTCTT
17615 TTTTCTT
1 TTTTCTT
17622 TT
1 TT
17624 CTCACAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTTCTT
Found at i:19900 original size:59 final size:59
Alignment explanation
Indices: 19822--20208 Score: 566
Period size: 59 Copynumber: 6.6 Consensus size: 59
19812 TGTGCAAAGT
*
19822 TAAGAAATTCATACTAAGTGTACGAATTTCCGTATAGGGCA-TTTCGTGTGCTAAAATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTT-GTGTGCTAAAATGA
* * *
19881 TAAGAAATTCATACCAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCTAAAATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTTGTGTGCTAAAATGA
* *
19940 TAAGAAATTCATACTAAGTGTATGAATTTCTGTATAGGGCACTTCGTGTGCTAAAATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTTGTGTGCTAAAATGA
* * *
19999 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCTAAAATAA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTTGTGTGCTAAAATGA
* * * * *
20058 TAAGAAATTTATATTAAGTGTGTGAATTTTCGTATAGGGCACTTCGTGTGCTAAAATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTTGTGTGCTAAAATGA
* * *
20117 TAAGAAATTCATACTAAGTGTATGAATTTCCATATTCGGG-ACTTTGTGTGCT-AGATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTA-TAGGGCACTTTGTGTGCTAAAATGA
*
20175 T-AGAAATTCATACTATGTGTATGAATTTCCGTAT
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
20209 GGGAAATATG
Statistics
Matches: 296, Mismatches: 30, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
56 1 0.00
57 30 0.10
58 6 0.02
59 252 0.85
60 7 0.02
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (59 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTTGTGTGCTAAAATGA
Found at i:20030 original size:118 final size:118
Alignment explanation
Indices: 19822--20208 Score: 627
Period size: 118 Copynumber: 3.3 Consensus size: 118
19812 TGTGCAAAGT
* *
19822 TAAGAAATTCATACTAAGTGTACGAATTTCCGTATAGGGCATTTCGTGTGCTAAAATGATAAGAA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTAAAATGATAAGAA
*
19887 ATTCATACCAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCTAAAATGA
66 ATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCTAAAATGA
*
19940 TAAGAAATTCATACTAAGTGTATGAATTTCTGTATAGGGCACTTCGTGTGCTAAAATGATAAGAA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTAAAATGATAAGAA
*
20005 ATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCTAAAATAA
66 ATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCTAAAATGA
* * * *
20058 TAAGAAATTTATATTAAGTGTGTGAATTTTCGTATAGGGCACTTCGTGTGCTAAAATGATAAGAA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTAAAATGATAAGAA
* * *
20123 ATTCATACTAAGTGTATGAATTTCCATATTCGGG-ACTTTGTGTGCT-AGATGA
66 ATTCATACTAAGTGTATGAATTTTCGTATT-GGGCACTTTGTGTGCTAAAATGA
*
20175 T-AGAAATTCATACTATGTGTATGAATTTCCGTAT
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
20209 GGGAAATATG
Statistics
Matches: 249, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
116 28 0.11
117 5 0.02
118 213 0.86
119 3 0.01
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (118 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTAAAATGATAAGAA
ATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCTAAAATGA
Found at i:20664 original size:68 final size:68
Alignment explanation
Indices: 20553--20857 Score: 385
Period size: 68 Copynumber: 4.5 Consensus size: 68
20543 AAAGATTAAT
* * * **
20553 GGCCTAACTGTGCATTTGACAGAGAGGTGCCAATTATAACAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAACTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
20618 TGA
66 TGA
* * * * *
20621 GGCCTAGCTATGCATTTGACAGAGAGGTGTCAATTATGCCAGTTAGATTAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAACTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
20686 TGA
66 TGA
* * * * * *
20689 GGCCTAGCTATGCATTTGACAAAAAGGTGTCAACTATGCCATTTAGATAAAAGGCTAACTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAACTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
*
20754 AGA
66 TGA
* * * *
20757 GGCCTAATTGTGCATTTGACAGAAATGTATCAACTATGCCAGTTAGATGAAACGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAACTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
20822 TGA
66 TGA
*** *
20825 AAACTAACTGTGCATTTGACAGAAATGTGTCAA
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAA
20858 ATGAAAGGCA
Statistics
Matches: 208, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 208 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (68 bp):
GGCCTAACTGTGCATTTGACAGAAAGGTGTCAACTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGA
Found at i:20797 original size:136 final size:136
Alignment explanation
Indices: 20553--21285 Score: 751
Period size: 136 Copynumber: 5.5 Consensus size: 136
20543 AAAGATTAAT
* * * ** *
20553 GGCCTAACTGTGCATTTGACAGAGAGGTGCCAATTATAACAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAACTATGCCAGTTAGATAAAAGGCTAAGTGCCTT
* * * *
20618 TGAGGCCTAGCTATGCATTTGACAGAGAGGTGTCAATTATGCCAGTTAGATTAAAGGCTAAGTGC
66 TGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGC
20683 CTTTGA
131 CTTTGA
* * * * *
20689 GGCCTAGCTATGCATTTGACAAAAAGGTGTCAACTATGCCATTTAGATAAAAGGCTAACTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAACTATGCCAGTTAGATAAAAGGCTAAGTGCCTT
* * * * * *
20754 AGAGGCCTAATTGTGCATTTGACAGAAATGTATCAACTATGCCAGTTAGATGAAACGCTAAGTGC
66 TGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGC
20819 CTTTGA
131 CTTTGA
*** * *
20825 AAACTAACTGTGCATTTGACAGAAATGTGTC-A--A----A--T-G---AAAGGCAAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAACTATGCCAGTTAGATAAAAGGCTAAGTGCCTT
* * * * *
20877 TGAGGCCTAACTGTGCCTTTGATAGAAACGTGTCAATTATGCCAGTTAGATGAAATGCTAGGTGC
66 TGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGC
*
20942 CTTTCA
131 CTTTGA
* * *
20948 GGCCTAACTGTGCATTTGACAGAAATGTGTCAACTATGCCAATTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAACTATGCCAGTTAGATAAAAGGCTAAGTGCCTT
* * * * * * * * * *
21013 TAAGGTCTAGCTGTGCATTTGACATAAATGTGTGAATTACATG--AGATAGATGAAAAGTTGAGT
66 TGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATT--ATGCCAGTTAGATGAAAGGCTAAGT
21076 GCCTTTGA
129 GCCTTTGA
* * * * * * ** *
21084 CGTCAAACTATGCATTTGACATAAAGGTGTCAATTATGTTACTTAGATAAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAACTATGCCAGTTAGATAAAAGGCTAAGTGCCTT
* * *
21149 TGAGGCCTAACTATGCATTTGATAGAAAGGTGTCAATTATTCCAGTTAGATGAAAGGCTAAGTGC
66 TGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGC
21214 CTTTGA
131 CTTTGA
* * * * * * *
21220 GGCCTAGCTGTGCATTTGATAGGAAGGTGTC-ACTCATGCCAGTTAGATGAATGGTTAAATGCCT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAACT-ATGCCAGTTAGATAAAAGGCTAAGTGCCT
21284 TT
65 TT
21286 AAGAAAAATA
Statistics
Matches: 481, Mismatches: 98, Indels: 36
0.78 0.16 0.06
Matches are distributed among these distances:
123 103 0.21
124 1 0.00
126 2 0.00
127 1 0.00
129 1 0.00
130 1 0.00
132 1 0.00
133 2 0.00
134 2 0.00
135 3 0.01
136 361 0.75
138 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (136 bp):
GGCCTAACTGTGCATTTGACAGAAAGGTGTCAACTATGCCAGTTAGATAAAAGGCTAAGTGCCTT
TGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGC
CTTTGA
Found at i:20887 original size:55 final size:55
Alignment explanation
Indices: 20803--20912 Score: 148
Period size: 55 Copynumber: 2.0 Consensus size: 55
20793 TGCCAGTTAG
* *
20803 ATGAAACGCTAAGTGCCTTTGAAAACTAACTGTGCATTTGACAGAAATGTGTCAA
1 ATGAAACGCAAAGTGCCTTTGAAAACTAACTGTGCATTTGACAGAAACGTGTCAA
* *** * *
20858 ATGAAAGGCAAAGTGCCTTTGAGGCCTAACTGTGCCTTTGATAGAAACGTGTCAA
1 ATGAAACGCAAAGTGCCTTTGAAAACTAACTGTGCATTTGACAGAAACGTGTCAA
20913 TTATGCCAGT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (55 bp):
ATGAAACGCAAAGTGCCTTTGAAAACTAACTGTGCATTTGACAGAAACGTGTCAA
Found at i:20957 original size:123 final size:123
Alignment explanation
Indices: 20738--20980 Score: 351
Period size: 123 Copynumber: 2.0 Consensus size: 123
20728 CATTTAGATA
* * *
20738 AAAGGCTAACTGCCTTAGAGGCCTAATTGTGCATTTGACAGAAATGTATCAACTATGCCAGTTAG
1 AAAGGCAAACTGCCTTAGAGGCCTAACTGTGCATTTGACAGAAACGTATCAACTATGCCAGTTAG
*
20803 ATGAAACGCTAAGTGCCTTTGAAAACTAACTGTGCATTTGACAGAAATGTGTCAAATG
66 ATGAAACGCTAAGTGCCTTTCAAAACTAACTGTGCATTTGACAGAAATGTGTCAAATG
* * * * * *
20861 AAAGGCAAAGTGCCTTTGAGGCCTAACTGTGCCTTTGATAGAAACGTGTCAATTATGCCAGTTAG
1 AAAGGCAAACTGCCTTAGAGGCCTAACTGTGCATTTGACAGAAACGTATCAACTATGCCAGTTAG
* * ***
20926 ATGAAATGCTAGGTGCCTTTCAGGCCTAACTGTGCATTTGACAGAAATGTGTCAA
66 ATGAAACGCTAAGTGCCTTTCAAAACTAACTGTGCATTTGACAGAAATGTGTCAA
20981 CTATGCCAAT
Statistics
Matches: 105, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
123 105 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (123 bp):
AAAGGCAAACTGCCTTAGAGGCCTAACTGTGCATTTGACAGAAACGTATCAACTATGCCAGTTAG
ATGAAACGCTAAGTGCCTTTCAAAACTAACTGTGCATTTGACAGAAATGTGTCAAATG
Found at i:20972 original size:68 final size:68
Alignment explanation
Indices: 20858--21285 Score: 464
Period size: 68 Copynumber: 6.3 Consensus size: 68
20848 AATGTGTCAA
* * * *
20858 ATGAAAGGCAAAGTGCCTTTGAGGCCTAACTGTGCCTTTGATAGAAACGTGTCAATTATGCCAGT
1 ATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGT
20923 TAG
66 TAG
* * * * * *
20926 ATGAAATGCTAGGTGCCTTTCAGGCCTAACTGTGCATTTGACAGAAATGTGTCAACTATGCCAAT
1 ATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGT
20991 TAG
66 TAG
* * * * * *
20994 ATGAAAGGCTAAGTGCCTTTAAGGTCTAGCTGTGCATTTGACATAAATGTGTGAATTACATG--A
1 ATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATT--ATGCCA
*
21057 GATAG
64 GTTAG
* * * * * * * * ** *
21062 ATGAAAAGTTGAGTGCCTTTGACGTCAAACTATGCATTTGACATAAAGGTGTCAATTATGTTACT
1 ATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGT
21127 TAG
66 TAG
* * * *
21130 ATAAAAGGCTAAGTGCCTTTGAGGCCTAACTATGCATTTGATAGAAAGGTGTCAATTATTCCAGT
1 ATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGT
21195 TAG
66 TAG
* * * * *
21198 ATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGATAGGAAGGTGTCACTCATGCCAGT
1 ATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGT
21263 TAG
66 TAG
* * *
21266 ATGAATGGTTAAATGCCTTT
1 ATGAAAGGCTAAGTGCCTTT
21286 AAGAAAAATA
Statistics
Matches: 302, Mismatches: 54, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
66 3 0.01
68 296 0.98
70 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (68 bp):
ATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGT
TAG
Found at i:21007 original size:191 final size:194
Alignment explanation
Indices: 20553--21238 Score: 696
Period size: 204 Copynumber: 3.4 Consensus size: 194
20543 AAAGATTAAT
* * * * **
20553 GGCCTAACTGTGCATTTGACAGAGAGGTGCCAATTATAACAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAATGTGTCAACTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* * * * * * *
20618 TGAGGCCTAGCTATGCATTTGACAGAGAGGTGTCAATTATGCCAGTTAGATTAAAGGCTAAGTGC
66 TGAAGACTAGCTGTGCATTTGACAGAAATGTGTGAA-TA---CA--T-G---AAAGGCAAAGTGC
* * * *
20683 CTTTGAGGCCTAGCTATGCATTTGACAAAAAGGTGTCAACTATGCCATTTAGATAAAAGGCTAAC
121 CTTTGAGGCCTAACTATGCATTTGACAAAAAGGTGTCAATTATGCCACTTAGATAAAAGGCTAAG
*
20748 TGCCTTAGA
186 TGCCTTTGA
* * *
20757 GGCCTAATTGTGCATTTGACAGAAATGTATCAACTATGCCAGTTAGATGAAACGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAATGTGTCAACTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* * *
20822 TGAAAACTAACTGTGCATTTGACAGAAATGTGT-CA-A-ATGAAAGGCAAAGTGCCTTTGAGGCC
66 TGAAGACTAGCTGTGCATTTGACAGAAATGTGTGAATACATGAAAGGCAAAGTGCCTTTGAGGCC
* * * * * * * * * *
20884 TAACTGTGCCTTTGATAGAAACGTGTCAATTATGCCAGTTAGATGAAATGCTAGGTGCCTTTCA
131 TAACTATGCATTTGACAAAAAGGTGTCAATTATGCCACTTAGATAAAAGGCTAAGTGCCTTTGA
*
20948 GGCCTAACTGTGCATTTGACAGAAATGTGTCAACTATGCCAATTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAATGTGTCAACTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* * *
21013 T-AAGGTCTAGCTGTGCATTTGACATAAATGTGTGAATTACATGAGATAGATGAAAAGTTGAGTG
66 TGAA-GACTAGCTGTGCATTTGACAGAAATGTGTGAA-TACATGA-A-AG--G-CAA----AGTG
* * * * **
21077 CCTTTGACGTCAAACTATGCATTTGACATAAAGGTGTCAATTATGTTACTTAGATAAAAGGCTAA
120 CCTTTGAGGCCTAACTATGCATTTGACAAAAAGGTGTCAATTATGCCACTTAGATAAAAGGCTAA
21142 GTGCCTTTGA
185 GTGCCTTTGA
* * * * *
21152 GGCCTAACTATGCATTTGATAGAAAGGTGTCAATTATTCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAATGTGTCAACTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* *
21217 TGAGGCCTAGCTGTGCATTTGA
66 TGAAGACTAGCTGTGCATTTGA
21239 TAGGAAGGTG
Statistics
Matches: 402, Mismatches: 65, Indels: 30
0.81 0.13 0.06
Matches are distributed among these distances:
190 2 0.00
191 159 0.40
192 1 0.00
194 2 0.00
195 5 0.01
196 1 0.00
197 3 0.01
199 1 0.00
200 2 0.00
201 1 0.00
203 1 0.00
204 223 0.55
205 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (194 bp):
GGCCTAACTGTGCATTTGACAGAAATGTGTCAACTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGAAGACTAGCTGTGCATTTGACAGAAATGTGTGAATACATGAAAGGCAAAGTGCCTTTGAGGCC
TAACTATGCATTTGACAAAAAGGTGTCAATTATGCCACTTAGATAAAAGGCTAAGTGCCTTTGA
Found at i:21147 original size:327 final size:326
Alignment explanation
Indices: 20553--21184 Score: 764
Period size: 327 Copynumber: 1.9 Consensus size: 326
20543 AAAGATTAAT
* *
20553 GGCCTAACTGTGCATTTGACAGAGAGGTGCCAATTATAACAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAACGTGCCAATTATAACAGTTAGATGAAAGGCTAAGTGCCTT
* * * * * *
20618 TGAGGCCTAGCTATGCATTTGACAGAGAGGTGTCAATTATGCCAGTTAGATTAAAGGCTAAGTGC
66 TCAGGCCTAACTATGCATTTGACAGAAAGGTGTCAACTATGCCAATTAGATGAAAGGCTAAGTGC
* **
20683 CTTTGAGGCCTAGCTATGCATTTGACAAAAAGGTGTCAACTATGCCATTTAGATAAAAGGCTAAC
131 CTTTAAGGCCTAGCTATGCATTTGACAAAAAGGTGTCAACTATG-CAGATAGATAAAAGGCTAAC
* * * * * * *
20748 TGCCTTAGAGGCCTAATTGTGCATTTGACAGAAATGTATCAACTATGCCAGTTAGATGAAACGCT
195 TGCCTTAGACGCCAAACTATGCATTTGACAGAAAGGTATCAACTATGCCACTTAGATAAAACGCT
* *
20813 AAGTGCCTTTGAAAACTAACTGTGCATTTGACAGAAATGTGTCAAATGAAAGGCAAAGTGCCTTT
260 AAGTGCCTTTGAAAACTAACTATGCATTTGACAGAAAGGTGTCAAATGAAAGGCAAAGTGCCTTT
20878 GA
325 GA
* * * ** * *
20880 GGCCTAACTGTGCCTTTGATAGAAACGTGTCAATTATGCCAGTTAGATGAAATGCTAGGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAACGTGCCAATTATAACAGTTAGATGAAAGGCTAAGTGCCTT
* *
20945 TCAGGCCTAACTGTGCATTTGACAGAAATGTGTCAACTATGCCAATTAGATGAAAGGCTAAGTGC
66 TCAGGCCTAACTATGCATTTGACAGAAAGGTGTCAACTATGCCAATTAGATGAAAGGCTAAGTGC
* * * * * * * *
21010 CTTTAAGGTCTAGCTGTGCATTTGACATAAATGTGTGAATTACATG-AGATAGATGAAAA-GTTG
131 CTTTAAGGCCTAGCTATGCATTTGACAAAAAGGTGTCAACT--ATGCAGATAGAT-AAAAGGCTA
* * * * * * ** *
21073 AGTGCCTTTGACGTCAAACTATGCATTTGACATAAAGGTGTCAATTATGTTACTTAGATAAAAGG
193 ACTGCCTTAGACGCCAAACTATGCATTTGACAGAAAGGTATCAACTATGCCACTTAGATAAAACG
*** *
21138 CTAAGTGCCTTTGAGGCCTAACTATGCATTTGATAGAAAGGTGTCAA
258 CTAAGTGCCTTTGAAAACTAACTATGCATTTGACAGAAAGGTGTCAA
21185 TTATTCCAGT
Statistics
Matches: 252, Mismatches: 50, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
327 245 0.97
328 4 0.02
329 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (326 bp):
GGCCTAACTGTGCATTTGACAGAAACGTGCCAATTATAACAGTTAGATGAAAGGCTAAGTGCCTT
TCAGGCCTAACTATGCATTTGACAGAAAGGTGTCAACTATGCCAATTAGATGAAAGGCTAAGTGC
CTTTAAGGCCTAGCTATGCATTTGACAAAAAGGTGTCAACTATGCAGATAGATAAAAGGCTAACT
GCCTTAGACGCCAAACTATGCATTTGACAGAAAGGTATCAACTATGCCACTTAGATAAAACGCTA
AGTGCCTTTGAAAACTAACTATGCATTTGACAGAAAGGTGTCAAATGAAAGGCAAAGTGCCTTTG
A
Found at i:21438 original size:46 final size:46
Alignment explanation
Indices: 21310--21426 Score: 200
Period size: 45 Copynumber: 2.6 Consensus size: 46
21300 ATGTATAAAA
21310 TATAATGGTGTATAAAAAGGCATGAAAGGATGCCATAAATGAAATG
1 TATAATGGTGTATAAAAAGGCATGAAAGGATGCCATAAATGAAATG
21356 TATAATGGTGTAT-AAAAGGCATGAAAGGATGCCATAAATGAAATG
1 TATAATGGTGTATAAAAAGGCATGAAAGGATGCCATAAATGAAATG
* * *
21401 TATAATAGTATATAAAAAGGAATGAA
1 TATAATGGTGTATAAAAAGGCATGAA
21427 CGGTTTCCAT
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
45 43 0.64
46 24 0.36
ACGTcount: A:0.48, C:0.05, G:0.22, T:0.25
Consensus pattern (46 bp):
TATAATGGTGTATAAAAAGGCATGAAAGGATGCCATAAATGAAATG
Found at i:25644 original size:59 final size:59
Alignment explanation
Indices: 25573--26076 Score: 764
Period size: 59 Copynumber: 8.6 Consensus size: 59
25563 TATGCAAAGT
* * *
25573 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGTTAAATTGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCTAAAATGA
* ** *
25632 TAAGAAATTCATACAAAGTGTATGAATTTCTATATAGGGCACTTTGTGTGCTAAAATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCTAAAATGA
25691 TAAGAAATTCATACT--GTGTATGAATTTCCGTATTGGGCACTTTGTGTGCTAAAATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCTAAAATGA
* * * * *
25748 TAAGAAATTCATACCAAGTGTATGAATTTCCGTATAGAGAACTTTGTGTGCTAATATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCTAAAATGA
*
25807 TAAGAAAATCATACTAAGTGTATGAATTTCCGTATTGGGC-CATTTGTGTGCTAAAATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCAC-TTTGTGTGCTAAAATGA
* *
25866 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATTTGGCACTTTGTGTGCTAAAATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCTAAAATGA
* * *
25925 TAAGAAATTCATACTAAATGTATGAATTTCCGTATAGGGTACTTTGTGTGCTAAAATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCTAAAATGA
* *
25984 TATGAAATTCATAGTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCT-AAATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCTAAAATGA
* * *
26042 TAAGAAATTCATACTAAGTTTCTGAATTTCTGTAT
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
26077 GGGAAATATA
Statistics
Matches: 401, Mismatches: 40, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
57 53 0.13
58 37 0.09
59 310 0.77
60 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (59 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCTAAAATGA
Found at i:26541 original size:68 final size:68
Alignment explanation
Indices: 26423--27100 Score: 830
Period size: 68 Copynumber: 10.0 Consensus size: 68
26413 AAAGATTAAT
* * * * * *
26423 GGCCTAATTGTGCATTTGACAGAAATGTGTCAATTTTTCCAGTTCGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAAGTGCCTT
26488 TGA
66 TGA
* * * *
26491 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAAATGAAAGGCTACGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAAGTGCCTT
26556 TGA
66 TGA
* * *
26559 AGCCTAACTGTGCATTTGATAGAAAGGTGTCAATTATG-TCAGTTAGATGAAAGGCTAAATGCCT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCT-AGTTAGATGAAAGGCTAAGTGCCT
*
26623 TTTA
65 TTGA
* * * * * * * *
26627 TGCCTAATTGTGCATTTGATAGGAATGTGCCAATTATGCCAG--ATATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAAGTGCCTT
26690 TGA
66 TGA
*
26693 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGC-ATTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAAGTGCCTT
26757 TGA
66 TGA
* * * * *** *
26760 CGCCTAACTGTGCATTTGACATAAAGGTGTCAATTATGCCAGTTATATGAAACTATAAATGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAAGTGCCTT
*
26825 TAA
66 TGA
* * *
26828 GGCCTACCTGTGCGTTTGACAGAAAGGTGTCAATTAT-ATCAGTTAGATGAAAGG-TGAAGTGCC
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCT-AGTTAGATGAAAGGCT-AAGTGCC
26891 TTTGA
64 TTTGA
* * * *
26896 GGCCTAACTGTGCATTTGATATAAATGTGTCAATTATG-TCAGTTAGATGAAAGGATAAGTGCCT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCT-AGTTAGATGAAAGGCTAAGTGCCT
26960 TTGA
65 TTGA
* * *
26964 GGCCTAATTGTGCATTTGACAGAAAGGTGTCAATTATGCCATTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAAGTGCCTT
27029 TGA
66 TGA
* * * * * * *
27032 GGCCTAGCTGTGCATTTGACAGGATGGTGTCAATCATGCTAGTTAGATGAAAGGTTAAATTCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAAGTGCCTT
27097 TGA
66 TGA
27100 G
1 G
27101 TGAAATAATA
Statistics
Matches: 523, Mismatches: 77, Indels: 20
0.84 0.12 0.03
Matches are distributed among these distances:
65 1 0.00
66 54 0.10
67 62 0.12
68 405 0.77
69 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (68 bp):
GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAAGTGCCTT
TGA
Found at i:27175 original size:46 final size:46
Alignment explanation
Indices: 27122--27269 Score: 172
Period size: 45 Copynumber: 3.2 Consensus size: 46
27112 ATGTATAGAA
* * *
27122 TATAATGGTGTATAAAAAGGCATGAAAGGTTTCCATAAATGAAATG
1 TATAATGGTGTATAAAAAGGCATGAAAGGTTGCAATAAATAAAATG
* * *
27168 TATAATGGAGTATAAAAA-ACATGAAAGGATGCAATAAATAAAATG
1 TATAATGGTGTATAAAAAGGCATGAAAGGTTGCAATAAATAAAATG
* * * * *
27213 TATAATAGTATATAAAAAGGCATGAATGGTTGCTATAAGTAAAAATG
1 TATAATGGTGTATAAAAAGGCATGAAAGGTTGCAATAAAT-AAAATG
*
27260 CATAATGGTG
1 TATAATGGTG
27270 CATTATAAGC
Statistics
Matches: 83, Mismatches: 17, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
45 37 0.45
46 33 0.40
47 13 0.16
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.27
Consensus pattern (46 bp):
TATAATGGTGTATAAAAAGGCATGAAAGGTTGCAATAAATAAAATG
Found at i:27206 original size:45 final size:45
Alignment explanation
Indices: 27122--27267 Score: 134
Period size: 46 Copynumber: 3.2 Consensus size: 45
27112 ATGTATAGAA
* * * * * *
27122 TATAATGGTGTATAAAAAGGCATGAAAGGTTTCCATAAATGAAATG
1 TATAATGGAGTATAAAAA-ACATGAAAGGATGCAATAAATAAAATG
27168 TATAATGGAGTATAAAAAACATGAAAGGATGCAATAAATAAAATG
1 TATAATGGAGTATAAAAAACATGAAAGGATGCAATAAATAAAATG
* * * *
27213 TATAAT--AGTATATAAAAAGGCATGAATGGTTGCTATAAGTAAAAATG
1 TATAATGGAGTATA-AAAAA--CATGAAAGGATGCAATAAAT-AAAATG
*
27260 CATAATGG
1 TATAATGG
27268 TGCATTATAA
Statistics
Matches: 83, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
43 6 0.07
44 5 0.06
45 28 0.34
46 33 0.40
47 11 0.13
ACGTcount: A:0.48, C:0.05, G:0.20, T:0.27
Consensus pattern (45 bp):
TATAATGGAGTATAAAAAACATGAAAGGATGCAATAAATAAAATG
Found at i:30834 original size:23 final size:21
Alignment explanation
Indices: 30783--30855 Score: 103
Period size: 21 Copynumber: 3.4 Consensus size: 21
30773 TTTTCGTAAG
*
30783 AGTACTCTGTGTACTTGGAGT
1 AGTACTTTGTGTACTTGGAGT
30804 AGTACTTTGTGTACTATGGTAAG-
1 AGTACTTTGTGTACT-TGG--AGT
30827 AGTACTTTGTGTACTTGGAGT
1 AGTACTTTGTGTACTTGGAGT
30848 AGTACTTT
1 AGTACTTT
30856 ATGCACTATG
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
20 2 0.04
21 22 0.47
22 6 0.13
23 15 0.32
24 2 0.04
ACGTcount: A:0.22, C:0.11, G:0.26, T:0.41
Consensus pattern (21 bp):
AGTACTTTGTGTACTTGGAGT
Found at i:30841 original size:44 final size:44
Alignment explanation
Indices: 30778--30866 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
30768 TTGCATTTTC
* *
30778 GTAAGAGTACTCTGTGTACTTGGAGTAGTACTTTGTGTACTATG
1 GTAAGAGTACTCTGTGTACTTGGAGTAGTACTTTATGCACTATG
*
30822 GTAAGAGTACTTTGTGTACTTGGAGTAGTACTTTATGCACTATG
1 GTAAGAGTACTCTGTGTACTTGGAGTAGTACTTTATGCACTATG
30866 G
1 G
30867 CACTTTCTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (44 bp):
GTAAGAGTACTCTGTGTACTTGGAGTAGTACTTTATGCACTATG
Found at i:43996 original size:19 final size:19
Alignment explanation
Indices: 43958--44010 Score: 88
Period size: 19 Copynumber: 2.7 Consensus size: 19
43948 GAAATCCCAT
*
43958 TGAAAATACAAGATTTTTAA
1 TGAAAATACATGA-TTTTAA
43978 TGAAAATACATGATTTTAA
1 TGAAAATACATGATTTTAA
43997 TGAAAATACATGAT
1 TGAAAATACATGAT
44011 CTTGACCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 20 0.62
20 12 0.38
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (19 bp):
TGAAAATACATGATTTTAA
Found at i:62597 original size:93 final size:92
Alignment explanation
Indices: 62476--62726 Score: 267
Period size: 93 Copynumber: 2.7 Consensus size: 92
62466 GGTTAAAGGT
* *
62476 ATTTCAATGCTATTCAAAACTTCCATCCATTAATGTAACCACTTAGATAATTTAACCT-CTGTAG
1 ATTTTAATGCTATTC-AAACTTCCATCCATTAATGTAACAACTT-GATAATTTAACCTCCT-TAG
* * *
62540 TCTATAA-ACATCAAAGTGTTT-GATTAAGAC
63 CCCATAAGA-ATCAAAATGTTTAG-TTAAGAC
* * *
62570 ATTTTAATGCTATTCAAACTTCCATCCACTAATGTAACAACTTGCATGAGTTAACCTCCTTAGCC
1 ATTTTAATGCTATTCAAACTTCCATCCATTAATGTAACAACTTG-ATAATTTAACCTCCTTAGCC
*
62635 CATAAGAATCAAAATGTTTAGTTAAGAT
65 CATAAGAATCAAAATGTTTAGTTAAGAC
* * * * *
62663 ATTTTGAATGCTAATCAAACTCCCATCAATTATTGTAACAACTTGGATAAGTTT-ACATCCTTAG
1 ATTTT-AATGCTATTCAAACTTCCATCCATTAATGTAACAACTT-GATAA-TTTAACCTCCTTAG
62727 TTCGAAAACA
Statistics
Matches: 133, Mismatches: 17, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
92 1 0.01
93 66 0.50
94 63 0.47
95 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (92 bp):
ATTTTAATGCTATTCAAACTTCCATCCATTAATGTAACAACTTGATAATTTAACCTCCTTAGCCC
ATAAGAATCAAAATGTTTAGTTAAGAC
Found at i:62747 original size:94 final size:93
Alignment explanation
Indices: 62476--62760 Score: 247
Period size: 94 Copynumber: 3.0 Consensus size: 93
62466 GGTTAAAGGT
* * * * * * * *
62476 ATTTCAATGCTATTCAAAACTTCCATCCATTAATGTAACCACTTAG-ATAATTTAACCT-CTGTA
1 ATTTTAATGCTAATC-AAACTCCCATCAACTAATGTAACAACTT-GCATAAGTTAACATCCT-TA
* *
62539 GTCTATAAACATCAAAGTGTTT-GATTAAGAC
63 GCCCATAAACATCAAAGTGTTTAG-TTAAGAC
* * * * *
62570 ATTTTAATGCTATTCAAACTTCCATCCACTAATGTAACAACTTGCATGAGTTAACCTCCTTAGCC
1 ATTTTAATGCTAATCAAACTCCCATCAACTAATGTAACAACTTGCATAAGTTAACATCCTTAGCC
* *
62635 CATAAGA-ATCAAAATGTTTAGTTAAGAT
66 CATAA-ACATCAAAGTGTTTAGTTAAGAC
* * * *
62663 ATTTTGAATGCTAATCAAACTCCCATCAATTATTGTAACAACTTGGATAAGTTTACATCCTTAGT
1 ATTTT-AATGCTAATCAAACTCCCATCAACTAATGTAACAACTTGCATAAGTTAACATCCTTAG-
* * * *
62728 TCGA-AAACATCATAGTGTTTAGTTTAGAC
64 CCCATAAACATCAAAGTGTTTAGTTAAGAC
62757 ATTT
1 ATTT
62761 CAACACTTTT
Statistics
Matches: 160, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
92 1 0.01
93 67 0.42
94 90 0.56
95 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (93 bp):
ATTTTAATGCTAATCAAACTCCCATCAACTAATGTAACAACTTGCATAAGTTAACATCCTTAGCC
CATAAACATCAAAGTGTTTAGTTAAGAC
Found at i:62912 original size:94 final size:93
Alignment explanation
Indices: 62769--63434 Score: 548
Period size: 93 Copynumber: 7.1 Consensus size: 93
62759 TTCAACACTT
** * * * *
62769 TTAACTTATCTGAGTTGTTACTTTGAT-GATGTAAGTTTGAATAAGGTTGAAATATTTTAACTAA
1 TTAACTTATCCAAGTTGTTACATTAATGGATGAAAGTTTGAATAATGTTGAAATATTTTAACTAA
*
62833 ACACTTTGATGTTTACGCACTAAAGTGG
66 ACACTTTGATGTTTACGAACTAAAGTGG
* *** ** *
62861 TTATCTTATCCAAGTTGTTACATTAGCAGATGAAAAGAATGAATAATGTTGAAA-AGTTTTAATT
1 TTAACTTATCCAAGTTGTTACATTAATGGATG-AAAGTTTGAATAATGTTGAAATA-TTTTAACT
* * * *
62925 GAACACTTTGATGCTTACAAGACTAAAGAT-T
64 AAACACTTTGATGTTTACGA-ACTAAAG-TGG
* * * * *
62956 TTAACTTATCCAAGTTGTTACATTAATGGATGAAAGCTTGAA-AGTGTTTAAAAAGTCTTAACTA
1 TTAACTTATCCAAGTTGTTACATTAATGGATGAAAGTTTGAATAATGTTGAAATA-TTTTAACTA
* **
63020 AACACTTTGATGTTTACAAAC-AGAA-TATA
65 AACACTTTGATGTTTACGAACTA-AAGT-GG
* * * ** * * *
63049 TTAACTTATCCATGTTGTTATAATAATGGATGAAAGTTTGAATAGCGTTAAAATGTCTTAA-TAA
1 TTAACTTATCCAAGTTGTTACATTAATGGATGAAAGTTTGAATAATGTTGAAATATTTTAACT-A
*
63113 AACACTTTGATATTTACGAACTAAAGTGG
65 AACACTTTGATGTTTACGAACTAAAGTGG
* * * * *
63142 TCT-ACTTATCCAAGATGTTCCATTAATGGATGAATGTTTTAATACTGTT--AATATGTCTTAAC
1 T-TAACTTATCCAAGTTGTTACATTAATGGATGAAAGTTTGAATAATGTTGAAATAT-T-TTAAC
* * * *
63204 TAAATACTTTGATGTTTATGGACTAAAGAGG
63 TAAACACTTTGATGTTTACGAACTAAAGTGG
* * * * * *
63235 TTAACTTA-ACATAGATGTTACATTAATGGATGAAAGTTT-AAAAATCATTCAAAATATCTTAAC
1 TTAACTTATCCA-AGTTGTTACATTAATGGATGAAAGTTTGAATAAT-GTT-GAAATATTTTAAC
* * * * **
63298 CAACCACTTTGATGCTTATGAACTAAAGAAG
63 TAAACACTTTGATGTTTACGAACTAAAGTGG
* * * *
63329 TTAACTTATCCAAGTTGTTACATCAATAGATGAAAGTTTGAAT-ATCATTGAAATGTTTTAACTA
1 TTAACTTATCCAAGTTGTTACATTAATGGATGAAAGTTTGAATAAT-GTTGAAATATTTTAACTA
* *
63393 AACACTTTGATGTTGACGAACTAAAGAGG
65 AACACTTTGATGTTTACGAACTAAAGTGG
63422 TTAACTTATCCAA
1 TTAACTTATCCAA
63435 TGATACACGC
Statistics
Matches: 464, Mismatches: 85, Indels: 49
0.78 0.14 0.08
Matches are distributed among these distances:
91 5 0.01
92 29 0.06
93 231 0.50
94 154 0.33
95 39 0.08
96 6 0.01
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (93 bp):
TTAACTTATCCAAGTTGTTACATTAATGGATGAAAGTTTGAATAATGTTGAAATATTTTAACTAA
ACACTTTGATGTTTACGAACTAAAGTGG
Found at i:63335 original size:280 final size:280
Alignment explanation
Indices: 62796--63434 Score: 686
Period size: 280 Copynumber: 2.3 Consensus size: 280
62786 TTACTTTGAT
* * *
62796 GATGTAAGTTTGAATAAG-GTTGAAATATTTTAACTAAACACTTTGATGTTTACGCACTAAAGTG
1 GATGAAAGTTTGAAT-AGCGTTGAAATGTTTTAACTAAACACTTTGATGTTTACGAACTAAAGTG
* * * *
62860 GTTATCTTATCCAAGTTGTTACATTAGCAGATGAAAAGAATGAATAATGTTGAAAAGTTTTAATT
65 GTTA-CTTATCCAAGATGTTACATTAACAGATGAAAAGAATGAATAATGTTGAAAAGTCTTAACT
* ** * *
62925 GAACACTTTGATGCTTACAAGACTAAAGATTTTAACTTATCCAAGTTGTTACATTAATGGATGAA
129 AAACACTTTGATGCTTACAAGACTAAAGAGGTTAACTTATACAAGATGTTACATTAATGGATGAA
* * * * * * *
62990 AGCTTGAAAGTGTTTAAAAAGTCTTAACTAAACACTTTGATGTTTACAAACAGAATATATTAACT
194 AGCTTAAAAATATTCAAAAAGTCTTAACCAAACACTTTGATGCTTACAAACAGAAGATATTAACT
* *
63055 TATCCATGTTGTTATAAT-AATG
259 TATCCAAGTTGTTA-AATCAATA
* * *
63077 GATGAAAGTTTGAATAGCGTTAAAATGTCTTAA-TAAAACACTTTGATATTTACGAACTAAAGTG
1 GATGAAAGTTTGAATAGCGTTGAAATGTTTTAACT-AAACACTTTGATGTTTACGAACTAAAGTG
* ** * ** * * *
63141 GTCTACTTATCCAAGATGTTCCATTAATGGATG-AATGTTTTAATACTGTT-AATATGTCTTAAC
65 GT-TACTTATCCAAGATGTTACATTAACAGATGAAAAGAATGAATAATGTTGAA-AAGTCTTAAC
* * **
63204 TAAATACTTTGATGTTTA-TGGACTAAAGAGGTTAACTTA-ACATAGATGTTACATTAATGGATG
128 TAAACACTTTGATGCTTACAAGACTAAAGAGGTTAACTTATACA-AGATGTTACATTAATGGATG
* * **
63267 AAAGTTTAAAAATCATTCAAAATA-TCTTAACCAACCACTTTGATGCTTATGAACTA-AAGA-AG
192 AAAGCTTAAAAAT-ATTCAAAA-AGTCTTAACCAAACACTTTGATGCTTACAAAC-AGAAGATA-
*
63329 TTAACTTATCCAAGTTGTTACATCAATA
253 TTAACTTATCCAAGTTGTTAAATCAATA
* * * *
63357 GATGAAAGTTTGAATATCATTGAAATGTTTTAACTAAACACTTTGATGTTGACGAACTAAAGAGG
1 GATGAAAGTTTGAATAGCGTTGAAATGTTTTAACTAAACACTTTGATGTTTACGAACTAAAGTGG
63422 TTAACTTATCCAA
66 TT-ACTTATCCAA
63435 TGATACACGC
Statistics
Matches: 297, Mismatches: 49, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
278 2 0.01
279 52 0.18
280 160 0.54
281 81 0.27
282 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (280 bp):
GATGAAAGTTTGAATAGCGTTGAAATGTTTTAACTAAACACTTTGATGTTTACGAACTAAAGTGG
TTACTTATCCAAGATGTTACATTAACAGATGAAAAGAATGAATAATGTTGAAAAGTCTTAACTAA
ACACTTTGATGCTTACAAGACTAAAGAGGTTAACTTATACAAGATGTTACATTAATGGATGAAAG
CTTAAAAATATTCAAAAAGTCTTAACCAAACACTTTGATGCTTACAAACAGAAGATATTAACTTA
TCCAAGTTGTTAAATCAATA
Found at i:63393 original size:187 final size:185
Alignment explanation
Indices: 62926--63430 Score: 532
Period size: 187 Copynumber: 2.7 Consensus size: 185
62916 GTTTTAATTG
* **
62926 AACACTTTGATGCTTACAAGACTAAAGATTTTAACTTATCCAAGTTGTTACATTAATGGATGAAA
1 AACACTTTGATGCTTACGA-ACTAAAGAAGTTAACTTATCCAAGTTGTTACATTAATGGATGAAA
* * * * * **
62991 GCTTGAA-AGTGTTTAAAAAGTCTTAACTAAACACTTTGATGTTTACAAAC-AGAATATATTAAC
65 GTTTGAATA-T-CTTAAAATGTCTTAACTAAACACTTTGATGTTTACGAACTA-AAGAGGTTAAC
* * * * * * * *
63054 TTATCCATGTTGTTATAATAATGGATGAAAGTTTGAATAGCGTTAAAATGTCTTAATAA
127 TTATACATGATGTTACAATAATGGATGAAAGTTTAAAAAGCATTAAAATATCTTAACAA
** ** * * *
63113 AACACTTTGATATTTACGAACTAAAGTGGTCT-ACTTATCCAAGATGTTCCATTAATGGATGAAT
1 AACACTTTGATGCTTACGAACTAAAGAAGT-TAACTTATCCAAGTTGTTACATTAATGGATGAAA
* * * * * *
63177 GTTTTAATACTGTTAATATGTCTTAACTAAATACTTTGATGTTTATGGACTAAAGAGGTTAACTT
65 GTTTGAATA-TCTTAAAATGTCTTAACTAAACACTTTGATGTTTACGAACTAAAGAGGTTAACTT
* * *
63242 A-ACATAGATGTTACATTAATGGATGAAAGTTTAAAAATCATTCAAAATATCTTAACCA
129 ATACAT-GATGTTACAATAATGGATGAAAGTTTAAAAAGCATT-AAAATATCTTAACAA
* * * *
63300 ACCACTTTGATGCTTATGAACTAAAGAAGTTAACTTATCCAAGTTGTTACATCAATAGATGAAAG
1 AACACTTTGATGCTTACGAACTAAAGAAGTTAACTTATCCAAGTTGTTACATTAATGGATGAAAG
* * *
63365 TTTGAATATCATTGAAATGTTTTAACTAAACACTTTGATGTTGACGAACTAAAGAGGTTAACTTA
66 TTTGAATATC-TTAAAATGTCTTAACTAAACACTTTGATGTTTACGAACTAAAGAGGTTAACTTA
63430 T
130 T
63431 CCAATGATAC
Statistics
Matches: 257, Mismatches: 53, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
185 3 0.01
186 116 0.45
187 138 0.54
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (185 bp):
AACACTTTGATGCTTACGAACTAAAGAAGTTAACTTATCCAAGTTGTTACATTAATGGATGAAAG
TTTGAATATCTTAAAATGTCTTAACTAAACACTTTGATGTTTACGAACTAAAGAGGTTAACTTAT
ACATGATGTTACAATAATGGATGAAAGTTTAAAAAGCATTAAAATATCTTAACAA
Found at i:65882 original size:24 final size:23
Alignment explanation
Indices: 65850--65903 Score: 99
Period size: 24 Copynumber: 2.3 Consensus size: 23
65840 AAGCAAGGCA
65850 TGATGAAAAACAATACCATGATG
1 TGATGAAAAACAATACCATGATG
65873 TTGATGAAAAACAATACCATGATG
1 -TGATGAAAAACAATACCATGATG
65897 TGATGAA
1 TGATGAA
65904 GATCAAGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 7 0.23
24 23 0.77
ACGTcount: A:0.46, C:0.11, G:0.19, T:0.24
Consensus pattern (23 bp):
TGATGAAAAACAATACCATGATG
Done.