Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CotAD_55107
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, 622
Length: 1038
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Found at i:581 original size:138 final size:138
Alignment explanation
Indices: 323--596 Score: 440
Period size: 138 Copynumber: 2.0 Consensus size: 138
313 GACGCTACCG
* * * * *
323 ATGCTGATATCTCGTTAGAATTGTCTCTTTCAATGAATAAACCCCCAAGGGTTGAAGTCGGCGAA
1 ATGCCGATAGCTCGTTAGAATGGTCCCTTTCAATCAATAAACCCCCAAGGGTTGAAGTCGGCGAA
* * * *
388 CGTAACAATCATTATAAACTGAATATCAATGAAGCCCTTACTTTGGCAACTACGAGTGATAATTT
66 CGTAACAATCATCATAAACTGAAGATCAATGAAGCCCTTACTTTAGCAACTACGAGTGATAAGTT
453 TACATCCA
131 TACATCCA
* * *
461 ATGCCGATAGCTCGTTAGAATGGTCCCTTTCAATCAATAAACCCCCAGGGGTTGAAGTTGGTGAA
1 ATGCCGATAGCTCGTTAGAATGGTCCCTTTCAATCAATAAACCCCCAAGGGTTGAAGTCGGCGAA
526 CGTAACAATCATCATAAACTGAAGATCAATGAAGCCCTTACTTTAGCAACTACGAGTGATAAGTT
66 CGTAACAATCATCATAAACTGAAGATCAATGAAGCCCTTACTTTAGCAACTACGAGTGATAAGTT
591 TACATC
131 TACATC
597 GAAGAAAAGA
Statistics
Matches: 124, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
138 124 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (138 bp):
ATGCCGATAGCTCGTTAGAATGGTCCCTTTCAATCAATAAACCCCCAAGGGTTGAAGTCGGCGAA
CGTAACAATCATCATAAACTGAAGATCAATGAAGCCCTTACTTTAGCAACTACGAGTGATAAGTT
TACATCCA
Found at i:639 original size:138 final size:137
Alignment explanation
Indices: 353--626 Score: 304
Period size: 138 Copynumber: 2.0 Consensus size: 137
343 TTGTCTCTTT
* * *
353 CAATGAATAAACCCCCAAGGGTTGAAGTCGGCGAACGTAACAATCATTATAAACTGAATATCAAT
1 CAATAAATAAACCCCCAAGGGTTGAAGTCGGCGAACGTAACAATCATCATAAACTGAAGATCAAT
* * * * * ** *
418 GAAGCCCTTACTTTGGCAACTACGAGTGATAATTTTACATCCAATGCCGATAGCTCGTTAGAATG
66 GAAGCCCTTACTTTAGCAACTACGAGTGATAAGTTTACATCCAATG-CAAAAGCACGAAACAATG
*** **
483 GTCCCTTT
130 GAAACTGA
* * * *
491 CAATCAATAAACCCCCAGGGGTTGAAGTTGGTGAACGTAACAATCATCATAAACTGAAGATCAAT
1 CAATAAATAAACCCCCAAGGGTTGAAGTCGGCGAACGTAACAATCATCATAAACTGAAGATCAAT
*
556 GAAGCCCTTACTTTAGCAACTACGAGTGATAAGTTTACATCGAA-G-AAAAG-AC-AAACAATGG
66 GAAGCCCTTACTTTAGCAACTACGAGTGATAAGTTTACATCCAATGCAAAAGCACGAAACAAT--
617 GGAAACTGA
129 GGAAACTGA
626 C
1 C
627 GAATGGAAAT
Statistics
Matches: 114, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
133 4 0.04
134 1 0.01
135 8 0.07
137 1 0.01
138 100 0.88
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (137 bp):
CAATAAATAAACCCCCAAGGGTTGAAGTCGGCGAACGTAACAATCATCATAAACTGAAGATCAAT
GAAGCCCTTACTTTAGCAACTACGAGTGATAAGTTTACATCCAATGCAAAAGCACGAAACAATGG
AAACTGA
Done.