Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga13g00455.F1
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, 628
Length: 1047
ACGTcount: A:0.22, C:0.33, G:0.12, T:0.34
Found at i:524 original size:159 final size:159
Alignment explanation
Indices: 252--561 Score: 512
Period size: 159 Copynumber: 1.9 Consensus size: 159
242 ATACCCTCAT
* *
252 TCCCAAAGCCTGGGGCGTTTCCTCCACTTCCTACCAGATTTCCAAGTGGACCAAAGGCCACACTG
1 TCCCAAAGCCTGGGGCGCTTCCTCCACTTCCTACCAGATTTCCAAGTGGACCAAAGGCCACACTA
* *
317 CCCCCTCTGCCAAGCATTCCCTCAGTCCCCAGAATCCCAACTACAATTCCCTCTATTGCTTTATT
66 CCCCCTCTGCCAAGCATTCCCTCAGTCCCCACAATCCCAACTACAATTCCCTCTATTCCTTTATT
*
382 TTCTCCGCCATTGCCATCTTTCCCTAATC
131 TTCTCCACCATTGCCATCTTTCCCTAATC
*
411 TCCCAAAGCCTGGGGCGCTTCCTCCACTTCCTACCATATTTCCAAGTGGACCAAAGGCCACACTA
1 TCCCAAAGCCTGGGGCGCTTCCTCCACTTCCTACCAGATTTCCAAGTGGACCAAAGGCCACACTA
* * * *
476 CCCCCTCTGCCAAGCATTCCTTCATTCCCCACAATCCCAACTGCAATTCCCTCTATTCCTTTCTT
66 CCCCCTCTGCCAAGCATTCCCTCAGTCCCCACAATCCCAACTACAATTCCCTCTATTCCTTTATT
* *
541 TTTTCCACCTTTGCCATCTTT
131 TTCTCCACCATTGCCATCTTT
562 TCCTCCACTT
Statistics
Matches: 139, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
159 139 1.00
ACGTcount: A:0.20, C:0.39, G:0.11, T:0.29
Consensus pattern (159 bp):
TCCCAAAGCCTGGGGCGCTTCCTCCACTTCCTACCAGATTTCCAAGTGGACCAAAGGCCACACTA
CCCCCTCTGCCAAGCATTCCCTCAGTCCCCACAATCCCAACTACAATTCCCTCTATTCCTTTATT
TTCTCCACCATTGCCATCTTTCCCTAATC
Found at i:666 original size:132 final size:132
Alignment explanation
Indices: 429--693 Score: 422
Period size: 132 Copynumber: 2.0 Consensus size: 132
419 CCTGGGGCGC
*
429 TTCCTCCACTTCCTACCATATTTCCAAGTGGACCAAAGGCCACACTACCCCCTCTGCCAAGCATT
1 TTCCTCCACTTCCTACCATATTTCCAAGTGGACCAAAGGCCACACTACCCCCTCTGCCAAACATT
* * * * * *
494 CCTTCATTCCCCACAATCCCAACTGCAATTCCCTCTATTCCTTTCTTTTTTCCACCTTTGCCATC
66 CCCTCAATCCCCACAATCCCAACTACAATTCCCTCTATTCCTTTCTCTTCTCCACCATTGCCATC
559 TT
131 TT
* * * * *
561 TTCCTCCACTTCCTACCGTATTTCCAAGTGGACCGAGGGCCACACTGCCTCCTCTGCCAAACATT
1 TTCCTCCACTTCCTACCATATTTCCAAGTGGACCAAAGGCCACACTACCCCCTCTGCCAAACATT
626 CCCTCAATCCCCACAATCCCAACTACAATTCCCTCTATTCCTTTCTCTTCTCCACCATTGCCATC
66 CCCTCAATCCCCACAATCCCAACTACAATTCCCTCTATTCCTTTCTCTTCTCCACCATTGCCATC
691 TT
131 TT
693 T
1 T
694 CCCTAATCTC
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 121 1.00
ACGTcount: A:0.20, C:0.41, G:0.08, T:0.31
Consensus pattern (132 bp):
TTCCTCCACTTCCTACCATATTTCCAAGTGGACCAAAGGCCACACTACCCCCTCTGCCAAACATT
CCCTCAATCCCCACAATCCCAACTACAATTCCCTCTATTCCTTTCTCTTCTCCACCATTGCCATC
TT
Found at i:798 original size:291 final size:291
Alignment explanation
Indices: 269--840 Score: 957
Period size: 291 Copynumber: 2.0 Consensus size: 291
259 GCCTGGGGCG
*
269 TTTCCTCCACTTCCTACCAGATTTCCAAGTGGACCAAAGGCCACACTGCCCCCTCTGCCAAGCAT
1 TTTCCTCCACTTCCTACCAGATTTCCAAGTGGACCAAAGGCCACACTGCCCCCTCTGCCAAACAT
* * * * *
334 TCCCTCAGTCCCCAGAATCCCAACTACAATTCCCTCTATTGCTTTATTTTCTCCGCCATTGCCAT
66 TCCCTCAATCCCCACAATCCCAACTACAATTCCCTCTATTCCTTTATCTTCTCCACCATTGCCAT
*
399 CTTTCCCTAATCTCCCAAAGCCTGGGGCGCTTCCTCCACTTCCTACCATATTTCCAAGTGGACCA
131 CTTTCCCTAATCTCCCAAACCCTGGGGCGCTTCCTCCACTTCCTACCATATTTCCAAGTGGACCA
* *
464 AAGGCCACACTACCCCCTCTGCCAAGCATTCCTTCATTCCCCACAATCCCAACTGCAATTCCCTC
196 AAGGCCACACTACCCCCTCTGCCAAGCATTCCCTCAGTCCCCACAATCCCAACTGCAATTCCCTC
* *
529 TATTCCTTTCTTTTTTCCACCTTTGCCATCT
261 TATTCCTTTCGTTTCTCCACCTTTGCCATCT
* * *
560 TTTCCTCCACTTCCTACC-GTATTTCCAAGTGGACCGAGGGCCACACTGCCTCCTCTGCCAAACA
1 TTTCCTCCACTTCCTACCAG-ATTTCCAAGTGGACCAAAGGCCACACTGCCCCCTCTGCCAAACA
*
624 TTCCCTCAATCCCCACAATCCCAACTACAATTCCCTCTATTCCTTTCTCTTCTCCACCATTGCCA
65 TTCCCTCAATCCCCACAATCCCAACTACAATTCCCTCTATTCCTTTATCTTCTCCACCATTGCCA
*
689 TCTTTCCCTAATCTCCCAAACCCTGGGGCTCTTCCTCCACTTCCTACCATATTTCCAAGTGGACC
130 TCTTTCCCTAATCTCCCAAACCCTGGGGCGCTTCCTCCACTTCCTACCATATTTCCAAGTGGACC
* * *
754 GAGGGCCACACTACCCCCTCTGCCAAGCATTCCCTCAGTCCCCACAATCCCAACTGTAATTCCCT
195 AAAGGCCACACTACCCCCTCTGCCAAGCATTCCCTCAGTCCCCACAATCCCAACTGCAATTCCCT
819 CTATTCCTTTCGTTTCTCCACC
260 CTATTCCTTTCGTTTCTCCACC
841 ACGTTCTCGT
Statistics
Matches: 261, Mismatches: 19, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
290 1 0.00
291 260 1.00
ACGTcount: A:0.20, C:0.41, G:0.10, T:0.29
Consensus pattern (291 bp):
TTTCCTCCACTTCCTACCAGATTTCCAAGTGGACCAAAGGCCACACTGCCCCCTCTGCCAAACAT
TCCCTCAATCCCCACAATCCCAACTACAATTCCCTCTATTCCTTTATCTTCTCCACCATTGCCAT
CTTTCCCTAATCTCCCAAACCCTGGGGCGCTTCCTCCACTTCCTACCATATTTCCAAGTGGACCA
AAGGCCACACTACCCCCTCTGCCAAGCATTCCCTCAGTCCCCACAATCCCAACTGCAATTCCCTC
TATTCCTTTCGTTTCTCCACCTTTGCCATCT
Done.