Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga08g00495.F2
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: 3816
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Found at i:587 original size:75 final size:75
Alignment explanation
Indices: 498--646 Score: 253
Period size: 75 Copynumber: 2.0 Consensus size: 75
488 TGTTATCAAG
* *
498 ATTGAAGAGTTTGACAAACTTGAAGACATTAGATATAAGCAACAATATGATCGTAAGCCTCTACC
1 ATTGAAGAGTTTGACAAACTTGAAGACATTAGATATAAGCAACAATAGGATCGTAAGCCTCCACC
563 ACTTTGAAGA
66 ACTTTGAAGA
* * *
573 ATTGAAGAGTTTGACAAAGTTGAAGACATTAGATTTAAGCTACAATAGGATCGTAAGCCTCCACC
1 ATTGAAGAGTTTGACAAACTTGAAGACATTAGATATAAGCAACAATAGGATCGTAAGCCTCCACC
638 ACTTTGAAG
66 ACTTTGAAG
647 GTGAGAAAGT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (75 bp):
ATTGAAGAGTTTGACAAACTTGAAGACATTAGATATAAGCAACAATAGGATCGTAAGCCTCCACC
ACTTTGAAGA
Found at i:1035 original size:231 final size:230
Alignment explanation
Indices: 779--1261 Score: 767
Period size: 231 Copynumber: 2.1 Consensus size: 230
769 AATCAATTGG
* * * *
779 AAGGGTCAATAAGTATTAGAGTATTGAATAATCTGACAAAGCTAAAG-CAGTTGGATTTGAGTGG
1 AAGGATCAATAAATATTAAAGTATTGAATAATCTGACAAAGCTAAAGAC-GTTGGATTTGAGTGA
843 CAATAAAATTGAGAGCCTCCAATCT-TCTCATGATGGTGAGAGG-CCACTCAATTTGACCAATTT
65 CAATAAAATTGAGAGCCTCCAATCTCTC-CATGATGGTGAGAGGCCCA-TCAATTTGACCAATTT
*
906 AGAAGAGCTTTATTTGGATTCCAACTCCTTCACAAACAGCTTATTGTCACAACTTAGTGGATTTT
128 AGAAGAGCTTTATTTGGATTCCAACTCCTTCACAAACAGCTTATTGGCACAACTTAGTGGATTTT
* *
971 CCAATCTAAAGTCATTGAGTATATACGG-TAACCAGCTTA
193 CCAATCTAAAGTCATTGA--ATATAAGGATAACCAACTTA
*
1010 AAGGATCAATAAATATTAAAGTATTGAATAATCTGACAAGGCTAAAGACGTTGGATTTGAGTGAC
1 AAGGATCAATAAATATTAAAGTATTGAATAATCTGACAAAGCTAAAGACGTTGGATTTGAGTGAC
*
1075 AATAAAATTGAGAGCCTCCAATCTCTCCATGATGGTGAGAGGCCCATTAATTTGACCAATTTAGA
66 AATAAAATTGAGAGCCTCCAATCTCTCCATGATGGTGAGAGGCCCATCAATTTGACCAATTTAGA
* * *
1140 AGAGCTTTATTTGGATTCCAACTCCTTCACAAACAGTTTATTGGCACAGCTTAGTGGATTTTCTA
131 AGAGCTTTATTTGGATTCCAACTCCTTCACAAACAGCTTATTGGCACAACTTAGTGGATTTTCCA
*
1205 ATCTAAAGTCATTGAATATAAGGAATAATCAACTTA
196 ATCTAAAGTCATTGAATATAAGG-ATAACCAACTTA
1241 AAGGATCAATAAATATTAAAG
1 AAGGATCAATAAATATTAAAG
1262 ACCTAAATGC
Statistics
Matches: 234, Mismatches: 13, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
229 7 0.03
231 221 0.94
232 6 0.03
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (230 bp):
AAGGATCAATAAATATTAAAGTATTGAATAATCTGACAAAGCTAAAGACGTTGGATTTGAGTGAC
AATAAAATTGAGAGCCTCCAATCTCTCCATGATGGTGAGAGGCCCATCAATTTGACCAATTTAGA
AGAGCTTTATTTGGATTCCAACTCCTTCACAAACAGCTTATTGGCACAACTTAGTGGATTTTCCA
ATCTAAAGTCATTGAATATAAGGATAACCAACTTA
Done.