Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga14g00262.P13
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: 4114
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Found at i:2759 original size:218 final size:219
Alignment explanation
Indices: 2353--2999 Score: 967
Period size: 216 Copynumber: 3.0 Consensus size: 219
2343 TTCAGATTTA
*
2353 TGCTTATATTCATCTTTTTAAATCTTGTGATGCTGTCATTTTTTTGATAGTTTATCGCCTGTTAT
1 TGCTTATATTCGTCTTTTTAAATCTTGTGA-G-TGTCATTTTTTTGATAGTTTATCGCCTGTTAT
* * *
2418 GTGTTTTGTTTTTTTTTGTCGGTTGTTTTTTTCCCTCTGTAATCTGTATTG-GGGACATTTTCTT
64 GTGTTTTATTTTTTTTTTTCGGTTGTTTGTTTCCC-CTGTAATCTGTATTGAGGGACATTTTCTT
* *
2482 GCAAATCTTTGAGTCCTATTTATGAGATTTTATAGCGAAGATATATTTCTAACAACTATATAAGT
128 GGAAATCTTTGAGTCCTATTTATGAGATTTTATAGCGAAGATATGTTTCTAACAACTATATAAGT
2547 ATCTACCCTAAAACCC-ATATGAAACAC
193 ATCTACCCTAAAACCCTA-ATGAAACAC
* *
2574 TGC-T-TATTCGTCTTTTTAAATCTTGTGA-TGTCAGTTTTTTGATAGTTTATTGCCTGTTATGT
1 TGCTTATATTCGTCTTTTTAAATCTTGTGAGTGTCATTTTTTTGATAGTTTATCGCCTGTTATGT
*
2636 GTTTTATTTATTTTTTTTCGGTTGTTTGTTTCCCGCTGTAATATGTATTGAGGGACATTTTCTTG
66 GTTTTATTT-TTTTTTTTCGGTTGTTTGTTTCCC-CTGTAATCTGTATTGAGGGACATTTTCTTG
* *
2701 GAAATCTTTGAGTCCTATTTATGAGATTTTATAGCGAAGATATGTTTATAATAACTATATAAGTA
129 GAAATCTTTGAGTCCTATTTATGAGATTTTATAGCGAAGATATGTTTCTAACAACTATATAAGTA
2766 TCTACCCTAAAACCCTAATGAAACAC
194 TCTACCCTAAAACCCTAATGAAACAC
*
2792 TGCTTATATTCGTCTTTTTAAATCTTGTGATGTCGTCATTTTTTTGATAGTTTATCACCTGTTAT
1 TGCTTATATTCGTCTTTTTAAATCTTGTGA-GT-GTCATTTTTTTGATAGTTTATCGCCTGTTAT
* *
2857 CTGTTTTATTTTATTTTTTTCGATTGTTTGTTT-CCC-----TCTGTATTGAGGGACATTTTTCT
64 GTGTTTTATTTT-TTTTTTTCGGTTGTTTGTTTCCCCTGTAATCTGTATTGAGGGACA-TTTTCT
* *
2916 TGGAAATCTTT-AGTCCTATTTATAAGATTTTATAGCAAAGATATGTTTCTAACAACTATATAAG
127 TGGAAATCTTTGAGTCCTATTTATGAGATTTTATAGCGAAGATATGTTTCTAACAACTATATAAG
*
2980 TATCTAACCTAAAACCCTAA
192 TATCTACCCTAAAACCCTAA
3000 CTGATTAGCA
Statistics
Matches: 393, Mismatches: 23, Indels: 25
0.89 0.05 0.06
Matches are distributed among these distances:
216 123 0.31
217 53 0.13
218 102 0.26
219 25 0.06
220 25 0.06
221 4 0.01
222 4 0.01
223 57 0.15
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.47
Consensus pattern (219 bp):
TGCTTATATTCGTCTTTTTAAATCTTGTGAGTGTCATTTTTTTGATAGTTTATCGCCTGTTATGT
GTTTTATTTTTTTTTTTCGGTTGTTTGTTTCCCCTGTAATCTGTATTGAGGGACATTTTCTTGGA
AATCTTTGAGTCCTATTTATGAGATTTTATAGCGAAGATATGTTTCTAACAACTATATAAGTATC
TACCCTAAAACCCTAATGAAACAC
Done.