Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga02g00902.M1
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: 7230
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Found at i:1944 original size:31 final size:31
Alignment explanation
Indices: 1909--1967 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
1899 TCATATTCTC
1909 GAATGATATCTTGGACCACTCTAGCCCCTCT
1 GAATGATATCTTGGACCACTCTAGCCCCTCT
1940 GAATGATATCTTGGACCACTCTAGCCCC
1 GAATGATATCTTGGACCACTCTAGCCCC
1968 CTCACACGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (31 bp):
GAATGATATCTTGGACCACTCTAGCCCCTCT
Found at i:3522 original size:212 final size:212
Alignment explanation
Indices: 3155--3579 Score: 778
Period size: 212 Copynumber: 2.0 Consensus size: 212
3145 ATGCAGCAAC
* *
3155 TTAAAATAGAGCTCATACGAATTACCACGACTTTAGCGATAATTTTGTAAACAACGTTACAAAGG
1 TTAAAATAGAGCTCATACGAATTACCAAGACTTTAGCGATAATTTTGCAAACAACGTTACAAAGG
*
3220 CTTATAGGTATGAATTGTAACATGTTTTTTGGTTTATCAACCTTGGGAATCAAAATGATGTGCGT
66 CTTATAGGTATGAATCGTAACATGTTTTTTGGTTTATCAACCTTGGGAATCAAAATGATGTGCGT
3285 TTTATTTAACTCCTCTACTTCAGCTTGACCGTTGAGAATAGATAAGCAATAACGAGCAATCTCTG
131 TTTATTTAACTCCTCTACTTCAGCTTGACCGTTGAGAATAGATAAGCAATAACGAGCAATCTCTG
*
3350 ATCCAACAATATGCCAG
196 ATCCAACAATATACCAG
3367 TTAAAATAGAGCTCATACGAATTACCAAGACTTTAGCGATAATTTTGCAAACAACGTTACAAAGG
1 TTAAAATAGAGCTCATACGAATTACCAAGACTTTAGCGATAATTTTGCAAACAACGTTACAAAGG
*
3432 CTTATGGGTATGAATCGTAACATGTTTTTTGGTTTATCAACCTTGGGAATCAAAATGATGTGCGT
66 CTTATAGGTATGAATCGTAACATGTTTTTTGGTTTATCAACCTTGGGAATCAAAATGATGTGCGT
* *
3497 TTTATTTATCTCTTCTACTTCAGCTTGACCGTTGAGAATAGATAAGCAATAACGAGCAATCTCTG
131 TTTATTTAACTCCTCTACTTCAGCTTGACCGTTGAGAATAGATAAGCAATAACGAGCAATCTCTG
*
3562 ATCCGACAATATACCAG
196 ATCCAACAATATACCAG
3579 T
1 T
3580 ACCTTTGGAA
Statistics
Matches: 205, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
212 205 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (212 bp):
TTAAAATAGAGCTCATACGAATTACCAAGACTTTAGCGATAATTTTGCAAACAACGTTACAAAGG
CTTATAGGTATGAATCGTAACATGTTTTTTGGTTTATCAACCTTGGGAATCAAAATGATGTGCGT
TTTATTTAACTCCTCTACTTCAGCTTGACCGTTGAGAATAGATAAGCAATAACGAGCAATCTCTG
ATCCAACAATATACCAG
Done.