Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga02g00902.M2
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: 7167
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Found at i:1881 original size:31 final size:31
Alignment explanation
Indices: 1846--1904 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
1836 TCATATTCTC
1846 GAATGATATCTTGGACCACTCTAGCCCCTCT
1 GAATGATATCTTGGACCACTCTAGCCCCTCT
1877 GAATGATATCTTGGACCACTCTAGCCCC
1 GAATGATATCTTGGACCACTCTAGCCCC
1905 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:3459 original size:212 final size:212
Alignment explanation
Indices: 3092--3516 Score: 778
Period size: 212 Copynumber: 2.0 Consensus size: 212
3082 ATGCAGCAAC
* *
3092 TTAAAATAGAGCTCATACGAATTACCACGACTTTAGCGATAATTTTGTAAACAACGTTACAAAGG
1 TTAAAATAGAGCTCATACGAATTACCAAGACTTTAGCGATAATTTTGCAAACAACGTTACAAAGG
*
3157 CTTATAGGTATGAATTGTAACATGTTTTTTGGTTTATCAACCTTGGGAATCAAAATGATGTGCGT
66 CTTATAGGTATGAATCGTAACATGTTTTTTGGTTTATCAACCTTGGGAATCAAAATGATGTGCGT
3222 TTTATTTAACTCCTCTACTTCAGCTTGACCGTTGAGAATAGATAAGCAATAACGAGCAATCTCTG
131 TTTATTTAACTCCTCTACTTCAGCTTGACCGTTGAGAATAGATAAGCAATAACGAGCAATCTCTG
*
3287 ATCCAACAATATGCCAG
196 ATCCAACAATATACCAG
3304 TTAAAATAGAGCTCATACGAATTACCAAGACTTTAGCGATAATTTTGCAAACAACGTTACAAAGG
1 TTAAAATAGAGCTCATACGAATTACCAAGACTTTAGCGATAATTTTGCAAACAACGTTACAAAGG
*
3369 CTTATGGGTATGAATCGTAACATGTTTTTTGGTTTATCAACCTTGGGAATCAAAATGATGTGCGT
66 CTTATAGGTATGAATCGTAACATGTTTTTTGGTTTATCAACCTTGGGAATCAAAATGATGTGCGT
* *
3434 TTTATTTATCTCTTCTACTTCAGCTTGACCGTTGAGAATAGATAAGCAATAACGAGCAATCTCTG
131 TTTATTTAACTCCTCTACTTCAGCTTGACCGTTGAGAATAGATAAGCAATAACGAGCAATCTCTG
*
3499 ATCCGACAATATACCAG
196 ATCCAACAATATACCAG
3516 T
1 T
3517 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.