Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga06g02231.N3
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: 5528
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Found at i:2260 original size:69 final size:69
Alignment explanation
Indices: 2002--2247 Score: 350
Period size: 69 Copynumber: 3.6 Consensus size: 69
1992 AAAGTTATCT
* * ** * *
2002 CTCTCTTCCAATCAGTTTTCTGGAAATATATCTATCCTTGAGAGCCTAACATTACTTGAATCTTT
1 CTCTCTTCTAATCAGTTCTCTGGAAATATATCTGCCCTTCAGAGCCTAACATTGCTTGAATCTTT
2067 GGAC
66 GGAC
* * *
2071 CTCTCTTTTAATCTA-TTCTCTGGAAATATATTTGCCCTTCAGAGCCTAACATTGCTTGCATCTT
1 CTCTCTTCTAATC-AGTTCTCTGGAAATATATCTGCCCTTCAGAGCCTAACATTGCTTGAATCTT
2135 TGGAC
65 TGGAC
* * * *
2140 CTCTCTTTTAATCAATTTTCTGGAAATATACCTGCCCTTCAGAGCCTAACATTGCTTGAATCTTT
1 CTCTCTTCTAATCAGTTCTCTGGAAATATATCTGCCCTTCAGAGCCTAACATTGCTTGAATCTTT
*
2205 AGAC
66 GGAC
2209 CTCTCTTCTAATCAGTTCTCTGGAAATATATCTGCCCTT
1 CTCTCTTCTAATCAGTTCTCTGGAAATATATCTGCCCTT
2248 GAAAGTCTAA
Statistics
Matches: 157, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
68 1 0.01
69 155 0.99
70 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (69 bp):
CTCTCTTCTAATCAGTTCTCTGGAAATATATCTGCCCTTCAGAGCCTAACATTGCTTGAATCTTT
GGAC
Found at i:2276 original size:138 final size:138
Alignment explanation
Indices: 2002--2276 Score: 356
Period size: 138 Copynumber: 2.0 Consensus size: 138
1992 AAAGTTATCT
* * * *
2002 CTCTCTTCCAATCAGTTTTCTGGAAATATATCTATCCTTGAGAGCCTAACATTACTTGAATCTTT
1 CTCTCTTCCAATCAATTTTCTGGAAATATACCTACCCTTCAGAGCCTAACATTACTTGAATCTTT
* * * * * * *
2067 GGACCTCTCTTTTAATCTATTCTCTGGAAATATATTTGCCCTTCAGAGCCTAACATTGCTTGCAT
66 AGACCTCTCTTCTAATCTATTCTCTGGAAATATATCTGCCCTTCAAAGCCTAACATTCCCTCCAT
*
2132 CTTTGGAC
131 CGTTGGAC
** * *
2140 CTCTCTTTTAATCAATTTTCTGGAAATATACCTGCCCTTCAGAGCCTAACATTGCTTGAATCTTT
1 CTCTCTTCCAATCAATTTTCTGGAAATATACCTACCCTTCAGAGCCTAACATTACTTGAATCTTT
* *
2205 AGACCTCTCTTCTAATC-AGTTCTCTGGAAATATATCTGCCCTTGAAAGTCTAACA-TCCCTCCA
66 AGACCTCTCTTCTAATCTA-TTCTCTGGAAATATATCTGCCCTTCAAAGCCTAACATTCCCTCC-
2268 ATCGTTGGA
129 ATCGTTGGA
2277 TGTTTCAAAC
Statistics
Matches: 117, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
137 5 0.04
138 112 0.96
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (138 bp):
CTCTCTTCCAATCAATTTTCTGGAAATATACCTACCCTTCAGAGCCTAACATTACTTGAATCTTT
AGACCTCTCTTCTAATCTATTCTCTGGAAATATATCTGCCCTTCAAAGCCTAACATTCCCTCCAT
CGTTGGAC
Done.