Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga13g00458.N1
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: 2211
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Found at i:1026 original size:136 final size:136
Alignment explanation
Indices: 781--1202 Score: 754
Period size: 136 Copynumber: 3.1 Consensus size: 136
771 GAGTAGTCTC
* * *
781 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATATATTTTGAAATAGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
846 TGTTATCTGAATAAGGGTCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
911 ACTGTTA
130 ACTGTTA
918 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
983 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
1048 CTGTTA
131 CTGTTA
1054 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* *
1119 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCTAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
1184 CTGTTA
131 CTGTTA
**
1190 CCTGAATGGGCTT
1 CCCAAATGGGCTT
1203 AGGCCCAATA
Statistics
Matches: 276, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
136 256 0.93
137 20 0.07
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:1430 original size:80 final size:80
Alignment explanation
Indices: 1297--1458 Score: 297
Period size: 80 Copynumber: 2.0 Consensus size: 80
1287 CATCCACGCA
1297 GGAAATCCCCAACCATAGTGGGCTTGGAGATGTGAGGGAATTCGGAGTGGCCACCCGTTCTGAAA
1 GGAAATCCCCAACCATAGTGGGCTTGGAGATGTGAGGGAATTCGGAGTGGCCACCCGTTCTGAAA
1362 GTTTGATTTTCTTCT
66 GTTTGATTTTCTTCT
* *
1377 GGAAATCCCCAATCATAGTGGGCTTGGAGCTGTGAGGGAATTCGGAGTGGCCACCCGTTCTGAAA
1 GGAAATCCCCAACCATAGTGGGCTTGGAGATGTGAGGGAATTCGGAGTGGCCACCCGTTCTGAAA
*
1442 GTTTGGTTTTCTTCT
66 GTTTGATTTTCTTCT
1457 GG
1 GG
1459 TGAACTGGAC
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (80 bp):
GGAAATCCCCAACCATAGTGGGCTTGGAGATGTGAGGGAATTCGGAGTGGCCACCCGTTCTGAAA
GTTTGATTTTCTTCT
Done.