Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga05g03115.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: 4326
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Found at i:352 original size:26 final size:26
Alignment explanation
Indices: 315--398 Score: 159
Period size: 26 Copynumber: 3.2 Consensus size: 26
305 TGATACAAAT
*
315 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
341 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
367 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
393 TGATAA
1 TGATAA
399 GAATATCATG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:1512 original size:136 final size:136
Alignment explanation
Indices: 1267--1688 Score: 772
Period size: 136 Copynumber: 3.1 Consensus size: 136
1257 TGAGTATCTC
*
1267 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
1332 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGTTTTAGCCCAGTATC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTAGCCCAGTATC
1397 ACTGTTA
130 ACTGTTA
1404 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1469 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTAGCCCAGTATCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTAGCCCAGTATCA
1534 CTGTTA
131 CTGTTA
1540 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* * *
1605 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTAGCCCAGTATCA
1670 CTGTTA
131 CTGTTA
**
1676 CCTGAATGGGCTT
1 CCCAAATGGGCTT
1689 AGGCCCAATG
Statistics
Matches: 278, Mismatches: 7, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
136 258 0.93
137 20 0.07
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTAGCCCAGTATCA
CTGTTA
Done.