Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga05g03093.F1
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: 4082
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Found at i:2800 original size:69 final size:69
Alignment explanation
Indices: 2703--2845 Score: 214
Period size: 69 Copynumber: 2.1 Consensus size: 69
2693 TCTTTGCAAA
* * * *
2703 TTGTCTATCTTCAGCTGTCCCAACCTCCAAACCATGCCGCCAAACATGTTCCCTTCCTCTCTTTC
1 TTGTTTATCTTCAACTGTCCCAACCTCCAAACCATGCCGCCAAACATGCTCCCTCCCTCTCTTTC
*
2768 TTGT
66 TCGT
* * *
2772 TTGTTTATCTTCAATTGTCCCAAGCTCCAATCCATGCCGCCAAACATGCTCCCTCCCTCTCTTTC
1 TTGTTTATCTTCAACTGTCCCAACCTCCAAACCATGCCGCCAAACATGCTCCCTCCCTCTCTTTC
2837 TCGT
66 TCGT
2841 TTGTT
1 TTGTT
2846 CATTCGAGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.17, C:0.36, G:0.10, T:0.36
Consensus pattern (69 bp):
TTGTTTATCTTCAACTGTCCCAACCTCCAAACCATGCCGCCAAACATGCTCCCTCCCTCTCTTTC
TCGT
Found at i:2860 original size:69 final size:68
Alignment explanation
Indices: 2718--2860 Score: 189
Period size: 69 Copynumber: 2.1 Consensus size: 68
2708 TATCTTCAGC
* * * *
2718 TGTCCCAACCTCCAAACCATGCCGCCAAACATGTTCCCTTCCTCTCTTTCTTGTTTGTTTATCTT
1 TGTCCCAACCTCCAAACCATGCCGCCAAACATGCTCCCTCCCTCTCTTTCTCGTTTGTTCA-CTT
*
2783 CAAT
65 CAAA
* *
2787 TGTCCCAAGCTCCAATCCATGCCGCCAAACATGCTCCCTCCCTCTCTTTCTCGTTTGTTCA-TTC
1 TGTCCCAACCTCCAAACCATGCCGCCAAACATGCTCCCTCCCTCTCTTTCTCGTTTGTTCACTTC
2851 GAGAA
66 -A-AA
2856 TGTCC
1 TGTCC
2861 TTTGCTGAAG
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
67 3 0.05
68 1 0.02
69 61 0.94
ACGTcount: A:0.18, C:0.36, G:0.11, T:0.34
Consensus pattern (68 bp):
TGTCCCAACCTCCAAACCATGCCGCCAAACATGCTCCCTCCCTCTCTTTCTCGTTTGTTCACTTC
AAA
Done.