Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga01g00162.F2
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: 3159
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Found at i:1713 original size:74 final size:75
Alignment explanation
Indices: 1569--1728 Score: 166
Period size: 74 Copynumber: 2.2 Consensus size: 75
1559 GTTTGTTAAT
* * * * * *
1569 ACTTAGATGGCTGCATATTTTCCTACGTGCCTACAAGGATGTGAAATGCAATAGTATATGGAGAA
1 ACTTAGATGGTTGCATACTTTCCTACATGCCTACAAGGATGTAAAATGCAATAATACATGGAGAA
*
1634 GCATAATA-A
66 ACATAATATA
*** *
1643 ACTTAGATGGTTGCATACTTTCCTACATTTGTACAAGGATG-AAAATTGCACTAATACATGTG-G
1 ACTTAGATGGTTGCATACTTTCCTACATGCCTACAAGGATGTAAAA-TGCAATAATACATG-GAG
*
1706 AAACATAATATT
64 AAACATAATATA
1718 ACTT-GATGGTT
1 ACTTAGATGGTT
1729 TTCTATTCTT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
73 3 0.04
74 63 0.89
75 5 0.07
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.32
Consensus pattern (75 bp):
ACTTAGATGGTTGCATACTTTCCTACATGCCTACAAGGATGTAAAATGCAATAATACATGGAGAA
ACATAATATA
Found at i:2965 original size:22 final size:22
Alignment explanation
Indices: 2937--2980 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
2927 GGTATGAGGC
2937 TCAAAGGGTTTAGACAAAAAGA
1 TCAAAGGGTTTAGACAAAAAGA
2959 TCAAAGGGTTTAGACAAAAAGA
1 TCAAAGGGTTTAGACAAAAAGA
2981 AAAGTTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.23, T:0.18
Consensus pattern (22 bp):
TCAAAGGGTTTAGACAAAAAGA
Done.