Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga07g01270.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: 2857
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Found at i:60 original size:3 final size:3
Alignment explanation
Indices: 52--82 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
42 CGTTACCTGC
*
52 TCT TCT TCT TCT TCT TCT TCT TCC TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
83 TTATTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:1519 original size:158 final size:158
Alignment explanation
Indices: 1231--1550 Score: 631
Period size: 158 Copynumber: 2.0 Consensus size: 158
1221 TTTAAAATCG
1231 ATTTTAGGATGTCAAAAGAACAGAAATGCGTGCTTTTAGTTTTGCCTATGAAATTTAGTGTATAA
1 ATTTTAGGATGTCAAAAGAACAGAAATGCGTGCTTTTAGTTTTGCCTATGAAATTTAGTGTATAA
1296 TCTATATGGTTAATTGTCAATGCTTCCACTTCTTCTGATGCTTTTTATACCATAATATGTGCATG
66 TCTATATGGTTAATTGTCAATGCTTCCACTTCTTCTGATGCTTTTTATACCATAATATGTGCATG
1361 GTTTGTATTCTGCACATATCAGTTATCA
131 GTTTGTATTCTGCACATATCAGTTATCA
1389 ATTTTAGGATGTCAAAAGAACAGAAATGCGTGCTTTTAGTTTTGCCTATGAAATTTAGTGTATAA
1 ATTTTAGGATGTCAAAAGAACAGAAATGCGTGCTTTTAGTTTTGCCTATGAAATTTAGTGTATAA
*
1454 TCTATATGGTTAATTGTCAATGCTTCCACTTCTTCTGTTGCTTTTTATACCATAATATGTGCATG
66 TCTATATGGTTAATTGTCAATGCTTCCACTTCTTCTGATGCTTTTTATACCATAATATGTGCATG
1519 GTTTGTATTCTGCACATATCAGTTATCA
131 GTTTGTATTCTGCACATATCAGTTATCA
1547 ATTT
1 ATTT
1551 ATTGAAATTA
Statistics
Matches: 161, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
158 161 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (158 bp):
ATTTTAGGATGTCAAAAGAACAGAAATGCGTGCTTTTAGTTTTGCCTATGAAATTTAGTGTATAA
TCTATATGGTTAATTGTCAATGCTTCCACTTCTTCTGATGCTTTTTATACCATAATATGTGCATG
GTTTGTATTCTGCACATATCAGTTATCA
Done.