Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga06g00414.M1
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: 5028
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Found at i:3245 original size:185 final size:187
Alignment explanation
Indices: 2894--3291 Score: 560
Period size: 185 Copynumber: 2.2 Consensus size: 187
2884 CCATACTACT
* ** *
2894 ACTGTAAAAGCTTTTGGCCTTTGAC---T--TTTAGAACTGGTAAACCTGTCTTTTATGGTCATC
1 ACTGTAAAAGCTTTTAGCCTTTGACTTTTAGTTTAGAACTGGTAAACCTACCTTTTATAGTCATC
* * * * *
2954 ATCTCGTGATAGTATCAGATTTAGATTATCCTAGCAGTGTCATTGAACACCGCAAAAATCCCTAA
66 ATCTCATGATAATATCAGATTTAGATCATCCTACCAGTGACATTGAACACCGCAAAAATCCCTAA
* *
3019 GCCTGTTATGCCACATTATTCATGTGCTATTAGGTCATCCTACCAGTGTCATTGAAC
131 GCCTGTTATGCCACATTATTCACGCGCTATTAGGTCATCCTACCAGTGTCATTGAAC
* * *
3076 ACTGTAAAAGCTTTTAGTCTTTGACTTTTAGTTTAGAACTGGTAGACCTACCTTTTATATTCATC
1 ACTGTAAAAGCTTTTAGCCTTTGACTTTTAGTTTAGAACTGGTAAACCTACCTTTTATAGTCATC
* *
3141 ATCTCATGATAATATCATATTTAGATCATCCTACCAGTGACATTG-A-A-CGCTAAAAATCCCTG
66 ATCTCATGATAATATCAGATTTAGATCATCCTACCAGTGACATTGAACACCGC-AAAAATCCCTA
* * *
3203 ATCTTGTTATGCCACATTATTCACGCGCTATTAGGTCATCCTACCAGTGTCATTGAGC
130 AGCCTGTTATGCCACATTATTCACGCGCTATTAGGTCATCCTACCAGTGTCATTGAAC
3261 ACTGTAAAAGCTTTTAGCCTTTGACTTTTAG
1 ACTGTAAAAGCTTTTAGCCTTTGACTTTTAG
3292 AAATGGTAAA
Statistics
Matches: 190, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
182 23 0.12
184 3 0.02
185 95 0.50
186 1 0.01
187 68 0.36
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (187 bp):
ACTGTAAAAGCTTTTAGCCTTTGACTTTTAGTTTAGAACTGGTAAACCTACCTTTTATAGTCATC
ATCTCATGATAATATCAGATTTAGATCATCCTACCAGTGACATTGAACACCGCAAAAATCCCTAA
GCCTGTTATGCCACATTATTCACGCGCTATTAGGTCATCCTACCAGTGTCATTGAAC
Done.