Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga12g01211.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: 3675
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Found at i:3341 original size:183 final size:174
Alignment explanation
Indices: 3041--3392 Score: 456
Period size: 183 Copynumber: 2.0 Consensus size: 174
3031 AGGGGCATCA
* * **
3041 TCTTCCAATTCCGCAACATGTATCAAGCTATCTTCGGTGAAAATATGGAGCATGGACAAGGTATG
1 TCTTCCAATTCCGCAACATATATCAAACTATCTTCACTGAAAATATGGAGCATGGACAAGGTATG
* * *
3106 TGAAAGTTTGGGAATCGTATTAGGAGTGATGTCATCATCACTTTCAGCATTGAGAGGGAACTGAA
66 TGAAAGTTTGGGAATCGTAGTAGGAGTGATATCAACATCACTTTCAGCATTGAGAGGGAACTGAA
* * * *
3171 GTGCCTCCAAAAAATCAGAGGCATTAAGAAGTAATGCAGCCTTG
131 GAGCCTCCAAAAAATCAAAGGCATTAAAAAGTAAAGCAGCCTTG
* *
3215 TCTTCCAATTCCTCAACATATATCAAACTATCTTCACTGAAAATATGGAGCATTGACAAGATATG
1 TCTTCCAATTCCGCAACATATATCAAACTATCTTCACTGAAAATATGGAGCATGGACAAG----G
*
3280 ATGATCGTGTGAAAG-TTGGAGAATCGTAGTAGGGGT-ATTATCAACATCACTTTCAGCATTGAG
62 -T-A---TGTGAAAGTTTGG-GAATCGTAGTAGGAGTGA-TATCAACATCACTTTCAGCATTGAG
*
3343 AGGGAACTGAAGAGCCTCCAGAAAATCAAAGGCATTAAAAAGTAAAGCAG
120 AGGGAACTGAAGAGCCTCCAAAAAATCAAAGGCATTAAAAAGTAAAGCAG
3393 AGTCGTCTTC
Statistics
Matches: 152, Mismatches: 15, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
174 54 0.36
178 1 0.01
179 1 0.01
180 1 0.01
182 5 0.03
183 90 0.59
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (174 bp):
TCTTCCAATTCCGCAACATATATCAAACTATCTTCACTGAAAATATGGAGCATGGACAAGGTATG
TGAAAGTTTGGGAATCGTAGTAGGAGTGATATCAACATCACTTTCAGCATTGAGAGGGAACTGAA
GAGCCTCCAAAAAATCAAAGGCATTAAAAAGTAAAGCAGCCTTG
Done.