Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga14g00679.F5
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: 3004
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.27
Found at i:2055 original size:201 final size:201
Alignment explanation
Indices: 1727--2088 Score: 453
Period size: 201 Copynumber: 1.8 Consensus size: 201
1717 GTGTTGATGT
* * * *
1727 CATAAGGAAAGAACAATCCAATGAGCAAAACATCTCAAGAGCTCATGGGTTTGAAAATGTTCGGA
1 CATAAGGAAAGAAAAATCCAATGAACAAAACATCCCAAGAGCTAATGGGTTTGAAAATGTTCGGA
* * * * ** * *
1792 ACGGAGAAATGATGGAGGAAGTTGAAGAAGATTCTTCTGATAGTGGAGGCGATGACATTGGTGAG
66 ACAGAGAAAGGATGGAGGAAGATGAAGAAGATTCTTCTGATAATGGAAACGATGAAATTGGTGAC
*
1857 GGCCAACAGCAA-AAGCGACCATCCAGTTCAAGCGGTGTAAGAACTGTAGAAGAAACACAGGGTG
131 GACCAACAGCAATAA-CGACCATCCAGTTCAAGCGGTGTAAGAACTGTAGAAGAAACACAGGGTG
1921 TTGCATC
195 TTGCATC
** * * *
1928 CATAAGGAAAGAAAAATCTGATGAACAAAACCTCCCTATG-GCTAATGGGTTTGAAAATGTTGGG
1 CATAAGGAAAGAAAAATCCAATGAACAAAACATCCC-AAGAGCTAATGGGTTTGAAAATGTTCGG
* *
1992 AACAGAGAAAGGATGGAGGAAGAT-ATAGAA-ATTTCTTCTGATAATGGAAATGCTGAAATTGGT
65 AACAGAGAAAGGATGGAGGAAGATGA-AGAAGA-TTCTTCTGATAATGGAAACGATGAAATTGGT
* * *
2055 GACGACCGACAGCAATTACGACCATCTAGTTCAA
128 GACGACCAACAGCAATAACGACCATCCAGTTCAA
2089 AAGTGCCTGT
Statistics
Matches: 134, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
200 2 0.01
201 129 0.96
202 3 0.02
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (201 bp):
CATAAGGAAAGAAAAATCCAATGAACAAAACATCCCAAGAGCTAATGGGTTTGAAAATGTTCGGA
ACAGAGAAAGGATGGAGGAAGATGAAGAAGATTCTTCTGATAATGGAAACGATGAAATTGGTGAC
GACCAACAGCAATAACGACCATCCAGTTCAAGCGGTGTAAGAACTGTAGAAGAAACACAGGGTGT
TGCATC
Done.