Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga06g01750.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: 3582
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Found at i:1575 original size:258 final size:261
Alignment explanation
Indices: 1112--1637 Score: 781
Period size: 258 Copynumber: 2.0 Consensus size: 261
1102 GAAAAATTAA
* * * * * *
1112 AGAATGGGAAGTACATTGTCAAAGTTTCGGGTGAAACTTATTCGTGCCCCTTTTGTCCTCAGAAG
1 AGAATGGGAAGCACATTGTCAAAGCTTCAGATGAAACTTATACGTGCCCCTATTGTCCT-AGAAG
* *
1177 AAAAAGCCAAATTACCGATACATGGATCTTGTCCAGCATGCTTCTGCTGTGGCAAATAGTAGTTC
65 AAAAA--CAAATTACCGATACATAGACCTTGTCCAGCATGCTTCTGCTGTGGCAAATAGTAGTTC
* * * *
1242 TGCAAGAAGAACACCAATAGTGAAAGCCAATCACTTGGCTTTGTCGAAGTATTTGGAAAAGGATC
128 TGCAAGAAGAACACCAATAATGAAAGCCAATCACCTGGCTCTGGCGAAGTATTTGGAAAAGGATC
* *
1307 TTGCGCCTTTGGTTAGTTCATTGAAACCTG-TGACTCAGGAGGATCCTCTTAGTGGTTGTGACCA
193 TTGCGCCTTTGGTTAGTTCATTGAAACCTGCAG-CTCAAGAGGATCCTCTTAGTGGTTGTGACCA
1371 TGATG
257 TGATG
1376 AGAATGGGAAGCACATTGTCAAAGCTTCAGATGAAACTTATACGTGCCCCTATTGTCCT-G-AGA
1 AGAATGGGAAGCACATTGTCAAAGCTTCAGATGAAACTTATACGTGCCCCTATTGTCCTAGAAGA
* * ** * *
1439 AGAA-AATTTACCGATATTTAGACCTTGTCCAGCATGCTTCTGGTGTGGGAAATAGTAGTTCTGC
66 AAAACAAATTACCGATACATAGACCTTGTCCAGCATGCTTCTGCTGTGGCAAATAGTAGTTCTGC
* *
1503 AAGAAGAACACCAATAATGAAAGCCAATCACCTGGCTCTGGCTAAGTATTTGGAAAAGGGTCTTG
131 AAGAAGAACACCAATAATGAAAGCCAATCACCTGGCTCTGGCGAAGTATTTGGAAAAGGATCTTG
*
1568 TGCCTTTGGTTAGTTCATTGAAACCTGCAGCTCAAGAGGATCCTCTTAGTGGTTGTGACCATGAT
196 CGCCTTTGGTTAGTTCATTGAAACCTGCAGCTCAAGAGGATCCTCTTAGTGGTTGTGACCATGAT
1633 G
261 G
1634 AGAA
1 AGAA
1638 AATTGTTTGG
Statistics
Matches: 238, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
258 177 0.74
259 1 0.00
261 6 0.03
262 1 0.00
264 53 0.22
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (261 bp):
AGAATGGGAAGCACATTGTCAAAGCTTCAGATGAAACTTATACGTGCCCCTATTGTCCTAGAAGA
AAAACAAATTACCGATACATAGACCTTGTCCAGCATGCTTCTGCTGTGGCAAATAGTAGTTCTGC
AAGAAGAACACCAATAATGAAAGCCAATCACCTGGCTCTGGCGAAGTATTTGGAAAAGGATCTTG
CGCCTTTGGTTAGTTCATTGAAACCTGCAGCTCAAGAGGATCCTCTTAGTGGTTGTGACCATGAT
G
Done.