Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga06g01994.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: 4389
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Found at i:2171 original size:275 final size:276
Alignment explanation
Indices: 1661--2171 Score: 895
Period size: 275 Copynumber: 1.9 Consensus size: 276
1651 AACTTTTCGA
* *
1661 AAATATATCTGTCCTTAAGAACCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAACCTAACATTGCTTGAATATTTGGACCTCTCTTCCAATCAGTTCT
*
1726 CTGGAAATATATTTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAG
66 CTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAG
1791 TTCTCTGAAAGTATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAA
131 TTCTCTGAAAGTATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAA
1856 TCAGTTCTCTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTT
196 TCAGTTCTCTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTT
1921 CCAATCAGTTCTCTGG
261 CCAATCAGTTCTCTGG
*
1937 AAATATATCT-CCCTTAAGAGCCTAACATTGCTTGAATATTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAACCTAACATTGCTTGAATATTTGGACCTCTCTTCCAATCAGTTCT
2001 CTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAG
66 CTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAG
* *
2066 TTCTTTGGAAA-TATATCTGCCCTTCAA-AGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCT
131 TTCTCT-GAAAGTATATCTGCCCTT-AAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCC
* *
2129 GATCAGTTCTCTGGAAATATATCTGCCCTTGAA-AGTCTAACAT
194 AATCAGTTCTCTGGAAATATATCTGCCCTT-AAGAGCCTAACAT
2172 CCCTCCAATT
Statistics
Matches: 224, Mismatches: 8, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
275 206 0.92
276 18 0.08
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (276 bp):
AAATATATCTGCCCTTAAGAACCTAACATTGCTTGAATATTTGGACCTCTCTTCCAATCAGTTCT
CTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAG
TTCTCTGAAAGTATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAA
TCAGTTCTCTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTT
CCAATCAGTTCTCTGG
Found at i:2187 original size:69 final size:69
Alignment explanation
Indices: 1661--2171 Score: 895
Period size: 69 Copynumber: 7.4 Consensus size: 69
1651 AACTTTTCGA
* *
1661 AAATATATCTGTCCTTAAGAACCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1726 CTGG
66 CTGG
*
1730 AAATATATTTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1795 CT-G
66 CTGG
1798 AAAGTATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTC
1 AAA-TATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTC
1863 TCTGG
65 TCTGG
1868 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1933 CTGG
66 CTGG
*
1937 AAATATATCT-CCCTTAAGAGCCTAACATTGCTTGAATATTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
2001 CTGG
66 CTGG
2005 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
*
2070 TTGG
66 CTGG
**
2074 AAATATATCTGCCCTTCAA-AGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCTGATCAGTTC
1 AAATATATCTGCCCTT-AAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTC
2138 TCTGG
65 TCTGG
*
2143 AAATATATCTGCCCTTGAA-AGTCTAACAT
1 AAATATATCTGCCCTT-AAGAGCCTAACAT
2172 CCCTCCAATT
Statistics
Matches: 426, Mismatches: 12, Indels: 8
0.96 0.03 0.02
Matches are distributed among these distances:
68 71 0.17
69 349 0.82
70 6 0.01
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (69 bp):
AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
CTGG
Done.