Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga06g01994.F2
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: 4401
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Found at i:2183 original size:275 final size:276
Alignment explanation
Indices: 1673--2183 Score: 895
Period size: 275 Copynumber: 1.9 Consensus size: 276
1663 AACTTTTCGA
* *
1673 AAATATATCTGTCCTTAAGAACCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAACCTAACATTGCTTGAATATTTGGACCTCTCTTCCAATCAGTTCT
*
1738 CTGGAAATATATTTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAG
66 CTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAG
1803 TTCTCTGAAAGTATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAA
131 TTCTCTGAAAGTATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAA
1868 TCAGTTCTCTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTT
196 TCAGTTCTCTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTT
1933 CCAATCAGTTCTCTGG
261 CCAATCAGTTCTCTGG
*
1949 AAATATATCT-CCCTTAAGAGCCTAACATTGCTTGAATATTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAACCTAACATTGCTTGAATATTTGGACCTCTCTTCCAATCAGTTCT
2013 CTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAG
66 CTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAG
* *
2078 TTCTTTGGAAA-TATATCTGCCCTTCAA-AGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCT
131 TTCTCT-GAAAGTATATCTGCCCTT-AAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCC
* *
2141 GATCAGTTCTCTGGAAATATATCTGCCCTTGAA-AGTCTAACAT
194 AATCAGTTCTCTGGAAATATATCTGCCCTT-AAGAGCCTAACAT
2184 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:2199 original size:69 final size:69
Alignment explanation
Indices: 1673--2183 Score: 895
Period size: 69 Copynumber: 7.4 Consensus size: 69
1663 AACTTTTCGA
* *
1673 AAATATATCTGTCCTTAAGAACCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1738 CTGG
66 CTGG
*
1742 AAATATATTTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1807 CT-G
66 CTGG
1810 AAAGTATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTC
1 AAA-TATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTC
1875 TCTGG
65 TCTGG
1880 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1945 CTGG
66 CTGG
*
1949 AAATATATCT-CCCTTAAGAGCCTAACATTGCTTGAATATTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
2013 CTGG
66 CTGG
2017 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
*
2082 TTGG
66 CTGG
**
2086 AAATATATCTGCCCTTCAA-AGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCTGATCAGTTC
1 AAATATATCTGCCCTT-AAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTC
2150 TCTGG
65 TCTGG
*
2155 AAATATATCTGCCCTTGAA-AGTCTAACAT
1 AAATATATCTGCCCTT-AAGAGCCTAACAT
2184 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.