Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga06g01995.C2
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: 4940
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Found at i:2722 original size:275 final size:276
Alignment explanation
Indices: 2212--2722 Score: 895
Period size: 275 Copynumber: 1.9 Consensus size: 276
2202 AACTTTTCGA
* *
2212 AAATATATCTGTCCTTAAGAACCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAACCTAACATTGCTTGAATATTTGGACCTCTCTTCCAATCAGTTCT
*
2277 CTGGAAATATATTTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAG
66 CTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAG
2342 TTCTCTGAAAGTATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAA
131 TTCTCTGAAAGTATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAA
2407 TCAGTTCTCTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTT
196 TCAGTTCTCTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTT
2472 CCAATCAGTTCTCTGG
261 CCAATCAGTTCTCTGG
*
2488 AAATATATCT-CCCTTAAGAGCCTAACATTGCTTGAATATTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAACCTAACATTGCTTGAATATTTGGACCTCTCTTCCAATCAGTTCT
2552 CTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAG
66 CTGGAAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAG
* *
2617 TTCTTTGGAAA-TATATCTGCCCTTCAA-AGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCT
131 TTCTCT-GAAAGTATATCTGCCCTT-AAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCC
* *
2680 GATCAGTTCTCTGGAAATATATCTGCCCTTGAA-AGTCTAACAT
194 AATCAGTTCTCTGGAAATATATCTGCCCTT-AAGAGCCTAACAT
2723 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:2738 original size:69 final size:69
Alignment explanation
Indices: 2212--2722 Score: 895
Period size: 69 Copynumber: 7.4 Consensus size: 69
2202 AACTTTTCGA
* *
2212 AAATATATCTGTCCTTAAGAACCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
2277 CTGG
66 CTGG
*
2281 AAATATATTTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
2346 CT-G
66 CTGG
2349 AAAGTATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTC
1 AAA-TATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTC
2414 TCTGG
65 TCTGG
2419 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
2484 CTGG
66 CTGG
*
2488 AAATATATCT-CCCTTAAGAGCCTAACATTGCTTGAATATTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
2552 CTGG
66 CTGG
2556 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
1 AAATATATCTGCCCTTAAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTCT
*
2621 TTGG
66 CTGG
**
2625 AAATATATCTGCCCTTCAA-AGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCTGATCAGTTC
1 AAATATATCTGCCCTT-AAGAGCCTAACATTGCTTGAATCTTTGGACCTCTCTTCCAATCAGTTC
2689 TCTGG
65 TCTGG
*
2694 AAATATATCTGCCCTTGAA-AGTCTAACAT
1 AAATATATCTGCCCTT-AAGAGCCTAACAT
2723 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.