Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_511 ID=scaffold_511-JGI_221_v2.0
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: 6527
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.31
Warning! 260 characters in sequence are not A, C, G, or T
Found at i:849 original size:321 final size:322
Alignment explanation
Indices: 267--885 Score: 1060
Period size: 321 Copynumber: 1.9 Consensus size: 322
257 CATATTTAGC
* * *
267 TCCCTGCGACTTTTGTCTGTTTCCTTAGCTTACGTTTCAACTCGATAGAGGAGATCAAAGTAAAC
1 TCCCTGCGACTTTTGTCTGTTTCCTTAGCTTACATTTCAACTCGATAGAGGAGAGCAAAGAAAAC
*
332 ACTTAGAGAGCGCTGAAGGATATATTCAAAGGAGAGTTATTTTGACGAGTCCACTTGAATTTTGA
66 ACTTAGAGAGCGCTGAAGGATATATTCAAAGGAGACTTATTTTGACGAGTCCACTTGAATTTTGA
* *
397 CTTGCTAATTTCTAATTTTACTAATTTTGAAGACCCAGCTCTGGTCTTAATTTCTTGAATTTTAT
131 CTTGCTAATTTCTAATTTTACTAATTTTGAAGACCCAGCCCTGGTCTTAATTTCTTGAATTTTAC
* *
462 GGTGGATAACGGTTTGGTCAGTAAATCGGCTAGCTGATCACCTGTTGGAACATATTTCACATTTA
196 GGTGGATAACGGTTTGGTCACTAAATCGGCTAGCTGATCACCGGTTGGAACATATTTCACATTTA
**
527 TTAGCAGTTTTTCTACCTGTTCTCTAG-AAAATGATACATCTATGTGTATCTGTTTTGATCT
261 TTAGCACATTTTCTACCTGTTCTCTAGAAAAATGATACATCTATGTGTATCTGTTTTGATCT
588 TCCCTGCGACTTTTGTCTGTTTCCTTAGCTTACATTTCAACTCGATAGAGGAGAGCAAAGAAAAC
1 TCCCTGCGACTTTTGTCTGTTTCCTTAGCTTACATTTCAACTCGATAGAGGAGAGCAAAGAAAAC
*
653 ACTTAGAGAGCGCTGAAGGATATATTCAAAGGAGACTTATTTTGACGAGTCCACTTGGATTTTGA
66 ACTTAGAGAGCGCTGAAGGATATATTCAAAGGAGACTTATTTTGACGAGTCCACTTGAATTTTGA
* * *
718 CTTGCTAATTTCTAATTTTGCTAATTTTGAAGATCCAGCCCTGGTCTTAATTTCTTGAATTTTGC
131 CTTGCTAATTTCTAATTTTACTAATTTTGAAGACCCAGCCCTGGTCTTAATTTCTTGAATTTTAC
* * * *
783 GGTGGCTAACGGTTTGGTTACTTACTCGGCTAGCTGATCACCGGTTGGAACATATTTCACATTTA
196 GGTGGATAACGGTTTGGTCACTAAATCGGCTAGCTGATCACCGGTTGGAACATATTTCACATTTA
*
848 TTAGCCCATTTTCTACCTGTTCTCTAGAAAAATGATAC
261 TTAGCACATTTTCTACCTGTTCTCTAGAAAAATGATAC
886 TTTACATCTA
Statistics
Matches: 278, Mismatches: 19, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
321 268 0.96
322 10 0.04
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (322 bp):
TCCCTGCGACTTTTGTCTGTTTCCTTAGCTTACATTTCAACTCGATAGAGGAGAGCAAAGAAAAC
ACTTAGAGAGCGCTGAAGGATATATTCAAAGGAGACTTATTTTGACGAGTCCACTTGAATTTTGA
CTTGCTAATTTCTAATTTTACTAATTTTGAAGACCCAGCCCTGGTCTTAATTTCTTGAATTTTAC
GGTGGATAACGGTTTGGTCACTAAATCGGCTAGCTGATCACCGGTTGGAACATATTTCACATTTA
TTAGCACATTTTCTACCTGTTCTCTAGAAAAATGATACATCTATGTGTATCTGTTTTGATCT
Done.