Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001728.1 Corchorus olitorius cultivar O-4 contig01728, whole genome shotgun sequence

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, 692

Length: 1154
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44


Found at i:816 original size:131 final size:123

Alignment explanation


    Indices: 572--823  Score: 387
    Period size: 131  Copynumber: 2.0  Consensus size: 123

        562 CATTGTTTAA

                   *                                               *         
        572 ACTTTTATAGTTTCACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCTTTATAAT
          1 ACTTTTACAGTTTCACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATACCTTTATAAT

                         *                                            
        637 TTTTACCATTTTACTATTTTAATCAAAAAACTTATATATATTAGAATTTTTTAAATAT
         66 TTTTACCATTTTAATATTTTAATCAAAAAACTTATATATATTAGAATTTTTTAAATAT

                         *                                                   
        695 ACTTTTACAGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATACCCTTATACC
          1 ACTTTTACAGTTTCACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATA-CCTT-TA--

                                           *                                
        760 TATTTTATTTTTACCATTTTAATATTTTAATTAAAAAACTTATATATATTAGAATTTTTTAAAT
         62 TA----ATTTTTACCATTTTAATATTTTAATCAAAAAACTTATATATATTAGAATTTTTTAAAT

        824 TTATTTCTTA


Statistics
Matches: 116,  Mismatches: 5, Indels: 8
        0.90            0.04        0.06

Matches are distributed among these distances:
 123   53  0.46
 124    3  0.03
 125    2  0.02
 127    2  0.02
 131   56  0.48

ACGTcount: A:0.38, C:0.12, G:0.02, T:0.49


Consensus pattern (123 bp):   
ACTTTTACAGTTTCACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATACCTTTATAAT
TTTTACCATTTTAATATTTTAATCAAAAAACTTATATATATTAGAATTTTTTAAATAT
Done.