Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000855.1 Corchorus olitorius cultivar O-4 contig00855, 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, 625

Length: 1042
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39


Found at i:869 original size:127 final size:124

Alignment explanation


    Indices: 680--997  Score: 444
    Period size: 127  Copynumber: 2.5  Consensus size: 124

        670 CCCCATGCAA

                  *     *                                        **   *      
        680 ATGGAATTAGTGGTTGTCGAAA-TTTTTCCTAACATATGTCGTTATAAACGACGCACTACATATT
          1 ATGGAACTAGTGTTTGTCGAAACTTTTTCCTAACATATGTCGTTATAAACGACATACTGCATATT

                                          *                                
        744 TATCTCACATTCTCTTAAATATATGAAACATGTGTTGTCATACATAGCATCTCACTC-TATAT
         66 TATCTCACATTCTCTTAAATATATGAAACACGTGTTGTCA-A-A-A-CATCTCACTCGTATAT

                 *                                         *                 
        806 ATGGAGCTAGTGTTTGTCGAAACTTTTTCCTAACATATGTCGTTATAGACGACATACTGCATATT
          1 ATGGAACTAGTGTTTGTCGAAACTTTTTCCTAACATATGTCGTTATAAACGACATACTGCATATT

                             *                                          
        871 TATCTCACATTCTCTTATATATATGAAACACGTGTTGTCAAAACATCTCACTCTGTATAT
         66 TATCTCACATTCTCTTAAATATATGAAACACGTGTTGTCAAAACATCTCACTC-GTATAT

                    *        *                 *              *     *        
        931 ATGGAACTCGTGTTTGTTGAAAC-TTTTCCTAACACATGTCGTTATAAACAACATATTGCATATT
          1 ATGGAACTAGTGTTTGTCGAAACTTTTTCCTAACATATGTCGTTATAAACGACATACTGCATATT

               
        995 TAT
         66 TAT

        998 GTTACACCTA


Statistics
Matches: 173,  Mismatches: 16, Indels: 8
        0.88            0.08        0.04

Matches are distributed among these distances:
 123   10  0.06
 124   41  0.24
 125   26  0.15
 126   20  0.12
 127   76  0.44

ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38


Consensus pattern (124 bp):   
ATGGAACTAGTGTTTGTCGAAACTTTTTCCTAACATATGTCGTTATAAACGACATACTGCATATT
TATCTCACATTCTCTTAAATATATGAAACACGTGTTGTCAAAACATCTCACTCGTATAT
Done.