Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006985.1 Corchorus olitorius cultivar O-4 contig07010, 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, 888

Length: 1480
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34


Found at i:78 original size:19 final size:18

Alignment explanation


    Indices: 53--189  Score: 77
    Period size: 19  Copynumber: 7.4  Consensus size: 18

         43 CCGCGCACCA

                              
         53 GGCCTGGGCGCTTGGGCC
          1 GGCCTGGGCGCTTGGGCC

                      * *  *   
         71 GTGCCT-GGCCCGTGCGCC
          1 G-GCCTGGGCGCTTGGGCC

                               
         89 AGGCCTGGGCGCTTGGGCC
          1 -GGCCTGGGCGCTTGGGCC

                     *      *   
        108 GCGCCTGGCCCGC--GCGCC
          1 G-GCCTGG-GCGCTTGGGCC

                       *       
        126 AGGCCTGGGCGTTTGGGCC
          1 -GGCCTGGGCGCTTGGGCC

                     *      *   
        145 GCGCCTGGCCCGC--GCGCC
          1 G-GCCTGG-GCGCTTGGGCC

                     *         
        163 AGGCCTGGGTGCTTGGGCC
          1 -GGCCTGGGCGCTTGGGCC

                    
        182 GCGCCTGG
          1 G-GCCTGG

        190 CTGGCCCAAG


Statistics
Matches: 88,  Mismatches: 17, Indels: 27
        0.67            0.13        0.20

Matches are distributed among these distances:
  17    4  0.05
  18   37  0.42
  19   42  0.48
  20    5  0.06

ACGTcount: A:0.02, C:0.39, G:0.45, T:0.15


Consensus pattern (18 bp):   
GGCCTGGGCGCTTGGGCC

Found at i:80 original size:37 final size:37

Alignment explanation


    Indices: 38--190  Score: 261
    Period size: 37  Copynumber: 4.1  Consensus size: 37

         28 GGGCCATACG

                       *                      *  
         38 CTGGCCCGCGCACCAGGCCTGGGCGCTTGGGCCGTGC
          1 CTGGCCCGCGCGCCAGGCCTGGGCGCTTGGGCCGCGC

                    *                            
         75 CTGGCCCGTGCGCCAGGCCTGGGCGCTTGGGCCGCGC
          1 CTGGCCCGCGCGCCAGGCCTGGGCGCTTGGGCCGCGC

                                     *           
        112 CTGGCCCGCGCGCCAGGCCTGGGCGTTTGGGCCGCGC
          1 CTGGCCCGCGCGCCAGGCCTGGGCGCTTGGGCCGCGC

                                   *             
        149 CTGGCCCGCGCGCCAGGCCTGGGTGCTTGGGCCGCGC
          1 CTGGCCCGCGCGCCAGGCCTGGGCGCTTGGGCCGCGC

                 
        186 CTGGC
          1 CTGGC

        191 TGGCCCAAGT


Statistics
Matches: 109,  Mismatches: 7, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  37  109  1.00

ACGTcount: A:0.03, C:0.41, G:0.42, T:0.14


Consensus pattern (37 bp):   
CTGGCCCGCGCGCCAGGCCTGGGCGCTTGGGCCGCGC

Done.