Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021346.1 Corchorus olitorius cultivar O-4 contig21379, 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, 1000

Length: 18436
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29


Found at i:6400 original size:27 final size:27

Alignment explanation


    Indices: 6362--6448  Score: 156
    Period size: 27  Copynumber: 3.2  Consensus size: 27

       6352 CTTCTTATTC

                              *        
       6362 TGGTCATTTGCATGTCCAAGGGCATTT
          1 TGGTCATTTGCATGTCCAGGGGCATTT

                                       
       6389 TGGTCATTTGCATGTCCAGGGGCATTT
          1 TGGTCATTTGCATGTCCAGGGGCATTT

                        *              
       6416 TGGTCATTTGCACGTCCAGGGGCATTT
          1 TGGTCATTTGCATGTCCAGGGGCATTT

                  
       6443 TGGTCA
          1 TGGTCA

       6449 CTTCAAGTAC


Statistics
Matches: 58,  Mismatches: 2, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  27   58  1.00

ACGTcount: A:0.16, C:0.20, G:0.29, T:0.36


Consensus pattern (27 bp):   
TGGTCATTTGCATGTCCAGGGGCATTT

Found at i:13804 original size:32 final size:32

Alignment explanation


    Indices: 13757--13902  Score: 213
    Period size: 32  Copynumber: 4.5  Consensus size: 32

      13747 TTAAAGCAGT

                                 *            
      13757 TAAATATAGCGGCGTTTTGTTGTGAAGACGCCGC
          1 TAAATA-AG-GGCGTTTTGTTCTGAAGACGCCGC

                                  *  *      
      13791 TAAATAAGGGCGTTTTGTTCTGTAGGCGCCGC
          1 TAAATAAGGGCGTTTTGTTCTGAAGACGCCGC

                                             
      13823 TAAATAAGGGCGTTTTGTTCT-ATAGACGCCGC
          1 TAAATAAGGGCGTTTTGTTCTGA-AGACGCCGC

                                 **         
      13855 TAAATAAGGGCGTTTTGTTCTTTAGACGCCGC
          1 TAAATAAGGGCGTTTTGTTCTGAAGACGCCGC

                            
      13887 TAAATAAGGGCGTTTT
          1 TAAATAAGGGCGTTTT

      13903 CTTTTCACAC


Statistics
Matches: 104,  Mismatches: 6, Indels: 6
        0.90            0.05        0.05

Matches are distributed among these distances:
  32   96  0.92
  33    2  0.02
  34    6  0.06

ACGTcount: A:0.23, C:0.17, G:0.27, T:0.32


Consensus pattern (32 bp):   
TAAATAAGGGCGTTTTGTTCTGAAGACGCCGC

Done.