Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010000.1 Corchorus olitorius cultivar O-4 contig10032, 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: 2825
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:84 original size:33 final size:33

Alignment explanation


    Indices: 43--118  Score: 118
    Period size: 33  Copynumber: 2.3  Consensus size: 33

         33 GACCCGAGTA

                                *             
         43 GCGCGCGACAC-AGACCACGGCGGGTCGCGATCC
          1 GCGCGCGAC-CTAGACCACGACGGGTCGCGATCC

                                             
         76 GCGCGCGACCTAGACCACGACGGGTCGCGATCC
          1 GCGCGCGACCTAGACCACGACGGGTCGCGATCC

                 *    
        109 GCGCGTGACC
          1 GCGCGCGACC

        119 CGCTATTTCT


Statistics
Matches: 40,  Mismatches: 2, Indels: 2
        0.91            0.05        0.05

Matches are distributed among these distances:
  32    1  0.03
  33   39  0.98

ACGTcount: A:0.17, C:0.39, G:0.36, T:0.08


Consensus pattern (33 bp):   
GCGCGCGACCTAGACCACGACGGGTCGCGATCC

Found at i:143 original size:14 final size:14

Alignment explanation


    Indices: 124--154  Score: 53
    Period size: 14  Copynumber: 2.2  Consensus size: 14

        114 TGACCCGCTA

                  *       
        124 TTTCTGGGTTTTTT
          1 TTTCTGCGTTTTTT

                          
        138 TTTCTGCGTTTTTT
          1 TTTCTGCGTTTTTT

               
        152 TTT
          1 TTT

        155 AATCTTTTTA


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  14   16  1.00

ACGTcount: A:0.00, C:0.10, G:0.16, T:0.74


Consensus pattern (14 bp):   
TTTCTGCGTTTTTT

Found at i:191 original size:21 final size:21

Alignment explanation


    Indices: 146--185  Score: 62
    Period size: 21  Copynumber: 1.9  Consensus size: 21

        136 TTTTTCTGCG

                *                
        146 TTTTTTTTTAATCTTTTTAGA
          1 TTTTCTTTTAATCTTTTTAGA

                        *      
        167 TTTTCTTTTAATTTTTTTA
          1 TTTTCTTTTAATCTTTTTA

        186 TCTTTTAATA


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  21   17  1.00

ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75


Consensus pattern (21 bp):   
TTTTCTTTTAATCTTTTTAGA
Done.