Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003639.1 Corchorus capsularis cultivar CVL-1 contig03647, 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, 608

Length: 1014
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33


Found at i:168 original size:23 final size:23

Alignment explanation


    Indices: 120--168  Score: 64
    Period size: 23  Copynumber: 2.1  Consensus size: 23

        110 TAAAAAAAAA

                             **    
        120 TTTTGCGTCGAAAAAAATTTTGT
          1 TTTTGCGTCGAAAAAAAAGTTGT

                                    
        143 TTTTGCGTCGAAAAAAAAAGTT-T
          1 TTTTGCGTCG-AAAAAAAAGTTGT

               
        166 TTT
          1 TTT

        169 CCGTTTTTCC


Statistics
Matches: 23,  Mismatches: 2, Indels: 2
        0.85            0.07        0.07

Matches are distributed among these distances:
  23   14  0.61
  24    9  0.39

ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43


Consensus pattern (23 bp):   
TTTTGCGTCGAAAAAAAAGTTGT

Found at i:285 original size:36 final size:37

Alignment explanation


    Indices: 236--311  Score: 93
    Period size: 37  Copynumber: 2.1  Consensus size: 37

        226 GATTTTTGAA

                                        *        
        236 AAAAAATTAATTTTTCT-TTTTCCGTTTTTCCTTTTT
          1 AAAAAATTAATTTTTCTATTTTCCGTTTCTCCTTTTT

                            *       *      *      
        272 AAAAAA-TATATTTTTTTATTTTCTGTTTCTGCTTTTT
          1 AAAAAATTA-ATTTTTCTATTTTCCGTTTCTCCTTTTT

               
        309 AAA
          1 AAA

        312 TTTTATTTAA


Statistics
Matches: 34,  Mismatches: 4, Indels: 3
        0.83            0.10        0.07

Matches are distributed among these distances:
  35    2  0.06
  36   13  0.38
  37   19  0.56

ACGTcount: A:0.26, C:0.11, G:0.04, T:0.59


Consensus pattern (37 bp):   
AAAAAATTAATTTTTCTATTTTCCGTTTCTCCTTTTT

Done.