Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01002827.1 Corchorus capsularis cultivar CVL-1 contig02835, 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, 806

Length: 1344
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30


Found at i:333 original size:14 final size:14

Alignment explanation


    Indices: 316--343  Score: 56
    Period size: 14  Copynumber: 2.0  Consensus size: 14

        306 GCATATTAAC

                          
        316 TTTAGTCCATTTAG
          1 TTTAGTCCATTTAG

                          
        330 TTTAGTCCATTTAG
          1 TTTAGTCCATTTAG

        344 ATTACTATCA


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   14  1.00

ACGTcount: A:0.21, C:0.14, G:0.14, T:0.50


Consensus pattern (14 bp):   
TTTAGTCCATTTAG

Found at i:558 original size:20 final size:20

Alignment explanation


    Indices: 533--571  Score: 69
    Period size: 20  Copynumber: 1.9  Consensus size: 20

        523 AAATACAAGG

                                
        533 CATTTGATTTACAAATTGGA
          1 CATTTGATTTACAAATTGGA

                      *        
        553 CATTTGATTTGCAAATTGG
          1 CATTTGATTTACAAATTGG

        572 TGCTCTTTTT


Statistics
Matches: 18,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  20   18  1.00

ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41


Consensus pattern (20 bp):   
CATTTGATTTACAAATTGGA

Found at i:1142 original size:19 final size:19

Alignment explanation


    Indices: 1118--1154  Score: 74
    Period size: 19  Copynumber: 1.9  Consensus size: 19

       1108 TTTGCAGCAC

                               
       1118 GGATTTTACAATAGGAGAT
          1 GGATTTTACAATAGGAGAT

                              
       1137 GGATTTTACAATAGGAGA
          1 GGATTTTACAATAGGAGA

       1155 AAAGGGGTTC


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  19   18  1.00

ACGTcount: A:0.38, C:0.05, G:0.27, T:0.30


Consensus pattern (19 bp):   
GGATTTTACAATAGGAGAT
Done.