Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015054.1 Corchorus capsularis cultivar CVL-1 contig15075, 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: 23686
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31


Found at i:8823 original size:21 final size:21

Alignment explanation


    Indices: 8797--8837  Score: 55
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       8787 TTGAAACCCT

                          *      
       8797 ATTGGAGACAAGTGTTACTAA
          1 ATTGGAGACAAGTGGTACTAA

                  **            
       8818 ATTGGATTCAAGTGGTACTA
          1 ATTGGAGACAAGTGGTACTA

       8838 GGGTTTTCTA


Statistics
Matches: 17,  Mismatches: 3, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  21   17  1.00

ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32


Consensus pattern (21 bp):   
ATTGGAGACAAGTGGTACTAA

Found at i:17224 original size:30 final size:31

Alignment explanation


    Indices: 17185--17250  Score: 89
    Period size: 31  Copynumber: 2.2  Consensus size: 31

      17175 TATGTGATTT

                *                          
      17185 ATTTATCCCAAAA-AAAAAGTTAAGGGGCCA
          1 ATTTGTCCCAAAATAAAAAGTTAAGGGGCCA

                           * *           * 
      17215 ATTTGTCCCAAAATAGATAGTTAAGGGGCTA
          1 ATTTGTCCCAAAATAAAAAGTTAAGGGGCCA

                 
      17246 ATTTG
          1 ATTTG

      17251 GATATTAAGC


Statistics
Matches: 31,  Mismatches: 4, Indels: 1
        0.86            0.11        0.03

Matches are distributed among these distances:
  30   12  0.39
  31   19  0.61

ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27


Consensus pattern (31 bp):   
ATTTGTCCCAAAATAAAAAGTTAAGGGGCCA

Found at i:22557 original size:28 final size:28

Alignment explanation


    Indices: 22516--22581  Score: 123
    Period size: 28  Copynumber: 2.4  Consensus size: 28

      22506 GCTCCATTTG

                     *                  
      22516 ACCGGTGCATCGGCCCAACGACTGGTGA
          1 ACCGGTGCACCGGCCCAACGACTGGTGA

                                        
      22544 ACCGGTGCACCGGCCCAACGACTGGTGA
          1 ACCGGTGCACCGGCCCAACGACTGGTGA

                      
      22572 ACCGGTGCAC
          1 ACCGGTGCAC

      22582 TAAACATGGC


Statistics
Matches: 37,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  28   37  1.00

ACGTcount: A:0.21, C:0.35, G:0.32, T:0.12


Consensus pattern (28 bp):   
ACCGGTGCACCGGCCCAACGACTGGTGA
Done.