Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006901.1 Corchorus capsularis cultivar CVL-1 contig06922, 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: 16563
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27

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


Found at i:8426 original size:37 final size:37

Alignment explanation


    Indices: 8375--8450  Score: 116
    Period size: 37  Copynumber: 2.1  Consensus size: 37

       8365 ACATGAAGAA

                                     *       *   
       8375 GTTTTCTAAAAAGGGGAATCCCCCCGACACTTTGCAT
          1 GTTTTCTAAAAAGGGGAATCCCCCCAACACTTTACAT

                 *   *                           
       8412 GTTTTGTAAGAAGGGGAATCCCCCCAACACTTTACAT
          1 GTTTTCTAAAAAGGGGAATCCCCCCAACACTTTACAT

              
       8449 GT
          1 GT

       8451 ATACAAAACA


Statistics
Matches: 35,  Mismatches: 4, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  37   35  1.00

ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28


Consensus pattern (37 bp):   
GTTTTCTAAAAAGGGGAATCCCCCCAACACTTTACAT

Found at i:9660 original size:10 final size:10

Alignment explanation


    Indices: 9645--9670  Score: 52
    Period size: 10  Copynumber: 2.6  Consensus size: 10

       9635 AGTTGCTGCC

                      
       9645 AAATTCCAGA
          1 AAATTCCAGA

                      
       9655 AAATTCCAGA
          1 AAATTCCAGA

                  
       9665 AAATTC
          1 AAATTC

       9671 TAGAGTCCTC


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   16  1.00

ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23


Consensus pattern (10 bp):   
AAATTCCAGA

Found at i:10620 original size:23 final size:24

Alignment explanation


    Indices: 10594--10649  Score: 71
    Period size: 23  Copynumber: 2.4  Consensus size: 24

      10584 GTTTTTTTTC

                                    
      10594 TAAAAAAAAAAAG-TTTGCGTCGA
          1 TAAAAAAAAAAAGTTTTGCGTCGA

                      **             
      10617 TAAAAAAAAATTGTTTTTGCGTCGA
          1 TAAAAAAAAAAAG-TTTTGCGTCGA

                     
      10642 -AAAAAAAA
          1 TAAAAAAAA

      10650 GTTTTTTCCG


Statistics
Matches: 29,  Mismatches: 2, Indels: 3
        0.85            0.06        0.09

Matches are distributed among these distances:
  23   11  0.38
  24    8  0.28
  25   10  0.34

ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25


Consensus pattern (24 bp):   
TAAAAAAAAAAAGTTTTGCGTCGA
Done.