Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023654.1 Corchorus olitorius cultivar O-4 contig23687, 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: 31750
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32


Found at i:13547 original size:21 final size:22

Alignment explanation


    Indices: 13517--13557  Score: 57
    Period size: 21  Copynumber: 1.9  Consensus size: 22

      13507 CCGGGCCATG

                                  
      13517 GTCTCAGCATGACT-GGTGCCT
          1 GTCTCAGCATGACTCGGTGCCT

                 *     *        
      13538 GTCTCGGCATGGCTCGGTGC
          1 GTCTCAGCATGACTCGGTGC

      13558 TTGCCGAGCT


Statistics
Matches: 17,  Mismatches: 2, Indels: 1
        0.85            0.10        0.05

Matches are distributed among these distances:
  21   12  0.71
  22    5  0.29

ACGTcount: A:0.10, C:0.29, G:0.34, T:0.27


Consensus pattern (22 bp):   
GTCTCAGCATGACTCGGTGCCT

Found at i:13658 original size:11 final size:11

Alignment explanation


    Indices: 13624--13668  Score: 54
    Period size: 11  Copynumber: 4.1  Consensus size: 11

      13614 CATGGTATGA

                      *
      13624 CCGGGCCATGG
          1 CCGGGCCATGT

               *  *    
      13635 CCGAGCTATGT
          1 CCGGGCCATGT

              *        
      13646 CCTGGCCATGT
          1 CCGGGCCATGT

                       
      13657 CCGGGCCATGT
          1 CCGGGCCATGT

             
      13668 C
          1 C

      13669 TTTGCGCCAC


Statistics
Matches: 27,  Mismatches: 7, Indels: 0
        0.79            0.21        0.00

Matches are distributed among these distances:
  11   27  1.00

ACGTcount: A:0.11, C:0.36, G:0.33, T:0.20


Consensus pattern (11 bp):   
CCGGGCCATGT

Found at i:29368 original size:19 final size:18

Alignment explanation


    Indices: 29344--29379  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

      29334 TGAAGACTTA

                               
      29344 TTGAAGACAATTTGAAGAT
          1 TTGAAGACAA-TTGAAGAT

                    *        
      29363 TTGAAGACCATTGAAGA
          1 TTGAAGACAATTGAAGA

      29380 ATTATTTCCA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    7  0.44
  19    9  0.56

ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28


Consensus pattern (18 bp):   
TTGAAGACAATTGAAGAT
Done.