Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022385.1 Corchorus olitorius cultivar O-4 contig22418, 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: 32802
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31


Found at i:3835 original size:12 final size:12

Alignment explanation


    Indices: 3818--3842  Score: 50
    Period size: 12  Copynumber: 2.1  Consensus size: 12

       3808 TACATGCTAC

                        
       3818 TTTTCTTATTAA
          1 TTTTCTTATTAA

                        
       3830 TTTTCTTATTAA
          1 TTTTCTTATTAA

             
       3842 T
          1 T

       3843 AGAATACCAA


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   13  1.00

ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68


Consensus pattern (12 bp):   
TTTTCTTATTAA

Found at i:11531 original size:25 final size:25

Alignment explanation


    Indices: 11484--11531  Score: 60
    Period size: 25  Copynumber: 1.9  Consensus size: 25

      11474 TTTTACTTGA

                       *     *       
      11484 TTTATTATTTTTTTCTCTATTTTTT
          1 TTTATTATTTTCTTCTCCATTTTTT

                  *           *    
      11509 TTTATTCTTTTCTTCTCCGTTTT
          1 TTTATTATTTTCTTCTCCATTTT

      11532 CTGGCTTTCT


Statistics
Matches: 19,  Mismatches: 4, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  25   19  1.00

ACGTcount: A:0.08, C:0.15, G:0.02, T:0.75


Consensus pattern (25 bp):   
TTTATTATTTTCTTCTCCATTTTTT

Found at i:13898 original size:22 final size:24

Alignment explanation


    Indices: 13856--13899  Score: 74
    Period size: 22  Copynumber: 1.9  Consensus size: 24

      13846 CGCTTTGCTC

                                    
      13856 CTTGCCCATGGATGGAACTTGAGG
          1 CTTGCCCATGGATGGAACTTGAGG

                                  
      13880 CTTG-CCATGGAT-GAACTTGA
          1 CTTGCCCATGGATGGAACTTGA

      13900 AGAACCAGAT


Statistics
Matches: 20,  Mismatches: 0, Indels: 2
        0.91            0.00        0.09

Matches are distributed among these distances:
  22    8  0.40
  23    8  0.40
  24    4  0.20

ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27


Consensus pattern (24 bp):   
CTTGCCCATGGATGGAACTTGAGG

Found at i:32568 original size:12 final size:12

Alignment explanation


    Indices: 32551--32576  Score: 52
    Period size: 12  Copynumber: 2.2  Consensus size: 12

      32541 GATTGATATT

                        
      32551 ATGTTAAATTAA
          1 ATGTTAAATTAA

                        
      32563 ATGTTAAATTAA
          1 ATGTTAAATTAA

              
      32575 AT
          1 AT

      32577 TTAGCAAGAA


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

Matches are distributed among these distances:
  12   14  1.00

ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42


Consensus pattern (12 bp):   
ATGTTAAATTAA
Done.