Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008473.1 Corchorus olitorius cultivar O-4 contig08500, 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, 965

Length: 1609
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.36


Found at i:581 original size:16 final size:16

Alignment explanation


    Indices: 556--630  Score: 80
    Period size: 16  Copynumber: 4.8  Consensus size: 16

        546 CCAACCCGAG

                            
        556 ACCCGAATGACCTGAA
          1 ACCCGAATGACCTGAA

                 *      *  *
        572 ACCCGTATGACCCGAG
          1 ACCCGAATGACCTGAA

                      *     
        588 ACCCGAATGATCTGAA
          1 ACCCGAATGACCTGAA

               * *          
        604 ACCTGTATGACCTG-A
          1 ACCCGAATGACCTGAA

                *       
        619 ACCCAAATGACC
          1 ACCCGAATGACC

        631 CAAGAAATTG


Statistics
Matches: 46,  Mismatches: 13, Indels: 1
        0.77            0.22        0.02

Matches are distributed among these distances:
  15   10  0.22
  16   36  0.78

ACGTcount: A:0.33, C:0.32, G:0.19, T:0.16


Consensus pattern (16 bp):   
ACCCGAATGACCTGAA

Found at i:587 original size:32 final size:32

Alignment explanation


    Indices: 549--630  Score: 121
    Period size: 32  Copynumber: 2.6  Consensus size: 32

        539 AACCTACCCA

                                            
        549 ACCCGAGACCCGAATGACCTGAAACCCGTATG
          1 ACCCGAGACCCGAATGACCTGAAACCCGTATG

                             *        *     
        581 ACCCGAGACCCGAATGATCTGAAACCTGTATG
          1 ACCCGAGACCCGAATGACCTGAAACCCGTATG

               *       *       
        613 ACCTGA-ACCCAAATGACC
          1 ACCCGAGACCCGAATGACC

        631 CAAGAAATTG


Statistics
Matches: 45,  Mismatches: 5, Indels: 1
        0.88            0.10        0.02

Matches are distributed among these distances:
  31   10  0.22
  32   35  0.78

ACGTcount: A:0.33, C:0.33, G:0.20, T:0.15


Consensus pattern (32 bp):   
ACCCGAGACCCGAATGACCTGAAACCCGTATG

Found at i:1509 original size:25 final size:25

Alignment explanation


    Indices: 1470--1519  Score: 73
    Period size: 25  Copynumber: 2.0  Consensus size: 25

       1460 TTCTTAAGCA

                  *           *      
       1470 TTTTTAGTAACCTTATAAGATTTTT
          1 TTTTTAATAACCTTATAAAATTTTT

                      *              
       1495 TTTTTAATAATCTTATAAAATTTTT
          1 TTTTTAATAACCTTATAAAATTTTT

       1520 AACACTTTTT


Statistics
Matches: 22,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  25   22  1.00

ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58


Consensus pattern (25 bp):   
TTTTTAATAACCTTATAAAATTTTT
Done.