Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013013.1 Corchorus olitorius cultivar O-4 contig13046, 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: 2487
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31


Found at i:598 original size:20 final size:21

Alignment explanation


    Indices: 556--598  Score: 61
    Period size: 21  Copynumber: 2.1  Consensus size: 21

        546 TCCTTTGTTG

                                 
        556 ATGATCTCCAATGGGCTTCAA
          1 ATGATCTCCAATGGGCTTCAA

                     *        *  
        577 ATGATCTCCGAT-GGCTTTAA
          1 ATGATCTCCAATGGGCTTCAA

              
        597 AT
          1 AT

        599 TCTTCAAGAT


Statistics
Matches: 20,  Mismatches: 2, Indels: 1
        0.87            0.09        0.04

Matches are distributed among these distances:
  20    9  0.45
  21   11  0.55

ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33


Consensus pattern (21 bp):   
ATGATCTCCAATGGGCTTCAA

Found at i:741 original size:21 final size:21

Alignment explanation


    Indices: 712--762  Score: 75
    Period size: 21  Copynumber: 2.4  Consensus size: 21

        702 TCTTAGGCAA

                *                
        712 CTCCGATGAGCTTGAAACCTT
          1 CTCCAATGAGCTTGAAACCTT

                     *    *      
        733 CTCCAATGATCTTGGAACCTT
          1 CTCCAATGAGCTTGAAACCTT

                     
        754 CTCCAATGA
          1 CTCCAATGA

        763 ACTTCTAGCA


Statistics
Matches: 27,  Mismatches: 3, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  21   27  1.00

ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29


Consensus pattern (21 bp):   
CTCCAATGAGCTTGAAACCTT
Done.