Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022315.1 Corchorus olitorius cultivar O-4 contig22348, 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: 7414
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31


Found at i:2948 original size:17 final size:16

Alignment explanation


    Indices: 2921--2954  Score: 59
    Period size: 17  Copynumber: 2.1  Consensus size: 16

       2911 TTTTTTAAAA

                            
       2921 AAAAATGAATGAAATG
          1 AAAAATGAATGAAATG

                             
       2937 AAAAATGAAATGAAATG
          1 AAAAATG-AATGAAATG

             
       2954 A
          1 A

       2955 GAATGGACCC


Statistics
Matches: 17,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  16    7  0.41
  17   10  0.59

ACGTcount: A:0.65, C:0.00, G:0.18, T:0.18


Consensus pattern (16 bp):   
AAAAATGAATGAAATG

Found at i:3790 original size:28 final size:28

Alignment explanation


    Indices: 3749--3823  Score: 71
    Period size: 28  Copynumber: 2.7  Consensus size: 28

       3739 TTAAGATGTC

                    **    *          *  
       3749 AAAATTACTGTTTTTCCCTTGGTCAGCT
          1 AAAATTACAATTTTACCCTTGGTCAACT

                    *         *    *    
       3777 AAAATTACCATTTTACCCCTGGTTAACT
          1 AAAATTACAATTTTACCCTTGGTCAACT

                          *     
       3805 -AAATTACAATTTTGCCCTT
          1 AAAATTACAATTTTACCCTT

       3824 AAATGCCAGA


Statistics
Matches: 38,  Mismatches: 9, Indels: 1
        0.79            0.19        0.02

Matches are distributed among these distances:
  27   16  0.42
  28   22  0.58

ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40


Consensus pattern (28 bp):   
AAAATTACAATTTTACCCTTGGTCAACT
Done.