Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023171.1 Corchorus olitorius cultivar O-4 contig23204, 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: 2828
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28


Found at i:871 original size:13 final size:13

Alignment explanation


    Indices: 829--872  Score: 54
    Period size: 12  Copynumber: 3.4  Consensus size: 13

        819 TCATGCACCC

                        * 
        829 AAAACAATTTATTT
          1 AAAACAATTTA-AT

                 *       
        843 AAAACCATTT-AT
          1 AAAACAATTTAAT

                         
        855 AAAACAATTTAAT
          1 AAAACAATTTAAT

                 
        868 AAAAC
          1 AAAAC

        873 GGTAATAAAA


Statistics
Matches: 26,  Mismatches: 3, Indels: 3
        0.81            0.09        0.09

Matches are distributed among these distances:
  12   10  0.38
  13    7  0.27
  14    9  0.35

ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32


Consensus pattern (13 bp):   
AAAACAATTTAAT

Found at i:1366 original size:28 final size:29

Alignment explanation


    Indices: 1330--1407  Score: 72
    Period size: 28  Copynumber: 2.8  Consensus size: 29

       1320 TTCAAAGTAC

                *                   *    
       1330 AAGGTTAAAACTGTAAATTTA-ACCTTCT
          1 AAGGGTAAAACTGTAAATTTATACATTCT

                                   *      
       1358 AAGGGTAAAA-TGGT-AATTTATTCATTCT
          1 AAGGGTAAAACT-GTAAATTTATACATTCT

            *          *    *     
       1386 TAGGGTAAAACGGTAATTTTAT
          1 AAGGGTAAAACTGTAAATTTAT

       1408 GCCCATACGG


Statistics
Matches: 40,  Mismatches: 6, Indels: 7
        0.75            0.11        0.13

Matches are distributed among these distances:
  27    7  0.17
  28   27  0.68
  29    6  0.15

ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37


Consensus pattern (29 bp):   
AAGGGTAAAACTGTAAATTTATACATTCT
Done.