Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023318.1 Corchorus olitorius cultivar O-4 contig23351, 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: 3241
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29


Found at i:2672 original size:13 final size:13

Alignment explanation


    Indices: 2630--2673  Score: 54
    Period size: 12  Copynumber: 3.4  Consensus size: 13

       2620 TCATGCACCC

                        * 
       2630 AAAACAATTTATTT
          1 AAAACAATTTA-AT

                 *       
       2644 AAAACCATTT-AT
          1 AAAACAATTTAAT

                         
       2656 AAAACAATTTAAT
          1 AAAACAATTTAAT

                 
       2669 AAAAC
          1 AAAAC

       2674 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:3186 original size:28 final size:29

Alignment explanation


    Indices: 3150--3227  Score: 72
    Period size: 28  Copynumber: 2.8  Consensus size: 29

       3140 TTCAAAGTAC

                *                   *    
       3150 AAGGTTAAAACTGTAAATTTA-ACCTTCT
          1 AAGGGTAAAACTGTAAATTTATACATTCT

                                   *      
       3178 AAGGGTAAAA-TGGT-AATTTATTCATTCT
          1 AAGGGTAAAACT-GTAAATTTATACATTCT

            *          *    *     
       3206 TAGGGTAAAACGGTAATTTTAT
          1 AAGGGTAAAACTGTAAATTTAT

       3228 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.