Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022993.1 Corchorus olitorius cultivar O-4 contig23026, 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: 3154
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29


Found at i:2525 original size:13 final size:13

Alignment explanation


    Indices: 2483--2527  Score: 56
    Period size: 12  Copynumber: 3.5  Consensus size: 13

       2473 TCATGCACCC

                        * 
       2483 AAAACAATTTATTT
          1 AAAACAATTTA-AT

                 *       
       2497 AAAACCATTT-AT
          1 AAAACAATTTAAT

                         
       2509 AAAACAATTTAAT
          1 AAAACAATTTAAT

                  
       2522 AAAACA
          1 AAAACA

       2528 GTAATAAAAT


Statistics
Matches: 27,  Mismatches: 3, Indels: 3
        0.82            0.09        0.09

Matches are distributed among these distances:
  12   10  0.37
  13    8  0.30
  14    9  0.33

ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31


Consensus pattern (13 bp):   
AAAACAATTTAAT

Found at i:3043 original size:28 final size:29

Alignment explanation


    Indices: 3000--3074  Score: 75
    Period size: 28  Copynumber: 2.7  Consensus size: 29

       2990 TTCAAAGTAC

                *      *            *    
       3000 AAGGTTAAAACTGTAAATTTA-ACCTTCT
          1 AAGGGTAAAACGGTAAATTTATACATTCT

                      *           *      
       3028 AAGGGTAAAATGGT-AATTTATTCATTCT
          1 AAGGGTAAAACGGTAAATTTATACATTCT

            *                   
       3056 TAGGGTAAAACGG-AAATTT
          1 AAGGGTAAAACGGTAAATTT

       3075 TATGCCCATA


Statistics
Matches: 38,  Mismatches: 7, Indels: 4
        0.78            0.14        0.08

Matches are distributed among these distances:
  27    6  0.16
  28   32  0.84

ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35


Consensus pattern (29 bp):   
AAGGGTAAAACGGTAAATTTATACATTCT
Done.