Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010928.1 Corchorus olitorius cultivar O-4 contig10960, 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, 694

Length: 1157
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37


Found at i:298 original size:154 final size:154

Alignment explanation


    Indices: 5--784  Score: 1314
    Period size: 154  Copynumber: 5.1  Consensus size: 154

          1 GTTC

                                                     *           *           
          5 TTAGCTCATTTGG-ACACTTGTTATTTTGGGCATATCGAGGACCATTAGTTCCCTTTTGAATCGT
          1 TTAGCTCATTTGGAACACTTGTTATTTTGGGCATATCGAGGGCCATTAGTTCCGTTTTGAATCGT

                                                                             
         69 CTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCAATGTTTATGGCCTAACTATAATCATTTTGG
         66 CTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCAATGTTTATGGCCTAACTATAATCATTTTGG

                                    
        134 TAAGATTAGTCCACTGTGAAGTTT
        131 TAAGATTAGTCCACTGTGAAGTTT

                                                            *                
        158 TTAGCTCATTTGGAACACTTGTTATTTTGGGCATATCGAGGGCCATTAATTCCGTTTTGAATCGT
          1 TTAGCTCATTTGGAACACTTGTTATTTTGGGCATATCGAGGGCCATTAGTTCCGTTTTGAATCGT

                                                *                            
        223 CTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCAAGGTTTATGGCCTAACTATAATCATTTTGG
         66 CTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCAATGTTTATGGCCTAACTATAATCATTTTGG

                           *       *
        288 TAAGATTAGTCCACTTTGAAGTTC
        131 TAAGATTAGTCCACTGTGAAGTTT

                          *                 *                   *            
        312 TTAGCTCATTTGGAGCACTTGTTATTTTGGGCCTATCG-GGGCCCATTAGTTTCGTTTTGAATCG
          1 TTAGCTCATTTGGAACACTTGTTATTTTGGGCATATCGAGGG-CCATTAGTTCCGTTTTGAATCG

                                                *                            
        376 TCTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTG
         65 TCTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCAATGTTTATGGCCTAACTATAATCATTTTG

              *     *                
        441 GTGAGATTTGTCCACTGTGAAGTTT
        130 GTAAGATTAGTCCACTGTGAAGTTT

                                             *       *                       
        466 TTAGCTCATTTGGAACACTTGTTATTTTGGGCAAATCGAGGACCATTAGTTCCGTTTTGAATCGT
          1 TTAGCTCATTTGGAACACTTGTTATTTTGGGCATATCGAGGGCCATTAGTTCCGTTTTGAATCGT

                                                                   *         
        531 CTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCAATGTTTATGGCCTAACTATATTCATTTTGG
         66 CTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCAATGTTTATGGCCTAACTATAATCATTTTGG

                           *        
        596 TAAGATTAGTCCACTTTGAAGTTT
        131 TAAGATTAGTCCACTGTGAAGTTT

                                            *                                
        620 TTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCG-GGGCCCATTAGTTCCGTTTTGAATCG
          1 TTAGCTCATTTGGAACACTTGTTATTTTGGGCATATCGAGGG-CCATTAGTTCCGTTTTGAATCG

                       * *                *     *                            
        684 TCTTCGATTTGACTACCCTCAATGCTTTTCATTCCATTGTTTATGGCCTAACTATAATCATTTTG
         65 TCTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCAATGTTTATGGCCTAACTATAATCATTTTG

              *               *      
        749 GTGAGATTAGTCCACTGTAAAGTTT
        130 GTAAGATTAGTCCACTGTGAAGTTT

                       
        774 TTAGCTCATTT
          1 TTAGCTCATTT

        785 TGAATGACAC


Statistics
Matches: 586,  Mismatches: 37, Indels: 7
        0.93            0.06        0.01

Matches are distributed among these distances:
 153   18  0.03
 154  566  0.97
 155    2  0.00

ACGTcount: A:0.21, C:0.19, G:0.18, T:0.41


Consensus pattern (154 bp):   
TTAGCTCATTTGGAACACTTGTTATTTTGGGCATATCGAGGGCCATTAGTTCCGTTTTGAATCGT
CTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCAATGTTTATGGCCTAACTATAATCATTTTGG
TAAGATTAGTCCACTGTGAAGTTT

Done.