Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010998.1 Corchorus olitorius cultivar O-4 contig11030, 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, 685

Length: 1142
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.40


Found at i:554 original size:154 final size:154

Alignment explanation


    Indices: 3--1142  Score: 1776
    Period size: 154  Copynumber: 7.4  Consensus size: 154

          1 GC

                  *                       *         *     * *     *         *
          3 CCTAACAATAATCATTTTGGTGAGATTAGTACACTGTGAATTTTTTGGTTCATTAGGAACACTTT
          1 CCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTG

                                       * **    *      *                      
         68 TTATTTTGGGCCTATCGGGGCCCATTACTGACGTTATGAATCATCTTCGATTTGGCAACCCTCAA
         66 TTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAA

                          *       * 
        133 TGCTTTTCTTTCCAATGTTTATAG
        131 TGCTTTTCTTTCCATTGTTTATGG

             *  *                *                                           
        157 -TTAGC---AATCATTTTGGTAAGATTAGTCCACT-TGGAAGTTTTTAGCTCATTTGGAACACTT
          1 CCTAACTATAATCATTTTGGTGAGATTAGTCCACTGT-GAAGTTTTTAGCTCATTTGGAACACTT

                                                                             
        217 GTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCA
         65 GTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCA

            *                        
        282 GTGCTTTTC-TTCCATTGTTTATGG
        130 ATGCTTTTCTTTCCATTGTTTATGG

                                                                *            
        306 CCTAACTATAATCATTTTGGTGAGATTAGTCCAC--TGAAGTTTTTAGCTCACTTGGAACACTTG
          1 CCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTG

                       *     *  *                                            
        369 TTATTTTGGGCATATCGAGGACCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAA
         66 TTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAA

                                    
        434 TGCTTTTCTTTCCATTGTTTATGG
        131 TGCTTTTCTTTCCATTGTTTATGG

                                                               *           * 
        458 CCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCGTTTGGAACACTCG
          1 CCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTG

                                            *                                
        523 TTATTTTGGGCCTATCGGGGCCCATTAGTTCCATTTTGAATCG-CATTCGATTTGGCAACCCTCA
         66 TTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTC-TTCGATTTGGCAACCCTCA

                           *         
        587 ATGCTTTTCTTTCCAATGTTTATGG
        130 ATGCTTTTCTTTCCATTGTTTATGG

                                **             *                             
        612 CCTAACTATAATCATTTTGGAAAGATTAGTCCACTTTGAAGTTTTTAGCTCATTTGGAACACTTG
          1 CCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTG

                       *     *  *           *           *                    
        677 TTATTTTGGGCATATCGAGGACCATTAGTTCCATTTTGAATCGTATTCGATTTGGCAACCCTCAA
         66 TTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAA

                          *       * 
        742 TGCTTTTCTTTCCAATGTTTATTG
        131 TGCTTTTCTTTCCATTGTTTATGG

                                                                             
        766 CCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTG
          1 CCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTG

                       *     *  *         *                                  
        831 TTATTTTGGGCATATCGAGGACCATTAGTTACGTTTTGAATCGTCTTCGATTTGGCAACCCTCAA
         66 TTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAA

                    *               
        896 TGCTTTTCGTTCCATTGTTTATGG
        131 TGCTTTTCTTTCCATTGTTTATGG

                                 *             *                             
        920 CCTAACTATAATCATTTTGGTAAGATTAGTCCACTTTGAAGTTTTTAGCTCATTTGGAACACTTG
          1 CCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTG

                                            *         *                      
        985 TTATTTTGGGCCTATCGGGGCCCATTAGTTCCATTTTGAATCATCTTCGATTTGGCAACCCTCAA
         66 TTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAA

               *                    
       1050 TGCATTTCTTTCCATTGTTTATGG
        131 TGCTTTTCTTTCCATTGTTTATGG

                                                            *                
       1074 CCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGTTCATTTGGAACACTTG
          1 CCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTG

                
       1139 TTAT
         66 TTAT


Statistics
Matches: 911,  Mismatches: 65, Indels: 20
        0.91            0.07        0.02

Matches are distributed among these distances:
 149   14  0.02
 150  117  0.13
 151   96  0.11
 152   50  0.05
 153   28  0.03
 154  606  0.67

ACGTcount: A:0.22, C:0.19, G:0.18, T:0.40


Consensus pattern (154 bp):   
CCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTG
TTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAA
TGCTTTTCTTTCCATTGTTTATGG

Done.