Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006249.1 Corchorus capsularis cultivar CVL-1 contig06268, 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, 687

Length: 1146
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40


Found at i:284 original size:155 final size:154

Alignment explanation


    Indices: 1--1143  Score: 1580
    Period size: 155  Copynumber: 7.3  Consensus size: 154

                                     *                           *           
          1 TTTCGGGGCCCATTAGTGCTATTTTCAATCGTATTCGATTTGGCAAACCACAATGCTTTTTCTTT
          1 TTTCGGGGCCCATTAGTGCTATTTTGAATCGTATTCGATTTGGCAAACCACAAAGC-TTTTCTTT

               *          *    *              *                    *         
         66 CCAATGTTTATGGCCTAACAATAATTATTTTGATAAGATTAGTCCATTGTGAAGTCTTTAGCTCA
         65 CCATTGTTTATGGCATAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCTCA

                                     
        131 TTTAGAACACTTGTTATTTCGGGCC
        130 TTTAGAACACTTGTTATTTCGGGCC

            *                                      *  *       *              
        156 ATTCGGGGCCCATTAGTGCTATTTTGAATCGTATTCGATATGACAAAACCGCAAAGCTTTTCTTT
          1 TTTCGGGGCCCATTAGTGCTATTTTGAATCGTATTCGATTTGGC-AAACCACAAAGCTTTTCTTT

                                     *      *   *         *    *             
        221 CCATTGTTTATGGCATAACTATAATCATTTTGGTGATATTAGTCCACTGTGTAGTTTTTAGCTCA
         65 CCATTGTTTATGGCATAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCTCA

              *         *            
        286 TTCAGAACACTTATTATTTCGGGCC
        130 TTTAGAACACTTGTTATTTCGGGCC

                                                                             
        311 TTTCGGGGCCCATTAGTGCTATTTTGAATCGTATTCGATTTGGCAAACCACAATA-CTTTTCTTT
          1 TTTCGGGGCCCATTAGTGCTATTTTGAATCGTATTCGATTTGGCAAACCACAA-AGCTTTTCTTT

                          *   *             *                                
        375 CCATTGTTTATGGCCTAAATATAATTATTTTGTTGAGATTAGTCCATTGTGAACGTTTTTAGCTC
         65 CCATTGTTTATGGCATAACTATAATTATTTTGATGAGATTAGTCCATTGTGAA-GTTTTTAGCTC

                                     * 
        440 A-TTAGAACACTTGGTTATTTCGGGAC
        129 ATTTAGAACACTT-GTTATTTCGGGCC

                     *           *    *     *          *       *             
        466 TTTCGGGGCGCATTAGTGCT-GTTTGTATCGTCTTCGATATT-TCTAAACCGCAAAGCTTTTCTT
          1 TTTCGGGGCCCATTAGTGCTATTTTGAATCGTATTCGAT-TTGGC-AAACCACAAAGCTTTTCTT

                                      *            *        *       *        
        529 TCCATTGTTTATGGCATAACTATAATCATTTTTG-TGAGGTTAGTCCACTGTGAAGGTTTTAGTC
         64 TCCATTGTTTATGGCATAACTATAATTA-TTTTGATGAGATTAGTCCATTGTGAAGTTTTTAG-C

                                         
        593 TCATTTAGAACACTTGTTATTTTCGGGCC
        127 TCATTTAGAACACTTGTTA-TTTCGGGCC

                                                                   *         
        622 TTTCGGGGCCCATTAGTGCTATTTTGAATCGTATTCGATTTGGCTAAACCACGAATGCGTTTTCC
          1 TTTCGGGGCCCATTAGTGCTATTTTGAATCGTATTCGATTTGGC-AAACCAC-AAAGC-TTTT-C

                   *           *    *              *                     *   
        687 TTTCCTAATGTTTATGGTCCTAACAATAATTATTTTGATAAGATTAAGTCCATTGTGAAGTCTTT
         62 TTTCC-ATTGTTTATGG-CATAACTATAATTATTTTGATGAGATT-AGTCCATTGTGAAGTTTTT

                                            
        752 AGCTCAGTTTAGAACACTTGTTATTTCGGGCC
        124 AGCTCA-TTTAGAACACTTGTTATTTCGGGCC

            *                                      *  *      *               
        784 ATTCGGGGCCCATTAGTGCTATTTTGAATCGTATTCGATATGACAAACCGCAAAGCTTTTCTTTC
          1 TTTCGGGGCCCATTAGTGCTATTTTGAATCGTATTCGATTTGGCAAACCACAAAGCTTTTCTTTC

                                    *      *   *         *    **             
        849 CATTGTTTATGGCATAACTATAATCATTTTGGTGATATTAGTCCACTGTGTTGTTTTTAGCTCAT
         66 CATTGTTTATGGCATAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCTCAT

             *                      
        914 TCAGAACACTTGTTATTTCGGGCC
        131 TTAGAACACTTGTTATTTCGGGCC

                                                                 *           
        938 TTTCGGGGCCCATTAGTGCTATTTTGAATCGTATTCGATTTGGCAAACCACAATGCTTTTCTTTC
          1 TTTCGGGGCCCATTAGTGCTATTTTGAATCGTATTCGATTTGGCAAACCACAAAGCTTTTCTTTC

                                                                        * *  
       1003 CATTGTTTATGGCCA-AACTATAATTATTTTGATGAGATTAGTCCATTGTGAAG-TTTTAACACA
         66 CATTGTTTATGG-CATAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCTCA

              *               *      
       1066 TTCAGAACACTTGTTATTCCGGGCC
        130 TTTAGAACACTTGTTATTTCGGGCC

                                                                 
       1091 TTTCGGGGCCCATTAGTGCTATTTTGAATCGTATTCGATTTGGCAAACCACAA
          1 TTTCGGGGCCCATTAGTGCTATTTTGAATCGTATTCGATTTGGCAAACCACAA

       1144 TGC


Statistics
Matches: 874,  Mismatches: 92, Indels: 46
        0.86            0.09        0.05

Matches are distributed among these distances:
 153   85  0.10
 154  225  0.26
 155  302  0.35
 156   76  0.09
 157   33  0.04
 158   10  0.01
 159    8  0.01
 160   10  0.01
 161   21  0.02
 162   70  0.08
 163   34  0.04

ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40


Consensus pattern (154 bp):   
TTTCGGGGCCCATTAGTGCTATTTTGAATCGTATTCGATTTGGCAAACCACAAAGCTTTTCTTTC
CATTGTTTATGGCATAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCTCAT
TTAGAACACTTGTTATTTCGGGCC

Done.