Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006603.1 Corchorus capsularis cultivar CVL-1 contig06624, 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: 1721
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40


Found at i:357 original size:154 final size:154

Alignment explanation


    Indices: 2--1721  Score: 2488
    Period size: 154  Copynumber: 11.1  Consensus size: 154

          1 G

                             *           *                                   
          2 GGGGCCCCATTAGTGC-ATTTTGAATCGTATTCGATTTGGCAAACCACAATA-CTTTTCTTTCCA
          1 GGGG-CCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACAA-AGCTTTTCTTTCCA

                    *                    *                                   
         65 TTGTTTATAGCCTAACTATAATTA-TTTGTTGAGATTA-TCCATTGTGAAGTTTTTAGCTCATTC
         64 TTGTTTATGGCCTAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTC

                             *        
        128 AGAACACTTGTTATTTCAGGCCTTTC
        129 AGAACACTTGTTATTTCGGGCCTTTC

             *   *                *     *      *  *      *                   
        154 -AGGCGCATTAGTGCTGTTTTGTATCGTTTTCGATATGACAAACCGCAAAGCTTTTCTTTCCATT
          1 GGGGCCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCCATT

                     *          *      *             *                       
        218 GTTTATGGCATAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTCAG
         66 GTTTATGGCCTAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTCAG

                           *        
        283 AACACTTGTTATTTCAGGCCTTTC
        131 AACACTTGTTATTTCGGGCCTTTC

                 *               **            *  *      *                   
        307 GGGGCGCATTAGTGCTGTTTTTTATCGTCTTCGATATGACAAACCGCAAAGCTTTTCTTTCCATT
          1 GGGGCCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCCATT

                                                                             
        372 GTTTATGGCCTAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCCTCATTCA
         66 GTTTATGGCCTAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAG-CTCATTCA

                                     
        437 GAACACTTGTTATTTCGGGCCTTTC
        130 GAACACTTGTTATTTCGGGCCTTTC

               *         *                    *                    *       * 
        462 GGGTCCCATTAGTACTGTTTTGAATACGTCTTCGGTTTGGCAAACCACAAAGCTTATCTTTCCTT
          1 GGGGCCCATTAGTGCTGTTTTGAAT-CGTCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCCAT

                                                                             
        527 TGTTTATGGCCTAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTCA
         65 TGTTTATGGCCTAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTCA

                                     
        592 GAACACTTGTTATTTCGGGCCTTTC
        130 GAACACTTGTTATTTCGGGCCTTTC

             *                   *     *    *                             *  
        617 GAGGCCCATTAGTGCTGTTTTAAATCGGCTTCAATTT-GC-AACCAACAAAGCTTTTCTTTCAAT
          1 GGGGCCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACC-ACAAAGCTTTTCTTTCCAT

                  *       *       *      *                             *     
        680 TGTTTACGAG-CTAGCTATAATCATTTTGGTGAGATTAGTCCATTGTGAAGTTTTTAGCACATTC
         65 TGTTTATG-GCCTAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTC

                        *       *     
        744 AGAACACTTGTTGTTTCGGGTCTTTC
        129 AGAACACTTGTTATTTCGGGCCTTTC

             *      *                      *                      *       *  
        770 GTGGCCCACTAGTGCTGTTTTGAATCGTCTTTGATTTGGCAAACCACAAAGCTTATCTTTCCTTT
          1 GGGGCCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCCATT

                                    *                              *         
        835 GTTTATGGCCTAACTATAATTATTGTGATGAGATTAGTCCATTGTGAAGTTTTTAACTCATTCAG
         66 GTTTATGGCCTAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTCAG

                   *                
        900 AACACTTTTTATTTCGGGCCTTTC
        131 AACACTTGTTATTTCGGGCCTTTC

                                                                             
        924 GGGGCCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCCATT
          1 GGGGCCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCCATT

                *                                                            
        989 GTTTCTGGCCTAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAAG-TCATTCA
         66 GTTTATGGCCTAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAGTTTTT-AGCTCATTCA

                    *                
       1053 GAACACTTTTTATTTCGGGCCTTTC
        130 GAACACTTGTTATTTCGGGCCTTTC

                                  *                                          
       1078 GGGGCCCATTAGTGCTGTTTTGCATCGTCTTCGATTTGGCAAACCA-ATAAGCTTTTCTTTCCAT
          1 GGGGCCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACA-AAGCTTTTCTTTCCAT

                 *    *           *                                          
       1142 TGTTTCTGGCTTAACTATAATTGTTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTCA
         65 TGTTTATGGCCTAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTCA

                                     
       1207 GAACACTTGTTATTTCGGGCCTTTC
        130 GAACACTTGTTATTTCGGGCCTTTC

               *                              *                    *        *
       1232 GGGTCCCTATTAGTGCTGTTTTGAATCGTCTTCGGTTTGGCAAACCACAAAGCTTATCTTTACCT
          1 GGGGCCC-ATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACAAAGCTTTTCTTT-CCA

                                                                             
       1297 TTGTTTATGGCCTAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAGTTTTTTAGCTCATT
         64 TTGTTTATGGCCTAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAG-TTTTTAGCTCATT

                      *                  
       1362 CAGAACACTTTTTATTTCGGGGCCTTTTC
        128 CAGAACACTTGTTATTTC-GGGCC-TTTC

                                                    *             *  *     * 
       1391 GGGGGCCCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGCCAAACCACAAAGCATTCCTTTCAA
          1 -GGGG-CCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCCA

               *   * *            * *    *             *              *      
       1456 TTGGTTACGACCTAACTATAATCAATTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGGTCATTC
         64 TTGTTTATGGCCTAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTC

                                      
       1521 AGAACACTTGTTATTTCGGGCCTTTC
        129 AGAACACTTGTTATTTCGGGCCTTTC

                                                                      *  *   
       1547 GGGGCCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACAAAGCTTTTCTATCAATT
          1 GGGGCCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCCATT

                 * * *    *                      *     *             *      *
       1612 GTTTACGACATAACCATAATTATTTTGATGAGATTAGACCATTTTGAAGTTTTTAGCACATTCAA
         66 GTTTATGGCCTAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTCAG

                                   *
       1677 AACACTTGTTATTTCGGGCCTTTT
        131 AACACTTGTTATTTCGGGCCTTTC

                       *         
       1701 GGGGCCCATTACTGCTGTTTT
          1 GGGGCCCATTAGTGCTGTTTT


Statistics
Matches: 1421,  Mismatches: 124, Indels: 44
        0.89            0.08        0.03

Matches are distributed among these distances:
 150   11  0.01
 151   62  0.04
 152   16  0.01
 153  185  0.13
 154  667  0.47
 155  163  0.11
 156  145  0.10
 157   35  0.02
 158   34  0.02
 159   49  0.03
 160   51  0.04
 161    3  0.00

ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40


Consensus pattern (154 bp):   
GGGGCCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCCATT
GTTTATGGCCTAACTATAATTATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTCAG
AACACTTGTTATTTCGGGCCTTTC

Done.