Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013322.1 Corchorus capsularis cultivar CVL-1 contig13343, 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: 2229
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.34


Found at i:1098 original size:331 final size:331

Alignment explanation


    Indices: 2--1212  Score: 1763
    Period size: 331  Copynumber: 3.7  Consensus size: 331

          1 A

                            *                                     **         
          2 CTAGTTGAATATAGATTTTTCTAGGAGTCTTGGCGCCAAAAATCATTGAAAACTAAATCGGGGTC
          1 CTAGTTGAATATAGATATTTCTAGGAGTCTTGGCGCCAAAAATCATTGAAAACTGTATCGGGGTC

                     * *                               *                  *  
         67 CCGGAACGCATATTTAGCCAAAAACCGTGATGGTTAGTAGC-CGATTTCGGTTAAAATTTGGTAA
         66 CCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTA-CACAATTTCGGTTAAAATTTGGCAA

             *                  *             *                         *    
        131 ATTCTGACCCGAAAAAATTTCCCTCAATTTTTTAGCACTATACTCATAAAAAATATATAAATTAC
        130 AATCTGACCCGAAAAAATTTTCCTCAATTTTTTACCACTATACTCATAAAAAATATATAATTTAC

                                                                             
        196 TTCCAAAAAGATTGATGGGTTTTTCACGCTTTTAAAATGGTTTTTCCCTTTTTTTCCAAATTAAT
        195 TTCCAAAAAGATTGATGGGTTTTTCACGCTTTTAAAATGGTTTTTCCC-TTTTTTCCAAATTAAT

                   *                  *           *                          
        261 TACTGATGAAATCGAAAGAAGATTCAAATGCTCGTAAAGTGAAATCCTTAAATCCAAATTGAG-T
        259 TACTGATAAAATCGAAAGAAGATTCAGATGCTCGTAAAATGAAATCCTTAAATCCAAATTG-GCT

                      
        325 GAGATTTGAT
        323 GAGATTTG-T

                *   *             *              *     *                  ** 
        335 -TAGATGAGTATAGATATTTCTCGGAGTCTTGGCGCCTAAAATAATTGAAAACTG-ATTCGGAAT
          1 CTAGTTGAATATAGATATTTCTAGGAGTCTTGGCGCCAAAAATCATTGAAAACTGTA-TCGGGGT

                       *     *                          *     *          *   
        398 CCCGGAACGCATTTTTTGGCC-AAAACCGTGATGGTTAGTACACGATTTCAGTTAAAATTTTGCA
         65 CCCGGAACGC-GTTTTTAGCCAAAAACCGTGATGGTTAGTACACAATTTCGGTTAAAATTTGGCA

                                                    *    *                   
        462 AAATCTGACCCGAAAAAATTTTCCTCAATTTTTTAGCCACAATACGCATAAAAAATATATAATTT
        129 AAATCTGACCCGAAAAAATTTTCCTCAATTTTTTA-CCACTATACTCATAAAAAATATATAATTT

                 *                    *                          *           
        527 ACTTCAAAAAAGATTGATGGGTTTTTGACGCTTTTAAAATGGTTTTTCCCTTTCTTCCAAATTAA
        193 ACTTCCAAAAAGATTGATGGGTTTTTCACGCTTTTAAAATGGTTTTTCCCTTTTTTCCAAATTAA

                                                                  *          
        592 TTACTGATAAAATCGAAAGAAGATTCAGATGCTCGTAAAATGAAATCCTTAAATTCAAATTGGCT
        258 TTACTGATAAAATCGAAAGAAGATTCAGATGCTCGTAAAATGAAATCCTTAAATCCAAATTGGCT

                    *
        657 GAGATTTGA
        323 GAGATTTGT

                                           *                               * 
        666 CTAGTTGAATATAGATATTTCTAGGAGT-TTAGCGCCAAAAATCATTGAAAACT-TAATCGGGTT
          1 CTAGTTGAATATAGATATTTCTAGGAGTCTTGGCGCCAAAAATCATTGAAAACTGT-ATCGGGGT

                *                     **            *                   *    
        729 CCCGAAACGCGTTTTTAGCCAAAAACTATGATGGTTAGTATACAATTTCGGTTAAAATTTTGCAA
         65 CCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACAATTTCGGTTAAAATTTGGCAA

                          *                                *                 
        794 AATCTGACCCGAAATAATTTTCCTCAATTTTTTACCACTATACTCATTAAAAATATATAATTTAC
        130 AATCTGACCCGAAAAAATTTTCCTCAATTTTTTACCACTATACTCATAAAAAATATATAATTTAC

                                              *                     *        
        859 TTCCAAAAAGAGTT-ATGGGTTTTTCACGCTTTTGAAATGGTTTTTCCCTTTTTTCAAAATTAAT
        195 TTCCAAAAAGA-TTGATGGGTTTTTCACGCTTTTAAAATGGTTTTTCCCTTTTTTCCAAATTAAT

                *       *                             *   *        *         
        923 TACTAATAAAATTGAAAGAAGATTCAGATGCTCGTAAAATGATATCTTTAAATCCGAATTGGCTG
        259 TACTGATAAAATCGAAAGAAGATTCAGATGCTCGTAAAATGAAATCCTTAAATCCAAATTGGCTG

                    
        988 AGATTTGT
        324 AGATTTGT

                *                     *                               *      
        996 CTAGCTGAATATAGATATTTCTAGGAATCTTGGCGCCAAAAATCATTGAAAACTGTATTGGGGTC
          1 CTAGTTGAATATAGATATTTCTAGGAGTCTTGGCGCCAAAAATCATTGAAAACTGTATCGGGGTC

                    *                                         *              
       1061 CCGGAACGTGTTTTTAGCCAAAAACCGTGATGGTTAGTACACAATTTCGGCTAAAATTTGGCAAA
         66 CCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACAATTTCGGTTAAAATTTGGCAAA

                                           *                               * 
       1126 ATCTGACCCGAAAAAATTTTCCTCAATTTTTAACCACTATACTCATAAAAAATATATAATTTAAT
        131 ATCTGACCCGAAAAAATTTTCCTCAATTTTTTACCACTATACTCATAAAAAATATATAATTTACT

              *     *             
       1191 TCTAAAAATATTGATGGGTTTT
        196 TCCAAAAAGATTGATGGGTTTT

       1213 GTAATACCGT


Statistics
Matches: 786,  Mismatches: 79, Indels: 28
        0.88            0.09        0.03

Matches are distributed among these distances:
 330  186  0.24
 331  280  0.36
 332  240  0.31
 333   80  0.10

ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34


Consensus pattern (331 bp):   
CTAGTTGAATATAGATATTTCTAGGAGTCTTGGCGCCAAAAATCATTGAAAACTGTATCGGGGTC
CCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACAATTTCGGTTAAAATTTGGCAAA
ATCTGACCCGAAAAAATTTTCCTCAATTTTTTACCACTATACTCATAAAAAATATATAATTTACT
TCCAAAAAGATTGATGGGTTTTTCACGCTTTTAAAATGGTTTTTCCCTTTTTTCCAAATTAATTA
CTGATAAAATCGAAAGAAGATTCAGATGCTCGTAAAATGAAATCCTTAAATCCAAATTGGCTGAG
ATTTGT
Done.