Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006616.1 Corchorus capsularis cultivar CVL-1 contig06637, 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, 695

Length: 1159
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40


Found at i:293 original size:154 final size:154

Alignment explanation


    Indices: 2--1156  Score: 1629
    Period size: 154  Copynumber: 7.5  Consensus size: 154

          1 G

                   *                                    *                    
          2 TGAGATTGGTCCATTGTGAAGTTTTTAGCTCATTCAGAACACTTTTTATTTCGGGCCTTTCGGGG
          1 TGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTCAGAACACTTGTTATTTCGGGCCTTTCGGGG

              *                                                          *   
         67 CCTATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCCATTCTTT
         66 CCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCCATTGTTT

            * *                     
        132 CTAGCCTAACTATAATTATTTTGA
        131 ATGGCCTAACTATAATTATTTTGA

                                  *                                          
        156 TGAGATTAGTCCATTGTGAAGTGTTTAGCTCATTCAGAACACTTGTTATTTCGGGCCTTTCGGGG
          1 TGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTCAGAACACTTGTTATTTCGGGCCTTTCGGGG

                                                       *      *       *      
        221 CCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACTAAGCTTATCTTTCCTTTGTTT
         66 CCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCCATTGTTT

                                  *  
        286 ATGGCCTAACTATAATT-TTTAAGA
        131 ATGGCCTAACTATAATTATTT-TGA

                    *                                   *                    
        310 TGAGATTAATCCATTGTGAAGTTTTTAGCTCATTCAGAACACTTTTTATTTCGGGCCTTTCGGGG
          1 TGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTCAGAACACTTGTTATTTCGGGCCTTTCGGGG

                                                                         *   
        375 CCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCCATTATTC
         66 CCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCCATTGTT-

                                     
        440 TA--GCCTAACTAT-A-TA-TTTGA
        130 TATGGCCTAACTATAATTATTTTGA

                                                                         **  
        460 TGAGATTAGTCCATTGTGAAG-TTTTAGCTCATTCAGAACACTT-TTATTTCGGGCCTTTCCAGG
          1 TGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTCAGAACACTTGTTATTTCGGGCCTTTCGGGG

                          *  *     *    *                             *      
        523 CCCATTAGTGCTGTGTTAAATCGGCTTCAACTTT-G-AAACCACAAAGC-TTTCTTTCAATTGTT
         66 CCCATTAGTGCTGTTTTGAATCGTCTTCGA-TTTGGCAAACCACAAAGCTTTTCTTTCCATTGTT

              * *    *       *      *
        585 TACGACCTAGCTATAATCATTTTGG
        130 TATGGCCTAACTATAATTATTTTGA

                                                                             
        610 TGAGTATTAGTCCATTGTTGAAGTTTTTAGCTCATTTCAGAACACTTGTTATTTCGGGCCTTTCG
          1 TGAG-ATTAGTCCATTG-TGAAGTTTTTAGCTCA-TTCAGAACACTTGTTATTTCGGGCCTTTCG

                                                 *                     *     
        675 GGGCCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGCCAAACCACAAAGCTTTTAC-TACCTAT
         63 GGGCCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACAAAGCTTTT-CTTTCC-AT

                 *  *                    
        739 TGTTTCTGTCCTAACTATAATTATTTTGA
        126 TGTTTATGGCCTAACTATAATTATTTTGA

                                     *    *                                 *
        768 TGAGATTAGTCCATTGTGAAGTTTTAAGTCACATTCAGAACACTTGTTATTTCGGGCCGTTTCGA
          1 TGAGATTAGTCCATTGTGAAGTTTTTAG-CTCATTCAGAACACTTGTTATTTCGGGCC-TTTCGG

                            *  *     *    *                             *    
        833 GGCCCATTAGTGCTGTGTTAAATCGGCTTCAATTT-GC-AACCAACAAAGCTTTTCTTTCAATTG
         64 GGCCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACC-ACAAAGCTTTTCTTTCCATTG

                * *    *       *      *
        896 TTTACGACCTAGCTATAATCATTTTGG
        128 TTTATGGCCTAACTATAATTATTTTGA

                                                               *             
        923 TGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTCAGAACACTTGTTATTTTGGGCCTTTCGGGG
          1 TGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTCAGAACACTTGTTATTTCGGGCCTTTCGGGG

                                     *        *                              
        988 CCCATTAGTGCTGTTTTGAATCGTCATCGATTTGCCAAACCACAAAGCTTTTC-TTCCTATTGTT
         66 CCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCC-ATTGTT

             *                *      
       1052 TCTGGCCTAACTATAATTGTTTTGA
        130 TATGGCCTAACTATAATTATTTTGA

                                         *    *                           *  
       1077 TGAGATTAGTCCATTGTGAAGTTTTTAGCACATTTAGAACACTTGTTATTTCGGGCCTTTCGAGG
          1 TGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTCAGAACACTTGTTATTTCGGGCCTTTCGGGG

                           
       1142 CCCATTAGTTGCTGT
         66 CCCATTAG-TGCTGT

       1157 GTT


Statistics
Matches: 889,  Mismatches: 85, Indels: 53
        0.87            0.08        0.05

Matches are distributed among these distances:
 145    2  0.00
 146   13  0.01
 147   20  0.02
 148   46  0.05
 149   26  0.03
 150   30  0.03
 151   15  0.02
 152    6  0.01
 153   61  0.07
 154  409  0.46
 155  113  0.13
 156   62  0.07
 157   56  0.06
 158   30  0.03

ACGTcount: A:0.23, C:0.19, G:0.18, T:0.39


Consensus pattern (154 bp):   
TGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTCAGAACACTTGTTATTTCGGGCCTTTCGGGG
CCCATTAGTGCTGTTTTGAATCGTCTTCGATTTGGCAAACCACAAAGCTTTTCTTTCCATTGTTT
ATGGCCTAACTATAATTATTTTGA
Done.