Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009060.1 Corchorus olitorius cultivar O-4 contig09088, 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, 714

Length: 1191
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.36


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

Alignment explanation


    Indices: 4--574  Score: 885
    Period size: 154  Copynumber: 3.7  Consensus size: 154

          1 CAT

                                  * *         * * *         *            *   
          4 TTTTGGTGAGATTAGTCCACTGAGTAGTTTTTAACCCATTTTGGAACATTTG-TATTTTGGTCCT
          1 TTTTGGTGAGATTAGTCCACTGTGAAGTTTTT-AGCAAATTTGGAACACTTGTTATTTTGGGCCT

               *  *         **                           *                   
         68 ATCTGGACCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAATCTCAATGCTTTTCTTTCC
         65 ATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACTCTCAATGCTTTTCTTTCC

                                     
        133 ATTGTTTATGGCCTAACTATAATCA
        130 ATTGTTTATGGCCTAACTATAATCA

                                                                             
        158 TTTTGGTGAGATTAGTCCACTGAT-AAGTTTTTAGCAAATTTGGAACACTTGTTATTTTGGGCCT
          1 TTTTGGTGAGATTAGTCCACTG-TGAAGTTTTTAGCAAATTTGGAACACTTGTTATTTTGGGCCT

                                               *          *                  
        222 ATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCAATTTGGCAACCCTCAATGCTTTTCTTTCC
         65 ATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACTCTCAATGCTTTTCTTTCC

                            *        
        287 ATTGTTTATGGCCTAATTATAATCA
        130 ATTGTTTATGGCCTAACTATAATCA

                                             * **                            
        312 TTTTGGTGAGATTAGTCCACTGTGAAGTTTTTATCTCATTTGGAACACTTGTTATTTTGGGCCTA
          1 TTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCAAATTTGGAACACTTGTTATTTTGGGCCTA

                                     *      *      **                        
        377 TCGGGGCCCATTAGTTCCGTTTTGATTCGTCTCCGATTTTTCAACTCTCAATGCTTTTCTTTCCA
         66 TCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACTCTCAATGCTTTTCTTTCCA

                                    
        442 TTGTTTATGGCCTAACTATAATCA
        131 TTGTTTATGGCCTAACTATAATCA

                                                                           * 
        466 TTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCAAATTTGGAACACTTGTTATTTTGGGCCAA
          1 TTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCAAATTTGGAACACTTGTTATTTTGGGCCTA

              *                                 *       
        531 TCTGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGAGTTGGCAA
         66 TCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAA

        575 TGATGCGCCA


Statistics
Matches: 379,  Mismatches: 35, Indels: 6
        0.90            0.08        0.01

Matches are distributed among these distances:
 153   16  0.04
 154  363  0.96

ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42


Consensus pattern (154 bp):   
TTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCAAATTTGGAACACTTGTTATTTTGGGCCTA
TCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACTCTCAATGCTTTTCTTTCCA
TTGTTTATGGCCTAACTATAATCA

Done.