Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011735.1 Corchorus olitorius cultivar O-4 contig11768, 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, 684

Length: 1140
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41


Found at i:347 original size:154 final size:153

Alignment explanation


    Indices: 1--1140  Score: 1616
    Period size: 154  Copynumber: 7.4  Consensus size: 153

                                                                             
          1 GGGGTCCGATTAGTTCCGTTTTGTAATCGTCTTCGATTTGGCAAACCTCTAATTGCTTTTCTTTT
          1 GGGGTCC-ATTAGTTCCGTTTTG-AATCGTCTTCGATTTGGCAAACCTC-AA-TGCTTTTC-TTT

                        *                               *   *                
         66 CCATTGTTTATGACCTAACTATAATCATTTTGGTGAGATTAGTCAACTTTGAAGTTTCTAGCTCA
         61 CCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTT-TAGCTCA

                     *          * *      
        131 TTTGGAACAATTGTTATTTTCGACCTATC
        125 TTTGGAACACTTGTTATTTTGGGCCTATC

                          **             *         **           *            
        160 GGGGTCCATCT-GTGACGTTTTGAATCGTATTCGATTTGAAAAACCTCAATGGTTTTCTTTCCAT
          1 GGGGTCCAT-TAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCAT

                                                *        *                  *
        224 TGTTTATGGCCTAACTATAATCATTTTGGTGAGATTGGTCCACTGCGAAGTGTTTAGCTCATTTA
         65 TGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGT-TTTAGCTCATTTG

                             *      *
        289 GAACACTTGTTATTTTGTGCCTATG
        129 GAACACTTGTTATTTTGGGCCTATC

                                                                             
        314 GGGGTCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATT
          1 GGGGTCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATT

                   *                               *   *                     
        379 GTTTATGACCTAACTATAATCATTTTGGTGAGATTAGTCAACTTTGAAGTTTCTAGCTCATTTGG
         66 GTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTT-TAGCTCATTTGG

                *          * *      
        444 AACAATTGTTATTTTCGACCTATC
        130 AACACTTGTTATTTTGGGCCTATC

                      *  **             *         **           *             
        468 GGGGTCCATTTGTGACGTTTTGAATCGTATTCGATTTGAAAAACCTCAATGGTTTTCTTTCCATT
          1 GGGGTCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATT

                                               *        *                  * 
        533 GTTTATGGCCTAACTATAATCATTTTGGTGAGATTGGTCCACTGCGAAGTGTTTAGCTCATTTAG
         66 GTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGT-TTTAGCTCATTTGG

                          * *      *
        598 AACACTTGTTATTTCGTGCCTATG
        130 AACACTTGTTATTTTGGGCCTATC

                                                                             
        622 GGGGTCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATT
          1 GGGGTCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATT

                                                     *                       
        687 GTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTGG
         66 GTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAG-TTTTAGCTCATTTGG

             *                      
        752 AGCACTTGTTATTTTGGGCCTATC
        130 AACACTTGTTATTTTGGGCCTATC

                *        ***    *     * *              *             *       
        776 GGGGCCCATTAGTGATGTTTCGAATCATTTTCGATTTGGCAAATCTCAATGCTTTTTTTTTCCAT
          1 GGGGTCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGC-TTTTCTTTCCAT

                                       *            *   *                    
        841 TGTTTATGGCCTAACTATAATCATTTTAGTGAGATTAGTCAACTTTGAAGTTTCTAGCTCATTTG
         65 TGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTT-TAGCTCATTTG

                               *     
        906 GAACACTTGTTATTTTGGGACTATC
        129 GAACACTTGTTATTTTGGGCCTATC

                                *     *                                      
        931 GGGGTCCATTAGTTCCGTTTCGAATCATCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATT
          1 GGGGTCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATT

                            *                                                
        996 GTTTATGGCCTAACTAAAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGG
         66 GTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAG-TTTTAGCTCATTTGG

                                    
       1061 AACACTTGTTATTTTGGGCCTATC
        130 AACACTTGTTATTTTGGGCCTATC

                *         *    *       *                            
       1085 GGGGCCCATTAGTGACCGTATTGAATCTTCTTCGATTTGGCAAACCTCAATGCTTT
          1 GGGGTCCATTAGT-TCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTT


Statistics
Matches: 871,  Mismatches: 100, Indels: 24
        0.88            0.10        0.02

Matches are distributed among these distances:
 153    3  0.00
 154  635  0.73
 155  190  0.22
 156    2  0.00
 157   22  0.03
 158   11  0.01
 159    8  0.01

ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41


Consensus pattern (153 bp):   
GGGGTCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATT
GTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTAGCTCATTTGGA
ACACTTGTTATTTTGGGCCTATC

Done.