Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011699.1 Corchorus olitorius cultivar O-4 contig11732, 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, 915

Length: 1525
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41


Found at i:469 original size:154 final size:154

Alignment explanation


    Indices: 2--1525  Score: 2207
    Period size: 154  Copynumber: 10.0  Consensus size: 154

          1 T

                     * *     *  *         **          *            *         
          2 TTATTTTGGCCCTATCGGGGCCCATTAGTTTTGTTTTGAATCATCTTCGATTTGGAAACCCTCAA
          1 TTATTTTGGGCATATCGAGGACCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAA

                                          *            *   *                 
         67 TGCTTTTCTTTCCATTGTTTATGGCCTAACAATAATCATTTTGTTGACATTAGTCCACTGTGAAG
         66 TGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAG

                                    
        132 TTTTTAGCTCATTTGGAACACTTG
        131 TTTTTAGCTCATTTGGAACACTTG

                                                                 **          
        156 TTATTTTGGGCATATCGAGGACCATTAGTTCCGTTTTGAATCGTCTTCGATTTCCCAACCCTCAA
          1 TTATTTTGGGCATATCGAGGACCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAA

             *                            *                                  
        221 TACTTTTCTTTCCATTGTTTATGGCCTAACAATAATCATTTTGGTGAGATTTAGTCCACTGTGAA
         66 TGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGA-TTAGTCCACTGTGAA

                                    *
        286 GTTTTTAGCTCATTTGGAACACTTC
        130 GTTTTTAGCTCATTTGGAACACTTG

                        *        *   *     ***                               
        311 TTATTTTGGGGCCTATCG-GGGCACTTTAGTGAAGTTTTGAATCGTCTTCGATTTGG-AACCCTC
          1 TTATTTT-GGGCATATCGAGGAC-CATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTC

                                    *                                        
        374 AATGCTTTTCTTTCCATTGTTT-TTGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGA
         64 AATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGA

                                       
        438 AGTTTTTTAGCTCATTTGGAACACTTG
        129 AG-TTTTTAGCTCATTTGGAACACTTG

                                  *                                         *
        465 TTATTTTGGGGGC-TATCGAGGCCCATTAG-TCCGTTTTGAATCGTCTTCGATTTGGCAACCCTT
          1 TTATTTT--GGGCATATCGAGGACCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTC

                                     *                 * *                   
        528 AATGCTTTTCTTTCCATTGTTTATTTGCCTAACTATAATCATTCTAGTGAGATTAGT--ACTGTG
         64 AATGCTTTTCTTTCCATTGTTTA-TGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTG

                                *     *
        591 AAGTTTTTAGCTCATTTGGAGCACTTT
        128 AAGTTTTTAGCTCATTTGGAACACTTG

                       *     *  *        **                                  
        618 TTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCCTTCGATTTGG-AACCCTCA
          1 TTATTTTGGGCATATCGAGGACCATTAGTTCCGTTTTGAATCGT-CTTCGATTTGGCAACCCTCA

                             *                                               
        682 ATGC-TTTCTTTCCATTATTT-T-GCCTAACTATAATCATTTT-GTGAGATTAGTCCACTGTGAA
         65 ATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAA

                                     
        743 G-TTTTAGCTCATTTGGAACACTTG
        130 GTTTTTAGCTCATTTGGAACACTTG

                                             *                               
        767 TTA-TTTGGGCATATCGAGGACCATTAGTTCC-CTTTGAATCGTCTTCGATTTGGCTAACCCTCA
          1 TTATTTTGGGCATATCGAGGACCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGC-AACCCTCA

                                                           *              *  
        830 ATGCTTTTC-TTCCATTTGTTTATGGCCTAACTATAATCATTTTGGTAAGTATTAGTCCACTTTG
         65 ATGCTTTTCTTTCCA-TTGTTTATGGCCTAACTATAATCATTTTGGTGAG-ATTAGTCCACTGTG

                                       
        894 AA-TTTTTAGCTCA-TTGGAACACTTG
        128 AAGTTTTTAGCTCATTTGGAACACTTG

                                                                   *         
        919 -TA-TTTGGGCATATCGAGGACCATTAG-TCCG-TTTGAATCGTCTTCGATTTGGAAACCCTCAA
          1 TTATTTTGGGCATATCGAGGACCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAA

                          *                           *  *             *     
        980 TGC-TTTC-TTCCAATGTTTATGGCCTAACTATAATCATTTTCGTCAGATTAGTCCACTTTGAAG
         66 TGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAG

                                     
       1043 TTTTTTAGCTCATTTGGAACACTTG
        131 -TTTTTAGCTCATTTGGAACACTTG

                                 *                                           
       1068 TTATTTTGGGCATATCGAGGAACATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAA
          1 TTATTTTGGGCATATCGAGGACCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAA

                          *           *              **  *             *     
       1133 TGCTTTTCTTTCCAATGTTTATGGCCCAACTATAATCATTTCCGTAAGATTAGTCCACTTTGAAG
         66 TGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAG

                                    
       1198 TTTTTAGCTCATTTGGAACACTTG
        131 TTTTTAGCTCATTTGGAACACTTG

                                                                             
       1222 TTATTTTGGGCATATCGAGGACCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAA
          1 TTATTTTGGGCATATCGAGGACCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAA

                          *                                                  
       1287 TGCTTTTCTTTCCAATGTTTATGGCCTAACTATAATCATTTTGGTGTAGTATTAGTCCTACTGTG
         66 TGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTG-AG-ATTAGTCC-ACTGTG

                                      *
       1352 AAGTTTTTAGCTCATTTGGAACACTTT
        128 AAGTTTTTAGCTCATTTGGAACACTTG

                                           *            *         *          
       1379 TTATTTTGGGCATATCGAGGACCATTAGTTCGGTTTTGAATCGTGTTCGATTTGACAACCCTCAA
          1 TTATTTTGGGCATATCGAGGACCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAA

                    *     *                            *                     
       1444 TGCTTTTCGTTCCAATGTTTATGGCCTAACTATAATCA-TTTGTTGAGATTAGTCCACTGTGAAG
         66 TGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAG

                              
       1508 TTTTTAGCTCATTTGGAA
        131 TTTTTAGCTCATTTGGAA


Statistics
Matches: 1260,  Mismatches: 74, Indels: 73
        0.90            0.05        0.05

Matches are distributed among these distances:
 146   27  0.02
 147   41  0.03
 148   71  0.06
 149   75  0.06
 150   37  0.03
 151   72  0.06
 152   50  0.04
 153  177  0.14
 154  357  0.28
 155  142  0.11
 156   81  0.06
 157  130  0.10

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


Consensus pattern (154 bp):   
TTATTTTGGGCATATCGAGGACCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAA
TGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAG
TTTTTAGCTCATTTGGAACACTTG

Done.