Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010135.1 Corchorus olitorius cultivar O-4 contig10167, 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, 691

Length: 1152
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32


Found at i:647 original size:330 final size:326

Alignment explanation


    Indices: 1--1152  Score: 1350
    Period size: 330  Copynumber: 3.5  Consensus size: 326

                   *          *                                          *   
          1 AATGTGATTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCACCAAATAAAAAA
          1 AATGTGACTGAGATTTGGATAGATGAATATAGATATTTCAAGGAGTCTTGGCACCAAA-AATAAA

                       *                                                     
         66 AAAAAACTGAGTCAGGCCCTGGAACACGGTTTTAGCCGAAAACCGTGATGGTTAGTACATGATTT
         65 AAAAAACTGAGCCAGGCCCTGGAACACGGTTTTAGCCGAAAACCGTGATGGTTAGTACATGATTT

                                                                             
        131 CGGCTAAAATTTTGCAAAAATTGACCAGAAATATATTTCCTCAATTTTTGGGTAAAATACTCATA
        130 CGGCTAAAATTTTGCAAAAATTGACCAGAAATATATTTCCT-AATTTTTGGGTAAAATACTCATA

                           *            *       *                   *        
        196 AAAAATATATAATTCGACATCAAAAAGACTGAAAGGGTTTTTATCGCTTCTAATATATTTTTCCA
        194 AAAAATATATAATTCAACATCAAAAAGATTG-AAGGATTTTTA-CGCTTCTAATATGTTTTTCCA

                                 *             **                     *      
        261 ATTTTTTCAAATTAATTTCTAATAAATTCGAAACATCATTCAGATGCTCGTAAAAACATATCCTT
        257 ATTTTTTCAAATTAATTTCTATTAAA-TCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTT

                  
        326 AAATTT
        321 AAATTT

                  *                                  *                   *  *
        332 AATGTGGCTGAGATTTGGATAGATGAATATAGATATTTCAATGAGTCTTGGCACCAAAAATCAAG
          1 AATGTGACTGAGATTTGGATAGATGAATATAGATATTTCAAGGAGTCTTGGCACCAAAAATAAAA

            *           *       *   *                             *          
        397 CAAAACTGAGCCGGGCCCTGAAACGCGGTTTTAGCCGAAAACCGTGATGGTTAGAACATGATTTC
         66 AAAAACTGAGCCAGGCCCTGGAACACGGTTTTAGCCGAAAACCGTGATGGTTAGTACATGATTTC

                                     *       *       *      * *          *   
        462 GGCTAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCCTGATTTCTAGCG-AAAATACTAATA
        131 GGCTAAAATTTTGCAAAAATTGACCAGAAATATATTT-CCTAATTT-TTGGGTAAAATACTCATA

                              **      *        *             *  *            
        526 AAAAA-ACTATAATTCAATGTCAAAAGGATTGAAGAATTTTTCACGCTTTTATTATCGTTTTT-C
        194 AAAAATA-TATAATTCAACATCAAAAAGATTGAAGGATTTTT-ACGCTTCTAATAT-GTTTTTCC

                       *     *         *                 *  * * *            
        589 ATATTTTTTCTGAATTAGTTTCTCATTGAATCG-AACAAGATTCATATTCACATAAAAACAAATC
        256 A-ATTTTTTC-AAATTAATTTCT-ATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATC

                   **
        653 CTTAAATCC
        318 CTTAAATTT

                  *                       *                  *  **        * *
        662 AATGTGCCTGAGATTT-GATTAGATGAATAAAGATATTTCAAGGAGTCTCGGTGCCAAAAATCAT
          1 AATGTGACTGAGATTTGGA-TAGATGAATATAGATATTTCAAGGAGTCTTGGCACCAAAAATAAA

            **     *                   *  *        *         *           *   
        726 GGAAAACAGAG-CAGTGGCCCTGGAACGCGTTTTTAGCCAAAAACCGTGTTGGTTAGTACACGAT
         65 AAAAAACTGAGCCA--GGCCCTGGAACACGGTTTTAGCCGAAAACCGTGATGGTTAGTACATGAT

              *  *                      *    *        *  *                   
        790 TTTGGTTAAAATTTTGCAAAAATTGACCTGAAACATATTTGCTTATTTTTTGGGTAAAATACTCA
        128 TTCGGCTAAAATTTTGCAAAAATTGACCAGAAATATATTT-CCTAATTTTTGGGTAAAATACTCA

                        *                         *                *         
        855 TAAAAAATATATGATTCAACATCAAAAAGATTGAAGGGTTTTTTAACGCTTGC-AGTATAGTTTT
        192 TAAAAAATATATAATTCAACATCAAAAAGATTGAA-GGATTTTT-ACGCTT-CTAATAT-GTTTT

                                                                        *    
        919 TCCAATTTTTTCAAATTAATTTCTGATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAAAAT
        253 TCCAATTTTTTCAAATTAATTTCT-ATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAAT

                      
        984 CCTTAAATTT
        317 CCTTAAATTT

                   *          *                                              
        994 AATGTGATTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCACCAAAAATAAAA
          1 AATGTGACTGAGATTTGGATAGATGAATATAGATATTTCAAGGAGTCTTGGCACCAAAAAT----

                            *                       *                        
       1059 AAAAAAAAACCTGAAGTCAGGCCCTGGAACACGGTTTTAGTCGAAAACCGTGATGGTTAGTACAT
         62 AAAAAAAAA-CTG-AGCCAGGCCCTGGAACACGGTTTTAGCCGAAAACCGTGATGGTTAGTACAT

                                           
       1124 GATTTCGGC-AAAATTTTGC-AAAATTGACC
        125 GATTTCGGCTAAAATTTTGCAAAAATTGACC


Statistics
Matches: 685,  Mismatches: 111, Indels: 46
        0.81            0.13        0.05

Matches are distributed among these distances:
 329   24  0.04
 330  248  0.36
 331  212  0.31
 332  120  0.18
 333    3  0.00
 335   10  0.01
 336   15  0.02
 337   49  0.07
 338    2  0.00
 339    2  0.00

ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32


Consensus pattern (326 bp):   
AATGTGACTGAGATTTGGATAGATGAATATAGATATTTCAAGGAGTCTTGGCACCAAAAATAAAA
AAAAACTGAGCCAGGCCCTGGAACACGGTTTTAGCCGAAAACCGTGATGGTTAGTACATGATTTC
GGCTAAAATTTTGCAAAAATTGACCAGAAATATATTTCCTAATTTTTGGGTAAAATACTCATAAA
AAATATATAATTCAACATCAAAAAGATTGAAGGATTTTTACGCTTCTAATATGTTTTTCCAATTT
TTTCAAATTAATTTCTATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATT
T

Done.