Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007486.1 Corchorus olitorius cultivar O-4 contig07511, 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, 831

Length: 1386
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34


Found at i:809 original size:322 final size:320

Alignment explanation


    Indices: 250--860  Score: 753
    Period size: 322  Copynumber: 1.9  Consensus size: 320

        240 AATTTTTAGC

                    *               *                                        
        250 ACAATACTTAGAAAAAATATATAATTCAACGCCAAAAAAATTAAAGGCATTTCACACTTTTAATA
          1 ACAATACTCAGAAAAAATATATAAATCAACGCCAAAAAAATTAAAGGCATTTCACACTTTTAATA

                                                *                  *  *    * 
        315 TCGTTTTCCCATTATTTTTCCCGAATTTATTTCTAATTAAACCGAAATAAGATTCCGATGCTCGT
         66 TCGTTTTCCCATTATTTTTCCCGAATTTATTTCTAAGTAAACCGAAATAAGATTCAGAAGCTCAT

                                                 *                   *    *  
        380 AAAAACAAATCCTTAAATCCATTGTGGCTGAGATTTGGTTAGATGAATATGAATATTTCAAGTAG
        131 AAAAACAAATCCTTAAATCCATTGTGGCTGAGATTTGATTAGATGAATATGAATATTCCAAGGAG

             *  *     *                   * **                               
        445 TCTTTCAGCCTAAAATCATACAAAACTGAGTCGGGGCCCCGAAACGCAG-TTTTAGCCAAAAAAA
        196 TATTCCAGCCAAAAATCATACAAAACTGAGCCAAGGCCCCGAAACGC-GTTTTTAGCC--AAAAA

                        * *  *                                             
        509 CCATGATGATTATTGCATGATTTCGGCTAAAATTTTGCAATGACAAACAAATCTCAGCCACAA
        258 CCATGATGATTAGTACACGATTTCGGCTAAAATTTTGCAATGACAAACAAATCTCAGCCACAA

                                         *            *    *      * **     * 
        572 ACAATACTCAGAAAAAATATATAAATCAATGCC-AAAAAATTGAAGGGATTTTCTCGTTTTTAGT
          1 ACAATACTCAGAAAAAATATATAAATCAACGCCAAAAAAATTAAAGGCA-TTTCACACTTTTAAT

                *     ***                              *        *            
        636 ATCATTTTTCTTTTTATTTTT-CCGAATTTATTTCTAAGTAAATCGAAATAATATTCAGAAGCTC
         65 ATC-GTTTTCCCATTATTTTTCCCGAATTTATTTCTAAGTAAACCGAAATAAGATTCAGAAGCTC

                    *   **               *                                   
        700 ATAAAAACTAATTTTTAAATCCATTGTGGTTGAGATTTGATTAGATGAATAT-AGATATTCCAAG
        129 ATAAAAACAAATCCTTAAATCCATTGTGGCTGAGATTTGATTAGATGAATATGA-ATATTCCAAG

                     *            *     *         *        *              *  
        764 GAGTATTCCTGCCAAAAATCATGCAAAATTGAGCCAAGTCCCCGAAATGCGTTTTTAGCCAAGAA
        193 GAGTATTCCAGCCAAAAATCATACAAAACTGAGCCAAGGCCCCGAAACGCGTTTTTAGCCAAAAA

              *     *                       
        829 CCGTGATGGTTAGTACACGATTTCGGCTAAAA
        258 CCATGATGATTAGTACACGATTTCGGCTAAAA

        861 ACTGACAAAA


Statistics
Matches: 242,  Mismatches: 43, Indels: 10
        0.82            0.15        0.03

Matches are distributed among these distances:
 320   31  0.13
 321   15  0.06
 322  183  0.76
 323   13  0.05

ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32


Consensus pattern (320 bp):   
ACAATACTCAGAAAAAATATATAAATCAACGCCAAAAAAATTAAAGGCATTTCACACTTTTAATA
TCGTTTTCCCATTATTTTTCCCGAATTTATTTCTAAGTAAACCGAAATAAGATTCAGAAGCTCAT
AAAAACAAATCCTTAAATCCATTGTGGCTGAGATTTGATTAGATGAATATGAATATTCCAAGGAG
TATTCCAGCCAAAAATCATACAAAACTGAGCCAAGGCCCCGAAACGCGTTTTTAGCCAAAAACCA
TGATGATTAGTACACGATTTCGGCTAAAATTTTGCAATGACAAACAAATCTCAGCCACAA
Done.