Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009735.1 Corchorus olitorius cultivar O-4 contig09767, 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, 1000

Length: 2591
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34


Found at i:635 original size:333 final size:330

Alignment explanation


    Indices: 11--636  Score: 835
    Period size: 333  Copynumber: 1.9  Consensus size: 330

          1 CCCCCCCCCC

                *                           *      *                         
         11 CCCCCGCTTAGTTTTGCATGATTTTTGGCACCGAGACTCTAAGAAATATCTATATTCTTCAAATC
          1 CCCCAGCTTAGTTTTGCATGATTTTTGGCACCAAGACTCCAAGAAATATCTATATTCTTCAAATC

               *  **                *          *      *           *  *       
         76 AATTTCTGCCACATTGAATTTAAGTATTTTTTTACGAGCATATAAATCTTGTTTTGATTTAATTA
         66 AATATCAACCACATTGAATTTAAGAATTTTTTTACAAGCATACAAATCTTGTTTCGAATTAATTA

                                                              *             *
        141 AAAATTAATTCAAAAAAATAAGAAAAACGATATTAAAACGGTGAAAAGTATTCCAATATTTTTTT
        131 AAAATTAATTCAAAAAAATAAGAAAAACGATATTAAAACGGTGAAAAGTACTCCAATATTTTTTG

                 *                                      *              *     
        206 ACATTTAATTATATATATTTTATGAATATTTTAGCCAAAAATTGGCAGAAAAACTTTTTTGGACA
        196 ACATTAAATTATATATATTTTATGAATATTTTAGCCAAAAATTGACAGAAAAACTTTTTGGGACA

            *      *          *     *                                        
        271 TTTTTTGTAAAACTTTAGTCGAAATCGTGTACTAACTATCACAGATTTTAGCTAAAAAGGCGTTT
        261 CTTTTTGCAAAACTTTAGCCGAAACCGTGTACTAACTATCACAGATTTTAGCTAAAAAGGCGTTT

                 
        336 CGGGG
        326 CGGGG

                                                     *                  *    
        341 CCCCAGCTTAGTTTTGCATGATTTTTGGCACCAAGACTCCATGAAATATCTATATTCTTCTAATC
          1 CCCCAGCTTAGTTTTGCATGATTTTTGGCACCAAGACTCCAAGAAATATCTATATTCTTCAAATC

                         *                              *                  * 
        406 AAATATCAACCACGTTGAATTTAAGAATTTGCTTTTACAAGCATCCAAATCTTGTTTCGAATTGA
         66 -AATATCAACCACATTGAATTTAAGAATTT--TTTTACAAGCATACAAATCTTGTTTCGAATTAA

               *                    *             *               *          
        471 TTATAAATTAATTCAAAAAAACTATGAAAAACGATATTGAAA-GCGTGAAAAGTCCTCCAATA-T
        128 TTAAAAATTAATTCAAAAAAA-TAAGAAAAACGATATTAAAACG-GTGAAAAGTACTCCAATATT

                 * *           *          *          *   *     *             
        534 TTTTGGCGTTAAATTATATGTATTTTATGAGTATTTTAGCCCAAATTTGACGGAAAAA-TTTTTC
        191 TTTTGACATTAAATTATATATATTTTATGAATATTTTAGCCAAAAATTGACAGAAAAACTTTTT-

               *              *                    
        598 GGGTCACTTTTTGCAAAATTTTAGCCGAAACCGTGTACT
        255 GGGACACTTTTTGCAAAACTTTAGCCGAAACCGTGTACT

        637 GACGTACACA


Statistics
Matches: 252,  Mismatches: 38, Indels: 9
        0.84            0.13        0.03

Matches are distributed among these distances:
 330   60  0.24
 331   24  0.10
 332    5  0.02
 333  129  0.51
 334   34  0.13

ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37


Consensus pattern (330 bp):   
CCCCAGCTTAGTTTTGCATGATTTTTGGCACCAAGACTCCAAGAAATATCTATATTCTTCAAATC
AATATCAACCACATTGAATTTAAGAATTTTTTTACAAGCATACAAATCTTGTTTCGAATTAATTA
AAAATTAATTCAAAAAAATAAGAAAAACGATATTAAAACGGTGAAAAGTACTCCAATATTTTTTG
ACATTAAATTATATATATTTTATGAATATTTTAGCCAAAAATTGACAGAAAAACTTTTTGGGACA
CTTTTTGCAAAACTTTAGCCGAAACCGTGTACTAACTATCACAGATTTTAGCTAAAAAGGCGTTT
CGGGG
Done.