Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002332.1 Corchorus olitorius cultivar O-4 contig02332, 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, 713

Length: 1189
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33


Found at i:749 original size:332 final size:328

Alignment explanation


    Indices: 40--1185  Score: 1315
    Period size: 332  Copynumber: 3.5  Consensus size: 328

         30 CTAAAACGAT

                   *  *       *     *            * **      * *     *  *      
         40 GTTTCGGAGCTCCGACTCGGTTTTGCATGATTTTTGGTGTTAAGACTGACTGAAATATTTCTATT
          1 GTTTCGGGGCCCCGACTCAGTTTTACATGATTTTTGGCGACAAGACTCATTGAAAAATCTCTATT

            * **   *                                 * * *                   
        105 AATTTAAGC-AATTCTCAGCCACATTGGATTGAAGGATTTGATCTAACGAGCATCAGAAACCGAT
         66 CAGCTAACCAAATT-TCAGCCACATTGGATTGAAGGATTTGTTTTTACGAGCATCAGAAACCGAT

                                    *           *                            
        169 TTCGATTGAACTAGAAATTAATTCTGAAAAAATAGGAAAAATGATATTAGAAGCGTCACAAGCCT
        130 TTCGATTGAA-TAGAAATTAATTCAGAAAAAATAGGGAAAATGATATTAGAAGCGTCA-AAGCC-

                         *                  *                                
        234 TCCAATATTTTTGTTGTTGAATTATATATTTTAATGAGTATTTTGGCCAAAAATTAAGGAAAAAT
        192 TCCAATATTTTTGCTGTTGAATTATATATTTTTATGAGTATTTTGGCCAAAAATTAAGGAAAAAT

                           *       *  *                    *    *           *
        299 ATTTCGGGTCAATTTCTGCAAAAATTAAGCCGAAATCGTGTACTAACAATCATGGTATTTGGCTG
        257 ATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTATTTGGCTA

                   
        364 AAAACGC
        322 AAAACGC

                                    **                                      *
        371 G-TTCTGGGGCCCCGACTCAGTTTCCCATGATTTTTGGCGACAAGACTCATTGAAAAATCTCTAC
          1 GTTTC-GGGGCCCCGACTCAGTTTTACATGATTTTTGGCGACAAGACTCATTGAAAAATCTCTAT

                      *                 *  *   *                          *  
        435 TCAGCTAACCGAATTTCAGCCACATTGGGTTTAAGTATTTGTTTTTACGAGCATCAGAAACCAAT
         65 TCAGCTAACCAAATTTCAGCCACATTGGATTGAAGGATTTGTTTTTACGAGCATCAGAAACCGAT

                   *     *     *                     *       *   *  *        
        500 TTCGATTCAAGTACAAATTTATTCAGAAAAAATAGGGAAAACGATATTAAAAGTGTGAATAGCCG
        130 TTCGATTGAA-TAGAAATTAATTCAGAAAAAATAGGGAAAATGATATTAGAAGCGTCAA-AGCC-

                          *           *                      *       *  *    
        565 TCCAATATTTTTGCAGTTGAATTATACATTTTCTA-G-GTTATTTTGGCAAAAAATTGAGAAATA
        192 TCCAATATTTTTGCTGTTGAATTATATATTTT-TATGAG-TATTTTGGCCAAAAATTAAGGAA-A

                                                      *                      
        628 AATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTTTACTAACCATCACGGTATTTGG
        254 AATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTATTTGG

                      
        693 CTAAAAACGC
        319 CTAAAAACGC

                             *      *              *               *    *    
        703 GTTTCGGGGCCCCGACTTAGTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCTTTATT
          1 GTTTCGGGGCCCCGACTCAGTTTTACATGATTTTTGGCGACAAGACTCATTGAAAAATCTCTATT

               *         *                *                      *      *    
        768 CAGGTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATTAGAAACTGATT
         66 CAGCTAACCAAATTTCAGCCACATTGGATTGAAGGATTTGTTTTTACGAGCATCAGAAACCGATT

                                  *            *                             
        833 TCGATTGAATCAGAAATTAATTTAGAAAAAATAGCAGAAAATGATATTAGAAGCGTCAAAAGCCT
        131 TCGATTGAAT-AGAAATTAATTCAGAAAAAATAG-GGAAAATGATATTAGAAGCGTC-AAAGCCT

               *        *                             *                      
        898 ---TTATTTTTGGTGTTGAATTATATATTTTTATGAGTATTTAGGCCAAAAATTAAGGAAAAATA
        193 CCAATATTTTTGCTGTTGAATTATATATTTTTATGAGTATTTTGGCCAAAAATTAAGGAAAAATA

                                                       * *               *   
        960 TTTCGGGTCAATTTTTGCAAAAAATTTTA-CCGAAATCGTGTATTGACCATCACGGTATTTAGCT
        258 TTTCGGGTCAATTTTTGC--AAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTATTTGGCT

                   *
       1024 AAAAACGT
        321 AAAAACGC

            *         * *                                *           *       
       1032 ATTTCGGGGCTCTGACTCAGTTTTACATGATTTTTGGCGTTA-AATA-TCATTGAAACATCTCTA
          1 GTTTCGGGGCCCCGACTCAGTTTTACATGATTTTTGGCG--ACAAGACTCATTGAAAAATCTCTA

                     **    *     *   *                   *                   
       1095 TTCAGCTAAGAAAATGTCAGCAACAATGGATTGAAGGATTTGTTTCTACGAGCATCAGAAACCGA
         64 TTCAGCTAACCAAATTTCAGCCACATTGGATTGAAGGATTTGTTTTTACGAGCATCAGAAACCGA

                   *                   
       1160 TTTC-ACCTGAATTAGAAATTAATTCA
        129 TTTCGA-TTGAA-TAGAAATTAATTCA

       1186 AGAA


Statistics
Matches: 690,  Mismatches: 107, Indels: 38
        0.83            0.13        0.05

Matches are distributed among these distances:
 328   26  0.04
 329  206  0.30
 330   19  0.03
 331  199  0.29
 332  214  0.31
 333   24  0.03
 334    2  0.00

ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33


Consensus pattern (328 bp):   
GTTTCGGGGCCCCGACTCAGTTTTACATGATTTTTGGCGACAAGACTCATTGAAAAATCTCTATT
CAGCTAACCAAATTTCAGCCACATTGGATTGAAGGATTTGTTTTTACGAGCATCAGAAACCGATT
TCGATTGAATAGAAATTAATTCAGAAAAAATAGGGAAAATGATATTAGAAGCGTCAAAGCCTCCA
ATATTTTTGCTGTTGAATTATATATTTTTATGAGTATTTTGGCCAAAAATTAAGGAAAAATATTT
CGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTATTTGGCTAAAAA
CGC

Done.