Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018368.1 Corchorus olitorius cultivar O-4 contig18401, 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: 2780
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35


Found at i:866 original size:332 final size:333

Alignment explanation


    Indices: 1--1060  Score: 1700
    Period size: 332  Copynumber: 3.2  Consensus size: 333

                                   *             *         **                
          1 TGAATCTTGTTTCGATTTAATTATAAATTTAA-TCATAAAAAAATATTTAAAACGATATTAAAAA
          1 TGAATCTTGTTTCGATTTAATTAGAAA-TTAATTCA-GAAAAAATATGAAAAACGATATTAAAAA

                         *     *             *   * *       *                 
         65 CGTT-AAAAGTCCCCGAATCTTTTTGGCGTTAAATTACACATATTTTCTGAGTATTTTATCCAAA
         64 C-TTGAAAAGTCCTCGAATATTTTTGGCGTTAAGTTATATATATTTTATGAGTATTTTATCCAAA

                  *            *                    *    *               *   
        129 AATTGACGAAAAATTTTTCACGGTCATTTTTTGCAAAATTCTAGCTAAAATCGTGTACT--TCAT
        128 AATTGAGGAAAAATTTTTCGCGGTCATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAACCAT

                               **                           *           *    
        192 CACGGTTTTTTGCTAAAAATACGTTTCGGGAACCCGGCTCAGTTTTGCCTGATTTTTGGCTTCAA
        193 CACGGTTTTTTGCTAAAAACGCGTTTCGGGAACCCGGCTCAGTTTTGCATGATTTTTGGCGTCAA

                                                             *               
        257 GACTCCTTGAAATATCTATATTCATCTAATAAAAACTTAGCCATGTAGCGTTTAAGGATTTGTTT
        258 GACTCCTTGAAATATCTATATTCATCTAATAAAAACTTAGCCATGTAGCATTTAAGGATTTGTTT

                       
        322 TTACGAGCATT
        323 TTACGAGCATT

                                         *                                *  
        333 TGAATCTTGTTTCGATTTAATTAGAAATTTATTCAGAAAAAATATGAAAAACGATATTAAAAGCT
          1 TGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAACT

                                                                             
        398 TGAAAAGTCCTCGAATATTTTTGGCGTTAAGTTATATATATTTTATGAGTATTTTATCCAAAAAT
         66 TGAAAAGTCCTCGAATATTTTTGGCGTTAAGTTATATATATTTTATGAGTATTTTATCCAAAAAT

                     *          *                                            
        463 TGAGGAAAAGTTTTTCGCGGACATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAACCATCAC
        131 TGAGGAAAAATTTTTCGCGGTCATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAACCATCAC

                   *                   *               *                     
        528 GGTTTTTGGCTAAAAACGCGTTTCGGGGACCCGGCTCAGTTTTTCATGATTTTTGGCGTCAAGAC
        196 GGTTTTTTGCTAAAAACGCGTTTCGGGAACCCGGCTCAGTTTTGCATGATTTTTGGCGTCAAGAC

                                               *              *              
        593 TCCTTGAAATATCTATATTCATCTAATAAAAACTTGGCCATGTAGCATTTGAGGATTTGTTTTTA
        261 TCCTTGAAATATCTATATTCATCTAATAAAAACTTAGCCATGTAGCATTTAAGGATTTGTTTTTA

                    
        658 CGAGCATT
        326 CGAGCATT

                                                                             
        666 TGAATCTTGTTTCGATTTAATTAGAAATTAATTCA-AAAAAATATGAAAAACGATATTAAAAACT
          1 TGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAACT

                        *                                          *         
        730 TGAAAAGTCCTCTAATATTTTTGGCGTTAAGTTATATATATTTTATGAGTATTTTTTCCAAAAAT
         66 TGAAAAGTCCTCGAATATTTTTGGCGTTAAGTTATATATATTTTATGAGTATTTTATCCAAAAAT

                      *                                        *             
        795 TGAGGAAAAACTTTTCGCGGTCATTTTTTGCAAAATTTTAGCCAAAATCGTATACTAACCATCAC
        131 TGAGGAAAAATTTTTCGCGGTCATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAACCATCAC

                               *      *      *                    *          
        860 GGTTTTTTGCTAAAAACGCATTTCGGAAACCCGACTCAGTTTTGCATGATTTTTTGCGTCAAGAC
        196 GGTTTTTTGCTAAAAACGCGTTTCGGGAACCCGGCTCAGTTTTGCATGATTTTTGGCGTCAAGAC

                                           *        *                        
        925 TCCTTGAAATATCTATATTCATCTAATAAAAGCTTAGCCACGTAGCATTTAAGGATTTGTTTTTA
        261 TCCTTGAAATATCTATATTCATCTAATAAAAACTTAGCCATGTAGCATTTAAGGATTTGTTTTTA

                    
        990 CGAGCATT
        326 CGAGCATT

                                                                            
        998 TGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATG-AAAACGATATTAAAAAC
          1 TGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAAC

       1061 GTGGTTTTAA


Statistics
Matches: 675,  Mismatches: 48, Indels: 10
        0.92            0.07        0.01

Matches are distributed among these distances:
 330    2  0.00
 331  135  0.20
 332  360  0.53
 333  178  0.26

ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37


Consensus pattern (333 bp):   
TGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAACT
TGAAAAGTCCTCGAATATTTTTGGCGTTAAGTTATATATATTTTATGAGTATTTTATCCAAAAAT
TGAGGAAAAATTTTTCGCGGTCATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAACCATCAC
GGTTTTTTGCTAAAAACGCGTTTCGGGAACCCGGCTCAGTTTTGCATGATTTTTGGCGTCAAGAC
TCCTTGAAATATCTATATTCATCTAATAAAAACTTAGCCATGTAGCATTTAAGGATTTGTTTTTA
CGAGCATT
Done.