Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010832.1 Corchorus capsularis cultivar CVL-1 contig10853, 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, 744

Length: 1241
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33


Found at i:859 original size:332 final size:333

Alignment explanation


    Indices: 1--1241  Score: 1982
    Period size: 332  Copynumber: 3.7  Consensus size: 333

                        *                         * *            *       *   
          1 GCGTTCCGGGG-TCCGGCTCAGTTTTGTGTGATTTTTTACGCCAAGAATCCTTTGATTATCGATA
          1 GCGTTCCGGGGCACCGGCTCAGTTTTGTGTGATTTTTTGCACCAAGAATCCTTGGATTATCTATA

                      *                                                      
         65 TTCATCTACCAAAATCTCATCCACATAGGATTTAAAGATTTGATTTTACGAGCATCAGAATCCAG
         66 TTCATCTACCCAAATCTCATCCACATAGGATTTAAAGATTTGATTTTACGAGCATCAGAATCCAG

                *                                             *              
        130 TTTCGATTTAACTGGAAATTAATTCGGAAAAGCATAGGAAAAACTATATTAGAAGCGCGAAAAAC
        131 TTTCAATTTAACTGGAAATTAATTCGGAAAAGCATAGGAAAAACTATATTCGAAGCGCGAAAAAC

                                          *                 *                
        195 CCTTCAAACATTTTGGCGTTG-TTATATATTTTTTTTATAAGTATTTTCGCCAAAAATTGAGGAA
        196 CCTTCAAACATTTTGGCGTTGATT-TATATATTTTTTATAAGTATTTTGGCCAAAAATTGAGGAA

                            *                                     *          
        259 AAATCATTCGGGTCAACTTTTGCAAAATCTTGACCGAAACCGTGTGCTAATCATAACGATTTTTG
        260 AAATCATTCGGGTCAATTTTTGCAAAATCTTGACCGAAACCGTGTGCTAATCATCACGATTTTTG

                     
        324 GCTAAAAAC
        325 GCTAAAAAC

                                *                     *                      
        333 GCGTTCCGGGGCACCGGCTCGGTTTTGTGTGATTTTTTGCACAAAGAATCCTTGGATTATCTATA
          1 GCGTTCCGGGGCACCGGCTCAGTTTTGTGTGATTTTTTGCACCAAGAATCCTTGGATTATCTATA

              *     *          *                      *                      
        398 TTGATCTATCCAAATCTCACCCACATAGGATTTAAAGATTTGTTTTTACGAGCATCAGAATCCAG
         66 TTCATCTACCCAAATCTCATCCACATAGGATTTAAAGATTTGATTTTACGAGCATCAGAATCCAG

                                                          *                  
        463 TTTCAATTTAACTGGAAATTAATTCGGAAAAGCATAGGAAAAAGCTGTATTCGAAGCGCGAAAAA
        131 TTTCAATTTAACTGGAAATTAATTCGGAAAAGCATAGGAAAAA-CTATATTCGAAGCGCGAAAAA

                                                    *                        
        528 CCCTTCAAACATTTTGGCGTTGATTTATATATTTTTTATACGTATTTTGGCCAAAAATTGAGGAA
        195 CCCTTCAAACATTTTGGCGTTGATTTATATATTTTTTATAAGTATTTTGGCCAAAAATTGAGGAA

                                 *                                           
        593 AAATCATTCGGGTCAATTTTTACAAAATCTTGACCGAAACCGTGTGCTAATCATCACGATTTTTG
        260 AAATCATTCGGGTCAATTTTTGCAAAATCTTGACCGAAACCGTGTGCTAATCATCACGATTTTTG

                     
        658 GCT-AAAAC
        325 GCTAAAAAC

                       *                                                     
        666 GCGTTCCAGGGTC-CCGGCTCAGTTTTGTGTGA-TTTTTGCACCAAGAATCCTTGGATTATCTAT
          1 GCGTTCC-GGGGCACCGGCTCAGTTTTGTGTGATTTTTTGCACCAAGAATCCTTGGATTATCTAT

                         *                             *                     
        729 ATTCATCTACCCATATCTCATCCACATAGGATTTAAAGATTTGTTTTTACGAGCAAT-AGAATCC
         65 ATTCATCTACCCAAATCTCATCCACATAGGATTTAAAGATTTGATTTTACGAGC-ATCAGAATCC

             **               *     *                       *                
        793 AACTTCAATTTAACTGGATATTAAATCGGAAAAGCATAGGAAAAAGCTGTATTCGAAGCGCGAAA
        129 AGTTTCAATTTAACTGGAAATTAATTCGGAAAAGCATAGGAAAAA-CTATATTCGAAGCGCGAAA

                                                       *                     
        858 AACCCTTCAAACATTTTGGCGTTGATTTGA-ATATTTTTTATACGTATTTTGGCCAAAAATTGAG
        193 AACCCTTCAAACATTTTGGCGTTGATTT-ATATATTTTTTATAAGTATTTTGGCCAAAAATTGAG

                   *                                                         
        922 GAAAAATTATTCGGGTCAATTTTTGCAAAATCTTGACCGAAACCGTGTGC---TCATCACGATTT
        257 GAAAAATCATTCGGGTCAATTTTTGCAAAATCTTGACCGAAACCGTGTGCTAATCATCACGATTT

                        
        984 TTGGCTAAAAAC
        322 TTGGCTAAAAAC

                                                     *            *          
        996 GCGTTCCGGGGCACCGGCTCAGTTTTGTGTGA-TTTTTGACGCCAAGAATCCTTAGATTATCTAT
          1 GCGTTCCGGGGCACCGGCTCAGTTTTGTGTGATTTTTTG-CACCAAGAATCCTTGGATTATCTAT

                                                                             
       1060 ATTCATCTACCCAAATCTCATCCACATAGGATTTAAAGATTTGATTTTACGAGCATCAGAATCCA
         65 ATTCATCTACCCAAATCTCATCCACATAGGATTTAAAGATTTGATTTTACGAGCATCAGAATCCA

                 *                                                     *     
       1125 GTTTCGATTTAACTGGAAATTAATTCGGAAAAGCATAGGAAAAACTATATTCGAAGCGTAGAAAA
        130 GTTTCAATTTAACTGGAAATTAATTCGGAAAAGCATAGGAAAAACTATATTCGAAGCG-CG-AAA

                              *         *          *            
       1190 AACCCTTCAAACATTTTGACGTTGATTTGTATATTTTTTGTAAGTATTTTGG
        193 AACCCTTCAAACATTTTGGCGTTGATTTATATATTTTTTATAAGTATTTTGG


Statistics
Matches: 846,  Mismatches: 50, Indels: 26
        0.92            0.05        0.03

Matches are distributed among these distances:
 329   22  0.03
 330   52  0.06
 331  123  0.15
 332  319  0.38
 333  181  0.21
 334  147  0.17
 335    2  0.00

ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33


Consensus pattern (333 bp):   
GCGTTCCGGGGCACCGGCTCAGTTTTGTGTGATTTTTTGCACCAAGAATCCTTGGATTATCTATA
TTCATCTACCCAAATCTCATCCACATAGGATTTAAAGATTTGATTTTACGAGCATCAGAATCCAG
TTTCAATTTAACTGGAAATTAATTCGGAAAAGCATAGGAAAAACTATATTCGAAGCGCGAAAAAC
CCTTCAAACATTTTGGCGTTGATTTATATATTTTTTATAAGTATTTTGGCCAAAAATTGAGGAAA
AATCATTCGGGTCAATTTTTGCAAAATCTTGACCGAAACCGTGTGCTAATCATCACGATTTTTGG
CTAAAAAC
Done.