Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008924.1 Corchorus olitorius cultivar O-4 contig08951, 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, 600

Length: 1001
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34


Found at i:786 original size:336 final size:333

Alignment explanation


    Indices: 19--807  Score: 1200
    Period size: 335  Copynumber: 2.4  Consensus size: 333

          9 CGAAATACTC

                            *  *  **    *         *                          
         19 TAAAAAATATATAATTCAATGCTTAAAATTTTGAAGGGGTTTTAACGTTTCTAATATCGTTTTTC
          1 TAAAAAATATATAATTAAACGCCAAAAAGTTTGAAGGGCTTTTAACGTTTCTAATATCGTTTTTC

                            *      *           *                             
         84 CAATGTTTTTACTAATTAATTTCGGATTAAATCGATACAAGAATCAGAAGCTCGTAAAAATATAT
         66 CAATGTTTTTACTAATAAATTTCTGATTAAATCGAAACAAGAATCAGAAGCTCGTAAAAATATAT

                *                           *      *        *                
        149 CCTCCAATCCAATGTGGCTGAGATTTGATTAGTTGAATATAGATATTTTAAGGAGTCTCGGCGCC
        131 CCTCAAATCCAATGTGGCTGAGATTTGATTAGATGAATACAGATATTTCAAGGAGTCTCGGCGCC

                                *    *            *  *    *                * 
        214 AAAAAAGAAGAAAAACTGAGTCGTGGCCGCGGAACGCGGTTTTAGCCAAAAACCGTGATGGTTGG
        196 AAAAAAGAAGAAAAACTGAGCCGTGACCGCGGAACGCGATTATAGCAAAAAACCGTGATGGTTAG

                                            *  *                             
        279 TACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAATTATTTTTCCTCAATTTTTGGCCAC
        261 TACACGATTTCGGCTAAAATTTTGCAAAAATTAACACGAATTATTTTTCCTCAATTTTTGGCCAC

                *   
        344 GATACTCA
        326 GATAATCA

               *            *             *                                 *
        352 TAATAAATATATAATTGAACGCCAAAAAGTATGAAGGGCTTTTAACGTTTCTAATATCGTTTTTA
          1 TAAAAAATATATAATTAAACGCCAAAAAGTTTGAAGGGCTTTTAACGTTTCTAATATCGTTTTTC

                                                                             
        417 CAATGTTTTTTACTAATAAATTTCTGATTAAATCGAAACAAGAATCAGAAGCTCGTAAAAATATA
         66 CAATG-TTTTTACTAATAAATTTCTGATTAAATCGAAACAAGAATCAGAAGCTCGTAAAAATATA

                *            *             *                         *    *  
        482 TCCTTAAATCCAATGTGTCTGAGATTTGATTTGATGAATACAGATATTTCAAGGAGTTTCGGTGC
        130 TCCTCAAATCCAATGTGGCTGAGATTTGATTAGATGAATACAGATATTTCAAGGAGTCTCGGCGC

                      *        *          *                        *  *      
        547 CAAAAAAAGACGAAAAACTTAGCCGTGACCTCGGAACGCGATTATAGCAAAAAACTGTTATGGTT
        195 C-AAAAAAGAAGAAAAACTGAGCCGTGACCGCGGAACGCGATTATAGCAAAAAACCGTGATGGTT

                                                                         *   
        612 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTAACACGAATTATTTTTCCTCAATTTTTTGCC
        259 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTAACACGAATTATTTTTCCTCAATTTTTGGCC

                      
        677 ACGATAATCA
        324 ACGATAATCA

                                                   *                         
        687 TAAAAAAATATATAATTAAACGCCAAAAAGTTTGAAGGGTTTTTAACGTTTCTAATATCGTTTTT
          1 T-AAAAAATATATAATTAAACGCCAAAAAGTTTGAAGGGCTTTTAACGTTTCTAATATCGTTTTT

                                                                    
        752 CCAATGTTTCTTACTAATAAATTTCTGATTAAATCGAAACAAGAATCAGAAGCTCG
         65 CCAATGTTT-TTACTAATAAATTTCTGATTAAATCGAAACAAGAATCAGAAGCTCG

        808 AATTAATTTT


Statistics
Matches: 411,  Mismatches: 41, Indels: 5
        0.90            0.09        0.01

Matches are distributed among these distances:
 333   61  0.15
 334  113  0.27
 335  127  0.31
 336  110  0.27

ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33


Consensus pattern (333 bp):   
TAAAAAATATATAATTAAACGCCAAAAAGTTTGAAGGGCTTTTAACGTTTCTAATATCGTTTTTC
CAATGTTTTTACTAATAAATTTCTGATTAAATCGAAACAAGAATCAGAAGCTCGTAAAAATATAT
CCTCAAATCCAATGTGGCTGAGATTTGATTAGATGAATACAGATATTTCAAGGAGTCTCGGCGCC
AAAAAAGAAGAAAAACTGAGCCGTGACCGCGGAACGCGATTATAGCAAAAAACCGTGATGGTTAG
TACACGATTTCGGCTAAAATTTTGCAAAAATTAACACGAATTATTTTTCCTCAATTTTTGGCCAC
GATAATCA
Done.