Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011740.1 Corchorus olitorius cultivar O-4 contig11773, 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, 607

Length: 1013
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22


Found at i:616 original size:154 final size:154

Alignment explanation


    Indices: 243--1010  Score: 1119
    Period size: 154  Copynumber: 5.0  Consensus size: 154

        233 AAACTTACAG

                  *                   *           *   *                      
        243 AACTAACGGGCCCCGATAGGCCCAAAGTAACAAGTGTTTCAATTGAGCTAAAAACTTCACAGTGG
          1 AACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGG

                                                             *          *    
        308 ACTAATCTCACCAAAATGATTATAGTTAGGCCATTAAACAATGGAAAAAAAAAAGCATTGGGGTT
         66 ACTAATCTCACCAAAATGATTATAGTTAGGCCA-TAAACAATGG--AAAGAAAAGCATTGAGGTT

                    *  *             * 
        373 TGCCAAATTGACGACGATTCAAAACAT
        128 TGCCAAATCGAAGACGATTCAAAACGT

                            *                              *      *   *      
        400 AACT-ATGGGCCCCGAAAGGCCCAAAATAACAAGTGTTCCAAATGAGTTAAAAATTTCCCAGTGG
          1 AACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGG

                            *                                         *      
        464 ACTAATCTCACCAAAAGGATTATAGTTAGGCCATAAACTAAT-GAAAGAAAAGCATTGGGGTTTG
         66 ACTAATCTCACCAAAATGATTATAGTTAGGCCATAAAC-AATGGAAAGAAAAGCATTGAGGTTTG

                 * *   *            *
        528 CCAAAACAAAGGCGATTCAAAACGG
        130 CCAAATCGAAGACGATTCAAAACGT

               *    *       *                  *                             
        553 AACGAATGTGCCCCGAAAGGCCCAAAATAACAAGTCTTCCAAATGAGCTAAAAACTTCACAGTGG
          1 AACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGG

                                                       *          *          
        618 ACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAACT-TAAAGAAAAGCTTTGAGGTTTG
         66 ACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAA-TGGAAAGAAAAGCATTGAGGTTTG

                                     
        682 CCAAATCGAAGACGATTCAAAACGT
        130 CCAAATCGAAGACGATTCAAAACGT

            *    *                *          *                               
        707 CACTATTGGGCCCCGATAGGCCAAAAATAACAAATGTTCCAAATGAGCTAAAAACTTCACAGTGG
          1 AACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGG

                             *                                               
        772 ACTAATCTCACCAAAATTATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGC
         66 ACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGC

                      *             
        837 CAAATCGAAGTCGATTCAAAACGT
        131 CAAATCGAAGACGATTCAAAACGT

            *            *    *              *                               
        861 CACTAATGGGCCCTGATACGCCCAAAATAACAAATGTTCCAAATGAGCTAAAAACTTCACAGTGG
          1 AACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGG

                        *    *                                               
        926 ACTAATCTCACCGAAATTATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGC
         66 ACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGC

                      *         
        991 CAAAATCGAATACGATTCAA
        131 C-AAATCGAAGACGATTCAA

       1011 TAC


Statistics
Matches: 556,  Mismatches: 50, Indels: 12
        0.90            0.08        0.02

Matches are distributed among these distances:
 153   44  0.08
 154  399  0.72
 155   22  0.04
 156   87  0.16
 157    4  0.01

ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22


Consensus pattern (154 bp):   
AACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGG
ACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGC
CAAATCGAAGACGATTCAAAACGT

Done.