Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011069.1 Corchorus olitorius cultivar O-4 contig11102, 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, 751

Length: 1252
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25


Found at i:854 original size:154 final size:154

Alignment explanation


    Indices: 640--1250  Score: 949
    Period size: 154  Copynumber: 3.9  Consensus size: 154

        630 TTAGCGCATC

                   *   *       *                  *                *         
        640 ATTATAGATAGTCAATAAACAATGGAAAGAAAAGCATTTAGGTTTGCCAAATCGAGGACGATTCA
          1 ATTATAGTTAGGCAATAAAAAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCA

               *      *                                                      
        705 AAATGGAACTGATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCA
         66 AAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCA

                                    
        770 CAGTGGACTAATCTCACCAAAATG
        131 CAGTGGACTAATCTCACCAAAATG

                       * *                                                   
        794 ATTATAGTTAGTCCATAAAAAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCA
          1 ATTATAGTTAGGCAATAAAAAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCA

                                      *  *                                   
        859 AAACGGAACTAATGGGCCCCGATAGGTCCTAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCA
         66 AAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCA

                        *           
        924 CAGTGGACTAATATCACCAAAATG
        131 CAGTGGACTAATCTCACCAAAATG

                         *                                                   
        948 ATTATAGTTAGGCCATAAAAAATGG-AAG-AAAGCATTGACGG-TTGCCAAATCGAAGGACGAGT
          1 ATTATAGTTAGGCAATAAAAAATGGAAAGAAAAGCATTGA-GGTTTGCCAAATCGAA-GACGA-T

                    **                    *                                  
       1010 TCAAAACGTCACTAATGGGCCCCGATAGGCTCAAAATAACAAGTGTTCCAAATGAGCTAAAAACT
         63 TCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACT

                                       
       1075 TCACAGTGGACTAATCTCACCAAAATG
        128 TCACAGTGGACTAATCTCACCAAAATG

                                                        *          *         
       1102 ATTATAGTTAGGGCAATAAAAAATGGAAAGAAATAGCATTGAGGGTTGCCAAATCAAAGACGATT
          1 ATTATAGTTA-GGCAATAAAAAATGGAAAGAAA-AGCATTGAGGTTTGCCAAATCGAAGACGATT

            *                   * *   *                                      
       1167 TAAAACGGAACTAATGGGCCTCAATATGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTT
         64 CAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTT

                               
       1232 CACAGTGGACTAATACTCA
        129 CACAGTGGACTAAT-CTCA

       1251 AC


Statistics
Matches: 422,  Mismatches: 26, Indels: 15
        0.91            0.06        0.03

Matches are distributed among these distances:
 152   23  0.05
 153   10  0.02
 154  265  0.63
 155   14  0.03
 156   77  0.18
 157   13  0.03
 158   20  0.05

ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22


Consensus pattern (154 bp):   
ATTATAGTTAGGCAATAAAAAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCA
AAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCA
CAGTGGACTAATCTCACCAAAATG
Done.