Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011610.1 Corchorus olitorius cultivar O-4 contig11643, 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, 903

Length: 1505
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:1042 original size:154 final size:153

Alignment explanation


    Indices: 763--1503  Score: 1222
    Period size: 154  Copynumber: 4.8  Consensus size: 153

        753 TGGCGCATCA

                    *                *                                       
        763 GATAGGCCAAAAATAACAAGTGTTCTAAATGAGCTAAAACTTCAAAGTGGACTAATCTCACCAAA
          1 GATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAACTTCAAAGTGGACTAATCTCACCAAA

              *       *                                                      
        828 ATAATTATAGATAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGAAGAT
         66 ATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGAAGAT

                *                  
        893 TCAATACGTCACTAATGGGCCCC
        131 TCAAAACGTCACTAATGGGCCCC

                                                                             
        916 GATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAATCTTCACAA-TGGACTAATCTCACCA
          1 GATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA-CTTCA-AAGTGGACTAATCTCACCA

                                                                           * 
        980 AAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACG
         64 AAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGAAG

                                     *
       1045 ATTCAAAACGTCACTAATGGGACCCA
        129 ATTCAAAACGTCACTAATGGG-CCCC

                                            *                                
       1071 GATAGGCCCAAAATAACAAGTGTTCCAAATGAACTAAAACTTCAAAGTGGACTAATCTCACCAAA
          1 GATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAACTTCAAAGTGGACTAATCTCACCAAA

                                                            **               
       1136 ATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATT-AGGTTTATCAAATCGAAGAAGAT
         66 ATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGAAGAT

                *                  
       1200 TCAATACGTCACTAATGGGCCCC
        131 TCAAAACGTCACTAATGGGCCCC

                                                                             
       1223 GATAGGCCCAAATATAACAAGTGTTCCAAATGAGCTAGAAACTTCACAA-TGGACTAATCTCACC
          1 GATAGGCCCAAA-ATAACAAGTGTTCCAAATGAGCTA-AAACTTCA-AAGTGGACTAATCTCACC

                                                                            *
       1287 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGAC
         63 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGAA

                           *     *    
       1352 GATTCAAAACGTCACAAATGGACCCC
        128 GATTCAAAACGTCACTAATGGGCCCC

                    *                                                        
       1378 GATAGGCCAAAAATAACAAGTGTTCCAAATGAGCTAAAACTTCGAAAGTGGACTAAGTCTCACCA
          1 GATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAACTTC-AAAGTGGACTAA-TCTCACCA

                     *                                        *            
       1443 AAATGATTANAGTTAGGCCATAAACAATGGAAAG-AAAGCATT-AGGTTTACCAAATCGAAGA
         64 AAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGA

       1504 GA


Statistics
Matches: 554,  Mismatches: 23, Indels: 22
        0.92            0.04        0.04

Matches are distributed among these distances:
 152   15  0.03
 153  127  0.23
 154  275  0.50
 155  137  0.25

ACGTcount: A:0.42, C:0.18, G:0.18, T:0.21


Consensus pattern (153 bp):   
GATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAACTTCAAAGTGGACTAATCTCACCAAA
ATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGAAGAT
TCAAAACGTCACTAATGGGCCCC

Done.