Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011534.1 Corchorus olitorius cultivar O-4 contig11567, 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, 682

Length: 1137
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25


Found at i:459 original size:154 final size:154

Alignment explanation


    Indices: 1--494  Score: 747
    Period size: 154  Copynumber: 3.1  Consensus size: 154

                                    *                             *          
          1 CTCACCAAAATGATTATAGTTAGGGCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATC
          1 CTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATC

                             *            *                               *  
         66 GAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATTAG
         66 GAAGACGATTCAAAACGAAACTAATGGGCCTCGATAGGCCCAAAATAACAAGTGTTCCAAATAAG

                  *                    
        131 CTAAAATCTTCACAGTGGACTAATCGT
        131 CTAAAAACTTCACAGTGGACTAA---T

                                   *                                   *     
        158 CTCACCAAAATGATTATAGTTAGACCATAAACAACTTGGAAAGAAAAGCATTGAGGTTTTCCAAA
          1 CTCACCAAAATGATTATAGTTAGGCCATAAACAA--TGGAAAGAAAAGCATTGAGGTTTGCCAAA

                                **          *                                
        223 TCGAAGACGGATTCAAAACGTCACTAAAT-GGTCTCCGATAAGGCCCAAAAATAACAAGTGTTCC
         64 TCGAAGAC-GATTCAAAACGAAACT-AATGGGCCT-CGAT-AGGCCC-AAAATAACAAGTGTTCC

                *                      *   
        287 AAATGAGCTAAAAACTTCACAGTGGACGAAT
        124 AAATAAGCTAAAAACTTCACAGTGGACTAAT

                                                                             
        318 CTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATC
          1 CTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATC

                 **                                *                         
        383 GAAGATAATTCAAAACGAAACTAATGGGCCTCGATAGGCACAAAATAACAAGTGTTCCAAATAAG
         66 GAAGACGATTCAAAACGAAACTAATGGGCCTCGATAGGCCCAAAATAACAAGTGTTCCAAATAAG

                                    
        448 CTAAAAACTTCACAGTGGACTAAT
        131 CTAAAAACTTCACAGTGGACTAAT

                                   
        472 CTCACCAAAATGATTATAGTTAG
          1 CTCACCAAAATGATTATAGTTAG

        495 TGATACGAAT


Statistics
Matches: 308,  Mismatches: 21, Indels: 19
        0.89            0.06        0.05

Matches are distributed among these distances:
 154   69  0.22
 155    5  0.02
 156    7  0.02
 157   49  0.16
 158   35  0.11
 159   35  0.11
 160   51  0.17
 161    7  0.02
 162    6  0.02
 163   44  0.14

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


Consensus pattern (154 bp):   
CTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATC
GAAGACGATTCAAAACGAAACTAATGGGCCTCGATAGGCCCAAAATAACAAGTGTTCCAAATAAG
CTAAAAACTTCACAGTGGACTAAT
Done.