Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018698.1 Corchorus olitorius cultivar O-4 contig18731, 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, 1000

Length: 16333
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31


Found at i:3178 original size:75 final size:75

Alignment explanation


    Indices: 2955--3184  Score: 237
    Period size: 75  Copynumber: 3.1  Consensus size: 75

       2945 TCAGTATTAA

                 *      * *      *                        *             *  **
       2955 AATTCGAAACAGCATCCTGATTAGGTGAATCAACTTCAAGATGTTGTCTATCATCATTC-TGATG
          1 AATTCAAAACAGAAACCTGATAAGGTGAATCAACTTCAAGATGTTGCCTATCATCA-TCAGGAAA

                 *    *
       3019 CTCAAAATTTA
         65 CTCAATATTTG

                    *              *        *              *            *    
       3030 AATTCAAATCAGAAACCTGATAAAGTGAATCAGCTTCAAGATGTTGCATATCATCATCAGAAAAC
          1 AATTCAAAACAGAAACCTGATAAGGTGAATCAACTTCAAGATGTTGCCTATCATCATCAGGAAAC

             * *      
       3095 TTAGTATTTG
         66 TCAATATTTG

                        *  *                *                 *  *           
       3105 AATTCAAAACAGGAATCTGATAAGGTGAATCATCTTCAAGATGTTGCCTAACACCATCAGGAAAC
          1 AATTCAAAACAGAAACCTGATAAGGTGAATCAACTTCAAGATGTTGCCTATCATCATCAGGAAAC

               *      
       3170 TCATTATTTG
         66 TCAATATTTG

                 
       3180 AATTC
          1 AATTC

       3185 GAATTAACAA


Statistics
Matches: 126,  Mismatches: 28, Indels: 2
        0.81            0.18        0.01

Matches are distributed among these distances:
  74    2  0.02
  75  124  0.98

ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30


Consensus pattern (75 bp):   
AATTCAAAACAGAAACCTGATAAGGTGAATCAACTTCAAGATGTTGCCTATCATCATCAGGAAAC
TCAATATTTG

Found at i:10110 original size:21 final size:21

Alignment explanation


    Indices: 10084--10133  Score: 91
    Period size: 21  Copynumber: 2.4  Consensus size: 21

      10074 CGGCCATCCA

                                 
      10084 CCGTGCCACCACCGGTTAAGC
          1 CCGTGCCACCACCGGTTAAGC

                              *  
      10105 CCGTGCCACCACCGGTTATGC
          1 CCGTGCCACCACCGGTTAAGC

                    
      10126 CCGTGCCA
          1 CCGTGCCA

      10134 TCATCATTCC


Statistics
Matches: 28,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  21   28  1.00

ACGTcount: A:0.16, C:0.44, G:0.24, T:0.16


Consensus pattern (21 bp):   
CCGTGCCACCACCGGTTAAGC
Done.