Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014439.1 Corchorus olitorius cultivar O-4 contig14472, 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: 16485
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32


Found at i:2920 original size:29 final size:29

Alignment explanation


    Indices: 2628--2919  Score: 324
    Period size: 29  Copynumber: 10.1  Consensus size: 29

       2618 TAGAGCATTC

                                         
       2628 AAAATGACCAAAATGCCCCTGGATGAGCA
          1 AAAATGACCAAAATGCCCCTGGATGAGCA

                             *  *    * * 
       2657 AAAATGACC-AAATGCCTCTAGATGTGTA
          1 AAAATGACCAAAATGCCCCTGGATGAGCA

                  *             *    *   
       2685 AAAATGGCCAAAATGCCCCTAGATGTGCA
          1 AAAATGACCAAAATGCCCCTGGATGAGCA

                               *          
       2714 AAAATGACCAAAATGCCCCGGGATGAGCAA
          1 AAAATGACCAAAATGCCCCTGGATGAGC-A

                                      *   
       2744 AAAATGACCAAAATGCCCC-GAGATGTGCA
          1 AAAATGACCAAAATGCCCCTG-GATGAGCA

                              *  *  **   
       2773 AAAATGACCAAAATGCCCGTGAATTTGCA
          1 AAAATGACCAAAATGCCCCTGGATGAGCA

                               *         
       2802 AAAATGACCAAAATGCCCCGGGATGAGC-
          1 AAAATGACCAAAATGCCCCTGGATGAGCA

                          *         *  *   
       2830 AAAATGACCAAAAACGCCCCT-GAAGTTGCA
          1 AAAATGACC-AAAATGCCCCTGGATG-AGCA

                              *    *      
       2860 AAAATGACCAAAATGCCCAT-GAAGATGCA
          1 AAAATGACCAAAATGCCCCTGGATGA-GCA

              *                          
       2889 AATATGACCAAAATGCCCCTGGATGAGCA
          1 AAAATGACCAAAATGCCCCTGGATGAGCA

              
       2918 AA
          1 AA

       2920 TGATCAATTA


Statistics
Matches: 224,  Mismatches: 30, Indels: 18
        0.82            0.11        0.07

Matches are distributed among these distances:
  28   35  0.16
  29  149  0.67
  30   40  0.18

ACGTcount: A:0.42, C:0.23, G:0.20, T:0.15


Consensus pattern (29 bp):   
AAAATGACCAAAATGCCCCTGGATGAGCA

Found at i:14160 original size:9 final size:9

Alignment explanation


    Indices: 14146--14172  Score: 54
    Period size: 9  Copynumber: 3.0  Consensus size: 9

      14136 CAATAAACAT

                     
      14146 CAAAACAAA
          1 CAAAACAAA

                     
      14155 CAAAACAAA
          1 CAAAACAAA

                     
      14164 CAAAACAAA
          1 CAAAACAAA

      14173 GCAACTGTTT


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   9   18  1.00

ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00


Consensus pattern (9 bp):   
CAAAACAAA
Done.