Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021222.1 Corchorus olitorius cultivar O-4 contig21255, 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: 2239
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36


Found at i:693 original size:6 final size:6

Alignment explanation


    Indices: 679--731  Score: 52
    Period size: 6  Copynumber: 8.2  Consensus size: 6

        669 TTTCCCCTTT

                *                               *                      
        679 TTTTTC TTTTCC TTTTCCC TTTTTCC TTTTTCT TTTCTCC TTTTCC TTTTCC
          1 TTTTCC TTTTCC TTTT-CC -TTTTCC -TTTTCC TTT-TCC TTTTCC TTTTCC

             
        731 T
          1 T

        732 CCCCTTTTTT


Statistics
Matches: 41,  Mismatches: 3, Indels: 6
        0.82            0.06        0.12

Matches are distributed among these distances:
   6   22  0.54
   7   15  0.37
   8    4  0.10

ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70


Consensus pattern (6 bp):   
TTTTCC

Found at i:702 original size:14 final size:13

Alignment explanation


    Indices: 685--728  Score: 61
    Period size: 14  Copynumber: 3.2  Consensus size: 13

        675 CTTTTTTTTC

                          
        685 TTTTCCTTTTCCCT
          1 TTTTCCTTTT-CCT

                      *  
        699 TTTTCCTTTTTCT
          1 TTTTCCTTTTCCT

                          
        712 TTTCTCCTTTTCCT
          1 TTT-TCCTTTTCCT

               
        726 TTT
          1 TTT

        729 CCTCCCCTTT


Statistics
Matches: 27,  Mismatches: 2, Indels: 2
        0.87            0.06        0.06

Matches are distributed among these distances:
  13    5  0.19
  14   22  0.81

ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70


Consensus pattern (13 bp):   
TTTTCCTTTTCCT

Found at i:707 original size:20 final size:21

Alignment explanation


    Indices: 678--731  Score: 76
    Period size: 20  Copynumber: 2.7  Consensus size: 21

        668 ATTTCCCCTT

                 *               
        678 TTTTTTCTTTTCCTTTTC-CC
          1 TTTTTCCTTTTCCTTTTCTCC

                       *         
        698 TTTTTCCTTTTTCTTTTCTCC
          1 TTTTTCCTTTTCCTTTTCTCC

                          
        719 -TTTTCCTTTTCCT
          1 TTTTTCCTTTTCCT

        732 CCCCTTTTTT


Statistics
Matches: 30,  Mismatches: 3, Indels: 2
        0.86            0.09        0.06

Matches are distributed among these distances:
  20   28  0.93
  21    2  0.07

ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70


Consensus pattern (21 bp):   
TTTTTCCTTTTCCTTTTCTCC

Done.