Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001934.1 Corchorus capsularis cultivar CVL-1 contig01936, 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, 634

Length: 1057
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28


Found at i:54 original size:17 final size:18

Alignment explanation


    Indices: 34--75  Score: 61
    Period size: 17  Copynumber: 2.4  Consensus size: 18

         24 TATTTAAAAG

                      *       
         34 TAAATATA-CGATAAATA
          1 TAAATATATCAATAAATA

                              
         51 TAAATA-ATCAATAAATA
          1 TAAATATATCAATAAATA

                    
         68 TAAATATA
          1 TAAATATA

         76 AATAATCAAT


Statistics
Matches: 22,  Mismatches: 1, Indels: 3
        0.85            0.04        0.12

Matches are distributed among these distances:
  16    1  0.05
  17   20  0.91
  18    1  0.05

ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31


Consensus pattern (18 bp):   
TAAATATATCAATAAATA

Found at i:70 original size:23 final size:23

Alignment explanation


    Indices: 44--105  Score: 106
    Period size: 23  Copynumber: 2.6  Consensus size: 23

         34 TAAATATACG

                                   
         44 ATAAATATAAATAATCAATAAAT
          1 ATAAATATAAATAATCAATAAAT

                                   
         67 ATAAATATAAATAATCAATAAAT
          1 ATAAATATAAATAATCAATAAAT

                            
         90 ATAAATAAATAAATAA
          1 ATAAAT--ATAAATAA

        106 AAGGCCACTC


Statistics
Matches: 37,  Mismatches: 0, Indels: 2
        0.95            0.00        0.05

Matches are distributed among these distances:
  23   29  0.78
  25    8  0.22

ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29


Consensus pattern (23 bp):   
ATAAATATAAATAATCAATAAAT

Found at i:867 original size:31 final size:31

Alignment explanation


    Indices: 826--885  Score: 111
    Period size: 31  Copynumber: 1.9  Consensus size: 31

        816 GCTTTTGGTT

                                           
        826 TTTTCATGTTGTCAAAGAGTTGAACAATGGG
          1 TTTTCATGTTGTCAAAGAGTTGAACAATGGG

                 *                       
        857 TTTTCGTGTTGTCAAAGAGTTGAACAATG
          1 TTTTCATGTTGTCAAAGAGTTGAACAATG

        886 AAAATAGATG


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

Matches are distributed among these distances:
  31   28  1.00

ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37


Consensus pattern (31 bp):   
TTTTCATGTTGTCAAAGAGTTGAACAATGGG
Done.