Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001879.1 Corchorus olitorius cultivar O-4 contig01879, 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, 667

Length: 1113
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.40


Found at i:269 original size:15 final size:16

Alignment explanation


    Indices: 238--272  Score: 54
    Period size: 15  Copynumber: 2.2  Consensus size: 16

        228 TCACTTTGCT

                            
        238 TTGTTTTCTAGTTTAA
          1 TTGTTTTCTAGTTTAA

                      *     
        254 TTGTTTTCT-TTTTAA
          1 TTGTTTTCTAGTTTAA

                
        269 TTGT
          1 TTGT

        273 GATTCTTAAC


Statistics
Matches: 18,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  15    9  0.50
  16    9  0.50

ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69


Consensus pattern (16 bp):   
TTGTTTTCTAGTTTAA

Found at i:740 original size:26 final size:26

Alignment explanation


    Indices: 703--753  Score: 68
    Period size: 26  Copynumber: 2.0  Consensus size: 26

        693 TTGTTTGTGT

                                      
        703 TTTTGCGTTTTTACTAAAAAAAAAAC
          1 TTTTGCGTTTTTACTAAAAAAAAAAC

                          * *         
        729 TTTTGTCG-TTTTATTTAAAAAAAAA
          1 TTTTG-CGTTTTTACTAAAAAAAAAA

        754 GTACTTTTCT


Statistics
Matches: 22,  Mismatches: 2, Indels: 2
        0.85            0.08        0.08

Matches are distributed among these distances:
  26   20  0.91
  27    2  0.09

ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43


Consensus pattern (26 bp):   
TTTTGCGTTTTTACTAAAAAAAAAAC

Done.