Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008179.1 Corchorus olitorius cultivar O-4 contig08206, 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, 658

Length: 1097
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40


Found at i:342 original size:15 final size:15

Alignment explanation


    Indices: 312--353  Score: 66
    Period size: 15  Copynumber: 2.7  Consensus size: 15

        302 TTACTCTGCT

                            
        312 TTGTTTTCTAGTTTAA
          1 TTGTTTTCT-GTTTAA

                           
        328 TTGTTTTCTGTTTAA
          1 TTGTTTTCTGTTTAA

               *       
        343 TTGCTTTCTGT
          1 TTGTTTTCTGT

        354 CAACCTCTGC


Statistics
Matches: 25,  Mismatches: 1, Indels: 1
        0.93            0.04        0.04

Matches are distributed among these distances:
  15   16  0.64
  16    9  0.36

ACGTcount: A:0.12, C:0.10, G:0.14, T:0.64


Consensus pattern (15 bp):   
TTGTTTTCTGTTTAA

Found at i:814 original size:29 final size:29

Alignment explanation


    Indices: 754--816  Score: 83
    Period size: 29  Copynumber: 2.2  Consensus size: 29

        744 TTTTGCGTCG

                               *      ** 
        754 AAAAAAAAAAATATTTTTGTGTCATATTT
          1 AAAAAAAAAAATATTTTTGCGTCATAAAT

                                          
        783 AAAAAAAAAAA-ATTTTCTGCGTCATAAAT
          1 AAAAAAAAAAATATTTT-TGCGTCATAAAT

                 
        812 AAAAA
          1 AAAAA

        817 TTTTTTCTTG


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

Matches are distributed among these distances:
  28    5  0.17
  29   25  0.83

ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32


Consensus pattern (29 bp):   
AAAAAAAAAAATATTTTTGCGTCATAAAT
Done.