Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023645.1 Corchorus olitorius cultivar O-4 contig23678, 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: 2360
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32


Found at i:504 original size:15 final size:15

Alignment explanation


    Indices: 474--515  Score: 75
    Period size: 15  Copynumber: 2.7  Consensus size: 15

        464 TTACTTTGTT

                            
        474 TTGTTTTCTAGTTTAA
          1 TTGTTTTCT-GTTTAA

                           
        490 TTGTTTTCTGTTTAA
          1 TTGTTTTCTGTTTAA

                       
        505 TTGTTTTCTGT
          1 TTGTTTTCTGT

        516 CAACCTCTGT


Statistics
Matches: 26,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  15   17  0.65
  16    9  0.35

ACGTcount: A:0.12, C:0.07, G:0.14, T:0.67


Consensus pattern (15 bp):   
TTGTTTTCTGTTTAA

Found at i:960 original size:28 final size:30

Alignment explanation


    Indices: 924--981  Score: 93
    Period size: 30  Copynumber: 2.0  Consensus size: 30

        914 ATTGTTTTGT

                                          
        924 GTTTTTGCG-TTTT-TCTAAAAAAAAAAAA
          1 GTTTTTGCGTTTTTATCTAAAAAAAAAAAA

                            *             
        952 GTTTTTGCGTTTTTATTTAAAAAAAAAAAA
          1 GTTTTTGCGTTTTTATCTAAAAAAAAAAAA

        982 TTCTTTTCTT


Statistics
Matches: 27,  Mismatches: 1, Indels: 2
        0.90            0.03        0.07

Matches are distributed among these distances:
  28    9  0.33
  29    4  0.15
  30   14  0.52

ACGTcount: A:0.43, C:0.05, G:0.10, T:0.41


Consensus pattern (30 bp):   
GTTTTTGCGTTTTTATCTAAAAAAAAAAAA
Done.