Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002356.1 Corchorus olitorius cultivar O-4 contig02356, 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, 607

Length: 1012
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36


Found at i:439 original size:12 final size:12

Alignment explanation


    Indices: 419--447  Score: 51
    Period size: 12  Copynumber: 2.5  Consensus size: 12

        409 TGTACAATTG

                        
        419 AAAAA-TGAAAA
          1 AAAAAGTGAAAA

                        
        430 AAAAAGTGAAAA
          1 AAAAAGTGAAAA

                  
        442 AAAAAG
          1 AAAAAG

        448 AAAGAAGTCC


Statistics
Matches: 17,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  11    5  0.29
  12   12  0.71

ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07


Consensus pattern (12 bp):   
AAAAAGTGAAAA

Found at i:619 original size:22 final size:23

Alignment explanation


    Indices: 587--631  Score: 83
    Period size: 22  Copynumber: 2.0  Consensus size: 23

        577 TTCTTGACAG

                                   
        587 CTTACTAATAAGTTTTCTTATAT
          1 CTTACTAATAAGTTTTCTTATAT

                                   
        610 CTTAC-AATAAGTTTTCTTATAT
          1 CTTACTAATAAGTTTTCTTATAT

        632 ATATGCTGTC


Statistics
Matches: 22,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  22   17  0.77
  23    5  0.23

ACGTcount: A:0.31, C:0.13, G:0.04, T:0.51


Consensus pattern (23 bp):   
CTTACTAATAAGTTTTCTTATAT

Found at i:728 original size:49 final size:49

Alignment explanation


    Indices: 672--769  Score: 196
    Period size: 49  Copynumber: 2.0  Consensus size: 49

        662 CTTAGCCTTT

                                                             
        672 TTTTATTCAATTCAATTAGATGTTAATGTAAATGAACCATAACTATGTA
          1 TTTTATTCAATTCAATTAGATGTTAATGTAAATGAACCATAACTATGTA

                                                             
        721 TTTTATTCAATTCAATTAGATGTTAATGTAAATGAACCATAACTATGTA
          1 TTTTATTCAATTCAATTAGATGTTAATGTAAATGAACCATAACTATGTA

        770 AACCTATTCC


Statistics
Matches: 49,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  49   49  1.00

ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41


Consensus pattern (49 bp):   
TTTTATTCAATTCAATTAGATGTTAATGTAAATGAACCATAACTATGTA
Done.