Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024141.1 Corchorus olitorius cultivar O-4 contig24174, 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: 15353
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34


Found at i:3797 original size:21 final size:22

Alignment explanation


    Indices: 3768--3808  Score: 57
    Period size: 21  Copynumber: 1.9  Consensus size: 22

       3758 GATTGGAGTA

                        *         
       3768 TTTAGTTATCTTGTTGCTTAAT
          1 TTTAGTTATCTTCTTGCTTAAT

                     *          
       3790 TTTA-TTATTTTCTTGCTTA
          1 TTTAGTTATCTTCTTGCTTA

       3809 TTTATTTTAT


Statistics
Matches: 17,  Mismatches: 2, Indels: 1
        0.85            0.10        0.05

Matches are distributed among these distances:
  21   13  0.76
  22    4  0.24

ACGTcount: A:0.17, C:0.10, G:0.10, T:0.63


Consensus pattern (22 bp):   
TTTAGTTATCTTCTTGCTTAAT

Found at i:8242 original size:21 final size:22

Alignment explanation


    Indices: 8213--8253  Score: 57
    Period size: 21  Copynumber: 1.9  Consensus size: 22

       8203 GATTGGAGTA

                        *         
       8213 TTTAGTTATCTTGTTGCTTAAT
          1 TTTAGTTATCTTCTTGCTTAAT

                     *          
       8235 TTTA-TTATTTTCTTGCTTA
          1 TTTAGTTATCTTCTTGCTTA

       8254 TTTATTTTAT


Statistics
Matches: 17,  Mismatches: 2, Indels: 1
        0.85            0.10        0.05

Matches are distributed among these distances:
  21   13  0.76
  22    4  0.24

ACGTcount: A:0.17, C:0.10, G:0.10, T:0.63


Consensus pattern (22 bp):   
TTTAGTTATCTTCTTGCTTAAT

Found at i:9450 original size:18 final size:18

Alignment explanation


    Indices: 9429--9463  Score: 52
    Period size: 18  Copynumber: 1.9  Consensus size: 18

       9419 GGGTAATTGC

                   *          
       9429 AAAAAAATTGTTTTCATA
          1 AAAAAAAGTGTTTTCATA

                *            
       9447 AAAAGAAGTGTTTTCAT
          1 AAAAAAAGTGTTTTCAT

       9464 GATAGAGGAG


Statistics
Matches: 15,  Mismatches: 2, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  18   15  1.00

ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37


Consensus pattern (18 bp):   
AAAAAAAGTGTTTTCATA

Found at i:15259 original size:12 final size:13

Alignment explanation


    Indices: 15238--15267  Score: 53
    Period size: 12  Copynumber: 2.4  Consensus size: 13

      15228 ACTAGCAATT

                         
      15238 AAAATCAATCAAG
          1 AAAATCAATCAAG

                         
      15251 AAAAT-AATCAAG
          1 AAAATCAATCAAG

                 
      15263 AAAAT
          1 AAAAT

      15268 TAAAGAAAAC


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

Matches are distributed among these distances:
  12   12  0.71
  13    5  0.29

ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17


Consensus pattern (13 bp):   
AAAATCAATCAAG
Done.