Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018071.1 Corchorus olitorius cultivar O-4 contig18104, 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: 1892
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.34


Found at i:276 original size:13 final size:13

Alignment explanation


    Indices: 258--282  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

        248 GAAGGGAATA

                         
        258 AGCAAAGAGTTTG
          1 AGCAAAGAGTTTG

                        
        271 AGCAAAGAGTTT
          1 AGCAAAGAGTTT

        283 TCTAAATACT


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.40, C:0.08, G:0.28, T:0.24


Consensus pattern (13 bp):   
AGCAAAGAGTTTG

Found at i:667 original size:37 final size:37

Alignment explanation


    Indices: 623--693  Score: 124
    Period size: 37  Copynumber: 1.9  Consensus size: 37

        613 CTTGATCAAC

                        *  *                     
        623 ATACATGTCTTTTCATATAGACATAACTTTATGATCA
          1 ATACATGTCTTTCCAAATAGACATAACTTTATGATCA

                                              
        660 ATACATGTCTTTCCAAATAGACATAACTTTATGA
          1 ATACATGTCTTTCCAAATAGACATAACTTTATGA

        694 ATAATTATGT


Statistics
Matches: 32,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  37   32  1.00

ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38


Consensus pattern (37 bp):   
ATACATGTCTTTCCAAATAGACATAACTTTATGATCA

Found at i:1806 original size:20 final size:20

Alignment explanation


    Indices: 1781--1821  Score: 82
    Period size: 20  Copynumber: 2.0  Consensus size: 20

       1771 GACTTTCCAA

                                
       1781 TGACTTTCATCAATAAATTG
          1 TGACTTTCATCAATAAATTG

                                
       1801 TGACTTTCATCAATAAATTG
          1 TGACTTTCATCAATAAATTG

             
       1821 T
          1 T

       1822 ACTACACTCT


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  20   21  1.00

ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41


Consensus pattern (20 bp):   
TGACTTTCATCAATAAATTG
Done.