Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002043.1 Corchorus olitorius cultivar O-4 contig02043, 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: 8708
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35


Found at i:7 original size:2 final size:2

Alignment explanation


    Indices: 1--42  Score: 84
    Period size: 2  Copynumber: 21.0  Consensus size: 2

                                                                          
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

         43 CTGTCATAAT


Statistics
Matches: 40,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   40  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
TA

Found at i:2649 original size:16 final size:16

Alignment explanation


    Indices: 2624--2655  Score: 55
    Period size: 16  Copynumber: 2.0  Consensus size: 16

       2614 CTCTTGAGTT

                            
       2624 TGATTCTAAAGTTGCA
          1 TGATTCTAAAGTTGCA

                 *          
       2640 TGATTGTAAAGTTGCA
          1 TGATTCTAAAGTTGCA

       2656 AAATACAATG


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  16   15  1.00

ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38


Consensus pattern (16 bp):   
TGATTCTAAAGTTGCA

Found at i:6473 original size:76 final size:76

Alignment explanation


    Indices: 6344--6495  Score: 295
    Period size: 76  Copynumber: 2.0  Consensus size: 76

       6334 AAAACTACTG

                                                            *                
       6344 GCTATCCCTTTGTTATAAGTTGCAAAGAATTACTCAAACTACTATAATTATCTGCTAATACTCCT
          1 GCTATCCCTTTGTTATAAGTTGCAAAGAATTACTCAAACTACTATAATCATCTGCTAATACTCCT

                       
       6409 CATATTCATAT
         66 CATATTCATAT

                                                                             
       6420 GCTATCCCTTTGTTATAAGTTGCAAAGAATTACTCAAACTACTATAATCATCTGCTAATACTCCT
          1 GCTATCCCTTTGTTATAAGTTGCAAAGAATTACTCAAACTACTATAATCATCTGCTAATACTCCT

                       
       6485 CATATTCATAT
         66 CATATTCATAT

       6496 AGGAAGTATG


Statistics
Matches: 75,  Mismatches: 1, Indels: 0
        0.99            0.01        0.00

Matches are distributed among these distances:
  76   75  1.00

ACGTcount: A:0.33, C:0.22, G:0.08, T:0.38


Consensus pattern (76 bp):   
GCTATCCCTTTGTTATAAGTTGCAAAGAATTACTCAAACTACTATAATCATCTGCTAATACTCCT
CATATTCATAT
Done.