Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004955.1 Corchorus capsularis cultivar CVL-1 contig04973, 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: 16773
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31


Found at i:6672 original size:166 final size:165

Alignment explanation


    Indices: 6270--6697  Score: 515
    Period size: 167  Copynumber: 2.6  Consensus size: 165

       6260 CGAGAGAACG

                        *  *                      *   *                **    
       6270 TTTTTCGTCTTTTCCCACTTGACCA-ATTACTTAAATGCCATGACTTTTGATTCTTGAGTTGATT
          1 TTTTTCGTCTTTACCTACTTGA-CAGATTACTTAAATGTCATAACTTTTGATTCTTGAGGGGATT

                                 *               *               *  *        
       6334 AAATAACTAGATTTTTTGGTCCTTTCTCAATTGACTTTAATAGAGTAGTGGAATTACTAAAAGAT
         65 AAATAACTA-ATTTTTTGGTCATTTCTCAA-TGACTTGAATAGAGTAGTGGAACTAATAAAAGAT

               *           * **     *         *   
       6399 CACTATCAAGACTTGCTTTTGGAGTTAGACAACTTATT
        128 CACCATCAAGACTTGATGATGGAGCTAGACAACTAATT

                        *                          *                         
       6437 TTTTTCGTCTTTTCCTACTTGACAGATTACTTAAATGTCCTAA-TATTTGATTCTTGAGGGGATT
          1 TTTTTCGTCTTTACCTACTTGACAGATTACTTAAATGTCATAACT-TTTGATTCTTGAGGGGATT

                  *                                           *              
       6501 AAATAAGTAATCTTTTTGGTCATTTCTCAATGAACTTGAATAGAGTAGTGTAACTAATAAAAGAT
         65 AAATAACTAAT-TTTTTGGTCATTTCTCAATG-ACTTGAATAGAGTAGTGGAACTAATAAAAGAT

             *                            *         
       6566 CCCCATCAAGGA-TTGATGAT-GAGCTAGAGAACTAATCT
        128 CACCATCAA-GACTTGATGATGGAGCTAGACAACTAAT-T

                                 *                 *            *            
       6604 TTTTT-GTCTTTACCTACTTGGCAGATTACTTAAATGTCTTAACTTTTGATTATTGAGGGGATTA
          1 TTTTTCGTCTTTACCTACTTGACAGATTACTTAAATGTCATAACTTTTGATTCTTGAGGGGATTA

                                          
       6668 AATAACTAAATTTTTTGGTCATTTCTCAAT
         66 AATAACT-AATTTTTTGGTCATTTCTCAAT

       6698 TGACAAATGA


Statistics
Matches: 228,  Mismatches: 25, Indels: 17
        0.84            0.09        0.06

Matches are distributed among these distances:
 166   98  0.43
 167  128  0.56
 168    2  0.01

ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41


Consensus pattern (165 bp):   
TTTTTCGTCTTTACCTACTTGACAGATTACTTAAATGTCATAACTTTTGATTCTTGAGGGGATTA
AATAACTAATTTTTTGGTCATTTCTCAATGACTTGAATAGAGTAGTGGAACTAATAAAAGATCAC
CATCAAGACTTGATGATGGAGCTAGACAACTAATT
Done.