Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01002175.1 Corchorus capsularis cultivar CVL-1 contig02180, 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, 861

Length: 1435
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37


Found at i:664 original size:2 final size:2

Alignment explanation


    Indices: 609--647  Score: 51
    Period size: 2  Copynumber: 19.5  Consensus size: 2

        599 AAGCTAGGAA

                                             *   *        *           
        609 AT AT AT AT AT AT AT AT AT AT AT CT AG AT AT AG AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A

        648 AGAATATGGT


Statistics
Matches: 31,  Mismatches: 6, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
   2   31  1.00

ACGTcount: A:0.49, C:0.03, G:0.05, T:0.44


Consensus pattern (2 bp):   
AT

Found at i:1184 original size:91 final size:91

Alignment explanation


    Indices: 1074--1250  Score: 282
    Period size: 91  Copynumber: 1.9  Consensus size: 91

       1064 ATATATATAT

                          *                                         *        
       1074 TCATATTCATGTGGTCTTCGTATATCTAATGAAATATTCATTATTAACTCTCAAATGGGTCAAAT
          1 TCATATTCATGTGGCCTTCGTATATCTAATGAAATATTCATTATTAACTCTCAAATAGGTCAAAT

                     *     *          
       1139 TGTAGAATTTTGGAAGATTATAGGTA
         66 TGTAGAATTCTGGAAAATTATAGGTA

                        *               *         *            *             
       1165 TCATATTCATGTTGCCTTCGTATATCTACTGAAATATTTATTATTAACTCTTAAATAGGTCAAAT
          1 TCATATTCATGTGGCCTTCGTATATCTAATGAAATATTCATTATTAACTCTCAAATAGGTCAAAT

                                 
       1230 TGTAGAATTCTGGAAAATTAT
         66 TGTAGAATTCTGGAAAATTAT

       1251 CTGTTTGTGA


Statistics
Matches: 78,  Mismatches: 8, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  91   78  1.00

ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41


Consensus pattern (91 bp):   
TCATATTCATGTGGCCTTCGTATATCTAATGAAATATTCATTATTAACTCTCAAATAGGTCAAAT
TGTAGAATTCTGGAAAATTATAGGTA
Done.