Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001482.1 Corchorus capsularis cultivar CVL-1 contig01482, 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, 860

Length: 1434
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29


Found at i:339 original size:27 final size:27

Alignment explanation


    Indices: 301--567  Score: 372
    Period size: 27  Copynumber: 9.4  Consensus size: 27

        291 TCTGCAAGAA

                                       
        301 CTCCGAATCATTCTCTTGAAGCTCATC
          1 CTCCGAATCATTCTCTTGAAGCTCATC

                               *       
        328 CTCCGAATCATTCTCTTGAGGCTCATC
          1 CTCCGAATCATTCTCTTGAAGCTCATC

                                       
        355 CTCCGAATCATTCTCTTGAAGCTCATC
          1 CTCCGAATCATTCTCTTGAAGCTCATC

                            *    *           
        382 CTCCGAATCATAAATGATCCGCTGAAGCTCATC
          1 CTCCGAATCAT---T-CT-C-TTGAAGCTCATC

                                       
        415 CTCCGAATCATTCTCTTGAAGCTCATC
          1 CTCCGAATCATTCTCTTGAAGCTCATC

                                        
        442 CTCCGAATCGATTCTCTTGAAGCTCATC
          1 CTCCGAATC-ATTCTCTTGAAGCTCATC

                            *    *           
        470 CTCCGAATCATAAATGATCCGCTGAAGCTCATC
          1 CTCCGAATCAT---T-CT-C-TTGAAGCTCATC

                                       
        503 CTCCGAATCATTCTCTTGAAGCTCATC
          1 CTCCGAATCATTCTCTTGAAGCTCATC

                                       
        530 CTCCGAATCATTCTCTTGAAGCTCATC
          1 CTCCGAATCATTCTCTTGAAGCTCATC

                       
        557 CTCCGAATCAT
          1 CTCCGAATCAT

        568 AAATGATCCG


Statistics
Matches: 217,  Mismatches: 10, Indels: 26
        0.86            0.04        0.10

Matches are distributed among these distances:
  27  134  0.62
  28   29  0.13
  29    2  0.01
  30    4  0.02
  31    2  0.01
  32    2  0.01
  33   44  0.20

ACGTcount: A:0.24, C:0.33, G:0.13, T:0.31


Consensus pattern (27 bp):   
CTCCGAATCATTCTCTTGAAGCTCATC

Found at i:497 original size:88 final size:87

Alignment explanation


    Indices: 317--579  Score: 508
    Period size: 87  Copynumber: 3.0  Consensus size: 87

        307 ATCATTCTCT

                                          *                                  
        317 TGAAGCTCATCCTCCGAATCATTCTCTTGAGGCTCATCCTCCGAATCATTCTCTTGAAGCTCATC
          1 TGAAGCTCATCCTCCGAATCATTCTCTTGAAGCTCATCCTCCGAATCATTCTCTTGAAGCTCATC

                                  
        382 CTCCGAATCATAAATGATCCGC
         66 CTCCGAATCATAAATGATCCGC

                                                                             
        404 TGAAGCTCATCCTCCGAATCATTCTCTTGAAGCTCATCCTCCGAATCGATTCTCTTGAAGCTCAT
          1 TGAAGCTCATCCTCCGAATCATTCTCTTGAAGCTCATCCTCCGAATC-ATTCTCTTGAAGCTCAT

                                   
        469 CCTCCGAATCATAAATGATCCGC
         65 CCTCCGAATCATAAATGATCCGC

                                                                             
        492 TGAAGCTCATCCTCCGAATCATTCTCTTGAAGCTCATCCTCCGAATCATTCTCTTGAAGCTCATC
          1 TGAAGCTCATCCTCCGAATCATTCTCTTGAAGCTCATCCTCCGAATCATTCTCTTGAAGCTCATC

                                  
        557 CTCCGAATCATAAATGATCCGC
         66 CTCCGAATCATAAATGATCCGC

             
        579 T
          1 T

        580 TGCCCCGAAA


Statistics
Matches: 174,  Mismatches: 1, Indels: 2
        0.98            0.01        0.01

Matches are distributed among these distances:
  87   87  0.50
  88   87  0.50

ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30


Consensus pattern (87 bp):   
TGAAGCTCATCCTCCGAATCATTCTCTTGAAGCTCATCCTCCGAATCATTCTCTTGAAGCTCATC
CTCCGAATCATAAATGATCCGC
Done.