Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015354.1 Corchorus capsularis cultivar CVL-1 contig15375, 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: 6392
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32


Found at i:3766 original size:34 final size:36

Alignment explanation


    Indices: 3700--3769  Score: 99
    Period size: 38  Copynumber: 1.9  Consensus size: 36

       3690 AAGTAGAAAC

                                                  
       3700 AAAAATAATTTTTTTAAATAAAGAAAAACGGAAAAAGG
          1 AAAAATAATTTTTTT--ATAAAGAAAAACGGAAAAAGG

                              *               
       3738 AAAAATAATTTTTTT-TAGA-AAAAACGGAAAAA
          1 AAAAATAATTTTTTTATAAAGAAAAACGGAAAAA

       3770 AGGGAAGAAG


Statistics
Matches: 31,  Mismatches: 1, Indels: 4
        0.86            0.03        0.11

Matches are distributed among these distances:
  34   13  0.42
  35    3  0.10
  38   15  0.48

ACGTcount: A:0.60, C:0.03, G:0.11, T:0.26


Consensus pattern (36 bp):   
AAAAATAATTTTTTTATAAAGAAAAACGGAAAAAGG

Found at i:4155 original size:6 final size:6

Alignment explanation


    Indices: 4144--4170  Score: 54
    Period size: 6  Copynumber: 4.5  Consensus size: 6

       4134 AAAGCAAAGC

                                           
       4144 AAATCT AAATCT AAATCT AAATCT AAA
          1 AAATCT AAATCT AAATCT AAATCT AAA

       4171 GCAGAATATT


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

Matches are distributed among these distances:
   6   21  1.00

ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30


Consensus pattern (6 bp):   
AAATCT

Found at i:5076 original size:10 final size:10

Alignment explanation


    Indices: 5061--5085  Score: 50
    Period size: 10  Copynumber: 2.5  Consensus size: 10

       5051 GAGGACTCTA

                      
       5061 GAATTTTCTG
          1 GAATTTTCTG

                      
       5071 GAATTTTCTG
          1 GAATTTTCTG

                 
       5081 GAATT
          1 GAATT

       5086 GTGCAGCAAC


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   15  1.00

ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48


Consensus pattern (10 bp):   
GAATTTTCTG
Done.