Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005126.1 Corchorus capsularis cultivar CVL-1 contig05144, 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: 4338
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.42


Found at i:416 original size:103 final size:102

Alignment explanation


    Indices: 256--522  Score: 410
    Period size: 103  Copynumber: 2.6  Consensus size: 102

        246 TTGACATAAG

                                                                             
        256 TTTGCCTTGGAGACAATTTTTGCAGAGATTCCTTCATAATTGGGATAACTTTGCAGACCATTTGC
          1 TTTGCCTTGGAGACAATTTTTGCAGAGATTCCTTCATAATTGGGATAACTTTGCAGACCATTTGC

                        *                        
        321 TTTATCTTCATCTAATGAGTTTGCCTTGCATTATTGA
         66 TTTATCTTCATCCAATGAGTTTGCCTTGCATTATTGA

                       *                               *                     
        358 TTTTGCCTTGGTGACAATTTTTGCAGAGATTCCTTCATAATTGAGATAACTTTGCAGACCATTTG
          1 -TTTGCCTTGGAGACAATTTTTGCAGAGATTCCTTCATAATTGGGATAACTTTGCAGACCATTTG

                                                  
        423 CTTTATCTTCATCCAATGAGTTTGCCTTGCATTATTGA
         65 CTTTATCTTCATCCAATGAGTTTGCCTTGCATTATTGA

            **  **                  *        *   *  *                      
        461 CAT-AATTGGAGACAATTTTTGCATAGATTCCTCCATGATAGGGATAACTTTTGCAGACCATT
          1 TTTGCCTTGGAGACAATTTTTGCAGAGATTCCTTCATAATTGGGATAAC-TTTGCAGACCATT

        523 ATTTTATCCA


Statistics
Matches: 150,  Mismatches: 13, Indels: 3
        0.90            0.08        0.02

Matches are distributed among these distances:
 101   37  0.25
 102   14  0.09
 103   99  0.66

ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40


Consensus pattern (102 bp):   
TTTGCCTTGGAGACAATTTTTGCAGAGATTCCTTCATAATTGGGATAACTTTGCAGACCATTTGC
TTTATCTTCATCCAATGAGTTTGCCTTGCATTATTGA

Found at i:1845 original size:14 final size:14

Alignment explanation


    Indices: 1826--1858  Score: 66
    Period size: 14  Copynumber: 2.4  Consensus size: 14

       1816 CATTTTTTGA

                          
       1826 TTTTGTAAAACTTC
          1 TTTTGTAAAACTTC

                          
       1840 TTTTGTAAAACTTC
          1 TTTTGTAAAACTTC

                 
       1854 TTTTG
          1 TTTTG

       1859 CTGATTTGCA


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   19  1.00

ACGTcount: A:0.24, C:0.12, G:0.09, T:0.55


Consensus pattern (14 bp):   
TTTTGTAAAACTTC
Done.