Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001231.1 Corchorus capsularis cultivar CVL-1 contig01231, 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: 10299
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32


Found at i:5521 original size:14 final size:14

Alignment explanation


    Indices: 5502--5530  Score: 58
    Period size: 14  Copynumber: 2.1  Consensus size: 14

       5492 ATGAATACAT

                          
       5502 ATTTATCCAAAATA
          1 ATTTATCCAAAATA

                          
       5516 ATTTATCCAAAATA
          1 ATTTATCCAAAATA

             
       5530 A
          1 A

       5531 AAACATGAGT


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

Matches are distributed among these distances:
  14   15  1.00

ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34


Consensus pattern (14 bp):   
ATTTATCCAAAATA

Found at i:6585 original size:24 final size:24

Alignment explanation


    Indices: 6538--6586  Score: 71
    Period size: 24  Copynumber: 2.0  Consensus size: 24

       6528 GTTCTGTGTA

                             * *    
       6538 GCAGAATATGTCTGCCTTTTTTTG
          1 GCAGAATATGTCTGCCTATCTTTG

                           *        
       6562 GCAGAATATGTCTGCGTATCTTTG
          1 GCAGAATATGTCTGCCTATCTTTG

             
       6586 G
          1 G

       6587 ATTATTTGGA


Statistics
Matches: 22,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  24   22  1.00

ACGTcount: A:0.18, C:0.16, G:0.24, T:0.41


Consensus pattern (24 bp):   
GCAGAATATGTCTGCCTATCTTTG

Found at i:10281 original size:2 final size:2

Alignment explanation


    Indices: 10274--10299  Score: 52
    Period size: 2  Copynumber: 13.0  Consensus size: 2

      10264 TAGGAATAGC

                                                  
      10274 TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   24  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
TA

Done.