Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024171.1 Corchorus olitorius cultivar O-4 contig24204, 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: 15102
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32


Found at i:1377 original size:34 final size:37

Alignment explanation


    Indices: 1339--1408  Score: 92
    Period size: 37  Copynumber: 1.9  Consensus size: 37

       1329 TCCGCGCCAA

                                                 
       1339 GCAGCA-A-GCCGCTGCTGCTGCCT-AGCCCGCGCGC
          1 GCAGCACAGGCCGCTGCTGCTGCCTCAGCCCGCGCGC

                       *                 *      
       1373 GCAGCAGCAGGTCGCTGCTGCTGCCTCAGTCCGCGC
          1 GCAGCA-CAGGCCGCTGCTGCTGCCTCAGCCCGCGC

       1409 ACAAGGTAGC


Statistics
Matches: 30,  Mismatches: 2, Indels: 4
        0.83            0.06        0.11

Matches are distributed among these distances:
  34    6  0.20
  36    1  0.03
  37   15  0.50
  38    8  0.27

ACGTcount: A:0.11, C:0.41, G:0.33, T:0.14


Consensus pattern (37 bp):   
GCAGCACAGGCCGCTGCTGCTGCCTCAGCCCGCGCGC

Found at i:5744 original size:12 final size:13

Alignment explanation


    Indices: 5728--5757  Score: 53
    Period size: 12  Copynumber: 2.4  Consensus size: 13

       5718 GTTTTGTTTA

                         
       5728 ATTTTCTTGATTG
          1 ATTTTCTTGATTG

                         
       5741 -TTTTCTTGATTG
          1 ATTTTCTTGATTG

                 
       5753 ATTTT
          1 ATTTT

       5758 AATTGCTAGT


Statistics
Matches: 16,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  12   12  0.75
  13    4  0.25

ACGTcount: A:0.13, C:0.07, G:0.13, T:0.67


Consensus pattern (13 bp):   
ATTTTCTTGATTG

Found at i:9340 original size:10 final size:10

Alignment explanation


    Indices: 9327--9352  Score: 52
    Period size: 10  Copynumber: 2.6  Consensus size: 10

       9317 TCCTTTTTTC

                      
       9327 TTTTTTCATT
          1 TTTTTTCATT

                      
       9337 TTTTTTCATT
          1 TTTTTTCATT

                  
       9347 TTTTTT
          1 TTTTTT

       9353 GATTGATTGA


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   16  1.00

ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85


Consensus pattern (10 bp):   
TTTTTTCATT
Done.