Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010147.1 Corchorus olitorius cultivar O-4 contig10179, 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: 1988
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34


Found at i:543 original size:2 final size:2

Alignment explanation


    Indices: 536--560  Score: 50
    Period size: 2  Copynumber: 12.5  Consensus size: 2

        526 ATGCTACATA

                                                 
        536 AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT A

        561 AAAGTAAGTA


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   23  1.00

ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48


Consensus pattern (2 bp):   
AT

Found at i:1687 original size:7 final size:7

Alignment explanation


    Indices: 1675--1701  Score: 54
    Period size: 7  Copynumber: 3.9  Consensus size: 7

       1665 TGGCAAAATG

                   
       1675 AACCCGA
          1 AACCCGA

                   
       1682 AACCCGA
          1 AACCCGA

                   
       1689 AACCCGA
          1 AACCCGA

                  
       1696 AACCCG
          1 AACCCG

       1702 CCCGTACCCG


Statistics
Matches: 20,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   7   20  1.00

ACGTcount: A:0.41, C:0.44, G:0.15, T:0.00


Consensus pattern (7 bp):   
AACCCGA

Found at i:1806 original size:16 final size:16

Alignment explanation


    Indices: 1787--1828  Score: 75
    Period size: 16  Copynumber: 2.6  Consensus size: 16

       1777 CCGACCGAAT

                            
       1787 CCGAACCCGAAATTAC
          1 CCGAACCCGAAATTAC

                *           
       1803 CCGATCCCGAAATTAC
          1 CCGAACCCGAAATTAC

                      
       1819 CCGAACCCGA
          1 CCGAACCCGA

       1829 GGCAGCCCGA


Statistics
Matches: 24,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  16   24  1.00

ACGTcount: A:0.33, C:0.40, G:0.14, T:0.12


Consensus pattern (16 bp):   
CCGAACCCGAAATTAC
Done.