Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013743.1 Corchorus olitorius cultivar O-4 contig13776, 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: 43660
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33


Found at i:8058 original size:16 final size:16

Alignment explanation


    Indices: 8037--8070  Score: 68
    Period size: 16  Copynumber: 2.1  Consensus size: 16

       8027 CCTAAGGTCT

                            
       8037 TATATACATACATACA
          1 TATATACATACATACA

                            
       8053 TATATACATACATACA
          1 TATATACATACATACA

              
       8069 TA
          1 TA

       8071 CATATATATA


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   18  1.00

ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32


Consensus pattern (16 bp):   
TATATACATACATACA

Found at i:8061 original size:12 final size:12

Alignment explanation


    Indices: 8044--8082  Score: 60
    Period size: 12  Copynumber: 3.2  Consensus size: 12

       8034 TCTTATATAC

                        
       8044 ATACATACATAT
          1 ATACATACATAT

                       *
       8056 ATACATACATAC
          1 ATACATACATAT

                   *    
       8068 ATACATATATAT
          1 ATACATACATAT

               
       8080 ATA
          1 ATA

       8083 TCAAAAAATA


Statistics
Matches: 24,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  12   24  1.00

ACGTcount: A:0.51, C:0.15, G:0.00, T:0.33


Consensus pattern (12 bp):   
ATACATACATAT

Found at i:8083 original size:4 final size:4

Alignment explanation


    Indices: 8040--8074  Score: 61
    Period size: 4  Copynumber: 8.8  Consensus size: 4

       8030 AAGGTCTTAT

                              *                        
       8040 ATAC ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATA
          1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA

       8075 TATATATATC


Statistics
Matches: 29,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
   4   29  1.00

ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29


Consensus pattern (4 bp):   
ATAC

Found at i:14729 original size:17 final size:17

Alignment explanation


    Indices: 14707--14745  Score: 60
    Period size: 17  Copynumber: 2.3  Consensus size: 17

      14697 ATTAGTAATA

                             
      14707 ATTATTGAATAATTATT
          1 ATTATTGAATAATTATT

                  **         
      14724 ATTATTTTATAATTATT
          1 ATTATTGAATAATTATT

                 
      14741 ATTAT
          1 ATTAT

      14746 CTCAATAAAT


Statistics
Matches: 20,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  17   20  1.00

ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59


Consensus pattern (17 bp):   
ATTATTGAATAATTATT
Done.