Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01008706.1 Corchorus capsularis cultivar CVL-1 contig08727, 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: 4634
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35


Found at i:490 original size:15 final size:15

Alignment explanation


    Indices: 470--501  Score: 55
    Period size: 15  Copynumber: 2.1  Consensus size: 15

        460 TTGAACTTCT

                           
        470 TCATTTCTGAATCTG
          1 TCATTTCTGAATCTG

                     *     
        485 TCATTTCTGTATCTG
          1 TCATTTCTGAATCTG

              
        500 TC
          1 TC

        502 TCGTCCATGG


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  15   16  1.00

ACGTcount: A:0.16, C:0.22, G:0.12, T:0.50


Consensus pattern (15 bp):   
TCATTTCTGAATCTG

Found at i:998 original size:13 final size:13

Alignment explanation


    Indices: 980--1010  Score: 53
    Period size: 13  Copynumber: 2.4  Consensus size: 13

        970 TGCCTATCCA

                         
        980 TAATTTCAATCAG
          1 TAATTTCAATCAG

                      *  
        993 TAATTTCAATTAG
          1 TAATTTCAATCAG

                 
       1006 TAATT
          1 TAATT

       1011 CTTATATCGG


Statistics
Matches: 17,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  13   17  1.00

ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45


Consensus pattern (13 bp):   
TAATTTCAATCAG

Found at i:3404 original size:13 final size:13

Alignment explanation


    Indices: 3386--3416  Score: 53
    Period size: 13  Copynumber: 2.4  Consensus size: 13

       3376 TGCCTATCCA

                         
       3386 TAATTTCAATCAG
          1 TAATTTCAATCAG

                      *  
       3399 TAATTTCAATTAG
          1 TAATTTCAATCAG

                 
       3412 TAATT
          1 TAATT

       3417 CTTATATCGG


Statistics
Matches: 17,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  13   17  1.00

ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45


Consensus pattern (13 bp):   
TAATTTCAATCAG
Done.