Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010725.1 Corchorus capsularis cultivar CVL-1 contig10746, 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: 6966
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36


Found at i:80 original size:13 final size:13

Alignment explanation


    Indices: 43--83  Score: 59
    Period size: 12  Copynumber: 3.3  Consensus size: 13

         33 TAATGCACCC

                         
         43 AAAACATTTA-AT
          1 AAAACATTTATAT

                         
         55 AAAACATTT-TAT
          1 AAAACATTTATAT

               *         
         67 AAATCATTTATAT
          1 AAAACATTTATAT

                
         80 AAAA
          1 AAAA

         84 ACAGTGATAA


Statistics
Matches: 25,  Mismatches: 2, Indels: 3
        0.83            0.07        0.10

Matches are distributed among these distances:
  12   19  0.76
  13    6  0.24

ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37


Consensus pattern (13 bp):   
AAAACATTTATAT

Found at i:5921 original size:12 final size:12

Alignment explanation


    Indices: 5906--5939  Score: 59
    Period size: 12  Copynumber: 2.8  Consensus size: 12

       5896 AATTGATAAC

                        
       5906 CTTCTTCTTATT
          1 CTTCTTCTTATT

                     *  
       5918 CTTCTTCTTTTT
          1 CTTCTTCTTATT

                      
       5930 CTTCTTCTTA
          1 CTTCTTCTTA

       5940 AAGCTTGAAT


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

Matches are distributed among these distances:
  12   20  1.00

ACGTcount: A:0.06, C:0.26, G:0.00, T:0.68


Consensus pattern (12 bp):   
CTTCTTCTTATT

Found at i:5995 original size:2 final size:2

Alignment explanation


    Indices: 5988--6012  Score: 50
    Period size: 2  Copynumber: 12.5  Consensus size: 2

       5978 TAGGGAAGAT

                                                 
       5988 TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA T

       6013 TCATATGTTA


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


Consensus pattern (2 bp):   
TA

Done.