Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013999.1 Corchorus capsularis cultivar CVL-1 contig14020, 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: 4651
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.36


Found at i:667 original size:2 final size:2

Alignment explanation


    Indices: 660--687  Score: 56
    Period size: 2  Copynumber: 14.0  Consensus size: 2

        650 AAGTAACCTT

                                                     
        660 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA

        688 ACTCATATTG


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   26  1.00

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


Consensus pattern (2 bp):   
TA

Found at i:1964 original size:2 final size:2

Alignment explanation


    Indices: 1918--1950  Score: 66
    Period size: 2  Copynumber: 16.5  Consensus size: 2

       1908 TTCTACTAAG

                                                             
       1918 TA TA TA TA 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 TA TA TA TA T

       1951 GCCCATTATA


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   31  1.00

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


Consensus pattern (2 bp):   
TA

Found at i:4624 original size:16 final size:17

Alignment explanation


    Indices: 4589--4624  Score: 51
    Period size: 16  Copynumber: 2.3  Consensus size: 17

       4579 CAAACTCACG

                             
       4589 GTTT-TTTTTTTTGAAA
          1 GTTTATTTTTTTTGAAA

                             
       4605 -TTTATTTTTTTT-AAA
          1 GTTTATTTTTTTTGAAA

                 
       4620 GTTTA
          1 GTTTA

       4625 GTTGTAGGGT


Statistics
Matches: 18,  Mismatches: 0, Indels: 4
        0.82            0.00        0.18

Matches are distributed among these distances:
  15    6  0.33
  16   12  0.67

ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69


Consensus pattern (17 bp):   
GTTTATTTTTTTTGAAA
Done.