Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011094.1 Corchorus capsularis cultivar CVL-1 contig11115, 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: 20845
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33


Found at i:13748 original size:3 final size:3

Alignment explanation


    Indices: 13734--13772  Score: 60
    Period size: 3  Copynumber: 13.0  Consensus size: 3

      13724 GCTATTGGAA

                     *          *                              
      13734 GTG GTG GAG GTG GTG ATG GTG GTG GTG GTG GTG GTG GTG
          1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG

      13773 AGGGCTGAGA


Statistics
Matches: 32,  Mismatches: 4, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
   3   32  1.00

ACGTcount: A:0.05, C:0.00, G:0.64, T:0.31


Consensus pattern (3 bp):   
GTG

Found at i:18521 original size:2 final size:2

Alignment explanation


    Indices: 18486--18511  Score: 52
    Period size: 2  Copynumber: 13.0  Consensus size: 2

      18476 GTTTGAATAG

                                                  
      18486 AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT

      18512 GTTCATATAT


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   24  1.00

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


Consensus pattern (2 bp):   
AT

Found at i:19871 original size:98 final size:101

Alignment explanation


    Indices: 19751--19952  Score: 365
    Period size: 102  Copynumber: 2.0  Consensus size: 101

      19741 CATTCCATTT

                                                                             
      19751 TATATATAAAAAAAAATAATGTAGCAGTATCAAAAAATTTTGC-A-AAGTTGAACTAAATCGTCC
          1 TATATATAAAAAAAAATAATGTAGCAGTATCAAAAAATTTTGCAATAAGTTGAACTAAATCGTCC

                                                
      19814 TACAGATGTGACTGTTATACCAATTAATAATCATCC
         66 TACAGATGTGACTGTTATACCAATTAATAATCATCC

                                                                             
      19850 TATATAT-AAAAAAAATAATGTAGCAGTATCAAAAAATTTTGCAAATTAAGTTGAACTAAATCGT
          1 TATATATAAAAAAAAATAATGTAGCAGTATCAAAAAATTTTGC-AA-TAAGTTGAACTAAATCGT

                                                  
      19914 CCTACAGATGTGACTGTTATACCAATTAATAATCATCC
         64 CCTACAGATGTGACTGTTATACCAATTAATAATCATCC

             
      19952 T
          1 T

      19953 CAAATAATGA


Statistics
Matches: 99,  Mismatches: 0, Indels: 5
        0.95            0.00        0.05

Matches are distributed among these distances:
  98   35  0.35
  99    7  0.07
 100    1  0.01
 102   56  0.57

ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31


Consensus pattern (101 bp):   
TATATATAAAAAAAAATAATGTAGCAGTATCAAAAAATTTTGCAATAAGTTGAACTAAATCGTCC
TACAGATGTGACTGTTATACCAATTAATAATCATCC

Done.