Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010798.1 Corchorus capsularis cultivar CVL-1 contig10819, 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: 16896
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28


Found at i:2914 original size:14 final size:15

Alignment explanation


    Indices: 2889--2926  Score: 51
    Period size: 15  Copynumber: 2.5  Consensus size: 15

       2879 TAACCCATAA

                            
       2889 TATTTTTCTTTG-TTT
          1 TATTTTT-TTTGCTTT

                           
       2904 TATTTTTTTTGCTTT
          1 TATTTTTTTTGCTTT

             *      
       2919 TCTTTTTT
          1 TATTTTTT

       2927 AGGATTTTCC


Statistics
Matches: 21,  Mismatches: 1, Indels: 2
        0.88            0.04        0.08

Matches are distributed among these distances:
  14    4  0.19
  15   17  0.81

ACGTcount: A:0.05, C:0.08, G:0.05, T:0.82


Consensus pattern (15 bp):   
TATTTTTTTTGCTTT

Found at i:5840 original size:12 final size:13

Alignment explanation


    Indices: 5799--5843  Score: 74
    Period size: 13  Copynumber: 3.5  Consensus size: 13

       5789 AATTATTGTT

                         
       5799 TGCTTTATTAATC
          1 TGCTTTATTAATC

                        *
       5812 TGCTTTATTAATT
          1 TGCTTTATTAATC

                         
       5825 TGCTTTA-TAATC
          1 TGCTTTATTAATC

                   
       5837 TGCTTTA
          1 TGCTTTA

       5844 GATTTAGATT


Statistics
Matches: 30,  Mismatches: 2, Indels: 1
        0.91            0.06        0.03

Matches are distributed among these distances:
  12   11  0.37
  13   19  0.63

ACGTcount: A:0.22, C:0.13, G:0.09, T:0.56


Consensus pattern (13 bp):   
TGCTTTATTAATC

Found at i:5851 original size:6 final size:6

Alignment explanation


    Indices: 5840--5866  Score: 54
    Period size: 6  Copynumber: 4.5  Consensus size: 6

       5830 TATAATCTGC

                                           
       5840 TTTAGA TTTAGA TTTAGA TTTAGA TTT
          1 TTTAGA TTTAGA TTTAGA TTTAGA TTT

       5867 GCTTTGCTTT


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   21  1.00

ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56


Consensus pattern (6 bp):   
TTTAGA

Done.