Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001086.1 Corchorus capsularis cultivar CVL-1 contig01086, 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, 858

Length: 1431
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40


Found at i:844 original size:2 final size:2

Alignment explanation


    Indices: 837--871  Score: 54
    Period size: 2  Copynumber: 18.0  Consensus size: 2

        827 ACCAAGTTAA

                        *                                        
        837 AT AT AT AT TT AT AT AT AT -T AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

        872 GTTAATGAAA


Statistics
Matches: 30,  Mismatches: 2, Indels: 2
        0.88            0.06        0.06

Matches are distributed among these distances:
   1    1  0.03
   2   29  0.97

ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54


Consensus pattern (2 bp):   
AT

Found at i:860 original size:17 final size:17

Alignment explanation


    Indices: 838--871  Score: 59
    Period size: 17  Copynumber: 2.0  Consensus size: 17

        828 CCAAGTTAAA

                   *         
        838 TATATATTTATATATAT
          1 TATATATATATATATAT

                             
        855 TATATATATATATATAT
          1 TATATATATATATATAT

        872 GTTAATGAAA


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

Matches are distributed among these distances:
  17   16  1.00

ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56


Consensus pattern (17 bp):   
TATATATATATATATAT

Found at i:864 original size:15 final size:15

Alignment explanation


    Indices: 840--869  Score: 51
    Period size: 15  Copynumber: 2.0  Consensus size: 15

        830 AAGTTAAATA

                 *         
        840 TATATTTATATATAT
          1 TATATATATATATAT

                           
        855 TATATATATATATAT
          1 TATATATATATATAT

        870 ATGTTAATGA


Statistics
Matches: 14,  Mismatches: 1, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  15   14  1.00

ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57


Consensus pattern (15 bp):   
TATATATATATATAT
Done.