Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010815.1 Corchorus capsularis cultivar CVL-1 contig10836, 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: 4298
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31


Found at i:3448 original size:12 final size:13

Alignment explanation


    Indices: 3420--3448  Score: 51
    Period size: 13  Copynumber: 2.3  Consensus size: 13

       3410 TTTTTTTTTT

                         
       3420 AAAAAAAAAAAGC
          1 AAAAAAAAAAAGC

                         
       3433 AAAAAAAAAAAG-
          1 AAAAAAAAAAAGC

                
       3445 AAAA
          1 AAAA

       3449 TGTCAGAAAA


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

Matches are distributed among these distances:
  12    4  0.25
  13   12  0.75

ACGTcount: A:0.90, C:0.03, G:0.07, T:0.00


Consensus pattern (13 bp):   
AAAAAAAAAAAGC

Found at i:3458 original size:20 final size:20

Alignment explanation


    Indices: 3434--3473  Score: 53
    Period size: 20  Copynumber: 1.9  Consensus size: 20

       3424 AAAAAAAGCA

                  *              
       3434 AAAAAAAAAAGAAAATGTCAG
          1 AAAAAATAAA-AAAATGTCAG

                   *           
       3455 AAAAAATTAAAAAATGTCA
          1 AAAAAATAAAAAAATGTCA

       3474 AGTGGCCAGA


Statistics
Matches: 17,  Mismatches: 2, Indels: 1
        0.85            0.10        0.05

Matches are distributed among these distances:
  20    9  0.53
  21    8  0.47

ACGTcount: A:0.70, C:0.05, G:0.10, T:0.15


Consensus pattern (20 bp):   
AAAAAATAAAAAAATGTCAG
Done.