Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000882.1 Corchorus capsularis cultivar CVL-1 contig00882, 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: 11274
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34


Found at i:3934 original size:1 final size:1

Alignment explanation


    Indices: 3928--3963  Score: 54
    Period size: 1  Copynumber: 36.0  Consensus size: 1

       3918 CTGAGGATTG

                        *         *             
       3928 TTTTTTTTTTTTGTTTTTTTTTGTTTTTTTTTTTTT
          1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT

       3964 AATTCTTTGA


Statistics
Matches: 31,  Mismatches: 4, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
   1   31  1.00

ACGTcount: A:0.00, C:0.00, G:0.06, T:0.94


Consensus pattern (1 bp):   
T

Found at i:3943 original size:13 final size:13

Alignment explanation


    Indices: 3925--3963  Score: 62
    Period size: 13  Copynumber: 3.0  Consensus size: 13

       3915 GCCCTGAGGA

                         
       3925 TTGTTTTTTTTTT
          1 TTGTTTTTTTTTT

                          
       3938 TTGTTTTTTTTTGT
          1 TTGTTTTTTTTT-T

                         
       3952 TT-TTTTTTTTTT
          1 TTGTTTTTTTTTT

       3964 AATTCTTTGA


Statistics
Matches: 25,  Mismatches: 0, Indels: 3
        0.89            0.00        0.11

Matches are distributed among these distances:
  12    1  0.04
  13   21  0.84
  14    3  0.12

ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92


Consensus pattern (13 bp):   
TTGTTTTTTTTTT

Done.