Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019785.1 Corchorus olitorius cultivar O-4 contig19818, 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: 23315
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30


Found at i:10259 original size:13 final size:13

Alignment explanation


    Indices: 10241--10265  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

      10231 TTGTTACCAC

                         
      10241 CTTAAAATTATTG
          1 CTTAAAATTATTG

                        
      10254 CTTAAAATTATT
          1 CTTAAAATTATT

      10266 TTTTGGCAAA


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48


Consensus pattern (13 bp):   
CTTAAAATTATTG

Found at i:16188 original size:2 final size:2

Alignment explanation


    Indices: 16171--16220  Score: 75
    Period size: 2  Copynumber: 25.5  Consensus size: 2

      16161 AGTGTGTGTC

                   *        *                                             
      16171 TA TA TC TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

                         
      16212 TA TA TA TA T
          1 TA TA TA TA T

      16221 TAGTTCCTAT


Statistics
Matches: 43,  Mismatches: 4, Indels: 2
        0.88            0.08        0.04

Matches are distributed among these distances:
   1    1  0.02
   2   42  0.98

ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Found at i:22959 original size:2 final size:2

Alignment explanation


    Indices: 22952--22979  Score: 56
    Period size: 2  Copynumber: 14.0  Consensus size: 2

      22942 AAGACATAGA

                                                     
      22952 AT 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 AT

      22980 GCATACATAA


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   26  1.00

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


Consensus pattern (2 bp):   
AT

Done.