Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001779.1 Corchorus olitorius cultivar O-4 contig01779, 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: 3439
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.32


Found at i:2170 original size:21 final size:21

Alignment explanation


    Indices: 2125--2170  Score: 51
    Period size: 21  Copynumber: 2.2  Consensus size: 21

       2115 CTATTTTGAC

                                *
       2125 ATGAATATTTTTTTTATATAC
          1 ATGAATATTTTTTTTATATAA

                                   
       2146 ATGAATAATTATTTTTT-TA-AA
          1 ATGAAT-ATT-TTTTTTATATAA

                
       2167 ATGA
          1 ATGA

       2171 TACAAATTAA


Statistics
Matches: 22,  Mismatches: 1, Indels: 4
        0.81            0.04        0.15

Matches are distributed among these distances:
  21   11  0.50
  22    5  0.23
  23    6  0.27

ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52


Consensus pattern (21 bp):   
ATGAATATTTTTTTTATATAA

Found at i:3399 original size:2 final size:2

Alignment explanation


    Indices: 3392--3428  Score: 74
    Period size: 2  Copynumber: 18.5  Consensus size: 2

       3382 TGTTAAATGT

                                                                   
       3392 TA TA TA TA 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 T

       3429 GTGTGTGTGT


Statistics
Matches: 35,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   35  1.00

ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51


Consensus pattern (2 bp):   
TA

Done.