Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001665.1 Corchorus olitorius cultivar O-4 contig01665, 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: 2349
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34


Found at i:1607 original size:29 final size:28

Alignment explanation


    Indices: 1541--1618  Score: 93
    Period size: 29  Copynumber: 2.7  Consensus size: 28

       1531 GAACTTACAC

                                 *      
       1541 AAAACAGCCAAATAAGCCCCTGAACTCT
          1 AAAACAGCCAAATAAGCCCCTAAACTCT

               **                         
       1569 AATTGCAGCCAAATAAGCCCCTAAACTCTT
          1 AA-AACAGCCAAATAAGCCCCTAAACTC-T

                *               
       1599 AAAAAAGCCCAAATAAGCCC
          1 AAAACAG-CCAAATAAGCCC

       1619 TATTATGATG


Statistics
Matches: 41,  Mismatches: 6, Indels: 4
        0.80            0.12        0.08

Matches are distributed among these distances:
  28    2  0.05
  29   24  0.59
  30   15  0.37

ACGTcount: A:0.44, C:0.31, G:0.10, T:0.15


Consensus pattern (28 bp):   
AAAACAGCCAAATAAGCCCCTAAACTCT

Found at i:2318 original size:2 final size:2

Alignment explanation


    Indices: 2313--2348  Score: 72
    Period size: 2  Copynumber: 18.0  Consensus size: 2

       2303 CTAGTGTGTG

                                                                 
       2313 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

       2349 G


Statistics
Matches: 34,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   34  1.00

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


Consensus pattern (2 bp):   
TA

Done.