Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020415.1 Corchorus olitorius cultivar O-4 contig20448, 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: 5813
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32


Found at i:1326 original size:21 final size:21

Alignment explanation


    Indices: 1300--1373  Score: 94
    Period size: 21  Copynumber: 3.5  Consensus size: 21

       1290 ACCATTCACT

                          *      
       1300 GTGCCACCACCGATTAAGCCC
          1 GTGCCACCACCGATCAAGCCC

                        *        
       1321 GTGCCACCACCGGTCAAGCCC
          1 GTGCCACCACCGATCAAGCCC

                        **  *    
       1342 GTGCCACCACCGGCCATGCCC
          1 GTGCCACCACCGATCAAGCCC

                  *    
       1363 GTGCCATCACC
          1 GTGCCACCACC

       1374 ATTCCAAGCC


Statistics
Matches: 48,  Mismatches: 5, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  21   48  1.00

ACGTcount: A:0.19, C:0.47, G:0.22, T:0.12


Consensus pattern (21 bp):   
GTGCCACCACCGATCAAGCCC

Found at i:4640 original size:15 final size:15

Alignment explanation


    Indices: 4610--4651  Score: 66
    Period size: 15  Copynumber: 2.7  Consensus size: 15

       4600 TTACTTTGTT

                            
       4610 TTGTTTTCTAGTTTAA
          1 TTGTTTTCT-GTTTAA

                           
       4626 TTGTTTTCTGTTTAA
          1 TTGTTTTCTGTTTAA

               *       
       4641 TTGCTTTCTGT
          1 TTGTTTTCTGT

       4652 CAATCTCTGT


Statistics
Matches: 25,  Mismatches: 1, Indels: 1
        0.93            0.04        0.04

Matches are distributed among these distances:
  15   16  0.64
  16    9  0.36

ACGTcount: A:0.12, C:0.10, G:0.14, T:0.64


Consensus pattern (15 bp):   
TTGTTTTCTGTTTAA
Done.