Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012566.1 Corchorus olitorius cultivar O-4 contig12599, 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: 13691
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31

Warning! 2 characters in sequence are not A, C, G, or T


Found at i:4235 original size:32 final size:32

Alignment explanation


    Indices: 4199--4366  Score: 266
    Period size: 32  Copynumber: 5.2  Consensus size: 32

       4189 TAAAGATAGT

                          *       *          
       4199 GGCGTTTTGTAT-TTTAGACGCTGCTAAATAAG
          1 GGCGTTTTGT-TCTATAGACGCCGCTAAATAAG

                        *                   
       4231 GGCGTTTTGTTCAATAGACGCCGCTAAATAAG
          1 GGCGTTTTGTTCTATAGACGCCGCTAAATAAG

                                            
       4263 GGCGTTTTGTTCTATAGACGCCGCTAAATAAG
          1 GGCGTTTTGTTCTATAGACGCCGCTAAATAAG

                                            
       4295 GGCGTTTTGTTCTATAGACGCCGCTAAATAAG
          1 GGCGTTTTGTTCTATAGACGCCGCTAAATAAG

                    *          **           
       4327 GGCGTTTTATTCTATAGACATCGCTAAATAAG
          1 GGCGTTTTGTTCTATAGACGCCGCTAAATAAG

                    
       4359 GGCGTTTT
          1 GGCGTTTT

       4367 TTTTTCGCGC


Statistics
Matches: 128,  Mismatches: 7, Indels: 2
        0.93            0.05        0.01

Matches are distributed among these distances:
  31    1  0.01
  32  127  0.99

ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33


Consensus pattern (32 bp):   
GGCGTTTTGTTCTATAGACGCCGCTAAATAAG

Found at i:8462 original size:2 final size:2

Alignment explanation


    Indices: 8455--8484  Score: 60
    Period size: 2  Copynumber: 15.0  Consensus size: 2

       8445 TTCTTCTCTA

                                                        
       8455 AT 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 AT

       8485 TTTCTGCGTT


Statistics
Matches: 28,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   28  1.00

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


Consensus pattern (2 bp):   
AT

Done.