Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023570.1 Corchorus olitorius cultivar O-4 contig23603, 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, 951

Length: 1586
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28


Found at i:322 original size:6 final size:6

Alignment explanation


    Indices: 311--384  Score: 148
    Period size: 6  Copynumber: 12.3  Consensus size: 6

        301 CAAGCTGCAC

                                                                   
        311 CACAAT CACAAT CACAAT CACAAT CACAAT CACAAT CACAAT CACAAT
          1 CACAAT CACAAT CACAAT CACAAT CACAAT CACAAT CACAAT CACAAT

                                          
        359 CACAAT CACAAT CACAAT CACAAT CA
          1 CACAAT CACAAT CACAAT CACAAT CA

        385 TCCGTTAACG


Statistics
Matches: 68,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   68  1.00

ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16


Consensus pattern (6 bp):   
CACAAT

Found at i:469 original size:38 final size:38

Alignment explanation


    Indices: 414--561  Score: 199
    Period size: 38  Copynumber: 3.9  Consensus size: 38

        404 TCGAGTCTAG

                         *           *            
        414 CCAACAG-TTAACTCCCTGAGGCACAGGTCCACTCTTA
          1 CCAACAGTTTAACCCCCTGAGGCACGGGTCCACTCTTA

                                                  
        451 CCAACAGTTTAACCCCCTGAGGCACGGGTCCACTCTTA
          1 CCAACAGTTTAACCCCCTGAGGCACGGGTCCACTCTTA

                               *  * * *   *        
        489 CCAACAGTTTAACCCCCTGTGGTATGAGTCAACTCTTTA
          1 CCAACAGTTTAACCCCCTGAGGCACGGGTCCACTC-TTA

               *                  *           
        528 CCATCAGTTTAACCCCCTGAGGTACGGGTCCACT
          1 CCAACAGTTTAACCCCCTGAGGCACGGGTCCACT

        562 ATGCACAGCC


Statistics
Matches: 97,  Mismatches: 12, Indels: 2
        0.87            0.11        0.02

Matches are distributed among these distances:
  37    7  0.07
  38   58  0.60
  39   32  0.33

ACGTcount: A:0.24, C:0.34, G:0.18, T:0.24


Consensus pattern (38 bp):   
CCAACAGTTTAACCCCCTGAGGCACGGGTCCACTCTTA

Done.