Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001922.1 Corchorus olitorius cultivar O-4 contig01922, 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, 610

Length: 1018
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:391 original size:25 final size:25

Alignment explanation


    Indices: 358--428  Score: 133
    Period size: 25  Copynumber: 2.8  Consensus size: 25

        348 TGCTTGTGCC

                                     
        358 AAAAAAAAGGAGTAATTTGGATGCA
          1 AAAAAAAAGGAGTAATTTGGATGCA

                                     
        383 AAAAAAAAGGAGTAATTTGGATGCA
          1 AAAAAAAAGGAGTAATTTGGATGCA

                            *    
        408 AAAAAAAAGGAGTAATATGGA
          1 AAAAAAAAGGAGTAATTTGGA

        429 GATTTGAAAG


Statistics
Matches: 45,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  25   45  1.00

ACGTcount: A:0.55, C:0.03, G:0.24, T:0.18


Consensus pattern (25 bp):   
AAAAAAAAGGAGTAATTTGGATGCA

Found at i:694 original size:37 final size:37

Alignment explanation


    Indices: 644--718  Score: 141
    Period size: 37  Copynumber: 2.0  Consensus size: 37

        634 CCACATCTAT

                 *                               
        644 GGTTGTAACCGTTTCATCACCGTTTTGGATCCAAACG
          1 GGTTGAAACCGTTTCATCACCGTTTTGGATCCAAACG

                                                 
        681 GGTTGAAACCGTTTCATCACCGTTTTGGATCCAAACG
          1 GGTTGAAACCGTTTCATCACCGTTTTGGATCCAAACG

             
        718 G
          1 G

        719 AGCTTAAGTA


Statistics
Matches: 37,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  37   37  1.00

ACGTcount: A:0.23, C:0.24, G:0.23, T:0.31


Consensus pattern (37 bp):   
GGTTGAAACCGTTTCATCACCGTTTTGGATCCAAACG

Found at i:801 original size:19 final size:19

Alignment explanation


    Indices: 777--813  Score: 56
    Period size: 19  Copynumber: 1.9  Consensus size: 19

        767 GTATGGTATC

                     *         
        777 TAATCTAATTTGTACAGTG
          1 TAATCTAATCTGTACAGTG

                  *           
        796 TAATCTCATCTGTACAGT
          1 TAATCTAATCTGTACAGT

        814 TGCTAAACAG


Statistics
Matches: 16,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  19   16  1.00

ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41


Consensus pattern (19 bp):   
TAATCTAATCTGTACAGTG
Done.