Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004255.1 Corchorus capsularis cultivar CVL-1 contig04263, 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, 621

Length: 1035
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45


Found at i:209 original size:57 final size:57

Alignment explanation


    Indices: 140--250  Score: 197
    Period size: 57  Copynumber: 1.9  Consensus size: 57

        130 CCATCTACTC

                           *                                          
        140 TGAGATAAATCATATTGATAATGACCCCTTAACCAGTTTTTCCA-TTCATTCATCCCA
          1 TGAGATAAATCATATCGATAATGACCCCTTAACCAGTTTTTCCATTTC-TTCATCCCA

                                                                  
        197 TGAGATAAATCATATCGATAATGACCCCTTAACCAGTTTTTCCATTTCTTCATC
          1 TGAGATAAATCATATCGATAATGACCCCTTAACCAGTTTTTCCATTTCTTCATC

        251 TTCTTCATCC


Statistics
Matches: 52,  Mismatches: 1, Indels: 2
        0.95            0.02        0.04

Matches are distributed among these distances:
  57   49  0.94
  58    3  0.06

ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36


Consensus pattern (57 bp):   
TGAGATAAATCATATCGATAATGACCCCTTAACCAGTTTTTCCATTTCTTCATCCCA

Found at i:906 original size:18 final size:18

Alignment explanation


    Indices: 883--939  Score: 114
    Period size: 18  Copynumber: 3.2  Consensus size: 18

        873 TTTTATTTGT

                              
        883 TTTTCTGTTAATGAATAA
          1 TTTTCTGTTAATGAATAA

                              
        901 TTTTCTGTTAATGAATAA
          1 TTTTCTGTTAATGAATAA

                              
        919 TTTTCTGTTAATGAATAA
          1 TTTTCTGTTAATGAATAA

               
        937 TTT
          1 TTT

        940 GTCGATTCCA


Statistics
Matches: 39,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  18   39  1.00

ACGTcount: A:0.32, C:0.05, G:0.11, T:0.53


Consensus pattern (18 bp):   
TTTTCTGTTAATGAATAA
Done.