Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004340.1 Corchorus capsularis cultivar CVL-1 contig04348, 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, 606

Length: 1010
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44


Found at i:130 original size:57 final size:57

Alignment explanation


    Indices: 61--171  Score: 188
    Period size: 57  Copynumber: 1.9  Consensus size: 57

         51 CCATCTACTC

                           *                                          
         61 TGAGATAAATCATATTGATAATGACCCCTTAACCAGTTTTTCCA-TTCATTCATCCCA
          1 TGAGATAAATCATATCGATAATGACCCC-TAACCAGTTTTTCCATTTCATTCATCCCA

                                                           *      
        118 TGAGATAAATCATATCGATAATGACCCCTAACCAGTTTTTCCATTTCTTTCATC
          1 TGAGATAAATCATATCGATAATGACCCCTAACCAGTTTTTCCATTTCATTCATC

        172 TTCTTCATCC


Statistics
Matches: 51,  Mismatches: 2, Indels: 2
        0.93            0.04        0.04

Matches are distributed among these distances:
  56   15  0.29
  57   36  0.71

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


Consensus pattern (57 bp):   
TGAGATAAATCATATCGATAATGACCCCTAACCAGTTTTTCCATTTCATTCATCCCA

Found at i:827 original size:18 final size:18

Alignment explanation


    Indices: 804--860  Score: 114
    Period size: 18  Copynumber: 3.2  Consensus size: 18

        794 TTTTATTTGT

                              
        804 TTTTCTGTTAATGAATAA
          1 TTTTCTGTTAATGAATAA

                              
        822 TTTTCTGTTAATGAATAA
          1 TTTTCTGTTAATGAATAA

                              
        840 TTTTCTGTTAATGAATAA
          1 TTTTCTGTTAATGAATAA

               
        858 TTT
          1 TTT

        861 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.