Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005696.1 Corchorus capsularis cultivar CVL-1 contig05714, 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, 976

Length: 1627
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22


Found at i:714 original size:15 final size:15

Alignment explanation


    Indices: 694--727  Score: 52
    Period size: 15  Copynumber: 2.3  Consensus size: 15

        684 AAAACAACTT

                            
        694 ATAAAACAAGTTA-TA
          1 ATAAAACAA-TTAGTA

                           
        709 ATAAAACAATTAGTA
          1 ATAAAACAATTAGTA

                
        724 ATAA
          1 ATAA

        728 TAAATCCAAT


Statistics
Matches: 18,  Mismatches: 0, Indels: 2
        0.90            0.00        0.10

Matches are distributed among these distances:
  14    3  0.17
  15   15  0.83

ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26


Consensus pattern (15 bp):   
ATAAAACAATTAGTA

Found at i:1178 original size:27 final size:26

Alignment explanation


    Indices: 1146--1204  Score: 73
    Period size: 27  Copynumber: 2.2  Consensus size: 26

       1136 TAATGCACCC

                  *              * *   
       1146 AAAACATTTTAATAAAAATCATTTATA
          1 AAAACACTTTAATAAAAAT-AGTAATA

                       *              
       1173 AAAACACTTTACTAAAAATAGTAATA
          1 AAAACACTTTAATAAAAATAGTAATA

                  
       1199 AAAACA
          1 AAAACA

       1205 AGTCCCTCAA


Statistics
Matches: 28,  Mismatches: 4, Indels: 1
        0.85            0.12        0.03

Matches are distributed among these distances:
  26   11  0.39
  27   17  0.61

ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29


Consensus pattern (26 bp):   
AAAACACTTTAATAAAAATAGTAATA
Done.