Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004764.1 Corchorus capsularis cultivar CVL-1 contig04782, 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, 1000

Length: 8399
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30


Found at i:1103 original size:21 final size:21

Alignment explanation


    Indices: 1079--1133  Score: 71
    Period size: 21  Copynumber: 2.8  Consensus size: 21

       1069 CCCGAAGATA

                      *          
       1079 ATTATATATATTTATATAAAT
          1 ATTATATATAATTATATAAAT

                                 
       1100 ATTATATATAATTATAT-AAT
          1 ATTATATATAATTATATAAAT

                 *          
       1120 -TT-TTTATAATTATA
          1 ATTATATATAATTATA

       1134 AATTTACAGT


Statistics
Matches: 32,  Mismatches: 2, Indels: 3
        0.86            0.05        0.08

Matches are distributed among these distances:
  18   11  0.34
  19    2  0.06
  20    3  0.09
  21   16  0.50

ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55


Consensus pattern (21 bp):   
ATTATATATAATTATATAAAT

Found at i:5555 original size:2 final size:2

Alignment explanation


    Indices: 5548--5578  Score: 55
    Period size: 2  Copynumber: 16.0  Consensus size: 2

       5538 ACATACATAC

                                                           
       5548 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

       5579 TGATGAACTC


Statistics
Matches: 28,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
   1    1  0.04
   2   27  0.96

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
AT

Done.