Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010482.1 Corchorus capsularis cultivar CVL-1 contig10503, 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: 4282
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30


Found at i:1568 original size:42 final size:42

Alignment explanation


    Indices: 1507--1592  Score: 127
    Period size: 42  Copynumber: 2.0  Consensus size: 42

       1497 AAGGGTCAAG

                          *      *       * *       *  
       1507 TGGCCGGTTGTGGCTGGATGGTCCGTGCGTTGGCCCGTGTGA
          1 TGGCCGGTTGTGGCCGGATGGCCCGTGCGATAGCCCGTGCGA

                                                      
       1549 TGGCCGGTTGTGGCCGGATGGCCCGTGCGATAGCCCGTGCGA
          1 TGGCCGGTTGTGGCCGGATGGCCCGTGCGATAGCCCGTGCGA

              
       1591 TG
          1 TG

       1593 TCCCATGCAT


Statistics
Matches: 39,  Mismatches: 5, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  42   39  1.00

ACGTcount: A:0.07, C:0.24, G:0.44, T:0.24


Consensus pattern (42 bp):   
TGGCCGGTTGTGGCCGGATGGCCCGTGCGATAGCCCGTGCGA

Found at i:3352 original size:15 final size:15

Alignment explanation


    Indices: 3332--3361  Score: 60
    Period size: 15  Copynumber: 2.0  Consensus size: 15

       3322 GATTCTCCTA

                           
       3332 CAACAGAGAGTAGTG
          1 CAACAGAGAGTAGTG

                           
       3347 CAACAGAGAGTAGTG
          1 CAACAGAGAGTAGTG

       3362 AGTTAGTAGT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   15  1.00

ACGTcount: A:0.40, C:0.13, G:0.33, T:0.13


Consensus pattern (15 bp):   
CAACAGAGAGTAGTG
Done.