Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004810.1 Corchorus capsularis cultivar CVL-1 contig04828, 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: 2538
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36


Found at i:908 original size:1 final size:1

Alignment explanation


    Indices: 902--933  Score: 64
    Period size: 1  Copynumber: 32.0  Consensus size: 1

        892 GTGTCGGGCG

                                            
        902 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
          1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT

        934 ATCTCCGTGT


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   1   31  1.00

ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00


Consensus pattern (1 bp):   
T

Found at i:1771 original size:11 final size:11

Alignment explanation


    Indices: 1755--1796  Score: 59
    Period size: 11  Copynumber: 3.8  Consensus size: 11

       1745 ATTTATTCAT

                       
       1755 TATTAATTAAC
          1 TATTAATTAAC

                        
       1766 TATTAATTAGA-
          1 TATTAATTA-AC

                     * 
       1777 TATTAATTACC
          1 TATTAATTAAC

                     
       1788 TATTAATTA
          1 TATTAATTA

       1797 GATATAGTAT


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

Matches are distributed among these distances:
  11   27  0.96
  12    1  0.04

ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48


Consensus pattern (11 bp):   
TATTAATTAAC

Found at i:1781 original size:22 final size:22

Alignment explanation


    Indices: 1755--1801  Score: 85
    Period size: 22  Copynumber: 2.1  Consensus size: 22

       1745 ATTTATTCAT

                                  
       1755 TATTAATTAACTATTAATTAGA
          1 TATTAATTAACTATTAATTAGA

                     *            
       1777 TATTAATTACCTATTAATTAGA
          1 TATTAATTAACTATTAATTAGA

               
       1799 TAT
          1 TAT

       1802 AGTATAATGG


Statistics
Matches: 24,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  22   24  1.00

ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47


Consensus pattern (22 bp):   
TATTAATTAACTATTAATTAGA
Done.