Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007283.1 Corchorus olitorius cultivar O-4 contig07308, 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: 4688
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.34


Found at i:550 original size:25 final size:25

Alignment explanation


    Indices: 517--573  Score: 80
    Period size: 28  Copynumber: 2.2  Consensus size: 25

        507 AAATTCTCAC

                                     
        517 CAAAACTTAC-AATGAATAAACCTT
          1 CAAAACTTACAAATGAATAAACCTT

                                        
        541 CAAAACCTTACAATAATGAATAAACCTT
          1 CAAAA-CTTAC-A-AATGAATAAACCTT

                 
        569 CAAAA
          1 CAAAA

        574 TTCTCCCAGA


Statistics
Matches: 29,  Mismatches: 0, Indels: 4
        0.88            0.00        0.12

Matches are distributed among these distances:
  24    5  0.17
  25    5  0.17
  28   19  0.66

ACGTcount: A:0.53, C:0.21, G:0.04, T:0.23


Consensus pattern (25 bp):   
CAAAACTTACAAATGAATAAACCTT

Found at i:1396 original size:9 final size:9

Alignment explanation


    Indices: 1382--1409  Score: 56
    Period size: 9  Copynumber: 3.1  Consensus size: 9

       1372 ACTTGTTGGG

                     
       1382 TCGGTCGGT
          1 TCGGTCGGT

                     
       1391 TCGGTCGGT
          1 TCGGTCGGT

                     
       1400 TCGGTCGGT
          1 TCGGTCGGT

             
       1409 T
          1 T

       1410 TTGGTCTGAC


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   9   19  1.00

ACGTcount: A:0.00, C:0.21, G:0.43, T:0.36


Consensus pattern (9 bp):   
TCGGTCGGT
Done.