Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018543.1 Corchorus olitorius cultivar O-4 contig18576, 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: 14436
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32


Found at i:3467 original size:26 final size:23

Alignment explanation


    Indices: 3437--3483  Score: 67
    Period size: 26  Copynumber: 1.9  Consensus size: 23

       3427 CTTGAAAATT

                                      
       3437 TGAAAAACTTTGATGGATGAGATGGA
          1 TGAAAAAC-TTGAT-GAT-AGATGGA

                                 
       3463 TGAAAAACTTGATGATAGATG
          1 TGAAAAACTTGATGATAGATG

       3484 AATAGAAGGA


Statistics
Matches: 21,  Mismatches: 0, Indels: 3
        0.88            0.00        0.12

Matches are distributed among these distances:
  23    5  0.24
  24    3  0.14
  25    5  0.24
  26    8  0.38

ACGTcount: A:0.40, C:0.04, G:0.28, T:0.28


Consensus pattern (23 bp):   
TGAAAAACTTGATGATAGATGGA

Found at i:5447 original size:21 final size:23

Alignment explanation


    Indices: 5401--5456  Score: 80
    Period size: 21  Copynumber: 2.4  Consensus size: 23

       5391 TTGAATTGGA

                                     
       5401 AATTTTGAAAACCTGATTTTTGATT
          1 AATTTTGAAAACC--ATTTTTGATT

                                   
       5426 AATTTTGAAAACC-TTTTT-ATT
          1 AATTTTGAAAACCATTTTTGATT

                      
       5447 AATTTTGAAA
          1 AATTTTGAAA

       5457 TATCACATTC


Statistics
Matches: 31,  Mismatches: 0, Indels: 4
        0.89            0.00        0.11

Matches are distributed among these distances:
  21   13  0.42
  22    5  0.16
  25   13  0.42

ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48


Consensus pattern (23 bp):   
AATTTTGAAAACCATTTTTGATT

Found at i:13799 original size:26 final size:23

Alignment explanation


    Indices: 13769--13815  Score: 67
    Period size: 26  Copynumber: 1.9  Consensus size: 23

      13759 CTTGAAAATT

                                      
      13769 TGAAAAACTTTGATGGATGAGATGGA
          1 TGAAAAAC-TTGAT-GAT-AGATGGA

                                 
      13795 TGAAAAACTTGATGATAGATG
          1 TGAAAAACTTGATGATAGATG

      13816 AATAGAAGGA


Statistics
Matches: 21,  Mismatches: 0, Indels: 3
        0.88            0.00        0.12

Matches are distributed among these distances:
  23    5  0.24
  24    3  0.14
  25    5  0.24
  26    8  0.38

ACGTcount: A:0.40, C:0.04, G:0.28, T:0.28


Consensus pattern (23 bp):   
TGAAAAACTTGATGATAGATGGA
Done.