Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007660.1 Corchorus olitorius cultivar O-4 contig07686, 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, 613

Length: 1022
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34


Found at i:256 original size:2 final size:2

Alignment explanation


    Indices: 194--241  Score: 57
    Period size: 2  Copynumber: 24.5  Consensus size: 2

        184 CTGGTGTTCA

                                                                           
        194 AT AT AT -T AGT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT -T
          1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

                       
        234 ACT AT AT A
          1 A-T AT AT A

        242 ATTTGGCCCA


Statistics
Matches: 41,  Mismatches: 0, Indels: 10
        0.80            0.00        0.20

Matches are distributed among these distances:
   1    3  0.07
   2   34  0.83
   3    4  0.10

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


Consensus pattern (2 bp):   
AT

Found at i:636 original size:25 final size:23

Alignment explanation


    Indices: 608--653  Score: 65
    Period size: 23  Copynumber: 1.9  Consensus size: 23

        598 TTTACTGTTT

                           *         
        608 TAAATATAATATATATATATATTAA
          1 TAAATA-AATA-ATAAATATATTAA

                                 
        633 TAAATAAATAATAAATATATT
          1 TAAATAAATAATAAATATATT

        654 TTCAATACAA


Statistics
Matches: 20,  Mismatches: 1, Indels: 2
        0.87            0.04        0.09

Matches are distributed among these distances:
  23   10  0.50
  24    4  0.20
  25    6  0.30

ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41


Consensus pattern (23 bp):   
TAAATAAATAATAAATATATTAA
Done.