Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010582.1 Corchorus olitorius cultivar O-4 contig10614, 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: 3388
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36


Found at i:635 original size:25 final size:24

Alignment explanation


    Indices: 599--645  Score: 69
    Period size: 26  Copynumber: 1.9  Consensus size: 24

        589 TCCTTCTATT

                                    
        599 CATCTATCATC-AAGTTTTTCATC
          1 CATCTATCATCAAAGTTTTTCATC

                                    
        622 CATCTCATCCATCAAAGTTTTTCA
          1 CATCT-AT-CATCAAAGTTTTTCA

        646 AATTTTCTAG


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

Matches are distributed among these distances:
  23    5  0.24
  24    2  0.10
  25    4  0.19
  26   10  0.48

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


Consensus pattern (24 bp):   
CATCTATCATCAAAGTTTTTCATC

Found at i:3242 original size:15 final size:16

Alignment explanation


    Indices: 3209--3248  Score: 55
    Period size: 15  Copynumber: 2.6  Consensus size: 16

       3199 TTACTTTGCT

                            
       3209 TTGTTTTCTAGTATAA
          1 TTGTTTTCTAGTATAA

                        *   
       3225 TTGTTTTCT-GTTTAA
          1 TTGTTTTCTAGTATAA

               *     
       3240 TTGCTTTCT
          1 TTGTTTTCT

       3249 TTCAACCTCT


Statistics
Matches: 22,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  15   13  0.59
  16    9  0.41

ACGTcount: A:0.15, C:0.10, G:0.12, T:0.62


Consensus pattern (16 bp):   
TTGTTTTCTAGTATAA
Done.