Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010747.1 Corchorus olitorius cultivar O-4 contig10779, 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, 761

Length: 1269
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35


Found at i:265 original size:26 final size:25

Alignment explanation


    Indices: 230--278  Score: 80
    Period size: 26  Copynumber: 1.9  Consensus size: 25

        220 CGCCCCGACA

                              *      
        230 GGGAAGGGGATGGGGAATTAATTTG
          1 GGGAAGGGGATGGGGAATGAATTTG

                                    
        255 GGGAACGGGGATGGGGAATGAATT
          1 GGGAA-GGGGATGGGGAATGAATT

        279 CATTCCCGGT


Statistics
Matches: 22,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  25    5  0.23
  26   17  0.77

ACGTcount: A:0.29, C:0.02, G:0.49, T:0.20


Consensus pattern (25 bp):   
GGGAAGGGGATGGGGAATGAATTTG

Found at i:1069 original size:18 final size:19

Alignment explanation


    Indices: 1046--1086  Score: 66
    Period size: 18  Copynumber: 2.2  Consensus size: 19

       1036 CCGAGCAAAG

                               
       1046 TTCTGGAAAACCTGG-AAA
          1 TTCTGGAAAACCTGGAAAA

                  *            
       1064 TTCTGGTAAACCTGGAAAA
          1 TTCTGGAAAACCTGGAAAA

                
       1083 TTCT
          1 TTCT

       1087 AGAATAAGTT


Statistics
Matches: 21,  Mismatches: 1, Indels: 1
        0.91            0.04        0.04

Matches are distributed among these distances:
  18   14  0.67
  19    7  0.33

ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29


Consensus pattern (19 bp):   
TTCTGGAAAACCTGGAAAA

Done.