Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010727.1 Corchorus olitorius cultivar O-4 contig10759, 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: 1817
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30


Found at i:213 original size:25 final size:24

Alignment explanation


    Indices: 177--223  Score: 69
    Period size: 26  Copynumber: 1.9  Consensus size: 24

        167 TCCTTCTATT

                                    
        177 CATCTATCATC-AAGTTTTTCATC
          1 CATCTATCATCAAAGTTTTTCATC

                                    
        200 CATCTCATCCATCAAAGTTTTTCA
          1 CATCT-AT-CATCAAAGTTTTTCA

        224 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:372 original size:11 final size:10

Alignment explanation


    Indices: 345--370  Score: 52
    Period size: 10  Copynumber: 2.6  Consensus size: 10

        335 GAAAAATATC

                      
        345 AAAAAATAAA
          1 AAAAAATAAA

                      
        355 AAAAAATAAA
          1 AAAAAATAAA

                  
        365 AAAAAA
          1 AAAAAA

        371 ATTTCGACCA


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   16  1.00

ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08


Consensus pattern (10 bp):   
AAAAAATAAA
Done.