Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019573.1 Corchorus olitorius cultivar O-4 contig19606, 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: 14113
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32


Found at i:10822 original size:80 final size:80

Alignment explanation


    Indices: 10689--10851  Score: 317
    Period size: 80  Copynumber: 2.0  Consensus size: 80

      10679 GTTGAACCCG

                                                                             
      10689 TCTTCAATGGATGATTTTTCTTCTCAAATCACTCAAGCACGATCGATAGATGAATTTAGGGGAAT
          1 TCTTCAATGGATGATTTTTCTTCTCAAATCACTCAAGCACGATCGATAGATGAATTTAGGGGAAT

                           
      10754 TTTTAAGATTTTTGC
         66 TTTTAAGATTTTTGC

                                                                             
      10769 TCTTCAATGGATGATTTTTCTTCTCAAATCACTCAAGCACGATCGATAGATGAATTTAGGGGAAT
          1 TCTTCAATGGATGATTTTTCTTCTCAAATCACTCAAGCACGATCGATAGATGAATTTAGGGGAAT

                *          
      10834 TTTTTAGATTTTTGC
         66 TTTTAAGATTTTTGC

               
      10849 TCT
          1 TCT

      10852 GTAACAGAGA


Statistics
Matches: 82,  Mismatches: 1, Indels: 0
        0.99            0.01        0.00

Matches are distributed among these distances:
  80   82  1.00

ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40


Consensus pattern (80 bp):   
TCTTCAATGGATGATTTTTCTTCTCAAATCACTCAAGCACGATCGATAGATGAATTTAGGGGAAT
TTTTAAGATTTTTGC

Found at i:11198 original size:22 final size:22

Alignment explanation


    Indices: 11172--11217  Score: 92
    Period size: 22  Copynumber: 2.1  Consensus size: 22

      11162 TGCCTTTATA

                                  
      11172 ATTAGTATAGATATTATCACTT
          1 ATTAGTATAGATATTATCACTT

                                  
      11194 ATTAGTATAGATATTATCACTT
          1 ATTAGTATAGATATTATCACTT

              
      11216 AT
          1 AT

      11218 CAGCGACCAT


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  22   24  1.00

ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46


Consensus pattern (22 bp):   
ATTAGTATAGATATTATCACTT

Found at i:13020 original size:3 final size:3

Alignment explanation


    Indices: 13012--13093  Score: 164
    Period size: 3  Copynumber: 27.3  Consensus size: 3

      13002 CGAAAGAATC

                                                                           
      13012 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
          1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA

                                                         
      13060 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
          1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T

      13094 ATATCCTACC


Statistics
Matches: 79,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   79  1.00

ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67


Consensus pattern (3 bp):   
TTA

Done.