Was this page helpful?

Repeat Masking

    Table of contents
    1. 1. Summary Table

    Anotation of repetitive elements based on the software CENSOR using grass family (Poaceae) as a model.

    (genomic information research institue: http://www.girinst.org/censor/index.php)



    Name From To Name From To Class Dir* Sim* Pos* Score
    scaffold_14 15077 15235 MERMITED 1010 1152 DNA c 0.7143 0.71 279
    scaffold_14 22289 22373 Atlantys-2-I_OS 8527 8611 LTR/Gypsy d 0.6824 0.68 301
    scaffold_14 27104 27178 SHOOTER 11 81 DNA/EnSpm d 0.7432 0.74 258
    scaffold_14 34844 34948 BS1 1041 1145 Interspersed_Repeat d 0.6981 0.70 301
    scaffold_14 54126 54228 STOWAWAY50_OS 35 133 DNA d 0.7624 0.76 302
    scaffold_14 72308 72395 EnSpm-9_OS 5111 5189 DNA/EnSpm c 0.7407 0.74 222
    scaffold_14 77278 77331 TREP60 150 203 Simple/Sat/MSAT d 0.8148 0.81 27

    *Dir: Orientation ('d' for direct, 'c' for complementary)

    *Sim: Value of similarity between 2 aligned fragments 

    *Pos: The ratio of positives to alignment length (Positives are pairs of bases that produce positive scores in the alignment matrix)


    Summary Table

    Repeat Class Fragments Length
    Simple Repeat 1 54
        Satellite 1 54
           MSAT 1 54
    Transposable Element 5 510
        DNA transposon 4 425
           EnSpm 2 163
        LTR Retrotransposon 1 85
           Gypsy 1 85
    Total 7 669
    Was this page helpful?
    Tag page (Edit tags)
    • No tags

    Files 1

    FileSizeDateAttached by 
     CENSOR Results - GIRIgrass.pdf
    Repeat masking grass family
    280.07 kB05:40, 1 Dec 2008nyookongActions
    You must login to post a comment.