No SINEs, LINEs, LTR and DNA elements detected by RepeatMasker

1

Hi,
I was trying to repeatmask a plant genome using RepeatMasker using the following command

./RepeatMasker -species cocos -s -a -poly -dir /home/dic/Desktop/software /home/dic/Desktop/softwares/coconut/GCA_008124465.1_ASM812446v1_genomic.fna

Using combined dfam and repbase library. still the output is as follows with no lines, sines etc. detected. Does anybody have any ideas about this? Many thanks. I'm using "RepeatMasker version open-4.1."


output:

sequences:         59328
total length: 1839172334 bp  (1567667895 bp excl N/X-runs)
GC level:         37.31 %
bases masked:   19191682 bp ( 1.04 %)

Retroelements        47004     19090771 bp    1.04 %
   SINEs:                0            0 bp    0.00 %
   Penelope              0            0 bp    0.00 %
   LINEs:                0            0 bp    0.00 %
    CRE/SLACS            0            0 bp    0.00 %
     L2/CR1/Rex          0            0 bp    0.00 %
     R1/LOA/Jockey       0            0 bp    0.00 %
     R2/R4/NeSL          0            0 bp    0.00 %
     RTE/Bov-B           0            0 bp    0.00 %
     L1/CIN4             0            0 bp    0.00 %
   LTR elements:     47004     19090771 bp    1.04 %
     BEL/Pao             0            0 bp    0.00 %
     Ty1/Copia       47004     19090771 bp    1.04 %
     Gypsy/DIRS1         0            0 bp    0.00 %
       Retroviral        0            0 bp    0.00 %

DNA transposons          0            0 bp    0.00 %
   hobo-Activator        0            0 bp    0.00 %
   Tc1-IS630-Pogo        0            0 bp    0.00 %
   En-Spm                0            0 bp    0.00 %
   MuDR-IS905            0            0 bp    0.00 %
   PiggyBac              0            0 bp    0.00 %
   Tourist/Harbinger     0            0 bp    0.00 %
   Other (Mirage,        0            0 bp    0.00 %
    P-element, Transib)

Rolling-circles          0            0 bp    0.00 %

Unclassified:            5          264 bp    0.00 %

Total interspersed repeats:    19091035 bp    1.04 %


Small RNA:            1033       100647 bp    0.01 %

Satellites:              0            0 bp    0.00 %
Simple repeats:          0            0 bp    0.00 %
Low complexity:          0            0 bp    0.00 %


repeatmasking


RepeatMasker


repeat

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