view test-data/small_repbase.fasta.stats @ 6:65ab76d58c41 draft

planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/repeat_masker commit 6cf009024dfff81b0e0f836b76cf475e7cf84c71
author iuc
date Tue, 18 Dec 2018 14:05:17 -0500
parents 04f5c3d7448e
children 438f65cb1d14
line wrap: on
line source

==================================================
file name: rm_input.fasta           
sequences:             1
total length:      14220 bp  (14220 bp excl N/X-runs) 
GC level:         39.94 %
bases masked:        378 bp ( 2.66 %)
==================================================
               number of      length   percentage
               elements*    occupied  of sequence
--------------------------------------------------
Retroelements            0            0 bp    0.00 %
   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:         0            0 bp    0.00 %
     BEL/Pao             0            0 bp    0.00 %
     Ty1/Copia           0            0 bp    0.00 %
     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:            0            0 bp    0.00 %

Total interspersed repeats:           0 bp    0.00 %


Small RNA:               0            0 bp    0.00 %

Satellites:              0            0 bp    0.00 %
Simple repeats:          7          378 bp    2.66 %
Low complexity:          0            0 bp    0.00 %
==================================================

* most repeats fragmented by insertions or deletions
  have been counted as one element
  Runs of >=20 X/Ns in query were excluded in % calcs


The query species was assumed to be anopheles genus
RepeatMasker Combined Database: Dfam_Consensus-20170127
                          
run with rmblastn version 2.2.27+