view test-data/small_dfam_rattus.fasta.stats @ 14:7563ea7a922d draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/repeatmasker commit 7a5f368a5859e659aa36d0358bb96ca12574e2cc
author iuc
date Mon, 24 Apr 2023 10:29:31 +0000
parents 72aade318318
children
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==================================================
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
--------------------------------------------------
SINEs:                 0            0 bp    0.00 %
      Alu/B1           0            0 bp    0.00 %
      B2-B4            0            0 bp    0.00 %
      IDs              0            0 bp    0.00 %
      MIRs             0            0 bp    0.00 %


LINEs:                 0            0 bp    0.00 %
      LINE1            0            0 bp    0.00 %
      LINE2            0            0 bp    0.00 %
      L3/CR1           0            0 bp    0.00 %

LTR elements:          0            0 bp    0.00 %
      ERVL             0            0 bp    0.00 %
      ERVL-MaLRs       0            0 bp    0.00 %
      ERV_classI       0            0 bp    0.00 %
      ERV_classII      0            0 bp    0.00 %

DNA elements:          0             0bp    0.00 %
      hAT-Charlie      0            0 bp    0.00 %
      TcMar-Tigger     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 rattus        
RepeatMasker version 4.1.5 , default mode
                                        
run with rmblastn version 2.13.0+
FamDB: CONS-Dfam_3.7