Mercurial > repos > bgruening > repeat_masker

diff test-data/small_dfam_rattus.fasta.stats @ 11:72aade318318 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/repeatmasker commit c4bf14b461856220df4b4bbdbb4b9bbad1ff8749"
author iuc
date Thu, 20 May 2021 12:56:42 +0000
parents
children 7563ea7a922d
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/small_dfam_rattus.fasta.stats	Thu May 20 12:56:42 2021 +0000
@@ -0,0 +1,53 @@
+==================================================
+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 4.1.2-p1 , default mode
+                                     
+run with rmblastn version 2.10.0+
+FamDB: CONS-Dfam_3.3