Summary of assembly and annotation
 
 Scientific name   JCM no.
 Holtermanniella nyarrowii   11471
Genome assembly:
ALLPATHS-LG (ver. 52155)
Genome assembly ver. 001
Estimated genome size   20,636,464
Sequence coverage   221
# of contigs   93
Total length (contigs)   17,660,061
N50 (contigs)   418,324
# of scaffolds   33
Total scaffold length (with gaps)   17,735,411
% gaps   0.4
N50 (scaffold)   1,099,351
GC%   52.7
Gene prediction:
  MAKER annotation pipeline (release 2.31.8)
    Gene predictors used: Augustus (3.0.3), SNAP (2013-02-16), GeneMark-ES (Suite 4.21)
    Reference used: Cryptococcus neoformans
    tRNAscan-SE (version 1.23)
  Infernal cmscan (version 1.1.1)
    Database used: Rfam (Release 12.0)
Functional annotaion:
  Sma3S: 2013-09-01
    Database used: Uniprot-TrEMBL (release 2015_11), Uniprot-sprot (release 2015_11)
Gene prediction & funcational annotation ver. 001
# of predicted gene models   7,521
# of predicted transcript models   7,521
Average transcript length (bp)   1,798
Average coding length (bp)   1,466
Average protein length (aa)   488
Average number of exons per gene model   6.4
Average exon size (bp)   227
Average intron size (bp)   60
# of non-coding RNA   261
# of functionally annotated genes trembl   4,899
# of functionally annotated genes sprot   1,825
CEGMA complete (%)   93.95
CEGMA partial (%)   95.16

Copyright © 2022 Microbe Division (JCM) - All Rights Reserved