Summary of assembly and annotation
 
 Scientific name   JCM no.
 Apiotrichum porosum   1458
Genome assembly:
ALLPATHS-LG (ver. 52155)
Genome assembly ver. 001
Estimated genome size   29,187,398
Sequence coverage   148
# of contigs   162
Total length (contigs)   25,962,372
N50 (contigs)   300,083
# of scaffolds   37
Total scaffold length (with gaps)   25,989,348
% gaps   0.1
N50 (scaffold)   3,276,928
GC%   59.0
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   9,200
# of predicted transcript models   9,200
Average transcript length (bp)   1,776
Average coding length (bp)   1,499
Average protein length (aa)   499
Average number of exons per gene model   4.3
Average exon size (bp)   345
Average intron size (bp)   81
# of non-coding RNA   627
# of functionally annotated genes trembl   6,803
# of functionally annotated genes sprot   2,006
CEGMA complete (%)   93.15
CEGMA partial (%)   93.95

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