Summary of assembly and annotation
 
 Scientific name   JCM no.
 Apiotrichum domesticum   9580
Genome assembly:
ALLPATHS-LG (ver. 52155)
Genome assembly ver. 001
Estimated genome size   26,577,142
Sequence coverage   204
# of contigs   93
Total length (contigs)   24,479,748
N50 (contigs)   612,596
# of scaffolds   28
Total scaffold length (with gaps)   24,510,922
% gaps   0.1
N50 (scaffold)   3,306,260
GC%   58.5
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   8,170
# of predicted transcript models   8,170
Average transcript length (bp)   1,735
Average coding length (bp)   1,484
Average protein length (aa)   494
Average number of exons per gene model   4.3
Average exon size (bp)   345
Average intron size (bp)   74
# of non-coding RNA   480
# of functionally annotated genes trembl   6,156
# of functionally annotated genes sprot   1,901
CEGMA complete (%)   93.55
CEGMA partial (%)   95.56

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