##SnpEffVersion="4.1 (build 2015-01-07), by Pablo Cingolani"
##SnpEffCmd="SnpEff  testHg3775Chr1 examples/variants_1.vcf "
##INFO=<ID=ANN,Number=.,Type=String,Description="Functional annotations: 'Allele | Annotation | Annotation_Impact | Gene_Name | Gene_ID | Feature_Type | Feature_ID | Transcript_BioType | Rank | HGVS.c | HGVS.p | cDNA.pos / cDNA.length | CDS.pos / CDS.length | AA.pos / AA.length | Distance | ERRORS / WARNINGS / INFO' ">
##INFO=<ID=LOF,Number=.,Type=String,Description="Predicted loss of function effects for this variant. Format: 'Gene_Name | Gene_ID | Number_of_transcripts_in_gene | Percent_of_transcripts_affected' ">
##INFO=<ID=NMD,Number=.,Type=String,Description="Predicted nonsense mediated decay effects for this variant. Format: 'Gene_Name | Gene_ID | Number_of_transcripts_in_gene | Percent_of_transcripts_affected' ">
1	889455	.	G	A	.	.	ANN=A|stop_gained|HIGH|NOC2L|ENSG00000188976|transcript|ENST00000327044|protein_coding|7/19|c.706C>T|p.Gln236*|756/2790|706/2250|236/749||,A|downstream_gene_variant|MODIFIER|NOC2L|ENSG00000188976|transcript|ENST00000487214|processed_transcript||n.*865C>T|||||351|,A|downstream_gene_variant|MODIFIER|NOC2L|ENSG00000188976|transcript|ENST00000469563|retained_intron||n.*878C>T|||||4171|,A|non_coding_exon_variant|MODIFIER|NOC2L|ENSG00000188976|transcript|ENST00000477976|retained_intron|5/17|n.2153C>T||||||;LOF=(NOC2L|ENSG00000188976|6|0.17);NMD=(NOC2L|ENSG00000188976|6|0.17)
