snpfreqplot: test-data/1085990.vcf annotate

annotate test-data/1085990.vcf @ 3:3d0adeee3f2b draft default tip

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit c062eb1cd00ce9d565f3e2f3b042b3dd90d78ce4"

author	iuc
date	Wed, 06 Jan 2021 10:55:53 +0000
parents	1062d6ad6503
children

rev	line source
0 1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	1 ##fileformat=VCFv4.0
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	2 ##fileDate=20201106
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	3 ##source=lofreq call --verbose --ref reference.fa --call-indels --min-cov 5 --max-depth 1000000 --min-bq 30 --min-alt-bq 30 --min-mq 20 --max-mq 255 --min-jq 0 --min-alt-jq 0 --def-alt-jq 0 --sig 0.0005 --bonf dynamic --no-default-filter --no-default-filter -r NC_045512.2:1-14951 -o /data/dnb03/galaxy_db/job_working_directory/012/246/12246267/tmp/lofreq2_call_parallelqn_l60x2/0.vcf.gz reads.bam
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	4 ##reference=reference.fa
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	5 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Raw Depth">
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	6 ##INFO=<ID=AF,Number=1,Type=Float,Description="Allele Frequency">
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	7 ##INFO=<ID=SB,Number=1,Type=Integer,Description="Phred-scaled strand bias at this position">
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	8 ##INFO=<ID=DP4,Number=4,Type=Integer,Description="Counts for ref-forward bases, ref-reverse, alt-forward and alt-reverse bases">
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	9 ##INFO=<ID=INDEL,Number=0,Type=Flag,Description="Indicates that the variant is an INDEL.">
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	10 ##INFO=<ID=CONSVAR,Number=0,Type=Flag,Description="Indicates that the variant is a consensus variant (as opposed to a low frequency variant).">
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	11 ##INFO=<ID=HRUN,Number=1,Type=Integer,Description="Homopolymer length to the right of report indel position">
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	12 ##FILTER=<ID=min_snvqual_76,Description="Minimum SNV Quality (Phred) 76">
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	13 ##FILTER=<ID=min_indelqual_62,Description="Minimum Indel Quality (Phred) 62">
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	14 ##FILTER=<ID=min_snvqual_80,Description="Minimum SNV Quality (Phred) 80">
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	15 ##FILTER=<ID=min_indelqual_65,Description="Minimum Indel Quality (Phred) 65">
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	16 ##FILTER=<ID=min_af_0.050000,Description="Minimum allele frequency 0.050000">
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	17 ##FILTER=<ID=min_dp_5,Description="Minimum Coverage 5">
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	18 ##FILTER=<ID=sb_fdr,Description="Strand-Bias Multiple Testing Correction: fdr corr. pvalue > 0.001000">
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	19 ##SnpEffVersion="4.5covid19 (build 2020-04-15 22:26), by Pablo Cingolani"
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	20 ##SnpEffCmd="SnpEff -i vcf -o vcf -formatEff -classic -no-downstream -no-intergenic -no-upstream -stats /data/dnb03/galaxy_db/job_working_directory/012/246/12246347/outputs/galaxy_dataset_1ca63e30-5487-4601-bda6-72c686cc7d32.dat NC_045512.2 /data/dnb03/galaxy_db/files/d/9/0/dataset_d9078927-a687-4f10-a32b-a57712d806a3.dat "
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	21 ##INFO=<ID=EFF,Number=.,Type=String,Description="Predicted effects for this variant.Format: 'Effect ( Effect_Impact \| Functional_Class \| Codon_Change \| Amino_Acid_Change\| Amino_Acid_length \| Gene_Name \| Transcript_BioType \| Gene_Coding \| Transcript_ID \| Exon_Rank \| Genotype [ \| ERRORS \| WARNINGS ] )' ">
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	22 ##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'">
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	23 ##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'">
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	24 #CHROM POS ID REF ALT QUAL FILTER INFO
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	25 NC_045512.2 241 . C T 49314.0 PASS AF=0.994274;DP=3318;DP4=0,1,1344,1972;SB=0
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	26 NC_045512.2 396 . A G 97.0 min_af_0.050000 AF=0.001315;DP=12924;DP4=10266,2637,16,1;SB=6;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|cAa/cGa\|Q44R\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|G),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|cAa/cGa\|Q44R\|179\|ORF1ab\|protein_coding\|CODING\|YP_009725297.1\|1\|G\|WARNING_TRANSCRIPT_NO_STOP_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|cAa/cGa\|Q44R\|179\|ORF1ab\|protein_coding\|CODING\|YP_009742608.1\|1\|G\|WARNING_TRANSCRIPT_NO_STOP_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|cAa/cGa\|Q44R\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|G)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	27 NC_045512.2 443 . GT G 109.0 min_af_0.050000 AF=0.000905;DP=13257;DP4=10220,3055,10,2;HRUN=4;SB=0;INDEL;EFF=FRAME_SHIFT(HIGH\|\|ttg/\|L61\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|G\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttg/\|L61\|179\|ORF1ab\|protein_coding\|CODING\|YP_009725297.1\|1\|G\|WARNING_TRANSCRIPT_NO_STOP_CODON&INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttg/\|L61\|179\|ORF1ab\|protein_coding\|CODING\|YP_009742608.1\|1\|G\|WARNING_TRANSCRIPT_NO_STOP_CODON&INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttg/\|L61\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|G\|INFO_REALIGN_3_PRIME);LOF=(ORF1ab\|GU280_gp01\|28\|0.07)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	28 NC_045512.2 527 . C T 185.0 min_af_0.050000 AF=0.003468;DP=5767;DP4=3187,2554,12,8;SB=0;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|Ctg/Ttg\|L88\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T),SYNONYMOUS_CODING(LOW\|SILENT\|Ctg/Ttg\|L88\|179\|ORF1ab\|protein_coding\|CODING\|YP_009725297.1\|1\|T\|WARNING_TRANSCRIPT_NO_STOP_CODON),SYNONYMOUS_CODING(LOW\|SILENT\|Ctg/Ttg\|L88\|179\|ORF1ab\|protein_coding\|CODING\|YP_009742608.1\|1\|T\|WARNING_TRANSCRIPT_NO_STOP_CODON),SYNONYMOUS_CODING(LOW\|SILENT\|Ctg/Ttg\|L88\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	29 NC_045512.2 558 . G T 365.0 min_af_0.050000 AF=0.006082;DP=5426;DP4=3138,2252,18,16;SB=2;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gGt/gTt\|G98V\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gGt/gTt\|G98V\|179\|ORF1ab\|protein_coding\|CODING\|YP_009725297.1\|1\|T\|WARNING_TRANSCRIPT_NO_STOP_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gGt/gTt\|G98V\|179\|ORF1ab\|protein_coding\|CODING\|YP_009742608.1\|1\|T\|WARNING_TRANSCRIPT_NO_STOP_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gGt/gTt\|G98V\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	30 NC_045512.2 656 . G T 88.0 min_af_0.050000 AF=0.001295;DP=12351;DP4=2406,9925,8,10;SB=18;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gct/Tct\|A131S\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gct/Tct\|A131S\|179\|ORF1ab\|protein_coding\|CODING\|YP_009725297.1\|1\|T\|WARNING_TRANSCRIPT_NO_STOP_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gct/Tct\|A131S\|179\|ORF1ab\|protein_coding\|CODING\|YP_009742608.1\|1\|T\|WARNING_TRANSCRIPT_NO_STOP_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gct/Tct\|A131S\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	31 NC_045512.2 1295 . T A 171.0 min_af_0.050000 AF=0.002789;DP=6813;DP4=1575,5217,1,18;SB=10;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Tgt/Agt\|C344S\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Tgt/Agt\|C344S\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Tgt/Agt\|C164S\|637\|ORF1ab\|protein_coding\|CODING\|YP_009725298.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Tgt/Agt\|C164S\|637\|ORF1ab\|protein_coding\|CODING\|YP_009742609.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	32 NC_045512.2 1644 . A C 184.0 min_af_0.050000 AF=0.001854;DP=12942;DP4=10851,2059,10,16;SB=67;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aAc/aCc\|N460T\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|C),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aAc/aCc\|N460T\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|C),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aAc/aCc\|N280T\|637\|ORF1ab\|protein_coding\|CODING\|YP_009725298.1\|1\|C\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aAc/aCc\|N280T\|637\|ORF1ab\|protein_coding\|CODING\|YP_009742609.1\|1\|C\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	33 NC_045512.2 1647 . T A 175.0 min_af_0.050000 AF=0.001771;DP=12990;DP4=10827,2131,10,17;SB=71;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aTc/aAc\|I461N\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aTc/aAc\|I461N\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aTc/aAc\|I281N\|637\|ORF1ab\|protein_coding\|CODING\|YP_009725298.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aTc/aAc\|I281N\|637\|ORF1ab\|protein_coding\|CODING\|YP_009742609.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	34 NC_045512.2 1656 . T A 151.0 min_af_0.050000 AF=0.001603;DP=13099;DP4=10815,2261,8,14;SB=57;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gTt/gAt\|V464D\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gTt/gAt\|V464D\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gTt/gAt\|V284D\|637\|ORF1ab\|protein_coding\|CODING\|YP_009725298.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gTt/gAt\|V284D\|637\|ORF1ab\|protein_coding\|CODING\|YP_009742609.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	35 NC_045512.2 1659 . G T 147.0 min_af_0.050000 AF=0.001594;DP=13171;DP4=10873,2272,9,15;SB=59;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gGt/gTt\|G465V\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gGt/gTt\|G465V\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gGt/gTt\|G285V\|637\|ORF1ab\|protein_coding\|CODING\|YP_009725298.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gGt/gTt\|G285V\|637\|ORF1ab\|protein_coding\|CODING\|YP_009742609.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	36 NC_045512.2 1702 . T C 285.0 min_af_0.050000 AF=0.002544;DP=13363;DP4=10930,2369,25,10;SB=9;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|tcT/tcC\|S479\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|C),SYNONYMOUS_CODING(LOW\|SILENT\|tcT/tcC\|S479\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|C),SYNONYMOUS_CODING(LOW\|SILENT\|tcT/tcC\|S299\|637\|ORF1ab\|protein_coding\|CODING\|YP_009725298.1\|1\|C\|WARNING_TRANSCRIPT_NO_START_CODON),SYNONYMOUS_CODING(LOW\|SILENT\|tcT/tcC\|S299\|637\|ORF1ab\|protein_coding\|CODING\|YP_009742609.1\|1\|C\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	37 NC_045512.2 1897 . A G 87.0 min_af_0.050000 AF=0.001063;DP=15050;DP4=3734,11290,12,8;SB=30;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|gtA/gtG\|V544\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|G),SYNONYMOUS_CODING(LOW\|SILENT\|gtA/gtG\|V544\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|G),SYNONYMOUS_CODING(LOW\|SILENT\|gtA/gtG\|V364\|637\|ORF1ab\|protein_coding\|CODING\|YP_009725298.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON),SYNONYMOUS_CODING(LOW\|SILENT\|gtA/gtG\|V364\|637\|ORF1ab\|protein_coding\|CODING\|YP_009742609.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	38 NC_045512.2 1914 . G A 101.0 min_af_0.050000 AF=0.001163;DP=18060;DP4=6834,11191,7,16;SB=2;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|cGc/cAc\|R550H\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|cGc/cAc\|R550H\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|cGc/cAc\|R370H\|637\|ORF1ab\|protein_coding\|CODING\|YP_009725298.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|cGc/cAc\|R370H\|637\|ORF1ab\|protein_coding\|CODING\|YP_009742609.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	39 NC_045512.2 2240 . A T 906.0 min_af_0.050000 AF=0.008998;DP=7335;DP4=1191,6074,1,66;SB=37;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Att/Ttt\|I659F\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Att/Ttt\|I659F\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Att/Ttt\|I479F\|637\|ORF1ab\|protein_coding\|CODING\|YP_009725298.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Att/Ttt\|I479F\|637\|ORF1ab\|protein_coding\|CODING\|YP_009742609.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	40 NC_045512.2 2248 . TG T 66.0 min_af_0.050000 AF=0.003336;DP=1199;DP4=1120,82,4,0;HRUN=2;SB=0;INDEL;EFF=FRAME_SHIFT(HIGH\|\|gga/\|G662\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|gga/\|G662\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|gga/\|G482\|637\|ORF1ab\|protein_coding\|CODING\|YP_009725298.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|gga/\|G482\|637\|ORF1ab\|protein_coding\|CODING\|YP_009742609.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME);LOF=(ORF1ab\|GU280_gp01\|28\|0.14)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	41 NC_045512.2 3037 . C T 9439.0 PASS AF=0.992278;DP=259;DP4=0,0,128,131;SB=0;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|ttC/ttT\|F924\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T),SYNONYMOUS_CODING(LOW\|SILENT\|ttC/ttT\|F924\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T),SYNONYMOUS_CODING(LOW\|SILENT\|ttC/ttT\|F106\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON),SYNONYMOUS_CODING(LOW\|SILENT\|ttC/ttT\|F106\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	42 NC_045512.2 3412 . TA T 98.0 min_af_0.050000 AF=0.001304;DP=7669;DP4=1394,6276,1,9;HRUN=5;SB=0;INDEL;EFF=FRAME_SHIFT(HIGH\|\|aag/\|K1051\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|aag/\|K1051\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|aag/\|K233\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|aag/\|K233\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME);LOF=(ORF1ab\|GU280_gp01\|28\|0.14)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	43 NC_045512.2 3904 . A G 157.0 min_af_0.050000 AF=0.001423;DP=16871;DP4=13947,2891,19,6;SB=3;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|ccA/ccG\|P1213\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|G),SYNONYMOUS_CODING(LOW\|SILENT\|ccA/ccG\|P1213\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|G),SYNONYMOUS_CODING(LOW\|SILENT\|ccA/ccG\|P395\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON),SYNONYMOUS_CODING(LOW\|SILENT\|ccA/ccG\|P395\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	44 NC_045512.2 4276 . C T 89.0 min_af_0.050000 AF=0.000980;DP=17342;DP4=4361,12963,6,11;SB=3;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|taC/taT\|Y1337\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T),SYNONYMOUS_CODING(LOW\|SILENT\|taC/taT\|Y1337\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T),SYNONYMOUS_CODING(LOW\|SILENT\|taC/taT\|Y519\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON),SYNONYMOUS_CODING(LOW\|SILENT\|taC/taT\|Y519\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	45 NC_045512.2 4455 . C T 49314.0 PASS AF=0.783453;DP=4738;DP4=510,475,1930,1820;SB=0;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gCc/gTc\|A1397V\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gCc/gTc\|A1397V\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gCc/gTc\|A579V\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gCc/gTc\|A579V\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	46 NC_045512.2 5283 . A G 97.0 min_af_0.050000 AF=0.006051;DP=1322;DP4=756,557,0,9;SB=33;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aAc/aGc\|N1673S\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|G),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aAc/aGc\|N1673S\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|G),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aAc/aGc\|N855S\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aAc/aGc\|N855S\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	47 NC_045512.2 5284 . C T 114.0 min_af_0.050000 AF=0.006798;DP=1324;DP4=754,560,1,8;SB=22;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|aaC/aaT\|N1673\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T),SYNONYMOUS_CODING(LOW\|SILENT\|aaC/aaT\|N1673\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T),SYNONYMOUS_CODING(LOW\|SILENT\|aaC/aaT\|N855\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON),SYNONYMOUS_CODING(LOW\|SILENT\|aaC/aaT\|N855\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	48 NC_045512.2 5291 . CT C 137.0 min_af_0.050000 AF=0.003193;DP=2819;DP4=2233,578,5,4;HRUN=2;SB=10;INDEL;EFF=FRAME_SHIFT(HIGH\|\|ctt/\|L1676\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|C\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ctt/\|L1676\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|C\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ctt/\|L858\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|C\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ctt/\|L858\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|C\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME);LOF=(ORF1ab\|GU280_gp01\|28\|0.14)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	49 NC_045512.2 5365 . C T 104.0 min_af_0.050000 AF=0.003156;DP=3169;DP4=2400,758,8,3;SB=1;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|taC/taT\|Y1700\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T),SYNONYMOUS_CODING(LOW\|SILENT\|taC/taT\|Y1700\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T),SYNONYMOUS_CODING(LOW\|SILENT\|taC/taT\|Y882\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON),SYNONYMOUS_CODING(LOW\|SILENT\|taC/taT\|Y882\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	50 NC_045512.2 5629 . G A 324.0 min_af_0.050000 AF=0.007767;DP=3090;DP4=2578,487,21,4;SB=0;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|acG/acA\|T1788\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|A),SYNONYMOUS_CODING(LOW\|SILENT\|acG/acA\|T1788\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|A),SYNONYMOUS_CODING(LOW\|SILENT\|acG/acA\|T970\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON),SYNONYMOUS_CODING(LOW\|SILENT\|acG/acA\|T970\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	51 NC_045512.2 6173 . AT A 206.0 min_af_0.050000 AF=0.002274;DP=6597;DP4=430,6155,0,15;HRUN=2;SB=2;INDEL;EFF=FRAME_SHIFT(HIGH\|\|att/\|I1970\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|A\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|att/\|I1970\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|A\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|att/\|I1152\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|att/\|I1152\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME);LOF=(ORF1ab\|GU280_gp01\|28\|0.14)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	52 NC_045512.2 6176 . GA G 85.0 min_af_0.050000 AF=0.000988;DP=8096;DP4=422,7697,0,8;HRUN=1;SB=0;INDEL;EFF=FRAME_SHIFT(HIGH\|\|gat/\|D1971\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|G),FRAME_SHIFT(HIGH\|\|gat/\|D1971\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|G),FRAME_SHIFT(HIGH\|\|gat/\|D1153\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON),FRAME_SHIFT(HIGH\|\|gat/\|D1153\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON);LOF=(ORF1ab\|GU280_gp01\|28\|0.14)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	53 NC_045512.2 6177 . AT A 186.0 min_af_0.050000 AF=0.001680;DP=8929;DP4=413,8512,0,15;HRUN=2;SB=0;INDEL;EFF=FRAME_SHIFT(HIGH\|\|tat/\|Y1972\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|A\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|tat/\|Y1972\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|A\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|tat/\|Y1154\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|tat/\|Y1154\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME);LOF=(ORF1ab\|GU280_gp01\|28\|0.14)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	54 NC_045512.2 6242 . C T 147.0 min_af_0.050000 AF=0.000724;DP=55250;DP4=41638,13544,34,16;SB=6;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Cat/Tat\|H1993Y\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Cat/Tat\|H1993Y\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Cat/Tat\|H1175Y\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Cat/Tat\|H1175Y\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	55 NC_045512.2 6374 . G T 93.0 min_af_0.050000 AF=0.000994;DP=19124;DP4=9189,9907,9,11;SB=0;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gat/Tat\|D2037Y\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gat/Tat\|D2037Y\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gat/Tat\|D1219Y\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gat/Tat\|D1219Y\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	56 NC_045512.2 6396 . TA T 142.0 min_af_0.050000 AF=0.000800;DP=21237;DP4=9622,11810,11,6;HRUN=4;SB=8;INDEL;EFF=FRAME_SHIFT(HIGH\|\|aaa/\|K2045\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|aaa/\|K2045\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|aaa/\|K1227\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|aaa/\|K1227\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME);LOF=(ORF1ab\|GU280_gp01\|28\|0.14)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	57 NC_045512.2 6456 . G A 103.0 min_af_0.050000 AF=0.000659;DP=45552;DP4=8833,36673,5,30;SB=2;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|tGt/tAt\|C2064Y\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|tGt/tAt\|C2064Y\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|tGt/tAt\|C1246Y\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|tGt/tAt\|C1246Y\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	58 NC_045512.2 6503 . G A 88.0 min_af_0.050000 AF=0.000611;DP=40914;DP4=6252,34625,5,24;SB=0;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gca/Aca\|A2080T\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gca/Aca\|A2080T\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gca/Aca\|A1262T\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gca/Aca\|A1262T\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	59 NC_045512.2 6513 . G T 249.0 min_af_0.050000 AF=0.001124;DP=40021;DP4=5694,34255,5,55;SB=5;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aGt/aTt\|S2083I\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aGt/aTt\|S2083I\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aGt/aTt\|S1265I\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aGt/aTt\|S1265I\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	60 NC_045512.2 7246 . GT G 113.0 min_af_0.050000 AF=0.010067;DP=596;DP4=270,327,3,3;HRUN=5;SB=0;INDEL;EFF=FRAME_SHIFT(HIGH\|\|ttg/\|L2329\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|G\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttg/\|L2329\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|G\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttg/\|L1511\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttg/\|L1511\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME);LOF=(ORF1ab\|GU280_gp01\|28\|0.14)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	61 NC_045512.2 7889 . GT G 115.0 min_af_0.050000 AF=0.001985;DP=5039;DP4=1008,4028,3,7;HRUN=5;SB=3;INDEL;EFF=FRAME_SHIFT(HIGH\|\|ttt/\|F2543\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|G\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttt/\|F2543\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|G\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttt/\|F1725\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009725299.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttt/\|F1725\|1944\|ORF1ab\|protein_coding\|CODING\|YP_009742610.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME);LOF=(ORF1ab\|GU280_gp01\|28\|0.14)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	62 NC_045512.2 9656 . A G 748.0 min_af_0.050000;sb_fdr AF=0.010109;DP=5243;DP4=2338,2850,51,3;SB=137;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Atg/Gtg\|M3131V\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|G),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Atg/Gtg\|M3131V\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|G),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Atg/Gtg\|M368V\|499\|ORF1ab\|protein_coding\|CODING\|YP_009725300.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Atg/Gtg\|M368V\|499\|ORF1ab\|protein_coding\|CODING\|YP_009742611.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	63 NC_045512.2 9811 . CT C 124.0 min_af_0.050000 AF=0.001097;DP=12759;DP4=1985,10818,1,13;HRUN=5;SB=1;INDEL;EFF=FRAME_SHIFT(HIGH\|\|ttg/\|L3184\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|C\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttg/\|L3184\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|C\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttg/\|L421\|499\|ORF1ab\|protein_coding\|CODING\|YP_009725300.1\|1\|C\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttg/\|L421\|499\|ORF1ab\|protein_coding\|CODING\|YP_009742611.1\|1\|C\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME);LOF=(ORF1ab\|GU280_gp01\|28\|0.14)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	64 NC_045512.2 10409 . A G 102.0 min_af_0.050000 AF=0.002045;DP=5868;DP4=2189,3666,5,7;SB=1;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Aat/Gat\|N3382D\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|G),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Aat/Gat\|N3382D\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|G),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Aat/Gat\|N119D\|305\|ORF1ab\|protein_coding\|CODING\|YP_009725301.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Aat/Gat\|N119D\|305\|ORF1ab\|protein_coding\|CODING\|YP_009742612.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	65 NC_045512.2 10511 . G A 49314.0 PASS AF=0.781399;DP=2301;DP4=353,134,1375,438;SB=8;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gat/Aat\|D3416N\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gat/Aat\|D3416N\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gat/Aat\|D153N\|305\|ORF1ab\|protein_coding\|CODING\|YP_009725301.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gat/Aat\|D153N\|305\|ORF1ab\|protein_coding\|CODING\|YP_009742612.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	66 NC_045512.2 10783 . AC A 1328.0 min_af_0.050000 AF=0.030864;DP=1782;DP4=775,955,10,45;HRUN=1;SB=41;INDEL;EFF=FRAME_SHIFT(HIGH\|\|caa/\|Q3507\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|A),FRAME_SHIFT(HIGH\|\|caa/\|Q3507\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|A),FRAME_SHIFT(HIGH\|\|caa/\|Q244\|305\|ORF1ab\|protein_coding\|CODING\|YP_009725301.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON),FRAME_SHIFT(HIGH\|\|caa/\|Q244\|305\|ORF1ab\|protein_coding\|CODING\|YP_009742612.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON);LOF=(ORF1ab\|GU280_gp01\|28\|0.14)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	67 NC_045512.2 10986 . G T 245.0 min_af_0.050000 AF=0.004993;DP=4206;DP4=1217,2968,7,14;SB=1;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aGa/aTa\|R3574I\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aGa/aTa\|R3574I\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aGa/aTa\|R5I\|289\|ORF1ab\|protein_coding\|CODING\|YP_009725302.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aGa/aTa\|R5I\|289\|ORF1ab\|protein_coding\|CODING\|YP_009742613.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	68 NC_045512.2 11003 . C T 136.0 min_af_0.050000 AF=0.003531;DP=4531;DP4=1176,3339,6,10;SB=4;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Cac/Tac\|H3580Y\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Cac/Tac\|H3580Y\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Cac/Tac\|H11Y\|289\|ORF1ab\|protein_coding\|CODING\|YP_009725302.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Cac/Tac\|H11Y\|289\|ORF1ab\|protein_coding\|CODING\|YP_009742613.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	69 NC_045512.2 11071 . G GTTC 49314.0 PASS AF=0.921222;DP=13811;DP4=910,220,10234,2489;HRUN=2;SB=0;INDEL;EFF=CODON_CHANGE_PLUS_CODON_INSERTION(MODERATE\|\|ttt/ttCTTt\|F3604FF\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|GTTC\|INFO_REALIGN_3_PRIME),CODON_CHANGE_PLUS_CODON_INSERTION(MODERATE\|\|ttt/ttCTTt\|F3604FF\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|GTTC\|INFO_REALIGN_3_PRIME),CODON_CHANGE_PLUS_CODON_INSERTION(MODERATE\|\|ttt/ttCTTt\|F35FF\|289\|ORF1ab\|protein_coding\|CODING\|YP_009725302.1\|1\|GTTC\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME),CODON_CHANGE_PLUS_CODON_INSERTION(MODERATE\|\|ttt/ttCTTt\|F35FF\|289\|ORF1ab\|protein_coding\|CODING\|YP_009742613.1\|1\|GTTC\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	70 NC_045512.2 11074 . C CTTCT 3604.0 min_af_0.050000 AF=0.024274;DP=14007;DP4=10839,2872,285,55;HRUN=8;SB=14;INDEL;EFF=FRAME_SHIFT(HIGH\|\|ttt/ttCTTTt\|F3604FF?\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|CTTCT\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttt/ttCTTTt\|F3604FF?\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|CTTCT\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttt/ttCTTTt\|F35FF?\|289\|ORF1ab\|protein_coding\|CODING\|YP_009725302.1\|1\|CTTCT\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttt/ttCTTTt\|F35FF?\|289\|ORF1ab\|protein_coding\|CODING\|YP_009742613.1\|1\|CTTCT\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME);LOF=(ORF1ab\|GU280_gp01\|28\|0.14)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	71 NC_045512.2 11075 . T TTC 6655.0 min_af_0.050000 AF=0.021513;DP=14038;DP4=10846,2884,246,56;HRUN=8;SB=4;INDEL;EFF=FRAME_SHIFT(HIGH\|\|ttt/ttCTt\|F3604F?\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|TTC\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttt/ttCTt\|F3604F?\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|TTC\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttt/ttCTt\|F35F?\|289\|ORF1ab\|protein_coding\|CODING\|YP_009725302.1\|1\|TTC\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttt/ttCTt\|F35F?\|289\|ORF1ab\|protein_coding\|CODING\|YP_009742613.1\|1\|TTC\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME);LOF=(ORF1ab\|GU280_gp01\|28\|0.14)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	72 NC_045512.2 11075 . T TTCC 117.0 min_af_0.050000 AF=0.000855;DP=14038;DP4=10846,2884,11,1;HRUN=8;SB=3;INDEL;EFF=CODON_CHANGE_PLUS_CODON_INSERTION(MODERATE\|\|ttt/ttCCTt\|F3604FL\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|TTCC\|INFO_REALIGN_3_PRIME),CODON_CHANGE_PLUS_CODON_INSERTION(MODERATE\|\|ttt/ttCCTt\|F3604FL\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|TTCC\|INFO_REALIGN_3_PRIME),CODON_CHANGE_PLUS_CODON_INSERTION(MODERATE\|\|ttt/ttCCTt\|F35FL\|289\|ORF1ab\|protein_coding\|CODING\|YP_009725302.1\|1\|TTCC\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME),CODON_CHANGE_PLUS_CODON_INSERTION(MODERATE\|\|ttt/ttCCTt\|F35FL\|289\|ORF1ab\|protein_coding\|CODING\|YP_009742613.1\|1\|TTCC\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	73 NC_045512.2 11076 . T TC 116.0 min_af_0.050000 AF=0.001273;DP=14138;DP4=11112,3018,6,12;HRUN=8;SB=43;INDEL;EFF=FRAME_SHIFT(HIGH\|\|ttt/ttCt\|F3604F?\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|TC),FRAME_SHIFT(HIGH\|\|ttt/ttCt\|F3604F?\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|TC),FRAME_SHIFT(HIGH\|\|ttt/ttCt\|F35F?\|289\|ORF1ab\|protein_coding\|CODING\|YP_009725302.1\|1\|TC\|WARNING_TRANSCRIPT_NO_START_CODON),FRAME_SHIFT(HIGH\|\|ttt/ttCt\|F35F?\|289\|ORF1ab\|protein_coding\|CODING\|YP_009742613.1\|1\|TC\|WARNING_TRANSCRIPT_NO_START_CODON);LOF=(ORF1ab\|GU280_gp01\|28\|0.14)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	74 NC_045512.2 11077 . T C 300.0 min_af_0.050000 AF=0.008197;DP=14151;DP4=11058,2972,63,56;SB=92;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|ttT/ttC\|F3604\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|C),SYNONYMOUS_CODING(LOW\|SILENT\|ttT/ttC\|F3604\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|C),SYNONYMOUS_CODING(LOW\|SILENT\|ttT/ttC\|F35\|289\|ORF1ab\|protein_coding\|CODING\|YP_009725302.1\|1\|C\|WARNING_TRANSCRIPT_NO_START_CODON),SYNONYMOUS_CODING(LOW\|SILENT\|ttT/ttC\|F35\|289\|ORF1ab\|protein_coding\|CODING\|YP_009742613.1\|1\|C\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	75 NC_045512.2 11083 . G T 436.0 min_af_0.050000 AF=0.005129;DP=14232;DP4=11065,3081,62,22;SB=4;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|ttG/ttT\|L3606F\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|ttG/ttT\|L3606F\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|ttG/ttT\|L37F\|289\|ORF1ab\|protein_coding\|CODING\|YP_009725302.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|ttG/ttT\|L37F\|289\|ORF1ab\|protein_coding\|CODING\|YP_009742613.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	76 NC_045512.2 11983 . A T 101.0 min_af_0.050000 AF=0.001169;DP=15398;DP4=12255,3117,13,6;SB=6;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gaA/gaT\|E3906D\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gaA/gaT\|E3906D\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gaA/gaT\|E47D\|82\|ORF1ab\|protein_coding\|CODING\|YP_009725303.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gaA/gaT\|E47D\|82\|ORF1ab\|protein_coding\|CODING\|YP_009742614.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	77 NC_045512.2 12164 . G T 645.0 min_af_0.050000 AF=0.003440;DP=18898;DP4=5086,13740,17,49;SB=0;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gct/Tct\|A3967S\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gct/Tct\|A3967S\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gct/Tct\|A25S\|197\|ORF1ab\|protein_coding\|CODING\|YP_009725304.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gct/Tct\|A25S\|197\|ORF1ab\|protein_coding\|CODING\|YP_009742615.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	78 NC_045512.2 12458 . A G 22986.0 PASS AF=0.118809;DP=7693;DP4=4150,2622,687,233;SB=151;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Aca/Gca\|T4065A\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|G),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Aca/Gca\|T4065A\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|G),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Aca/Gca\|T123A\|197\|ORF1ab\|protein_coding\|CODING\|YP_009725304.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Aca/Gca\|T123A\|197\|ORF1ab\|protein_coding\|CODING\|YP_009742615.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	79 NC_045512.2 12831 . A G 88.0 min_af_0.050000 AF=0.000898;DP=20042;DP4=16187,3831,14,5;SB=4;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|cAg/cGg\|Q4189R\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|G),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|cAg/cGg\|Q4189R\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|G),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|cAg/cGg\|Q49R\|112\|ORF1ab\|protein_coding\|CODING\|YP_009725305.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|cAg/cGg\|Q49R\|112\|ORF1ab\|protein_coding\|CODING\|YP_009742616.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	80 NC_045512.2 13006 . T C 128.0 min_af_0.050000 AF=0.001106;DP=22613;DP4=4970,17609,8,18;SB=4;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|gcT/gcC\|A4247\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|C),SYNONYMOUS_CODING(LOW\|SILENT\|gcT/gcC\|A4247\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|C),SYNONYMOUS_CODING(LOW\|SILENT\|gcT/gcC\|A107\|112\|ORF1ab\|protein_coding\|CODING\|YP_009725305.1\|1\|C\|WARNING_TRANSCRIPT_NO_START_CODON),SYNONYMOUS_CODING(LOW\|SILENT\|gcT/gcC\|A107\|112\|ORF1ab\|protein_coding\|CODING\|YP_009742616.1\|1\|C\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	81 NC_045512.2 13011 . C T 86.0 min_af_0.050000 AF=0.000804;DP=26106;DP4=4889,21186,8,14;SB=12;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aCa/aTa\|T4249I\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aCa/aTa\|T4249I\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aCa/aTa\|T109I\|112\|ORF1ab\|protein_coding\|CODING\|YP_009725305.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aCa/aTa\|T109I\|112\|ORF1ab\|protein_coding\|CODING\|YP_009742616.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	82 NC_045512.2 13034 . G A 95.0 min_af_0.050000 AF=0.000506;DP=69235;DP4=45709,23472,20,21;SB=15;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gca/Aca\|A4257T\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gca/Aca\|A4257T\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gca/Aca\|A4T\|138\|ORF1ab\|protein_coding\|CODING\|YP_009725306.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gca/Aca\|A4T\|138\|ORF1ab\|protein_coding\|CODING\|YP_009742617.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	83 NC_045512.2 13048 . T C 181.0 min_af_0.050000 AF=0.000682;DP=70402;DP4=45971,24198,44,166;SB=390;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|ccT/ccC\|P4261\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|C),SYNONYMOUS_CODING(LOW\|SILENT\|ccT/ccC\|P4261\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|C),SYNONYMOUS_CODING(LOW\|SILENT\|ccT/ccC\|P8\|138\|ORF1ab\|protein_coding\|CODING\|YP_009725306.1\|1\|C\|WARNING_TRANSCRIPT_NO_START_CODON),SYNONYMOUS_CODING(LOW\|SILENT\|ccT/ccC\|P8\|138\|ORF1ab\|protein_coding\|CODING\|YP_009742617.1\|1\|C\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	84 NC_045512.2 13049 . G A 164.0 min_af_0.050000 AF=0.000651;DP=70714;DP4=46084,24548,36,18;SB=0;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gcc/Acc\|A4262T\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gcc/Acc\|A4262T\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gcc/Acc\|A9T\|138\|ORF1ab\|protein_coding\|CODING\|YP_009725306.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gcc/Acc\|A9T\|138\|ORF1ab\|protein_coding\|CODING\|YP_009742617.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	85 NC_045512.2 13073 . T C 106.0 min_af_0.050000 AF=0.000530;DP=71755;DP4=46248,25458,25,18;SB=3;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Tgt/Cgt\|C4270R\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|C),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Tgt/Cgt\|C4270R\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|C),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Tgt/Cgt\|C17R\|138\|ORF1ab\|protein_coding\|CODING\|YP_009725306.1\|1\|C\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Tgt/Cgt\|C17R\|138\|ORF1ab\|protein_coding\|CODING\|YP_009742617.1\|1\|C\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	86 NC_045512.2 13094 . G A 110.0 min_af_0.050000 AF=0.000604;DP=57907;DP4=46186,11671,29,10;SB=3;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gct/Act\|A4277T\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gct/Act\|A4277T\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gct/Act\|A24T\|138\|ORF1ab\|protein_coding\|CODING\|YP_009725306.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gct/Act\|A24T\|138\|ORF1ab\|protein_coding\|CODING\|YP_009742617.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	87 NC_045512.2 13123 . TG T 362.0 min_af_0.050000 AF=0.000845;DP=57968;DP4=45262,12745,39,10;HRUN=5;SB=0;INDEL;EFF=FRAME_SHIFT(HIGH\|\|gga/\|G4288\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|T\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|gga/\|G4288\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|T\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|gga/\|G35\|138\|ORF1ab\|protein_coding\|CODING\|YP_009725306.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|gga/\|G35\|138\|ORF1ab\|protein_coding\|CODING\|YP_009742617.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME);LOF=(ORF1ab\|GU280_gp01\|28\|0.11)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	88 NC_045512.2 13129 . A G 275.0 min_af_0.050000 AF=0.001106;DP=58773;DP4=45596,13058,79,15;SB=7;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|ggA/ggG\|G4288\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|G),SYNONYMOUS_CODING(LOW\|SILENT\|ggA/ggG\|G4288\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|G),SYNONYMOUS_CODING(LOW\|SILENT\|ggA/ggG\|G35\|138\|ORF1ab\|protein_coding\|CODING\|YP_009725306.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON),SYNONYMOUS_CODING(LOW\|SILENT\|ggA/ggG\|G35\|138\|ORF1ab\|protein_coding\|CODING\|YP_009742617.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	89 NC_045512.2 13235 . G A 225.0 min_af_0.050000 AF=0.001046;DP=58324;DP4=13189,45056,12,53;SB=2;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gca/Aca\|A4324T\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gca/Aca\|A4324T\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gca/Aca\|A71T\|138\|ORF1ab\|protein_coding\|CODING\|YP_009725306.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gca/Aca\|A71T\|138\|ORF1ab\|protein_coding\|CODING\|YP_009742617.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	90 NC_045512.2 13240 . G A 168.0 min_af_0.050000 AF=0.000823;DP=58314;DP4=13132,45114,15,36;SB=6;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|tcG/tcA\|S4325\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|A),SYNONYMOUS_CODING(LOW\|SILENT\|tcG/tcA\|S4325\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|A),SYNONYMOUS_CODING(LOW\|SILENT\|tcG/tcA\|S72\|138\|ORF1ab\|protein_coding\|CODING\|YP_009725306.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON),SYNONYMOUS_CODING(LOW\|SILENT\|tcG/tcA\|S72\|138\|ORF1ab\|protein_coding\|CODING\|YP_009742617.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	91 NC_045512.2 13260 . G A 201.0 min_af_0.050000 AF=0.000834;DP=59945;DP4=13428,46442,16,42;SB=4;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|tGc/tAc\|C4332Y\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|tGc/tAc\|C4332Y\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|tGc/tAc\|C79Y\|138\|ORF1ab\|protein_coding\|CODING\|YP_009725306.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|tGc/tAc\|C79Y\|138\|ORF1ab\|protein_coding\|CODING\|YP_009742617.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	92 NC_045512.2 13288 . AT A 246.0 min_af_0.050000 AF=0.000600;DP=58346;DP4=12587,45733,5,30;HRUN=4;SB=3;INDEL;EFF=FRAME_SHIFT(HIGH\|\|tgt/\|C4343\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|A\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|tgt/\|C4343\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|A\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|tgt/\|C90\|138\|ORF1ab\|protein_coding\|CODING\|YP_009725306.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|tgt/\|C90\|138\|ORF1ab\|protein_coding\|CODING\|YP_009742617.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME);LOF=(ORF1ab\|GU280_gp01\|28\|0.11)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	93 NC_045512.2 13345 . T C 83.0 min_af_0.050000 AF=0.000573;DP=55875;DP4=12086,43726,9,28;SB=1;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|ccT/ccC\|P4360\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|C),SYNONYMOUS_CODING(LOW\|SILENT\|ccT/ccC\|P4360\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|C),SYNONYMOUS_CODING(LOW\|SILENT\|ccT/ccC\|P107\|138\|ORF1ab\|protein_coding\|CODING\|YP_009725306.1\|1\|C\|WARNING_TRANSCRIPT_NO_START_CODON),SYNONYMOUS_CODING(LOW\|SILENT\|ccT/ccC\|P107\|138\|ORF1ab\|protein_coding\|CODING\|YP_009742617.1\|1\|C\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	94 NC_045512.2 13350 . GT G 253.0 min_af_0.050000 AF=0.000632;DP=55344;DP4=11847,43567,6,29;HRUN=4;SB=1;INDEL;EFF=FRAME_SHIFT(HIGH\|\|ttt/\|F4363\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|1\|G\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttt/\|F4363\|4405\|ORF1ab\|protein_coding\|CODING\|GU280_gp01.2\|1\|G\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttt/\|F110\|138\|ORF1ab\|protein_coding\|CODING\|YP_009725306.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|ttt/\|F110\|138\|ORF1ab\|protein_coding\|CODING\|YP_009742617.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME);LOF=(ORF1ab\|GU280_gp01\|28\|0.11)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	95 NC_045512.2 13565 . T G 345.0 min_af_0.050000 AF=0.004812;DP=6235;DP4=1296,4904,18,12;SB=54;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gTa/gGa\|V4434G\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|2\|G),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gTa/gGa\|V42G\|931\|ORF1ab\|protein_coding\|CODING\|YP_009725307.1\|2\|G\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	96 NC_045512.2 13571 . G T 479.0 min_af_0.050000 AF=0.006221;DP=6269;DP4=1318,4908,5,37;SB=7;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gGt/gTt\|G4436V\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|2\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gGt/gTt\|G44V\|931\|ORF1ab\|protein_coding\|CODING\|YP_009725307.1\|2\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	97 NC_045512.2 13650 . T G 148.0 min_af_0.050000;sb_fdr AF=0.000779;DP=43663;DP4=33531,10080,3,32;SB=168;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|ttT/ttG\|F4462L\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|2\|G),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|ttT/ttG\|F70L\|931\|ORF1ab\|protein_coding\|CODING\|YP_009725307.1\|2\|G\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	98 NC_045512.2 14267 . C T 87.0 min_af_0.050000 AF=0.001143;DP=13128;DP4=8606,4502,9,7;SB=3;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aCg/aTg\|T4668M\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|2\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aCg/aTg\|T276M\|931\|ORF1ab\|protein_coding\|CODING\|YP_009725307.1\|2\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	99 NC_045512.2 14408 . C T 49314.0 PASS AF=0.993192;DP=3966;DP4=0,0,1935,2031;SB=0;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|cCt/cTt\|P4715L\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|2\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|cCt/cTt\|P323L\|931\|ORF1ab\|protein_coding\|CODING\|YP_009725307.1\|2\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	100 NC_045512.2 15324 . C T 49314.0 PASS AF=0.988437;DP=11935;DP4=1,2,9099,2830;SB=8;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|aaC/aaT\|N5020\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|2\|T),SYNONYMOUS_CODING(LOW\|SILENT\|aaC/aaT\|N628\|931\|ORF1ab\|protein_coding\|CODING\|YP_009725307.1\|2\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	101 NC_045512.2 15481 . T C 328.0 min_af_0.050000 AF=0.002827;DP=13441;DP4=2511,10857,40,27;SB=127;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Tca/Cca\|S5073P\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|2\|C),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Tca/Cca\|S681P\|931\|ORF1ab\|protein_coding\|CODING\|YP_009725307.1\|2\|C\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	102 NC_045512.2 15568 . A C 180.0 min_af_0.050000 AF=0.002297;DP=10448;DP4=8328,2090,17,9;SB=10;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Act/Cct\|T5102P\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|2\|C),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Act/Cct\|T710P\|931\|ORF1ab\|protein_coding\|CODING\|YP_009725307.1\|2\|C\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	103 NC_045512.2 15673 . T G 106.0 min_af_0.050000;sb_fdr AF=0.004279;DP=4674;DP4=2599,2037,25,1;SB=50;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Ttt/Gtt\|F5137V\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|2\|G),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Ttt/Gtt\|F745V\|931\|ORF1ab\|protein_coding\|CODING\|YP_009725307.1\|2\|G\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	104 NC_045512.2 15682 . T A 1300.0 min_af_0.050000 AF=0.017751;DP=4563;DP4=2587,1892,47,35;SB=0;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Tat/Aat\|Y5140N\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|2\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Tat/Aat\|Y748N\|931\|ORF1ab\|protein_coding\|CODING\|YP_009725307.1\|2\|A\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	105 NC_045512.2 15685 . T A 1323.0 min_af_0.050000 AF=0.017982;DP=4560;DP4=2573,1902,46,36;SB=0;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Ttg/Atg\|L5141M\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|2\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Ttg/Atg\|L749M\|931\|ORF1ab\|protein_coding\|CODING\|YP_009725307.1\|2\|A\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	106 NC_045512.2 16026 . A T 151.0 min_af_0.050000 AF=0.004022;DP=3481;DP4=1737,1726,1,15;SB=32;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|ttA/ttT\|L5254F\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|2\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|ttA/ttT\|L862F\|931\|ORF1ab\|protein_coding\|CODING\|YP_009725307.1\|2\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	107 NC_045512.2 16030 . A G 152.0 min_af_0.050000;sb_fdr AF=0.004060;DP=3448;DP4=1751,1682,0,14;SB=43;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Ata/Gta\|I5256V\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|2\|G),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Ata/Gta\|I864V\|931\|ORF1ab\|protein_coding\|CODING\|YP_009725307.1\|2\|G\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	108 NC_045512.2 17122 . G A 82.0 min_af_0.050000 AF=0.001070;DP=14013;DP4=7804,6183,14,7;SB=4;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gct/Act\|A5620T\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|2\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gct/Act\|A296T\|600\|ORF1ab\|protein_coding\|CODING\|YP_009725308.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	109 NC_045512.2 17146 . A G 85.0 min_af_0.050000 AF=0.001464;DP=9561;DP4=7533,1983,9,5;SB=7;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Ata/Gta\|I5628V\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|2\|G),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Ata/Gta\|I304V\|600\|ORF1ab\|protein_coding\|CODING\|YP_009725308.1\|1\|G\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	110 NC_045512.2 18687 . CT C 132.0 min_af_0.050000 AF=0.000757;DP=21142;DP4=16971,4200,11,5;HRUN=4;SB=4;INDEL;EFF=FRAME_SHIFT(HIGH\|\|tcc/\|S6143\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|2\|C\|INFO_REALIGN_3_PRIME),FRAME_SHIFT(HIGH\|\|tcc/\|S218\|526\|ORF1ab\|protein_coding\|CODING\|YP_009725309.1\|1\|C\|WARNING_TRANSCRIPT_NO_START_CODON&INFO_REALIGN_3_PRIME);LOF=(ORF1ab\|GU280_gp01\|28\|0.07)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	111 NC_045512.2 18859 . G A 80.0 min_af_0.050000 AF=0.000826;DP=20592;DP4=4201,16371,5,12;SB=4;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gca/Aca\|A6199T\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|2\|A),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gca/Aca\|A274T\|526\|ORF1ab\|protein_coding\|CODING\|YP_009725309.1\|1\|A\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	112 NC_045512.2 18941 . A T 392.0 min_af_0.050000 AF=0.002016;DP=24798;DP4=8527,16211,9,44;SB=20;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gAt/gTt\|D6226V\|7096\|ORF1ab\|protein_coding\|CODING\|GU280_gp01\|2\|T),NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gAt/gTt\|D301V\|526\|ORF1ab\|protein_coding\|CODING\|YP_009725309.1\|1\|T\|WARNING_TRANSCRIPT_NO_START_CODON)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	113 NC_045512.2 22000 . CA C 81.0 min_af_0.050000 AF=0.001893;DP=3697;DP4=1829,1873,5,2;HRUN=5;SB=5;INDEL;EFF=FRAME_SHIFT(HIGH\|\|aac/\|N148\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|C\|INFO_REALIGN_3_PRIME);LOF=(S\|GU280_gp02\|1\|1.00)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	114 NC_045512.2 22091 . A G 359.0 min_af_0.050000 AF=0.010671;DP=2249;DP4=1794,428,21,3;SB=2;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Atg/Gtg\|M177V\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|G)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	115 NC_045512.2 22643 . T A 168.0 min_af_0.050000 AF=0.003589;DP=4458;DP4=3614,824,12,4;SB=2;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Tgt/Agt\|C361S\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|A)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	116 NC_045512.2 22644 . G C 129.0 min_af_0.050000 AF=0.003124;DP=4481;DP4=3615,850,11,3;SB=1;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|tGt/tCt\|C361S\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|C)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	117 NC_045512.2 22645 . T A 151.0 min_af_0.050000 AF=0.003350;DP=4478;DP4=3605,849,14,3;SB=0;EFF=STOP_GAINED(HIGH\|NONSENSE\|tgT/tgA\|C361*\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|A)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	118 NC_045512.2 22805 . AC A 70.0 min_af_0.050000 AF=0.001232;DP=4871;DP4=723,4147,0,6;HRUN=1;SB=2;INDEL;EFF=FRAME_SHIFT(HIGH\|\|act/\|T415\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|A);LOF=(S\|GU280_gp02\|1\|1.00)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	119 NC_045512.2 22899 . G T 250.0 min_af_0.050000 AF=0.002593;DP=12339;DP4=9701,2594,28,9;SB=1;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gGt/gTt\|G446V\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	120 NC_045512.2 23131 . TG T 97.0 min_af_0.050000 AF=0.000820;DP=12195;DP4=2479,9746,1,9;HRUN=1;SB=1;INDEL;EFF=FRAME_SHIFT(HIGH\|\|gtt/\|V524\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|T);LOF=(S\|GU280_gp02\|1\|1.00)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	121 NC_045512.2 23143 . TA T 127.0 min_af_0.050000 AF=0.001144;DP=12243;DP4=2290,9978,0,14;HRUN=5;SB=10;INDEL;EFF=FRAME_SHIFT(HIGH\|\|aag/\|K529\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|T\|INFO_REALIGN_3_PRIME);LOF=(S\|GU280_gp02\|1\|1.00)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	122 NC_045512.2 23205 . G A 87.0 min_af_0.050000 AF=0.000720;DP=30549;DP4=19078,11434,15,7;SB=1;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gGc/gAc\|G548D\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|A)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	123 NC_045512.2 23238 . T C 182.0 min_af_0.050000 AF=0.001117;DP=31346;DP4=19348,11952,9,31;SB=62;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|tTt/tCt\|F559S\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|C)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	124 NC_045512.2 23261 . A G 132.0 min_af_0.050000 AF=0.001092;DP=26563;DP4=18642,7879,25,8;SB=2;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Aga/Gga\|R567G\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|G)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	125 NC_045512.2 23302 . G A 137.0 min_af_0.050000 AF=0.001764;DP=10768;DP4=5127,5611,17,4;SB=24;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|caG/caA\|Q580\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|A)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	126 NC_045512.2 23306 . C G 116.0 min_af_0.050000 AF=0.001570;DP=10826;DP4=5174,5631,14,3;SB=22;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Ctt/Gtt\|L582V\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|G)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	127 NC_045512.2 23403 . A G 49314.0 PASS AF=0.991045;DP=24567;DP4=3,5,5490,19063;SB=4;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gAt/gGt\|D614G\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|G)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	128 NC_045512.2 23417 . G T 465.0 min_af_0.050000 AF=0.002290;DP=24458;DP4=5401,18993,18,40;SB=9;EFF=STOP_GAINED(HIGH\|NONSENSE\|Gaa/Taa\|E619*\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	129 NC_045512.2 24729 . C T 88.0 min_af_0.050000 AF=0.001045;DP=15304;DP4=11983,3304,14,2;SB=2;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gCa/gTa\|A1056V\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	130 NC_045512.2 24776 . GA G 68.0 min_af_0.050000 AF=0.000587;DP=15338;DP4=12278,3058,6,3;HRUN=4;SB=4;INDEL;EFF=FRAME_SHIFT(HIGH\|\|aag/\|K1073\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|G\|INFO_REALIGN_3_PRIME);LOF=(S\|GU280_gp02\|1\|1.00)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	131 NC_045512.2 24883 . G A 138.0 min_af_0.050000 AF=0.002752;DP=5813;DP4=2679,3117,8,8;SB=0;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|agG/agA\|R1107\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|A)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	132 NC_045512.2 24933 . G T 358.0 min_af_0.050000 AF=0.002817;DP=14552;DP4=2925,11563,9,51;SB=3;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gGt/gTt\|G1124V\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	133 NC_045512.2 24942 . A T 251.0 min_af_0.050000 AF=0.002129;DP=14564;DP4=2931,11594,5,30;SB=2;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gAt/gTt\|D1127V\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	134 NC_045512.2 25132 . C A 105.0 min_af_0.050000 AF=0.009537;DP=734;DP4=504,222,5,3;SB=1;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|gcC/gcA\|A1190\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|A)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	135 NC_045512.2 25379 . A T 122.0 min_af_0.050000 AF=0.001291;DP=16270;DP4=13436,2805,11,10;SB=28;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Aca/Tca\|T1273S\|1273\|S\|protein_coding\|CODING\|GU280_gp02\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	136 NC_045512.2 25543 . G A 86.0 min_af_0.050000 AF=0.000993;DP=17112;DP4=3351,13735,4,14;SB=1;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gca/Aca\|A51T\|275\|ORF3a\|protein_coding\|CODING\|GU280_gp03\|1\|A)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	137 NC_045512.2 25635 . C T 81.0 min_af_0.050000 AF=0.000911;DP=17568;DP4=4208,13332,5,15;SB=0;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|tgC/tgT\|C81\|275\|ORF3a\|protein_coding\|CODING\|GU280_gp03\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	138 NC_045512.2 25646 . T G 149.0 min_af_0.050000;sb_fdr AF=0.001557;DP=17345;DP4=4081,13232,23,4;SB=106;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|tTg/tGg\|L85W\|275\|ORF3a\|protein_coding\|CODING\|GU280_gp03\|1\|G)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	139 NC_045512.2 25797 . CA C 136.0 min_af_0.050000 AF=0.004646;DP=1937;DP4=832,1134,5,4;HRUN=5;SB=2;INDEL;EFF=FRAME_SHIFT(HIGH\|\|aac/\|N137\|275\|ORF3a\|protein_coding\|CODING\|GU280_gp03\|1\|C\|INFO_REALIGN_3_PRIME);LOF=(ORF3a\|GU280_gp03\|1\|1.00)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	140 NC_045512.2 26042 . C T 456.0 min_af_0.050000 AF=0.003753;DP=11725;DP4=8878,2799,31,15;SB=7;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aCt/aTt\|T217I\|275\|ORF3a\|protein_coding\|CODING\|GU280_gp03\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	141 NC_045512.2 26044 . C G 445.0 min_af_0.050000 AF=0.003696;DP=11634;DP4=8840,2742,30,14;SB=6;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Caa/Gaa\|Q218E\|275\|ORF3a\|protein_coding\|CODING\|GU280_gp03\|1\|G)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	142 NC_045512.2 26046 . A G 446.0 min_af_0.050000 AF=0.003765;DP=11688;DP4=8854,2787,32,14;SB=5;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|caA/caG\|Q218\|275\|ORF3a\|protein_coding\|CODING\|GU280_gp03\|1\|G)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	143 NC_045512.2 26089 . T A 116.0 min_af_0.050000 AF=0.002761;DP=4709;DP4=2229,2464,3,12;SB=14;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Tac/Aac\|Y233N\|275\|ORF3a\|protein_coding\|CODING\|GU280_gp03\|1\|A)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	144 NC_045512.2 26103 . T A 159.0 min_af_0.050000 AF=0.003338;DP=4793;DP4=2379,2397,14,2;SB=26;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|gtT/gtA\|V237\|275\|ORF3a\|protein_coding\|CODING\|GU280_gp03\|1\|A)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	145 NC_045512.2 26270 . C T 88.0 min_af_0.050000 AF=0.001211;DP=11557;DP4=2704,8836,4,10;SB=1;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aCa/aTa\|T9I\|75\|E\|protein_coding\|CODING\|GU280_gp04\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	146 NC_045512.2 26542 . C A 168.0 min_af_0.050000 AF=0.004989;DP=2806;DP4=185,2601,1,13;SB=0;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aCt/aAt\|T7N\|222\|M\|protein_coding\|CODING\|GU280_gp05\|1\|A)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	147 NC_045512.2 26545 . T G 786.0 min_af_0.050000 AF=0.004062;DP=19450;DP4=16700,2664,68,12;SB=1;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aTt/aGt\|I8S\|222\|M\|protein_coding\|CODING\|GU280_gp05\|1\|G)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	148 NC_045512.2 26554 . A G 217.0 min_af_0.050000 AF=0.001613;DP=19843;DP4=16861,2946,28,4;SB=0;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gAa/gGa\|E11G\|222\|M\|protein_coding\|CODING\|GU280_gp05\|1\|G)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	149 NC_045512.2 26635 . C T 83.0 min_af_0.050000 AF=0.000830;DP=21692;DP4=17729,3934,19,3;SB=1;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gCc/gTc\|A38V\|222\|M\|protein_coding\|CODING\|GU280_gp05\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	150 NC_045512.2 26695 . G C 144.0 min_af_0.050000;sb_fdr AF=0.002401;DP=7079;DP4=3264,3797,0,17;SB=45;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|tGg/tCg\|W58S\|222\|M\|protein_coding\|CODING\|GU280_gp05\|1\|C)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	151 NC_045512.2 26713 . GT G 108.0 min_af_0.050000 AF=0.001325;DP=7547;DP4=3518,4048,3,7;HRUN=4;SB=4;INDEL;EFF=FRAME_SHIFT(HIGH\|\|ttt/\|F65\|222\|M\|protein_coding\|CODING\|GU280_gp05\|1\|G\|INFO_REALIGN_3_PRIME);LOF=(M\|GU280_gp05\|1\|1.00)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	152 NC_045512.2 26889 . C T 105.0 min_af_0.050000 AF=0.000846;DP=36631;DP4=17521,19069,15,18;SB=0;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Cca/Tca\|P123S\|222\|M\|protein_coding\|CODING\|GU280_gp05\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	153 NC_045512.2 26895 . C T 124.0 min_af_0.050000 AF=0.001078;DP=20410;DP4=17437,2947,21,3;SB=0;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Cat/Tat\|H125Y\|222\|M\|protein_coding\|CODING\|GU280_gp05\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	154 NC_045512.2 27059 . C T 383.0 min_af_0.050000 AF=0.003588;DP=11426;DP4=4376,7002,17,25;SB=0;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|taC/taT\|Y179\|222\|M\|protein_coding\|CODING\|GU280_gp05\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	155 NC_045512.2 27079 . G A 86.0 min_af_0.050000 AF=0.000875;DP=21704;DP4=4481,17197,2,17;SB=3;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|cGt/cAt\|R186H\|222\|M\|protein_coding\|CODING\|GU280_gp05\|1\|A)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	156 NC_045512.2 27105 . G A 117.0 min_af_0.050000 AF=0.001008;DP=21817;DP4=4582,17206,6,16;SB=3;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gca/Aca\|A195T\|222\|M\|protein_coding\|CODING\|GU280_gp05\|1\|A)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	157 NC_045512.2 27120 . A G 85.0 min_af_0.050000 AF=0.000830;DP=21676;DP4=4482,17172,4,14;SB=1;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Agg/Ggg\|R200G\|222\|M\|protein_coding\|CODING\|GU280_gp05\|1\|G)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	158 NC_045512.2 27214 . G A 86.0 min_af_0.050000 AF=0.001126;DP=13325;DP4=11074,2235,9,6;SB=15;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gtt/Att\|V5I\|61\|ORF6\|protein_coding\|CODING\|GU280_gp06\|1\|A)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	159 NC_045512.2 27335 . C T 214.0 min_af_0.050000 AF=0.004064;DP=4921;DP4=2786,2115,15,5;SB=9;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aCt/aTt\|T45I\|61\|ORF6\|protein_coding\|CODING\|GU280_gp06\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	160 NC_045512.2 27344 . A T 333.0 min_af_0.050000 AF=0.005777;DP=4847;DP4=2763,2055,20,8;SB=7;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aAa/aTa\|K48I\|61\|ORF6\|protein_coding\|CODING\|GU280_gp06\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	161 NC_045512.2 27345 . A T 322.0 min_af_0.050000 AF=0.005784;DP=4841;DP4=2760,2050,20,8;SB=7;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|aaA/aaT\|K48N\|61\|ORF6\|protein_coding\|CODING\|GU280_gp06\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	162 NC_045512.2 27354 . A G 354.0 min_af_0.050000 AF=0.006365;DP=4556;DP4=2590,1937,21,8;SB=8;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|caA/caG\|Q51\|61\|ORF6\|protein_coding\|CODING\|GU280_gp06\|1\|G)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	163 NC_045512.2 28333 . C A 829.0 min_af_0.050000 AF=0.006612;DP=13007;DP4=2288,10630,42,45;SB=100;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|ccC/ccA\|P20\|419\|N\|protein_coding\|CODING\|GU280_gp10\|1\|A)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	164 NC_045512.2 28346 . G T 1405.0 min_af_0.050000 AF=0.008030;DP=12951;DP4=2278,10563,52,53;SB=128;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Ggc/Tgc\|G25C\|419\|N\|protein_coding\|CODING\|GU280_gp10\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	165 NC_045512.2 28849 . C T 253.0 min_af_0.050000 AF=0.008879;DP=2140;DP4=1054,1067,9,10;SB=0;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|aaC/aaT\|N192\|419\|N\|protein_coding\|CODING\|GU280_gp10\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	166 NC_045512.2 29029 . T C 2047.0 min_af_0.050000 AF=0.004975;DP=36379;DP4=28535,7633,126,74;SB=64;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|gcT/gcC\|A252\|419\|N\|protein_coding\|CODING\|GU280_gp10\|1\|C)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	167 NC_045512.2 29039 . A T 5675.0 min_af_0.050000 AF=0.010564;DP=37106;DP4=28670,8011,189,214;SB=413;EFF=STOP_GAINED(HIGH\|NONSENSE\|Aag/Tag\|K256*\|419\|N\|protein_coding\|CODING\|GU280_gp10\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	168 NC_045512.2 29044 . G A 616.0 min_af_0.050000 AF=0.002272;DP=34327;DP4=28857,5335,105,15;SB=3;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|aaG/aaA\|K257\|419\|N\|protein_coding\|CODING\|GU280_gp10\|1\|A)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	169 NC_045512.2 29049 . G A 646.0 min_af_0.050000 AF=0.002444;DP=34783;DP4=28968,5690,85,10;SB=8;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|cGg/cAg\|R259Q\|419\|N\|protein_coding\|CODING\|GU280_gp10\|1\|A)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	170 NC_045512.2 29186 . G A 114.0 min_af_0.050000 AF=0.001532;DP=12404;DP4=6845,5536,15,6;SB=7;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Gca/Aca\|A305T\|419\|N\|protein_coding\|CODING\|GU280_gp10\|1\|A)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	171 NC_045512.2 29187 . C T 142.0 min_af_0.050000 AF=0.001691;DP=12417;DP4=6915,5477,13,9;SB=0;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gCa/gTa\|A305V\|419\|N\|protein_coding\|CODING\|GU280_gp10\|1\|T)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	172 NC_045512.2 29188 . A G 134.0 min_af_0.050000 AF=0.001629;DP=12279;DP4=6876,5376,13,11;SB=0;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|gcA/gcG\|A305\|419\|N\|protein_coding\|CODING\|GU280_gp10\|1\|G)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	173 NC_045512.2 29195 . GC G 297.0 min_af_0.050000 AF=0.002159;DP=12041;DP4=6921,5152,14,12;HRUN=5;SB=0;INDEL;EFF=FRAME_SHIFT(HIGH\|\|ccc/\|P309\|419\|N\|protein_coding\|CODING\|GU280_gp10\|1\|G\|INFO_REALIGN_3_PRIME);LOF=(N\|GU280_gp10\|1\|1.00)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	174 NC_045512.2 29235 . G A 83.0 min_af_0.050000 AF=0.000626;DP=36745;DP4=6926,29793,7,17;SB=7;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|gGc/gAc\|G321D\|419\|N\|protein_coding\|CODING\|GU280_gp10\|1\|A)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	175 NC_045512.2 29312 . A G 145.0 min_af_0.050000 AF=0.000883;DP=33979;DP4=4770,29170,1,30;SB=9;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|Aaa/Gaa\|K347E\|419\|N\|protein_coding\|CODING\|GU280_gp10\|1\|G)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	176 NC_045512.2 29320 . A G 106.0 min_af_0.050000 AF=0.000762;DP=34141;DP4=5096,29012,4,26;SB=0;EFF=SYNONYMOUS_CODING(LOW\|SILENT\|caA/caG\|Q349\|419\|N\|protein_coding\|CODING\|GU280_gp10\|1\|G)
1062d6ad6503 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit 1f35303af979c16d9a3126dbc882a59f686ace5d" iuc parents: diff changeset	177 NC_045512.2 29331 . T C 99.0 min_af_0.050000 AF=0.000719;DP=33388;DP4=4576,28723,2,67;SB=23;EFF=NON_SYNONYMOUS_CODING(MODERATE\|MISSENSE\|cTg/cCg\|L353P\|419\|N\|protein_coding\|CODING\|GU280_gp10\|1\|C)

Mercurial > repos > iuc > snpfreqplot

annotate test-data/1085990.vcf @ 3:3d0adeee3f2b draft default tip