# Summary table 

Name , Value
Genome , GRCh38.105 
Date , 2026-02-02 21:41
SnpEff_version , SnpEff 5.1d (build 2022-04-19 15:49), by Pablo Cingolani
Command_line_arguments , SnpEff  GRCh38.105 -csvStats HCC1395_tumor_vs_HCC1395_BL.strelka.somatic_indels_custom.ann_snpEff.csv HCC1395_tumor_vs_HCC1395_BL.strelka.somatic_indels_custom.ann.vcf.gz 
Warnings , 1 
Number_of_lines_in_input_file, 6
Number_of_variants_before_filter, 6
Number_of_not_variants , 0
Number_of_variants_processed , 6
Number_of_known_variants (i.e. non-empty ID) , 0, 0% 
Number_of_effects , 12 
Genome_total_length ,63147197748 
Genome_effective_length ,46709983 
Change_rate , 7784997 

# Change rate by chromosome

Chromosome , Length , Changes , Change_rate 
21 , 46709983 , 6 , 7784997

# Variantss by type

Type , Count , Percent 
DEL , 4 , 66.666667% 
INS , 2 , 33.333333% 

# Effects by impact

Type , Count , Percent 
MODERATE , 3 , 25% 
MODIFIER , 9 , 75% 

# Effects by functional class

Type , Count , Percent 

Missense_Silent_ratio, 0

# Count by effects

Type , Count , Percent 
3_prime_UTR_variant , 2 , 16.666667% 
conservative_inframe_deletion , 1 , 8.333333% 
disruptive_inframe_deletion , 1 , 8.333333% 
disruptive_inframe_insertion , 1 , 8.333333% 
downstream_gene_variant , 4 , 33.333333% 
intron_variant , 1 , 8.333333% 
upstream_gene_variant , 2 , 16.666667% 

# Count by genomic region

Type , Count , Percent 
DOWNSTREAM , 4 , 33.333333% 
EXON , 3 , 25% 
INTRON , 1 , 8.333333% 
UPSTREAM , 2 , 16.666667% 
UTR_3_PRIME , 2 , 16.666667% 

# Quality 


# InDel lengths

Values , 0,1,2
Count , 1,4,1

# Base changes

base  , A  , C  , G  , T 
 A  , 0  , 0  , 0  , 0 
 C  , 0  , 0  , 0  , 0 
 G  , 0  , 0  , 0  , 0 
 T  , 0  , 0  , 0  , 0 

# Ts/Tv summary

Transitions , 0
Transversions , 0
Ts_Tv_ratio , 0

# Ts/Tv : All variants

No results available (empty input?)

# Ts/Tv : Known variants

No results available (empty input?)

# Allele frequency

# Allele frequency : All variants

Values , 0
Count , 6

# Allele Count

Values , 0
Count , 6

# Hom/Het table

Sample_names , NORMAL, TUMOR
Reference , 0, 0
Het , 0, 0
Hom , 0, 0
Missing , 6, 6


# Codon change table
	
codons  , -  , CAC  , CAT  , CCG  , CTA  , GCC  , GCG  , GCT  , GGG 
 -   , 0  , 0  , 1  , 0  , 0  , 0  , 0  , 0  , 0 
 CAC   , 0  , 0  , 0  , 0  , 0  , 0  , 0  , 0  , 0 
 CAT   , 0  , 1  , 0  , 0  , 0  , 0  , 0  , 0  , 0 
 CCG   , 1  , 0  , 0  , 0  , 0  , 0  , 0  , 0  , 0 
 CTA   , 1  , 0  , 0  , 0  , 0  , 0  , 0  , 0  , 0 
 GCC   , 2  , 0  , 0  , 0  , 0  , 0  , 1  , 0  , 0 
 GCG   , 2  , 0  , 0  , 0  , 0  , 0  , 0  , 0  , 0 
 GCT   , 1  , 0  , 0  , 0  , 0  , 0  , 0  , 0  , 0 
 GGG   , 2  , 0  , 0  , 0  , 0  , 0  , 0  , 0  , 0 

# Amino acid change table

aa  , -  , A  , G  , H  , L  , P 
 - , 0 , 0 , 0 , 1 , 0 , 0 
 A , 5 , 1 , 0 , 0 , 0 , 0 
 G , 2 , 0 , 0 , 0 , 0 , 0 
 H , 0 , 0 , 0 , 1 , 0 , 0 
 L , 1 , 0 , 0 , 0 , 0 , 0 
 P , 1 , 0 , 0 , 0 , 0 , 0 

# Chromosome change table

21, Position,0,1000000,2000000,3000000,4000000,5000000,6000000,7000000,8000000,9000000,10000000,11000000,12000000,13000000,14000000,15000000,16000000,17000000,18000000,19000000,20000000,21000000,22000000,23000000,24000000,25000000,26000000,27000000,28000000,29000000,30000000,31000000,32000000,33000000,34000000,35000000,36000000,37000000,38000000,39000000,40000000,41000000,42000000,43000000,44000000,45000000,46000000
21,Count,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,3,0,0,0,0,0,0,0,0,0,1,0,1