Question: The relationship between QUAL and FQ INFO in mpileup output
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gravatar for mchone69
4.7 years ago by
mchone690
China
mchone690 wrote:

My mpileup output looks like this:

#CHROM    POS    ID    REF    ALT    QUAL    FILTER    INFO    FORMAT    HS
Chr1    1954    .    G    A    155    .    DP=21;VDB=0.0401;AF1=1;AC1=2;DP4=0,0,13,7;MQ=42;FQ=-87    GT:PL:DP:SP:GQ    1/1:188,60,0:20:0:99
Chr1    23056    .    C    A    169    .    DP=22;VDB=0.0388;AF1=1;AC1=2;DP4=0,0,12,10;MQ=42;FQ=-93    GT:PL:DP:SP:GQ    1/1:202,66,0:22:0:99
Chr1    31071    .    A    G    182    .    DP=31;VDB=0.0333;AF1=1;AC1=2;DP4=0,0,15,15;MQ=42;FQ=-117    GT:PL:DP:SP:GQ    1/1:215,90,0:30:0:99
Chr1    31478    .    C    T    169    .    DP=26;VDB=0.0394;AF1=1;AC1=2;DP4=0,0,15,11;MQ=42;FQ=-105    GT:PL:DP:SP:GQ    1/1:202,78,0:26:0:99
Chr1    33667    .    A    G    172    .    DP=24;VDB=0.0399;AF1=1;AC1=2;DP4=0,0,10,14;MQ=42;FQ=-99    GT:PL:DP:SP:GQ    1/1:205,72,0:24:0:99

Could someone tell me what's the relationship between QUAL and FQ, or how can I get the FQ value if I only have QUAL value?

THANKS A LOT.

 

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