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In The Variant Call Format Specification: VCFv4.5 and BCFv2.2 (2024-06-28) § 5.5 "Representing unspecified alleles and REF-only blocks (gVCF)", some of the records in the example have FORMAT LEN values that are off-by-one.
diff --git a/VCFv4.5.tex b/VCFv4.5.tex index e288aa9..00e4e7b 100644 --- a/VCFv4.5.tex +++ b/VCFv4.5.tex @@ -1862,12 +1862,12 @@ An example with both FORMAT LEN and a redundant INFO END is given below: \begin{tabular}{ l l l l l l l l l l } \#CHROM & POS & ID & REF & ALT & QUAL & FILTER & INFO & FORMAT & Sample \\ 1 & 4370 & . & G & $<$*$>$ & . & . & END=4383 & GT:DP:GQ:MIN\_DP:PL:LEN & 0/0:25:60:23:0,60,900;14 \\ -1 & 4384 & . & C & $<$*$>$ & . & . & END=4388 & GT:DP:GQ:MIN\_DP:PL:LEN & 0/0:25:45:25:0,42,630;4 \\ +1 & 4384 & . & C & $<$*$>$ & . & . & END=4388 & GT:DP:GQ:MIN\_DP:PL:LEN & 0/0:25:45:25:0,42,630;5 \\ 1 & 4389 & . & T & TC,$<$*$>$ & 213.73 & . & . & GT:DP:GQ:PL:LEN & 0/1:23:99:51,0,36,93,92,86 \\ 1 & 4390 & . & C & $<$*$>$ & . & . & END=4390 & GT:DP:GQ:MIN\_DP:PL:LEN & 0/0:26:0:26:0,0,315;1 \\ -1 & 4391 & . & C & $<$*$>$ & . & . & END=4395 & GT:DP:GQ:MIN\_DP:PL:LEN & 0/0:27:63:27:0,63,945;4 \\ +1 & 4391 & . & C & $<$*$>$ & . & . & END=4395 & GT:DP:GQ:MIN\_DP:PL:LEN & 0/0:27:63:27:0,63,945;5 \\ 1 & 4396 & . & G & C,$<$*$>$ & 0 & . & . & GT:DP:GQ:MIN\_DP:PL:LEN & 0/0:24:52:0,52,95,66,95,97 \\ -1 & 4397 & . & T & $<$*$>$ & . & . & END=4416 & GT:DP:GQ:MIN\_DP:PL:LEN & 0/0:22:14:22:0,15,593;19 \\ +1 & 4397 & . & T & $<$*$>$ & . & . & END=4416 & GT:DP:GQ:MIN\_DP:PL:LEN & 0/0:22:14:22:0,15,593;20 \\ \end{tabular} \end{flushleft} \normalsize
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In The Variant Call Format Specification: VCFv4.5 and BCFv2.2 (2024-06-28) § 5.5 "Representing unspecified alleles and REF-only blocks (gVCF)", some of the records in the example have FORMAT LEN values that are off-by-one.
The text was updated successfully, but these errors were encountered: