diff --git a/CRAMv3.tex b/CRAMv3.tex index bcf09a2cc..5671cd9fa 100644 --- a/CRAMv3.tex +++ b/CRAMv3.tex @@ -445,7 +445,8 @@ \section{\textbf{Container structure}} \hline itf8 & reference sequence id & reference sequence identifier or\linebreak{} -1 for unmapped reads\linebreak{} --2 for multiple reference sequences\tabularnewline +-2 for multiple reference sequences.\linebreak{} +All slices in this container must have a reference sequence id matching this value.\tabularnewline \hline itf8 & starting position on the reference & the alignment start position or\linebreak{} 0 for unmapped reads\tabularnewline @@ -777,7 +778,8 @@ \subsection{\textbf{Slice header block}} \hline itf8 & reference sequence id & reference sequence identifier or\linebreak{} -1 for unmapped reads\linebreak{} --2 for multiple reference sequences\tabularnewline +-2 for multiple reference sequences.\linebreak{} +This value must match that of its enclosing container.\tabularnewline \hline itf8 & alignment start & the alignment start position.\linebreak{} Ignored on read and set to 0 on write if the slice is multiple-reference