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Have found the way

BEGIN {FS=OFS=" "}

{
for (i=1;i<=NF;i++)
{
arr[NR,i]=$i;
}
}

END {
h=0
for(j=3;j<=NF;j=j+2)
{
h=h+1;
k="M_"h;
if...

I didn't specify it good.
Any column pair can be missing (from 1 to (NF-2)/2) so that's why I have loop : for (i=3; i<=NF; i=i+2)
and then j=j+1, as counter

In above example you can see missing...

It can't be that hard, but I just can't figure it out:
I have file like:
File Sub-brick M_1 S_1 M_2 S_2 M_4 S_4 ...
xxx 1 214 731 228 621 132 578 ...

and would like to get 0 0 where M_3 S_3...