I have data file with many thousands columns and rows. I want to delete the first column which is in fact the row counter. I used this command in linux:
cut
As @karakfa notes, it looks like it's the leading whitespace which is causing your issues.
Here's a sed oneliner to do the job (that will account for spaces or tabs):
sed -i.bak "s|^[ \t]\+[0-9]\+[ \t]\+||" input.txt
Explanation:
-i edit existing file in place
.bak backup original file and add .bak file extension (can use whatever you like)
s substitute
| separator (easiest character to read as sed separator IMO)
^ start match at start of the line
[ \t] match space or tab
\+ match one or more times (escape required so sed does not interpret '+' literally)
[0-9] match any number 0 - 9
As noted; the input.txt file will be edited in place. The original content of input.txt will be saved as input.txt.bak. Use just -i instead if you don't want a backup of the original file.
Also, if you know that they are definitely leading spaces (not tabs), you could shorten it to this:
sed -i.bak "s|^ \+[0-9]\+[ \t]\+||" input.txt