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Ok, now I have tried both codes on my initial inputs (the alphabet pairs) and they both produced identical results.
The logical net step was to do the same on a much smaller subset of my comparison...

Yeah, using a number for the group was where I originally wanted to be but the problem is that it tells a biologist little beyond the fact that "you just reached Group_10000289".
My next step (which...

In the third paragraph in my previous post, in the last sentence (prior to the parentheses), by "same gene" I intend to say "a gene previously assigned in a pair to a group". Sorry again.

Thank you both, Annihilannic and cfajohnson. I cannot try your code now but will do so first thing in the morning.

The results are from pairwise comparisons of genes - a table of gene1 (A or B or...

No, if it was the first field all the time, I would never have posted this.
I kindly request you to look at my input again - if A B was encountered previously, when you next see B B it needs to be...

Group value is determined by the first pair to be detected by the script.

If A A was the first pair, A is the first group value.
If A B was the first pair, A is the first group value.
If B A was...

Dear all
I have a large file w. ~ 10 million lines.
The first two cols have matching partners.
For example:
A A
A B
B B

or

A A
B A
B B

The matches may be separated by an unknown...