yes, it was known that the kind the He111 carried its bombs made the bombing some kind of less accurate.
The Blenheim had also problems with its accuricy because the its bombdoors were opened by the weight of the bombs . There was no "open bombdoors" before bombrelease with it.
Anyway,WW2 bombing was far away from laser or gps guided bombing nowadays
even the Norden bomsight equipted US heavis were used in masses to hit, not to talk about to destroy targets.