The Mess. Bf 109 was a fighter, not a bomber.
The Germans used three bombers.
The He 111, the Do 17, and a dive bomber, the Ju 86.
The Ju 86 (Stuka) dive bomber was phased out in the beginning of the battle.
These bombers didn't have the payload or armament of the American bombers (B-17, B-24), or the payload of the primary British aircraft.
What really hurt the Germans was that prior to the Battle of Britain the bombers faced only weak resistance in the Spanish Civil War, France, and other battles. When the faced the RAF they learned what lacking armament meant in terms of heavy losses.