President Pervez Musharraf survived two attacks in 2003
Reports say the house was under the flight path of Gen Musharraf's plane.
A photographer for the Reuters news agency said there were two large guns mounted on the roof of the house.
A military spokesman denied any firing had taken place. Gen Musharraf's travel plans are highly secret. He has survived two assassination attempts.
In addition, the authorities say they have foiled at least three other conspiracies to kill him.
'Sound of gunfire'
The president was flying from the Chaklala air base in Rawalpindi, a garrison town close to the capital, Islamabad, to see flood damage in Balochistan province.
Security officials examine an anti-aircraft gun on the house roof
He arrived safely, officials say.
People living near the house in Rawalpindi say they heard shots being fired.
"We heard the sound of gunfire," Mohammed Ishraq told the BBC's Urdu service. "When we arrived here we heard that it was some sort of terrorism."
Another man, Ishaq Ahmed, said: "Everyone heard a firing sound. The firing sound was like a bomb blast. It was that kind of sound."
An anti-aircraft gun and a light machine gun, as well 100 rounds of ammunition and two satellite antennas from the residence have been recovered from the house, Deputy Inspector General of police Marwat Ali Shah told the BBC.
Publicly officials flatly reject there was any attempt on Gen Musharraf's life.
"There was no firing at the president's plane. He is in Turbat [in Balochistan]," an army spokesman said.
The incident comes amid anger among many in Pakistan at Gen Musharraf's decision to take on Islamic radicals at the Red Mosque in Islamabad.
The confrontation there has so far resulted in 19 deaths.
Suicide attack
Meanwhile, at least four soldiers have been killed in a suicide bomb attack in North West Frontier Province (NWFP), local officials say.
Two of them were officers.
The incident took place in the town of Chakdara, some 200 kilometres north of the NWFP capital, Peshawar.
Reports say the attacker threw himself at an army jeep.
Map of Pakistan showing Rawalpindi (near Islamabad).
During a flight Friday from Chaklala Airbase in Rawalpindi, Pakistan to Balochistan province, President Pervez Musharraf's plane was shot at from a rooftop near the flight path. Musharraf was flying to Balochistan province to observe the effects of recent flooding in the area.

The Pakistani government has officially denied the plane came under fire, but a Paksitani intelligence officer indicated, off the record, that an attempt of Mushaffaf's life had occurred. Musharraf's plane arrived safely at its destination. However, sources say that Intelligence agencies in Pakistan are investigating into possible connection between attack on the plane and the siege of Lal Masjid.

Police have cordoned off a house in Rawalpindi to investigate the incident. ''Reuters'' news agency had a photographer in the area at the time, and reported seeing two guns on the roof of the house, one of them an anti-aircraft gun, which had been mounted on the roof. The other gun was reported to be a machinegun. Deputy Inspector General of police Marwat Ali Shah confirmed that an anti-aircraft gun, a machine gun and ammunition had been recovered from the home. 

Local residents reported hearing the sound of gunfire. "Everyone heard a firing sound," Ishaq Ahmed told ''BBC News''. "The firing sound was like a bomb blast. It was that kind of sound." Some witnesses claimed that they saw a person along with a woman and two kids escaping on a motorbike after the incident.

General Musharraf has survived two previous attempts on his life, carried out on December 14, 2003 by al-Qaeda-linked militants. There is no indication or claim of responsibility, as yet, as to who carried out the latest attack.