Jivaro (eastern Ecuador):

Two boys found that the game they had hunted for a feast kept disappearing
while they were gone. One stayed in camp and discovered a large snake was
responsible. They built a fire to drive the snake out of the hollow in a tree,
where it lived. The snake fell in the fire, and one of the brothers ate some of
its roasted flesh. He became very thirsty, drank all the water in camp, and
went to the lake. He was transformed first into a frog, then a lizard, and
finally into a snake, which grew rapidly. His brother was frightened and tried
to pull him out, but the lake began to overflow. The snake told his brother
that the lake would continue to grow and all the people would perish unless
they made their escape. The snake told him to take a calabash and flee to a
palm tree on the highest mountain. The brother told his people what was
happening, but they didn't believe him. He fled to the top of a palm tree on
the top of a mountain and returned many days later when the waters had
subsided. Vultures were eating the dead people in the valley. He went to the
lake and carried away his brother in a calabash. [Kelsen, pp. 140-141; see
also Roheim, p. 156]

A great cloud fell from heaven, turned to rain, and killed all the inhabitants
of earth. Only a man and his two sons were saved. One of the sons was
cursed by his father; the Jivaros are descended from him. [Gaster, p. 126]

According to some Jivaro, the flood was survived by a man and woman, who
took refuge in a cave on a high mountain along with samples of all the
various animal species. [Gaster, p. 126]

Two brothers survived the flood in a mountain which rose higher and higher
with the flood waters. They went looking for food after the flood, and when
they returned, found food set out for them. To find its source, one of the
brothers hid himself and saw two parrots with the faces of women enter their
hut and prepare the food. He jumped out, seized one of the birds, and
married it. From this union came three boys and three girls from whom the
Jivaros are descended. [Gaster, p. 126]

Shuar (Andes):
A hunter heard whistling at a riverbank, and suspecting it was something
from the spirit world, went home and used to tobacco smoke to induce a
dream. In it, he was told by the daughter of the water spirit Tsunki to return
to the river. He did so, met the woman, followed her underwater to her
father's house. The woman's mother gave him an aphrodisiac, and he became
her husband. When he returned to his home on earth, she took the form of a
snake. She became pregnant, and the man had to go out hunting. While he
was out, his two earthly wives discovered the snake and tormented her, and
she returned to her father. Tsunki, in a rage, flooded the earth, drowning
 everyone but the hunter and one of his daughters, who escaped to a
mountaintop. These two repopulated the world. [Bierhorst, 1988, p. 218]
Murato (a branch of the Jivaros):
A Murato was fishing in a lagoon of the Pastaza River when a small
crocodile swallowed his bait. The fisherman killed it. The mother of
crocodiles was angered and lashed the water with her tail, which flooded the
area and drowned all people except one man, who climbed a palm tree. It
was dark as night, so he dropped a palm fruit from time to time. When he
heard it thud on ground rather than splash, he knew the flood had subsided.
He climbed down, built a house, and began tilling a field. Being alone, he
cut off a piece of his flesh and planted it; from this grew a woman, whom he
married. [Frazer, pp. 261-262]
Cañari (Quito, Ecuador):
Two brother escaped a great flood on top of the tall mountain Huaca-yñan.
As the water rose, the mountain also rose. When the water lowered and their
provisions were consumed, the brother descended, built a small house, and
ate herbs and roots, living a miserable existence of hunger and toil. One day,
they returned home to find food and chicha drink prepared. After ten days of
this, to find out who their benefactor was, the elder brother hid and presently
saw two macaws, dressed like Cañaris, enter the house and begin to prepare
food they had brought with them. The man saw that they were beautiful and
had faces of women, and he came out of hiding. But the birds became angry
and left when they saw him, leaving no food. The younger brother came
home and heard the story, and both were angry. The next day, the younger
brother decided to hide. After three days, the macaws returned. The two men
waited until the birds had finished cooking and then shut the door. The birds
were angry, and the larger one escaped as the brothers held the small one.
The brothers took the macaw as a wife; by her they had six sons and
daughters, from whom the Cañari are descended. Macaws and the hill
Huaca-yñan are venerated by the Indians today. [Frazer, pp. 268-269]