Boston’s Rafael Devers, right, celebrates with Enmanuel Valdez after hitting a two-run homer in the first inning Sunday against the San Diego Padres. Steven Senne/Associated Press

BOSTON — Rafael Devers hit a two-run homer, Jarren Duran added a solo shot, and the Boston Red Sox ended San Diego’s five-game winning streak with a 4-1 victory on Sunday.

The Red Sox, who were outscored 20-3 in the first two games of the series, snapped a three-game skid.

Jackson Merrill had three hits for the Padres, and Ha-Seong Kim added an RBI double. San Diego had won nine of its previous 10 games.

Making his first start since being recalled from Triple-A on Tuesday, Boston right-hander Josh Winckowski (2-1) gave up four hits over five scoreless innings.

“I kind of figured out something a little bit down in Triple-A,” he said. “I was throwing changeups that were literally just like a ball down and almost never, ever getting swings on it, so we just started throwing it in the zone all times and it turned into a high-percentage strike pitch for me, and I got a lot of ground balls.”

Kenley Jansen, the fourth reliever, got the final three outs for his 16th save this season and 436th of his career.

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Padres starter Matt Waldron (5-7) allowed four runs, three earned, in 4 1/3 innings, halting his NL-high stretch this season of nine consecutive starts allowing two or fewer runs.

Waldron, the only current pitcher in the majors who features a knuckleball, has said he was inspired as a child to learn the knuckleball by watching former Red Sox pitcher Tim Wakefield, who famously relied on that pitch during his 17 years with Boston. Wakefield died last October at age 57 after a battle with brain cancer.

“I know that Wakefield has toed that rubber,” Waldron said, becoming emotional. “You could feel it. It was tough. At the end of the day, I’ve got to get a job done and that just didn’t happen.”

Devers drove a fastball into the second row of Green Monster seats for his 18th homer, making it 2-0 in the first.

“A few knuckleballs and a few fastballs they were able to put some barrels on,” Padres Manager Mike Shildt said. “But overall, I thought (Waldron) was good. He usually gets better as the game goes on. … They had a good plan and didn’t miss it.”

In the third, Wilyer Abreu singled with two outs, advanced to third on a single and scored when catcher Kyle Higashioka couldn’t handle Waldron’s knuckleball for a passed ball.

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Duran’s ninth homer of the season came off a knuckleball and hooked around the Pesky Pole in right field to make it 4-0 in the fifth.

“I’m so glad he threw it the first pitch of the game so I could see what it looks like,” Duran said. “That thing is nasty. Kind of the game plan for me was just to, honestly, see it above my eyeballs, because if it’s up there I’m hoping its not going to move as much as if it was down.”

The last few innings were played under dark skies, with thunder rumbling at times in the distance and flashes of lightning bringing reactions from the crowd.

Seconds after lightning flashed, San Diego’s Manny Machado grounded out to end a scoreless fifth, something the Red Sox were glad to see after giving up nine runs in that inning on Friday and six on Saturday.

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