You would want to edit [ Interface > AddOns > nUI > Layouts > Default > HUDLayouts > {hud mode} > nUI_HUDLayout_{hud mode}.lua ] where {hud mode} is one of PlayerTarget, HealthPower or NoBars depending on which HUD you use.
Locate the "elements" section, "cooldowns" then "anchors' -- that's the section you would change to move the cooldown bar up and down.
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