You can use GNU screen’s copy and paste commands.

Quick tutorial:

  1. Open screen: screen (or screen myprog my args here)
  2. Run your program, producing output you want copied
  3. Enter copy mode: ^A [
  4. Move your cursor to the start point
  5. Hit enter
  6. Move your cursor to the end point
  7. Hit enter
  8. Paste: ^A ]