I would recommend the Tsunami TMPGEnc 5 encoding application. It will not only convert MTS and MOV files to MPI archive formats, but it also supports a whole range of other video formats. You can buy it here: http://tmpgenc.pegasys-inc.com/en/product/tvmw5.html
The settings for MTS too mpeg2 are:
Stream format: MPEG-2 Video
Profile & Level: MP@HL
Size: 1920 x 1080
Aspect ratio: Display 16:9
Framerate: 25 fps (for PAL) 29.97 (for NTSC)
Rate control mode: CBR
VBV buffer size: 224 kb
Video system: PAL (if PAL obviously)
DC component precision: 8 bit
Display mode: Progressive
Motion search precision: Standard
Output stream type: System (Video + Audio)
Bitrate / Quality: 25000
It is very important to select deinterlace always, as the application defaults to deinterlace when necessary