1) Boot in Ubutu live cd and start gparted.
2) Shrink the source disk’s data partition (e.g. sdb2). From the free space create a new partition (e.g. sdb4).
3) On destination disk create sda1, sda2 and sda3 (swap) with same size and type as in original disk. From the free space create sda4 (smaller than sdb4).
4) Boot in Conezilla.
5) Chose beginer, disk to disk and copy partition to partition (sdb1 to sda1, sdb2 to sda2). Skip the sdb4.