Did you copy the data at the filesystem level or at the volume level? (In other words, did you copy the files themselves or the whole volume/partition block by block?)

In the former case, I wouldn't worry too much, it might just be the result of the natural defragmentation of your files. To reassure yourself, you could use one of the many tools for comparing file trees, or a simple combination of `find', `diff' and maybe your preferred checksum tool if you have time.

In the latter case, well, keep the backup a while longer until you figure it out.
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