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Basic Local Alignment Search Tool: algorithm that finds regions of similarity between a pair of sequences, can be used to query an unknown sequence against a database of known sequences.

2
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If you take a look at my answer in this BioStars post, you can generate a PSSM using AlignIO in Biopython:
modified Jul 31 '18 by llrs
0
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in the order they were given. BLAST results are sorted in descending order by the "Bit score" (column 12). Sorting by E. value would not be quite the same. i.e. column 11 (E value) will be … . value = 0 should have a high score. How high exactly depends on the hit length, so it's common to see many E values with 0.0, but the scores differ. Here's a snippet of one of my blast results …
modified Jun 21 '17 by Joe Healey