Viewing BLAST Results

In the previous section, we saved result file results/blastp.out to an S3 bucket at destination s3://my-bucket/my-dir/results/blastp.out.

One method to download the results file to your workstation and view it is to use the AWS CLI to interface with the S3 bucket where your results are stored. If you do not have the AWS CLI installed, please see the AWS CLI installation instructions for more information.

Using the AWS CLI command aws s3 cp, the result file can be downloaded to your workstation. The command below copies the result file at S3 URI s3://my-bucket/my-dir/results/blastp.out to your working directory.

$ aws s3 cp s3://my-bucket/my-dir/results/blastp.out .
download: s3://my-bucket/my-dir/results/blastp.out to ./blastp.out

To view the results, we can simply use the cat command to output the contents of the file to our terminal.

$ cat blastp.out
BLASTP 2.12.0+


Reference: Stephen F. Altschul, Thomas L. Madden, Alejandro A.
Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J.
Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of
protein database search programs", Nucleic Acids Res. 25:3389-3402.


Reference for composition-based statistics: Alejandro A. Schaffer,
L. Aravind, Thomas L. Madden, Sergei Shavirin, John L. Spouge, Yuri
I. Wolf, Eugene V. Koonin, and Stephen F. Altschul (2001),
"Improving the accuracy of PSI-BLAST protein database searches with
composition-based statistics and other refinements", Nucleic Acids
Res. 29:2994-3005.



Database: Nurse shark proteins
           7 sequences; 922 total letters



Query= sp|P01349.2|RELX_CARTA RecName: Full=Relaxin; Contains: RecName:
Full=Relaxin B chain; Contains: RecName: Full=Relaxin A chain

Length=44
                                                                      Score     E
Sequences producing significant alignments:                          (Bits)  Value

P80049.1 RecName: Full=Fatty acid-binding protein, liver; AltName...  14.2    0.96


>P80049.1 RecName: Full=Fatty acid-binding protein, liver; AltName: Full=Liver-type
fatty acid-binding protein; Short=L-FABP
Length=132

 Score = 14.2 bits (25),  Expect = 0.96, Method: Compositional matrix adjust.
 Identities = 3/9 (33%), Positives = 6/9 (67%), Gaps = 0/9 (0%)

Query  2    LCGRGFIRA  10
            +C R ++R
Sbjct  123  VCTREYVRE  131



Lambda      K        H        a         alpha
   0.334    0.143    0.520    0.792     4.96

Gapped
Lambda      K        H        a         alpha    sigma
   0.267   0.0410    0.140     1.90     42.6     43.6

Effective search space used: 22680


  Database: Nurse shark proteins
    Posted date:  Jun 18, 2024  4:42 PM
  Number of letters in database: 922
  Number of sequences in database:  7



Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Neighboring words threshold: 11
Window for multiple hits: 40