Before getting the summary page you will see the following message:

 The program is running, it may take a few minutes (or a few hours) depending or your input file and the database chosen. You can save the jobId and paste it later in the upper side field of the page (the one that says "Paste here your job ID" ). And press the STOP button, to submit another job. Or wait until the job finishes.

We keep all results for 72 hours. After that they are deleted.

PSI-Blast Summary

The first result page is the Summary page, divided in three sections:

1. the buttons
2. the description of the analysis
3. the list of results

The buttons

1 - ACTION TOOLS: these buttons call other programs or pages:

• blast result: the original blast result page, as a text file that you can save on your local disk
  
• mview: all the alignments in the blast result page viewed using MVIEW, a tool that converts the blast result into coloured multiple alignments.
• clustal: run clustalw on the selected alignments (see selection tools for selecting alignments)
• alignments: view selected alignments (see selection tools for selecting alignments)
• view graph: a graph representing all the blast results
• submit another job: go back to the main blast form to submit a new analysis

2 - SELECTION TOOLS: select the alignments , for clustal and show alignments tools. This is only available if you have only one sequence in the input file.

• check all:  checks all checkboxes in the list
• check: enter the alignments you want to see in the text field, the format is the same one used by the prints options for selecting pages. Then press the check button: the corresponding checkboxes will be selected
• You can of course manually select the checkboxes.

The description of the analysis

The main options you have selected in the blast form are presented in this table, just before the alignments list.

The alignments list

Below the description table, you will see the alignments list. The number of alignments shown depends on the options scores and alignments of the blast form.










The first two line gives the information on the query, e.g. the sequence in your input file. Then you have the number of hits, and the description. The column alignment shows the checkboxes and alignment numbers for the selection tools options.
If your input file contained more than one sequence, the same type of lines will be repeated for each sequence.

Action tools

When choosing one of the action tools, you will first see a message like the following one:












This means that the program you have selected is running, the results should appear very soon, please wait.
Once the result page has appeared, you will see there also Action tools buttons:

• for MVIEW and Alignments

You can either go back the the blast summary page, or submit another blast job.

• for CLUSTAL

You can save the clustal result, view it with MVIEW to see the alignments coloured, return to blast summary or submit another blast job.