Name: RDP (Ribosomal Database Project) Alignment Editor File Format

Pronom:

Policy Summary:

Logical Extensions: ae, ae2

Related File Formats: ClustalW Multiple Sequence Alignment Format, Fasta Sequence Alignment Format , FastQ Sequence Alignment Format

File rendering profiles:

Name Status Software (Version) OS (Version) Content Types File Extensions
Text-based sequence alignment formats in Atom on Windows / Mac active Atom (1.25.0) Windows / Mac (7, 8, 10 / OS X 10.9 - 10.13) text/plain ae, ae2, aeal, aen, aerofa, aet, ae,v, ae written out, align, align2, aln, alnew, aln,v, anaero, catseq, fa, fasta, fasta 2, fastq, seq, seq2, seqs, sequenc
Text-based sequence alignment formats in Notepad++ on Windows active Notepad++ (7.5.4) Windows (XP, 7, 8, 10) text/plain ae, ae2, aeal, aen, aerofa, aet, ae,v, ae written out, align, align2, aln, alnew, aln,v, anaero, catseq, fa, fasta, fasta 2, fastq, seq, seq2, seqs, sequenc
AE in TextPad 7 on Windows 7 inactive TextPad (7) Windows (7) text/plain ae
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Pronoms

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Notes

rimkus - 2016-08-23

We have encountered AE files in collections of genomic data from the late 1990s. They are plain text files and we preserve them as such. We are presently uncertain of how they were used by their creators, or how one would use them now. A sample representative AE file: https://medusa.library.illinois.edu/cfs_files/9483867

kgermeck - 2018-03-12

[Description & Rendering]:

The text-based .ae and .ae2 files located within the Woese collection were generated by Alignment Editor / Alignment Editor 2 (AE2), a genome sequence alignment editor originally developed by T. J. Macke at the University of Illinois at Urbana/Champaign for the Ribosomal Database Project. AE2 was designed primarily to create, modify, display and analyze RNA/DNA sequence alignments. Sequences in the Clustal, Fasta, and FastQ, and numerous other alignment formats could be loaded into a computer and then edited in AE2.

AE2 files can be rendered within a standard text editor and do not require the AE2 software packaged to be viewed.

kgermeck - 2018-03-12

[.ae / .ae2 Files in Medusa]:

It appears that there are two complete copies of the AE2 software package within the "Carl Woese Papers (Born Digital Records and Digital Surrogates)" collection. See the directories “AE2.new” and “ae2": https://medusa.library.illinois.edu/cfs_directories/380723.

kgermeck - 2018-03-30

[Additional Info – AE2 Software Download and Operating Requirements]:

Indiana University’s Biology Department provides a download of the AE2 software package at http://iubio.bio.indiana.edu/soft/molbio/unix/. According to the "AE2 Software Documentation" mentioned in the following note, AE2 was written in C and will run only on Unix-based SUN Workstations.

kgermeck - 2018-03-30

[Helpful Links]:

1) AE2 Software Documentation - http://iubio.bio.indiana.edu/soft/molbio/unix/ae2.readme
2) Full-text link to PDF copy of Maidak, B. L., Larsen, N., McCaughey, M. J., Overbeek, R., Olsen, G. J., Fogel, K., & ... Woese, C. R. (1993). The Ribosomal Database Project. Nucleic Acids Research, 21(13), 3021-3023: http://www.biomedsearch.com/nih/ribosomal-database-project/8332524.html#fullText

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Normalization Paths

Name Input Extension Output Extension Output Format Software Operating System
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