find rho-independent transcription terminators in bacterial genomes
TransTermHP finds rho-independent transcription terminators in
bacterial genomes. Each terminator found by the program is assigned a
confidence value that estimates its probability of being a true
terminator. TransTermHP is the successor of TransTerm which was using
very different search and scoring algorithms.
transtermhp for Debian
Helper scripts are located in the /usr/share/doc/transtermhp/examples directory.
-- Alex Mestiashvili <firstname.lastname@example.org> Sat, 19 Feb 2011 12:37:10 +0000
2NDSCORE(1) User Contributed Documentation 2NDSCORE(1)
2ndscore - find the best hairpin anchored at each position.
2ndscore in.fasta > out.hairpins
For every position in the sequence this will output a line:
-0.6 52 .. 62 TTCCTAAAGGTTCCA GCG CAAAA TGC CATAAGCACCACATT
(score) (start .. end) (left conte
TRANSTERM(1) User Contributed Documentation TRANSTERM(1)
transterm - Finds rho-independent transcription terminators in bacterial genomes.
transterm -p expterm.dat seq.fasta annotation.ptt > output.tt
Any number of fasta and annotation files can be listed but
fasta files should come before annotation files. The type of
Version 2.07 (Released on Jan. 21, 2008)
- Fixed bug that causes -max-loop option to not be reco
transtermhp (2.09-1) unstable; urgency=low
[ Alex Mestiashvili ]
* New upstream release.
Browse inside transtermhp_2.09-1_amd64.deb
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