Many dispersed families of DNA sequences have been found in the C. elegans genome and it is presumed that they have arisen through the duplication and subsequent divergeance of common ancestral sequences. With the advent of genomic sequence a number of repeat families have now been determined. Below are listed some of the C. elegans repeats which have been determined and named so far. Consensus sequences are also available, primarily for those determined by computatiomal methods.

The repeat libraries for C. elegans and C. briggsae are available here and here

Repeat families

		Repeat		Previous names		Author		Notes
		CeRep1				Emmons		(1)
		CeRep2				Emmons		Only reference to this is WBG 8.2p39
		CeRep3				Emmons		(1)
		CeRep10		REP-A		Durbin
		CeRep11		REP-D		Durbin
		CeRep12		REP-E		Durbin
		CeRep13		REP-F		Durbin
		CeRep14		REP-G		Durbin
		CeRep15		REP-J		Durbin
		CeRep16				Candido
		CeRep17		REP-L		Durbin
		CeRep18		REP-M		Durbin
		CeRep19		REP-N		Durbin
		CeRep20		REP-P		Durbin
		CeRep21		REP-Q		Durbin
		CeRep22		REP-R		Durbin
		CeRep23		REP-T		Durbin		Similar to CEREPS03(2)
		CeRep24		REP-V		Durbin
		CeRep25		REP-S		Durbin		Palindromic
		CeRep26		REP-W				telomeric repeat taggc
		CeRep27		REP-X		Durbin
		CeRep28		alpha		Lewis & Eddy		quasi-palindromic. appears by itself.
		CeRep29		bravo		Lewis & Eddy		part of tandem arrays with mike, tango, juliett [bravo + mike == Rc123 (2)]
		CeRep30		charlie		Lewis & Eddy		almost always occurs in pairs as an inverted repeat usually w/ ~50 bp loop
		CeRep31		echo		Lewis & Eddy
		CeRep32		foxtrot		Lewis & Eddy		found with other repeats, order=[repN foxtrot repL repN]
		CeRep33		golf		Lewis & Eddy		found with other repeats, order=[repF repM repM golf repM repF]
		CeRep34		hotel		Lewis & Eddy		found with yankee, order=[yankee hotel yankee]
		CeRep35		juliett		Lewis & Eddy		[juliett == Rc35 (2)]
		CeRep36		mike		Lewis & Eddy		[brave+mike == Rc123 (2)]
		CeRep37		papa		Lewis & Eddy		often but not always in pairs, in inverted repeat configuration.
		CeRep38		quebec		Lewis & Eddy		[repV quebec repV]
		CeRep39		sierra		Lewis & Eddy		sierra is low copy, but very highly conserved
		CeRep40		tango		Lewis & Eddy		[tango == Rc9 (2)]
		CeRep41		victor		Lewis & Eddy		victor is a subset of the Tc3 terminal inverted repeat
		CeRep42		x-ray		Lewis & Eddy		a bit poorly defined: consists of terminal inverted repeats
		CeRep43		yankee		Lewis & Eddy		poorly conserved and AT rich. usually occurs in inverted repeat
		CeRep44				Pilgrim		Associated with Chromosome III
		CeRep45				Perry		12mer, associated with chrom I
		CeRep46				Perry		14mer, associated with chrom II
		CeRep47				Perry		16mer, associated with chrom III
		CeRep48				Perry		11mer, associated with chrom III, IV and V
		CeRep49				Perry		11mer, associated with chrom V
		CeRep50				Perry		11mer, associated with chrom X
		CeRep51				Jekosch		26mer, foundd 474 times in the C; elegans genome distribution table, gif
		CeRep52				Jekosch		224mer, consists of repeated 8mers, found 395 times in the C. elegans genome, located preferrably at chromosome ends, just one occurrence on chromosome X distribution table, gif
		CeRep53				Jekosch		69mer, found 150 times in the C. elegans genome distribution table, gif
		CeRep54				Jekosch		228mer, consists of repeated 7mers, found 29 times in the C. elegans genome distribution table, gif
		CeRep55				Jekosch		25mer, found 1040 times in the C. elegans genome distribution table, gif
		CeRep56				Jekosch		25mer, found 436 times in the C. elegans genome on chromosome I, IV and X distribution table, gif
		CeRep57				Jekosch		40mer, found 248 times on chromsome X (clone C07D8) distribution table, gif
		CeRep58				Jekosch		42mer, found 198 times on chromsome IV and X distribution table, gif
		CeRep59				Jekosch		93mer, found 671 times in the C. elegans genome, many subparts of this consensus are repeats, too distribution table, gif

References

1. Felsenstein, K.M. and S.W. Emmons. 1987. Structure and Evolution of a family of interspersed repetitive DNA sequences in Caenorhabditis elegans. J. Mol. Evol. 25:230-240

2. Naclerio, G., G. Cangiano, A. Coulson, A. Levitt, V. Ruvulo and A. La Volpe. 1992. Molecular and genomic organisation of clusters of repetitive DNA sequences in Caenorhabditis elegans. J. Mol. Biol. 226: 159-168.

3. Sanford C. and Perry M.D. 2001. Asymmetrically distributed oligonucleotide repeats in the Caenorhabditis elegans genome sequence that map to regions important for meiotic chromosome segregation. NAR 29:2920-2926.

4. Jekosch K, unpublished