miR-Intess: cel-lin-4

cel-lin-4

Cloning frequencies
absolute	CE1
cel-lin-4 5arm	1022
normalized	CE1
cel-lin-4 5arm	0.714

block2315 (miRBase cel-lin-4) [miRNAknown_cloningHIGH_randfoldOK]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
miRBase cel-lin-4	0.001	no	no	0.52/0.58	18/22/0.99	0.0	0.0	989	0	1	0	15	7	5arm	1	nd	0.15	1	1022	1	na	na

Families
Member of family lin-4 (seed CCCUGAG): cel-lin-4, cel-mir-237

		reads	miRBase family seed
seed	-----------------------------------CCCUGAG---------------------------------------------------------------------------	1011	lin-4
seed	------------------------------------CCUGAGA--------------------------------------------------------------------------	10	novel
seed	---------------------------------UUCCCUG-----------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	----------------------------------TCCCTGAGACCTCAAGTGTG---------------------------------------------------------------	20	989
	-----------------------------------CCCTGAGACCTCAAGTGTGA--------------------------------------------------------------	20	9
	----------------------------------TCCCTGAGACCTCAAGTGT----------------------------------------------------------------	19	9
	----------------------------------TCCCTGAGACCTCAAGTGTGAG-------------------------------------------------------------	22	8
cel-lin-4	----------------------------------TCCCTGAGACCTCAAGTGTGA--------------------------------------------------------------	21	3
	----------------------------------TCCCTGAGACCTCAAGTG-----------------------------------------------------------------	18	2
	--------------------------------GTTCCCTGAGACCTCAAGTGTG---------------------------------------------------------------	22	1
	-----------------------------------CCCTGAGACCTCAAGTGTG---------------------------------------------------------------	19	1
celegans	-----------------ATGCTTCCGGCC--TGTTCCCTGAGACCTCAAGTGTGAGTGTACTATTGATGCTTCAC-ACCTGGGCTCTCCGGGTACCAGGACGGTTTGAGCAGAT---
cbriggsae	----------------------------------TCCCTGAGACCTCAAGTGTGAGCGTTCTGAACATGCTTCAC-GCCTGGGCTCTCCGGGT------------------------
cjaponica	----------TTCAGAATTGCTCACGTCC--TGTTCCCTGAGACCTCAAGTGTGAAAATAT--CTGATATCTCAC-ACCTGGGCTCTCCGGGTACCAGGACG---------------
cbrenneri	GTTGGTTTGATATGATACAGCTCACGGCC--TGCTCCCTGAGACCTCAAGTGTGAGCGTACTGTAGATGCTTCAC-ACCTGGGCTCTCTGGGTACCAGGACGGTTCATTCGAGCAAC
ppacificus	-------CACACCACGACTGCTAGCAAATGGCGTTCCCTGAGACCTCAATTGTGA-TGAGATACGAGTCAGTCACGGTTTGAGCTCTCATGGCA-CGCTATGCTTGTCGATGTTGTG
cremanei	----------------------------------TCCCTGAGACCTCAAGTGTGAGCGCACTGTTGATGCTTCAC-GCCTGGGCTCTCTGGGT------------------------
	************* *** * ** ****
	+++++ ++++++++++++ ++++++++++++++++++++++++++++++++++++++++++++ ++++++++++++++++++++++++++++++++++++++ +++++	F59G1.4 F59G1.4 F59G1.4
celegans	.((((((((.(( ((..(((.((((.((((.(((((((.((((....).)))))))) )).)))).)))).)))...)))).)))...)))))...	1.000 -41.80
cbriggsae	.(((.((((.((((.((((((((((.......))))).))) )).)))).)))).))).	1.000 -26.60
cjaponica	..............((((( ((..(((.((((.((((.((((((...... ........)))) )).)))).)))).)))...)))))))	0.847 -34.64
cbrenneri	....((((((.((((.........((.(( ((..(((.((((.((((.((((((((((.......))))).))) )).)))).)))).)))...)))).))..))))))))))...	0.936 -42.80
ppacificus	((((.((((((....((((..((((((.((.(((((.((((((((((( (..(((....))).))))))))).))).))))).)).) ))))))))).)))).)).))))	1.000 -46.10
cremanei	.(((.((((.((((.(((((((.(((.......)))))))) )).)))).)))).))).	1.000 -26.50

celegans	chromosome:II:5902220:5902313:1	Same_strand\|Intronic_coding\|F59G1.4\|F59G1.4 ## F59G1.4\|protein_coding\|F59G1.4\|Putative uncharacterized protein (F59G1.4). [Source:UniProtKB/TrEMBL;Acc:Q21051] ## {SimpF: WRM0616dA09 1 fosmid,WRM0638dH01 1 fosmid,CEOP2232 1 Operon,WRM0625aG09 1 fosmid,WRM0624cA08 1 fosmid,WRM0616bH08 1 fosmid,WRM0616bF09 1 fosmid,WRM0610dE11 1 fosmid,WRM0627dG02 1 fosmid,WRM0634bE09 1 fosmid,WRM0613aD08 1 fosmid,WRM063aG02 1 fosmid,WRM0625bH02 1 fosmid} ## {MIR: cel-lin-4}
cbriggsae	chromosome:chrII:8974934:8975067:-1	Same_strand\|Intronic_coding\|NM_001047975 ## Opposite_strand\|Intronic_coding\|NM_001011629 ## {MIR: cbr-lin-4}
cjaponica	chromosome:chrUn:4235942:4236028:1	Same_strand\|Exonic_coding\|NR_000799 ## Same_strand\|Intronic_coding\|NM_062776
cbrenneri	chromosome:chrUn:49019393:49019506:1	Same_strand\|Intronic_coding\|NM_062776
ppacificus	chromosome:chrUn:16970262:16970369:1	Opposite_strand\|Intronic_coding\|NM_138747
cremanei	chromosome:chrUn:41494357:41494490:1	Same_strand\|Intronic_coding\|NM_062776

miR-Intess™

cel-lin-4

block2315 (miRBase cel-lin-4) [miRNAknown_cloningHIGH_randfoldOK]