miR-Intess: cbr-mir-43

cbr-mir-43

Cloning frequencies
absolute	AF16
cbr-mir-43 3arm	46
normalized	AF16
cbr-mir-43 3arm	0.120

block716 (miRBase cbr-mir-43) [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 cbr-mir-43	0.001	no	no	0.33/0.43	18/23/0.98	0.0	0.0	33	0	1	0	16	4	3arm	1	nd	0.22	3	46	1	na	na

Clusters
Located in cluster 2: cbr-mir-44, cbr-mir-43, cbr-mir-42

Families
Member of family miR-43 (seed AUCACAG): cbr-mir-43, sblock2_cand

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------------------------AUCACAG----------------------------------------------------	46	miR-43
		len	cloning frequencies
			AF16
cbr-miR-43	----------------------------------------------------------------------------------------------TATCACAGTT-----TACTTGCTGTCGC--------------------------------	23	33
	----------------------------------------------------------------------------------------------TATCACAGTT-----TACTTGCTGTCG---------------------------------	22	12
	----------------------------------------------------------------------------------------------TATCACAGTT-----TACTTGCT-------------------------------------	18	1
cbriggsae	---------AGGCGATTCT-----------GCCCGTGACATCAAGATGCTTGTGA-TTA----------TGCGAAAAT-------GTTGGGACATATCACAGTT-----TACTTGCTGTCGCAGGCGGATTATTGCTA----------------
cremanei	-------------GATTCT-----------GCCCGTGACAACAAGAAACTTGTGA-TTA----------TGCCTAGAG-AATGAAGAAGGGACATATCACAGTT-----TACTTGCTGTCGCAGGCGGTGTC----------------------
celegans	TCCAAAAAGGGGTAACTATTGGCACTAGTCGCCCGTGACATCAAGAAACTAGTGA-TTA----------TGCCAAACC-------ACAGGGACATATCACAGTT-----TACTTGCTGTCGCGGGCGGTGCTGAGTTTAAGGCCTCTGAAAAGA
cbrenneri	-----------------------------------TGATATCAAGGAACTTGTGATTTA----------TGCCATAACTAACATAACCTCGACATATCACAGTT-----TACTTGCTGTCG---------------------------------
cjaponica	-----GCGGGACCAACTGG-----------TCCCGGGACCGCAAGAAACTCGTGTTATA----------TGCCAAATC-------AGTGGGTCATATCACAGTT-----TACTTGCTGTCCCGGGCGCTTGGTCCTGC----------------
ppacificus	------------------------------------GAAAAGGAGATATCAGAGCTTGATCAGGTCTCTTTCTTAATT----------------TATCACAGTTATTGATATCTTCT-------------------------------------
	* * * * * ******** * **
	+++++ ++++++++++ +++++++++++++++++++++++++ +++ +++++++++ +++++++++++++++++++ +++++++++++++++++++++++++++++ +++++	NM_001047975
	+++++ ++++++++++ +++++++++++++++++++++++++ +++ +++++++++ +++++++++++++++++++ +++++++++++++++++++++++++++++ +++++	NM_214509
	+++++ ++++++++++ +++++++++++++++++++++++++ +++ +++++++++ +++++++++++++++++++ +++++++++++++++++++++++++++++ +++++	NM_001034039
	+++++ ++++++++++ +++++++++++++++++++++++++ +++ +++++++++ +++++++++++++++++++ +++++++++++++++++++++++++++++ +++++	NM_001033832
	+++++ ++++++++++ +++++++++++++++++++++++++ +++ +++++++++ +++++++++++++++++++ +++++++++++++++++++++++++++++ +++++	NM_214466
	+++++ ++++++++++ +++++++++++++++++++++++++ +++ +++++++++ +++++++++++++++++++ +++++++++++++++++++++++++++++ +++++	NM_080679
	+++++ ++++++++++ +++++++++++++++++++++++++ +++ +++++++++ +++++++++++++++++++ +++++++++++++++++++++++++++++ +++++	NM_080681
	+++++ ++++++++++ +++++++++++++++++++++++++ +++ +++++++++ +++++++++++++++++++ +++++++++++++++++++++++++++++ +++++	NM_080680
	----- ---------- ------------------------- --- --------- ------------------- ----------------------------- -----	NM_133464
cbriggsae	.((((((((( (((.((((((.((((..(((.(((( (.( (((...... .....).))))))))))). ..)))).)))))).))))))..)))))).	1.000 -36.50
cremanei	(((.(( (((.((((((.((((((((.((((( .(( (((((.... .........))).)))))))))))) ).)))).)))))).))))).)))	1.000 -37.32
celegans	.......((((((.....(((((((....(((((((((((.(((((((((.(((( .(( ((((..... ....)).)))))))))))) ).)))).)))))))))))))))))).......)))))).......	0.997 -55.10
cbrenneri	.((((.((((((((.((((((((( ((..........))))).........))))))))) ).)))).)))).	1.000 -15.00
cjaponica	(((((((((...(( (((((((((.((((((((((.(((..((( ((((..... ....)).)))))))))))) ).))))).)))))))).))))))))))))	1.000 -54.10
ppacificus	....((((((((((((((((((((.((((..........))) ))))).)))).))))))))))))	0.928 -16.90

cbriggsae	chromosome:chrII:8049417:8049511:-1	Same_strand\|Intronic_coding\|NM_001047975\|LOC683871 ## Opposite_strand\|Intronic_non-coding\|NM_133464\|ZNF483 ## {Repeats: no} ## {MIR: cbr-mir-43}
cremanei	chromosome:chrUn:8362216:8362306:1	intergenic
celegans	chromosome:chrII:11889810:11889940:1	intergenic ## {MIR: cel-mir-43}
cbrenneri	chromosome:chrUn:172696302:172696436:1	intergenic
cjaponica	chromosome:chrUn:98919151:98919250:-1	intergenic
ppacificus	chromosome:chrUn:65292805:65292869:-1	Same_strand\|Intronic_coding\|NM_001065794 ## Opposite_strand\|Intronic_coding\|NM_001087971

miR-Intess™

cbr-mir-43

block716 (miRBase cbr-mir-43) [miRNAknown_cloningHIGH_randfoldOK]