miR-Intess: cbr-mir-41

cbr-mir-41

Cloning frequencies
absolute	AF16
cbr-mir-41 3arm	1
normalized	AF16
cbr-mir-41 3arm	0.003

block972 (miRBase cbr-mir-41) [miRNAknown_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-41	0.001	no	no	0.52/0.55	20/21/1.00	0.0	0.0	1	0	1	0	22	5	3arm	1	nd	0.19	2	1	1	na	na

Clusters
Located in cluster 3: cbr-mir-36, cbr-mir-38, cbr-mir-39, cbr-mir-40, block969_novel, cel-mir-35, cbr-mir-41, cbr-mir-35

Families
Member of family miR-35/36/38/39/40/41 (seed CACCGGG): cel-mir-35, cel-mir-35, cel-mir-36, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cbr-mir-39, cbr-mir-35, cbr-mir-36, cbr-mir-40, cbr-mir-41, cbr-mir-38, block969_novel, block5129_cand

		reads	miRBase family seed
seed	---------------------------------------------------------------------------------------CACCGGG-----------------------------------------------------	1	miR-35/36/38/39/40/41
		len	cloning frequencies
			AF16
	--------------------------------------------------------------------------------------TCACCGGGTGAAAAACT-CCC----------------------------------------	20	1
cbr-miR-41	--------------------------------------------------------------------------------------TCACCGGGTGAAAAACT-CCCA---------------------------------------	21	-
cbriggsae	-------------------TGAAAGCAGGTCCCAAATGCCTTGGTGGTTTTTCGCCGTAGTGATACAACATCGAAGCCATACGATATCACCGGGTGAAAAACT-CCCAAGGTCGGGACATTTTTATTTGT-----------------
cremanei	---------GAAAGGTAAGTTTA-ACAGGTCCCCATGACCTTGGTAGTTTTCCGCCGCAGTGATATACCATC-AATCAAAACGATATCACCGGGTGAAAAACT-ACCAAGGTCGGGTCACCTGTCCTTTTTTCTATTCTTCCCCTTC
celegans	GATATCAAGGTGAGTTATTTTTAAGTGGGTCCCAGAGACCTTGGTGGTTTTTCTCTGCAGTGATAGATACTTCTAACAACTCGCTATCACCGGGTGAAAAATC-ACCTAGGTCTGGAGCCTCCTGCTCTTTTTTTGCTGTT------
cbrenneri	---GTTCATATTTTTCATATTCA-GGGGTGGATCGGGCCTGTGCTGATTTTT-GCCGCTGTGATA---TTTCTAAGCCATG-ATTATCACCGGGCGAAAATTTGGCACAGGCCTCGTCCGCCCT-----------------------
cjaponica	-----------------------------GGCTGGTATCCGCGATGGTGTTACACTACTGTAATG-------------------TATCACCGGGTGGAAACTT-GCA----------------------------------------
ppacificus	---GT------------------------------AGCTCATTGTGATTTTGCC------TAATGAGCTCTATGTGAAACGCGCAATCACCGGGTG--AATTT-GCAGTGA------------------------------------
	* * ** * ******* * ** *
	----- ------------------------------------------------------------------------------------ -------------------------- -----	NM_177732
	----- ------------------------------------------------------------------------------------ -------------------------- -----	NM_214509
	----- ------------------------------------------------------------------------------------ -------------------------- -----	NM_207243
	----- ------------------------------------------------------------------------------------ -------------------------- -----	NM_207243
	----- ------------------------------------------------------------------------------------ -------------------------- -----	NM_207243
	----- ------------------------------------------------------------------------------------ -------------------------- -----	NM_207243
	----- ------------------------------------------------------------------------------------ -------------------------- -----	NM_207243
	----- ------------------------------------------------------------------------------------ -------------------------- -----	NM_207243
	----- ------------------------------------------------------------------------------------ -------------------------- -----	NM_207243
	----- ------------------------------------------------------------------------------------ -------------------------- -----	NM_207243
	----- ------------------------------------------------------------------------------------ -------------------------- -----	NM_207243
	----- ------------------------------------------------------------------------------------ -------------------------- -----	NM_207243
	----- ------------------------------------------------------------------------------------ -------------------------- -----	NM_207243
	----- ------------------------------------------------------------------------------------ -------------------------- -----	NM_001030843
	+++++ ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ ++++++++++++++++++++++++++ +++++	NM_001101718
	+++++ ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ ++++++++++++++++++++++++++ +++++	NM_001011629
	----- ------------------------------------------------------------------------------------ -------------------------- -----	NM_207243
	----- ------------------------------------------------------------------------------------ -------------------------- -----	NM_207243
	----- ------------------------------------------------------------------------------------ -------------------------- -----	NM_207243
	----- ------------------------------------------------------------------------------------ -------------------------- -----	NM_207243
	----- ------------------------------------------------------------------------------------ -------------------------- -----	NM_207243
	----- -------------------------------------------------------------<<--------------------- -------------------------- -----	NM_171042
cbriggsae	((((((...(((((....(((((((..((((((((((...((((((.....(((........)))))))))..)))))))))). .))))))).))))).)))))).....	1.000 -43.00
cremanei	((((((........ ((((((..((.((((((((((((((((.((((...(((((((...... ..........)))))))..)))).)))))) ))))))))))))..)))))))))))).................	0.998 -51.29
celegans	((((.(((((.((((........((..((..((..((((((.(((((((((((((((..(((((((.................))))))))))).)))))))) ))).))))))))..))..))))))...))))).))))	0.987 -47.93
cbrenneri	.................... (((((((((.(((((((((((((((((( (((...(((((( ..((........) ).))))))..)))))))))).))))))))))).)))))))))	0.944 -57.20
cjaponica	.((.(((.(((((..(((((.((((.........)) )).))))).))))).))). )).	1.000 -21.90
ppacificus	.. ...(((((((((.((..(( (..(((......((((.....)))).)))..))).. )).)) )))))))	0.985 -19.40

cbriggsae	chromosome:chrII:7536494:7536603:1	Opposite_strand\|Intronic_non-coding\|NM_177732\|Slc35d1 ## Opposite_strand\|Intronic_coding\|NM_214509\|COLP1alpha ## Same_strand\|Intronic_coding\|NM_001101718\|LOC100009540 ## Same_strand\|Intronic_non-coding\|NM_001011629\|Mblk-1 ## {Repeats: no} ## {MIR: cbr-mir-41}
cremanei	chromosome:chrUn:8778344:8778478:-1	Same_strand\|Intronic_coding\|NM_001011005 ## Opposite_strand\|Intronic_coding\|NM_171042
celegans	chromosome:chrII:11538198:11538337:1	Opposite_strand\|Intronic_coding\|Y62F5A.9 ## {MIR: cel-mir-41}
cbrenneri	chromosome:chrUn:47821556:47821670:-1	intergenic ## {SimpF: trf}
cjaponica	chromosome:chrUn:117591201:117591350:-1	Opposite_strand\|Intronic_coding\|NM_171042
ppacificus	chromosome:chrUn:87745955:87746023:1	Same_strand\|Boundary_coding\|NM_066985 ## Same_strand\|Intronic_coding\|NM_001110823

miR-Intess™

cbr-mir-41

block972 (miRBase cbr-mir-41) [miRNAknown_randfoldOK]