miR-Intess: classification

other hairpins

novel_lenNOK_shortStem_loopOverlap_randfoldOK_nonpairedHIGH (89 loci)

block2267391 [novel_lenNOK_shortStem_loopOverlap_randfoldOK_nonpairedHIGH]

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
no	0.006	no	no	0.67/0.67	18/18/0.00	0.0	0.0	1	0	1	0	2	-2	5arm_loop	1	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	---GAGGGCU-----------------------------	1	novel
		len	cloning frequencies
			T1S1
	--AGAGGGCTGGAACCCTCC-------------------	18	1
rat	caAGAGGGCTGGAACCCTCCcctcaggctagccctcctg
	***************************************
rat	...(((((((((...(((......))))))))))))...	1.000 -17.60

rat

chromosome:7:137031988:137032026:1

intergenic

block2327257 [novel_lenNOK_shortStem_loopOverlap_randfoldOK_nonpairedHIGH]

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
no	0.009	no	no	0.56/0.56	18/18/0.00	0.0	0.0	1	0	1	0	4	-1	5arm_loop	1	nd	0.39	2	1	1	na	na

		reads	miRBase family seed
seed	-----GGCUCUG----------------------------------------	1	miR-760
		len	cloning frequencies
			T5S1
	----TGGCTCTGGGTGATGAGT------------------------------	18	1
rat	gcaaTGGCTCTGGGTGATGAGTtttcccacctgaattgcttggagcctctgt
	****************************************************
rat	(((..(((((..((..((.((.........))..))..))..)))))..)))	1.000 -19.30

rat

chromosome:8:74703595:74703646:-1

intergenic

block2339990 [novel_lenNOK_shortStem_loopOverlap_randfoldOK_nonpairedHIGH]

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
no	0.005	no	no	0.58/0.58	19/19/0.00	0.0	0.0	1	0	1	0	2	-1	5arm_loop	1	nd	0.32	2	1	1	na	na

		reads	miRBase family seed
seed	---AUUCUGC--------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	--CATTCTGCCCCCCGCTTTT---------------------------	19	1
rat	caCATTCTGCCCCCCGCTTTTccccaccagattgagggccgaatgtga
	************************************************
rat	(((((((.((((..((.(((........))).)).)))).))))))).	1.000 -15.90

rat

chromosome:8:92557281:92557328:-1

intergenic

block2396613 [novel_lenNOK_shortStem_loopOverlap_randfoldOK_nonpairedHIGH]

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
no	0.005	no	no	0.33/0.33	18/18/0.00	0.0	0.0	2	0	2	0	3	-4	3arm_loop	1	nd	0.44	3	2	2	na	na

		reads	miRBase family seed
seed	----------------UCUACAA-------------	2	novel
		len	cloning frequencies
			T4S1	T5S1
	---------------ATCTACAAACAGGAAATC---	18	1	1
rat	tgagaatcctgaggtATCTACAAACAGGAAATCtca
	************************************
	----------------------------------------------	ENSRNOT00000036054 ENSRNOG00000005960 RGD1311744_predicted
rat	.((((.(((((..((....))...)))))..)))).	1.000 -10.50

rat

chromosome:8:42466639:42466674:1

block2541846 [novel_lenNOK_shortStem_loopOverlap_randfoldOK_nonpairedHIGH]

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
no	0.009	no	no	0.28/0.28	18/18/0.00	0.0	0.0	1	0	1	0	0	-2	5arm_loop	1	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	-GAAUAUC--------------------------	1	novel
		len	cloning frequencies
			T5S1
	TGAATATCTTTTTCCCTT----------------	18	1
rat	TGAATATCTTTTTCCCTTtgggaggatttgttta
	**********************************
rat	((((((...(((((((...)))))))..))))))	1.000 -8.50

rat

chromosome:9:94794886:94794919:-1

intergenic

block2649679 [novel_lenNOK_shortStem_loopOverlap_randfoldOK_nonpairedHIGH]

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
no	0.007	no	no	0.50/0.50	18/18/0.00	0.0	0.0	1	0	1	0	4	-3	3arm_loop	1	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------CAGGUAA--------------	1	novel
		len	cloning frequencies
			T4S1
	----------------------------CCAGGTAATGGATTGTGC----	18	1
rat	agtaggtacttgctattaccctatctacCCAGGTAATGGATTGTGCgtgc
	**************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000029583 ENSRNOG00000026700 Myom1
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000029590 ENSRNOG00000026700 Myom1
rat	.(((.((((...((((((((...........))))))))...)))).)))	1.000 -16.50

rat

chromosome:9:110312591:110312640:1

block2929733 [novel_lenNOK_shortStem_loopOverlap_randfoldOK_nonpairedHIGH]

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
no	0.005	no	no	0.33/0.33	18/18/0.00	0.0	0.0	1	0	1	0	3	-4	3arm_loop	1	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	-------------------------AAAGUGC-------------	1	miR-106b/17/20a/20b/93
		len	cloning frequencies
			T3S2
	------------------------TAAAGTGCCCTTTGAAAA---	18	1
rat	cactgaaatatcccaagggcacagTAAAGTGCCCTTTGAAAAgtg
	*********************************************
rat	((((......((..((((((((......)))))))).))..))))	0.940 -14.60

rat

chromosome:X:3891096:3891140:1

intergenic

block3007653 [novel_lenNOK_shortStem_loopOverlap_randfoldOK_nonpairedHIGH]

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
no	0.003	no	no	0.33/0.33	18/18/0.00	0.0	0.0	1	0	1	0	2	-4	3arm_loop	2	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------AAAGGGA------------	1	novel
		len	cloning frequencies
			T5S2
	----------------------------TAAAGGGATTTGAAAGCA--	18	1
rat	atgtgcatgcaagaaaaacaaaaatcctTAAAGGGATTTGAAAGCAca
	************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000008558 ENSRNOG00000006515 NP_001101491.1
	----------------------------------------------------------	ENSRNOT00000038254 ENSRNOG00000022961
rat	.(((((...((...........((((((....))))))))...)))))	0.710 -9.60

rat

chromosome:X:81700417:81700464:1

Opposite_strand|Intronic_coding|ENSRNOT00000038254|ENSRNOG00000022961 ## Same_strand|Intronic_coding|ENSRNOT00000008558|ENSRNOG00000006515 ## Same_strand|Boundary_non-coding|ENSRNOT00000058130|ENSRNOG00000006515 ## ENSRNOG00000006515|protein_coding|NP_001101491.1|kelch-like 15 [Source:RefSeq_peptide;Acc:NP_001101491] ## ENSRNOG00000022961|protein_coding||

novel_shortStem_randfoldOK_bulgeHIGH (87 loci)

block1765 [novel_shortStem_randfoldOK_bulgeHIGH]

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
no	0.001	no	no	0.57/0.57	23/23/1.00	0.0	0.0	1	0	1	0	2	3	3arm	1	nd	0.26	4	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------GCUGGCC-----------------	1	novel
		len	cloning frequencies
			T5S1
	--------------------------------------TGCTGGCCCTTTGCTCTGATGTG--	23	1
rat	gcagcatgtatgctttaagggtcatgtagtcgtcagatTGCTGGCCCTTTGCTCTGATGTGgc
	***************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000003150 ENSRNOG00000002294 LOC687335
rat	((.((((....((...((((((((.((((((....)))))))))))))).))....)))).))	1.000 -25.60

rat

chromosome:10:3975907:3975969:-1

block21129 [novel_shortStem_randfoldOK_bulgeHIGH]

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
no	0.001	no	no	0.52/0.52	21/21/1.00	0.0	0.0	1	0	1	0	1	31	5arm	1	nd	0.29	4	1	1	na	na

		reads	miRBase family seed
seed	--UCUGAAA------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S2
	-ATCTGAAATTCTGGCCCTCCC-----------------------------------------------------------------------------------------	21	1
rat	aATCTGAAATTCTGGCCCTCCCattctggatgactttatatctgatgactgtgtggcactgtcatcagattagaacatcccccgccctcaagggtctaaaatcttcagatt
	***************************************************************************************************************
rat	(((((((((((..((((((........(((((..((((.((((((((((.(((...))).)))))))))))))).)))))..........))))))...))).))))))))	0.970 -38.37