miR-Intess: classification

other hairpins

block353985 [novel_Multihit_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	0.149	no	no	0.43/0.43	21/21/1.00	0.0	0.0	1	0	1	0	9	21	5arm	25	nd	0.29	4	1	1	na	na

		reads	miRBase family seed
seed	----------CUCCUUU------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	---------GCTCCTTTTGCAGAATAGACT-----------------------------------------------------------------------------------	21	1
rat	tcttttgctGCTCCTTTTGCAGAATAGACTtatagcctgtggcttgccttggagacatagtagacaagcagttagtgatggtaacaatcttttcgagaggagtggaagtaggt
	*****************************************************************************************************************
	---------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000048005 ENSRNOG00000033205 LOC501255
rat	(((....((((((((((((.(((....(((....((.....(((((.((((....))....)).))))).....))...))).....)))...))))))))))))....))).	0.580 -29.80

rat

chromosome:14:49331337:49331449:-1

block354433 [novel_Multihit_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	0.149	no	no	0.43/0.43	21/21/1.00	0.0	0.0	1	0	1	0	9	21	5arm	25	nd	0.29	4	1	1	na	na

		reads	miRBase family seed
seed	----------CUCCUUU------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	---------GCTCCTTTTGCAGAATAGACT-----------------------------------------------------------------------------------	21	1
rat	tcttttgctGCTCCTTTTGCAGAATAGACTtatagcctgtggcttgccttggagacatagtagacaagcagttagtgatggtaacaatcttttcgagaggagtggaagtaggt
	*****************************************************************************************************************
	---------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000043791 ENSRNOG00000032207 LOC690700
rat	(((....((((((((((((.(((....(((....((.....(((((.((((....))....)).))))).....))...))).....)))...))))))))))))....))).	0.580 -29.80

rat

chromosome:14:49713768:49713880:-1

block354534 [novel_Multihit_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	0.162	no	no	0.45/0.45	20/20/1.00	0.0	0.0	1	0	1	0	28	7	5arm	20	nd	0.30	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------AGACUUA------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	----------------------------TAGACTTATAGCCTGTGGCT------------------------------------------------------------------------	20	1
rat	agcattttttgctgctccttttgcagaaTAGACTTATAGCCTGTGGCTtgccttggagacatagtagacaagcagttagtgatggtaataatcttttcaagaggagtggaagtaggtctg
	************************************************************************************************************************
	----------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000046075 ENSRNOG00000038676 LOC367617
rat	((.((((....((((((((((((.(((..(((.((((.(((....(((((.((((....))....)).)))))..........))).))))))))))))))))))))))....)))))).	0.730 -30.64

rat

chromosome:14:49789280:49789399:-1

block360194 [novel_Multihit_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	0.208	no	no	0.48/0.48	23/23/1.00	0.0	0.0	1	0	1	0	24	4	5arm	12	nd	0.26	4	1	1	na	na

		reads	miRBase family seed
seed	-------------------------GUGAUUA------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S2
	------------------------GGTGATTATCCTGAACCATCCAG---------------------------------------------------------------------	23	1
rat	ggaagcagctggcttcactgctcaGGTGATTATCCTGAACCATCCAGgccaaattagtgctggctatgcccctgttccggattgtcacgtggctcacatagcatgcaagtttgccg
	********************************************************************************************************************
rat	((((((.((..(((.....((.((.(((((.((((.((((....(((((((.........))))).)).....)))).)))).))))).))))......)))..))..)))).)).	0.680 -35.70

rat

chromosome:14:67223178:67223293:-1

intergenic

block386298 [novel_Multihit_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	0.145	no	no	0.38/0.38	21/21/1.00	0.0	0.0	1	0	1	0	13	14	3arm	13	nd	0.29	4	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------------------CAGGAAG--------------------------	1	novel
		len	cloning frequencies
			T1S1
	------------------------------------------------------------------ACAGGAAGAAGCAGAAAAACA-------------	21	1
rat	cccagattgaggtggtgccctctgcctctgacctgatcatcaaagccctcaaggagccaccaagagACAGGAAGAAGCAGAAAAACAttaaacagagtgg
	****************************************************************************************************
	--------------------------------------------------------------------------------------------------------------	ENSRNOT00000003001 ENSRNOG00000002208 RGD1310470
rat	.(((..(((...(((((...(((((.(((..((((.((......((((....)).))......))..)))).))).)))))....)))))..)))..)))	0.940 -25.30

rat

chromosome:14:16780039:16780138:1

block654131 [novel_Multihit_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	0.057	no	no	0.57/0.57	21/21/1.00	0.0	0.0	1	0	1	0	24	5	3arm	16	nd	0.29	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------AGUACAC-------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	-------------------------------------------------------------------CAGTACACTGTGCTCCCACTG------------------------	21	1
rat	acactgtgctcccactgcctcctgctcacacccgagtacactgtgctcccactgcctgctcacacccCAGTACACTGTGCTCCCACTGcctgctcacacccagtacactgtg
	****************************************************************************************************************
	--------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000060305 ENSRNOG00000039353
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000022065 ENSRNOG00000016390 NP_001099576.1
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000022108 ENSRNOG00000016497 NP_001100817.1
rat	.(((.(((.....((((......((...((...(((((((.((((((.....((........))....)))))).)))))))....))...)).......)))).))).)))	0.480 -22.42

rat

chromosome:17:32261534:32261645:1

Same_strand|Intronic_non-coding|ENSRNOT00000022065|ENSRNOG00000016390 ## Same_strand|Intronic_coding|ENSRNOT00000022108|ENSRNOG00000016497 ## Opposite_strand|Intronic_coding|ENSRNOT00000060305|ENSRNOG00000039353 ## ENSRNOG00000016497|protein_coding|NP_001100817.1|muted homolog [Source:RefSeq_peptide;Acc:NP_001100817] ## ENSRNOG00000016390|protein_coding|NP_001099576.1|eukaryotic translation elongation factor 1 epsilon 1 [Source:RefSeq_peptide;Acc:NP_001099576] ## ENSRNOG00000039353|protein_coding|| ## {Repeats: trf 1258 1279 0 class=trf}

block654132 [novel_Multihit_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	0.057	no	no	0.57/0.57	21/21/1.00	0.0	0.0	1	0	1	0	24	5	3arm	16	nd	0.29	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------AGUACAC-------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	-------------------------------------------------------------------CAGTACACTGTGCTCCCACTG------------------------	21	1
rat	acactgtgctcccactgcctcctgctcacacccgagtacactgtgctcccactgcctgctcacacccCAGTACACTGTGCTCCCACTGcctgctcacacccagtacactgtg
	****************************************************************************************************************
	--------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000060305 ENSRNOG00000039353
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000022065 ENSRNOG00000016390 NP_001099576.1
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000022108 ENSRNOG00000016497 NP_001100817.1
rat	.(((.(((.....((((......((...((...(((((((.((((((.....((........))....)))))).)))))))....))...)).......)))).))).)))	0.480 -22.42

rat

chromosome:17:32261534:32261645:1

block1641450 [novel_Multihit_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	0.162	no	no	0.45/0.45	20/20/1.00	0.0	0.0	1	0	1	0	28	7	5arm	20	nd	0.30	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------AGACUUA------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	----------------------------TAGACTTATAGCCTGTGGCT------------------------------------------------------------------------	20	1
rat	agcattttttgctgctccttttgcagaaTAGACTTATAGCCTGTGGCTtgccttggagacatagtagacaagcagttagtgatggtaataatcttttcaagaggagtggaagtaggtctg
	************************************************************************************************************************
rat	((.((((....((((((((((((.(((..(((.((((.(((....(((((.((((....))....)).)))))..........))).))))))))))))))))))))))....)))))).	0.730 -30.64

rat

chromosome:4:57717061:57717180:1

intergenic

block1641619 [novel_Multihit_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	0.149	no	no	0.43/0.43	21/21/1.00	0.0	0.0	1	0	1	0	9	21	5arm	25	nd	0.29	4	1	1	na	na

		reads	miRBase family seed
seed	----------CUCCUUU------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	---------GCTCCTTTTGCAGAATAGACT-----------------------------------------------------------------------------------	21	1
rat	tcttttgctGCTCCTTTTGCAGAATAGACTtatagcctgtggcttgccttggagacatagtagacaagcagttagtgatggtaacaatcttttcgagaggagtggaagtaggt
	*****************************************************************************************************************
	---------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000051405 ENSRNOG00000032252 LOC681850
	---------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000044814 ENSRNOG00000039248
rat	(((....((((((((((((.(((....(((....((.....(((((.((((....))....)).))))).....))...))).....)))...))))))))))))....))).	0.580 -29.80

rat

chromosome:4:57826187:57826299:1

Opposite_strand|Boundary_non-coding|ENSRNOT00000047545|ENSRNOG00000032252 ## Opposite_strand|Intronic_coding|ENSRNOT00000044814|ENSRNOG00000039248 ## Opposite_strand|Intronic_non-coding|ENSRNOT00000051405|ENSRNOG00000032252 ## ENSRNOG00000039248|protein_coding|| ## ENSRNOG00000032252|protein_coding|LOC681850|LOC501224 protein. [Source:UniProtKB/TrEMBL;Acc:Q0P5Q7]

novel_lenNOK_Multihit_bulgeHIGH (143 loci)

block25816 [novel_lenNOK_Multihit_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	0.014	no	no	0.50/0.50	18/18/0.00	0.0	0.0	1	0	1	0	28	1	3arm	38	nd	0.22	4	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------UUCUGUG--------------------------------------	1	novel
		len	cloning frequencies
			T2S2
	--------------------------------------------------------ATTCTGTGTCCAATGGCC----------------------------	18	1
rat	ttaatctccattagtttaaatcttggatgggtacagcatcacacaggatcacacggATTCTGTGTCCAATGGCCtttgcaggaaggttgctttggaatttgg
	******************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000032926 ENSRNOG00000026647 Cxcl16
rat	.(((..((((..(((.....(((((...((((.((.....((((((((((.....))))))))))....))))))...))))).....))).))))..))).	0.970 -29.90