miR-Intess: classification

other hairpins

novel_mirtron_nonpairedHIGH_bulgeHIGH (109 loci)

block2617821 [novel_mirtron_nonpairedHIGH_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	0.038	no	no	0.36/0.36	22/22/1.00	0.0	0.0	1	0	1	0	8	8	3arm	1	1	0.36	4	1	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------CUAGUCU----------------------	1	novel
		len	cloning frequencies
			T1S2
	-----------------------------------------------ACTAGTCTTATGCTTTCTTCCA--------	22	1
rat	gcttctgtgggagggagcggagcaagtttgatcgctctggtttctaaACTAGTCTTATGCTTTCTTCCAgttctgct
	*****************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>	ENSRNOT00000022632 ENSRNOG00000016754 Bcs1l
rat	((.....((((((..((((..((.((((((...((....))...)))))).))....))))..)))))).....)).	0.580 -23.30

rat

chromosome:9:73940237:73940313:1

block2737859 [novel_mirtron_nonpairedHIGH_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	0.635	no	no	0.55/0.55	20/20/1.00	0.0	0.0	2	0	2	0	12	7	5arm	2	4	0.35	4	2	2	na	na

		reads	miRBase family seed
seed	-------------GGCUUUG------------------------------------------------------------	2	novel
		len	cloning frequencies
			T2S1	T4S1
	------------CGGCTTTGACTTCTCTGGAG------------------------------------------------	20	1	1
rat	ccacaagacttgCGGCTTTGACTTCTCTGGAGccttagaagacatatcaagaatcccagagcagagtgttctccttctgc
	********************************************************************************
	>>>>>>>>>>>>>>++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000044402 ENSRNOG00000032385
	>>>>>>>>>>>>>>++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000050240 ENSRNOG00000032385
rat	.((.(((....((.((((((....(((((((..(((.((.......)))))..))).))))))))))))....))).)).	0.920 -15.00

rat

chromosome:X:83245243:83245322:-1

Same_strand|Boundary_coding|ENSRNOT00000050240|ENSRNOG00000032385 ## ENSRNOG00000032385|protein_coding||

block3106385 [novel_mirtron_nonpairedHIGH_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	0.255	no	no	0.65/0.65	20/20/1.00	0.0	0.0	2	0	2	0	16	8	3arm	1	0	0.50	4	2	2	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------CCCCUGG----------------------------	2	miR-331
		len	cloning frequencies
			T3S2	T4S2
	--------------------------------------------------------ACCCCTGGCAACAGAGCTCC----------------	20	1	1
rat	gggaggcaacgtaagggcgctcggccagcccgtctctcctcgaatgaaaggaaacaACCCCTGGCAACAGAGCTCCgctcttcggcactgcc
	********************************************************************************************
	>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++++>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000039980 ENSRNOG00000037489
rat	((.((((..((.((((((((((.(((((........((((........))))........)))))....))))...)))))))))).)).))	0.990 -30.69

rat

chromosome:X:139850112:139850203:1

Same_strand|Boundary_non-coding|ENSRNOT00000039980|ENSRNOG00000037489 ## ENSRNOG00000037489|pseudogene||

block1030587 [novel_mirtron_nonpairedHIGH_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	0.67/0.71	21/22/1.00	0.8	1.2	4	0	3	0	15	6	3arm	1	0	0.32	4	4	3	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------UGCCUGG-----------------------------	3	novel
seed	-------------------------------------------------------CUGCCUG------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1
	-------------------------------------------------------CTGCCTGGCTCCTGTCCCACAG---------------	22	1	-	1
	-------------------------------------------------------CTGCCTGGCTCCTGTCCCACA----------------	21	-	1	-
	------------------------------------------------------CCTGCCTGGCTCCTGTCCCAC-----------------	21	-	1	-
rat	ggcttactcctaaaatgggactgggcagagccatcgccctgggtgagttacccaCCTGCCTGGCTCCTGTCCCACAGgtcctggaccatgcc
	********************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000026573 ENSRNOG00000019564 Spnb3
rat	(((....(((......(((((((((((((((((..((..((((((...))))))...)).)))))).)))))....)))))))))....)))	0.920 -37.60

rat

chromosome:1:207335543:207335634:1

Same_strand|Intronic_coding|ENSRNOT00000026573|ENSRNOG00000019564 ## ENSRNOG00000019564|protein_coding|Spnb3|Spectrin beta chain, brain 2 (Spectrin, non-erythroid beta chain 2) (Beta-III spectrin) (SPNB-3) (Beta SpIII sigma 1) (Glutamate transporter EAAT4-associated protein 41) (Spectrin-like protein GTRAP41). [Source:UniProtKB/Swiss-Prot;Acc:Q9QWN8]

block914419 [novel_mirtron_nonpairedHIGH_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	0.046	no	no	0.59/0.61	22/23/1.00	0.1	0.0	7	0	5	0	27	9	3arm	1	2	0.39	4	7	5	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------CACGUGC-----------------------------------------	6	novel
seed	-----------------------------------------------------------UCACGUG------------------------------------------	1	novel
		len	cloning frequencies
			T1S2	T3S2	T4S2	T5S1	T5S2
	-----------------------------------------------------------TCACGTGCCCTTCCTGTCCTCT---------------------------	22	2	1	1	1	1
	----------------------------------------------------------CTCACGTGCCCTTCCTGTCCTCT---------------------------	23	-	-	-	1	-
rat	aagctagcaggtaggctctggacaggacaggccctgagccagccaccgagctctgcagCTCACGTGCCCTTCCTGTCCTCTaggggtccatgcactactgcggaagct
	************************************************************************************************************
	>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000028495 ENSRNOG00000020996 1110014N23Rik
rat	.((((.(((((((((((((((((((((..(((..(((((.(((......))).....)))))...)))..))))))))....)))).)).)))....))))...))))	0.550 -41.70

rat

chromosome:1:208708736:208708843:-1

novel_lenNOK_5varHIGH_loopOverlap_nonpairedHIGH (106 loci)

block22264 [novel_lenNOK_5varHIGH_loopOverlap_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	0.528	no	no	0.53/0.64	19/25/0.33	2.3	0.7	3	0	3	0	11	-3	3arm	5	nd	0.32	2	3	3	na	na

		reads	miRBase family seed
seed	---------------------------------------GGCGGGC---------------------------	1	novel
seed	--------------------------------------------GCACUGA----------------------	1	novel
seed	--------------------------------------CGGCGGG----------------------------	1	novel
		len	cloning frequencies
			T1S1	T2S1	T5S1
	-------------------------------------------GGCACTGATGGCATTACTC-----------	19	-	1	-
	--------------------------------------CGGCGGGCACTGATGGCATTAC-------------	22	-	-	1
	-------------------------------------CCGGCGGGCACTGATGGCATTACTC-----------	25	1	-	-
rat	gcctgaggggcggctattaattcttcagtctgcattcCCGGCGGGCACTGATGGCATTACTCtgcactctagc
	*************************************************************************
rat	((..(((..((((....((((((.(((((((((.......))))..))))).)).))))..)))).)))..))	0.500 -19.50

rat

chromosome:10:49427901:49427973:-1

intergenic

block30457 [novel_lenNOK_5varHIGH_loopOverlap_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	0.274	no	no	0.64/0.67	21/25/0.50	2.0	0.0	2	0	2	0	17	-4	3arm	1	nd	0.33	2	2	2	na	na

		reads	miRBase family seed
seed	---------------------------------------------------CUCGGGC----------------------------------	1	novel
seed	-------------------------------------------------------GGCUGGU------------------------------	1	novel
		len	cloning frequencies
			T4S1	T4S2
	------------------------------------------------------GGGCTGGTGCTGCCTTCTGTC-----------------	21	-	1
	--------------------------------------------------ACTCGGGCTGGTGCTGCCTTCTGTC-----------------	25	1	-
rat	aactggaatcaccccttatcagcttgaagagccccaccccccaccccaggACTCGGGCTGGTGCTGCCTTCTGTCttcacatggatgccagt
	********************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000056128 ENSRNOG00000022536 RGD1309650_predicted
rat	.(((((.(((...........((..((((.((..((((.(((............)))..))))..)))))).)).........))).)))))	0.720 -23.25

rat

chromosome:10:66657519:66657610:-1

block38820 [novel_lenNOK_5varHIGH_loopOverlap_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	0.274	no	no	0.70/0.74	19/20/0.50	1.5	2.0	2	0	2	0	6	-1	5arm_loop	1	nd	0.32	3	2	2	na	na

		reads	miRBase family seed
seed	-------GGCUGCG------------------------------------------------	1	novel
seed	----------UGCGUGC---------------------------------------------	1	novel
		len	cloning frequencies
			T3S2	T5S1
	---------CTGCGTGCGCCGAACCTCCT---------------------------------	20	1	-
	------AGGCTGCGTGCGCCGAACC-------------------------------------	19	-	1
rat	aagcccAGGCTGCGTGCGCCGAACCTCCTaccgggagtcggggaccagctttctccggactt
	**************************************************************
rat	(((.((((((((.((...((((..((((.....))))))))..)))))))).....)).)))	0.970 -18.70

rat

chromosome:10:84571198:84571259:-1

intergenic ## {SimpF: oe = 0.86 -1 CpG}

block96186 [novel_lenNOK_5varHIGH_loopOverlap_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	0.662	no	no	0.79/0.80	19/20/0.33	2.0	1.3	3	0	3	0	14	-19	3arm_loop	2	nd	0.42	3	3	3	na	na

		reads	miRBase family seed
seed	-----------------------------CCGCAGG-------------------------	2	novel
seed	--------------------------UCGCCGC----------------------------	1	novel
		len	cloning frequencies
			T2S1	T3S2	T5S2
	----------------------------GCCGCAGGGGTCGGAGGTC--------------	19	1	-	1
	-------------------------CTCGCCGCAGGGGTCGGAGG----------------	20	-	1	-
rat	agtgtaagctttggactagctcatgCTCGCCGCAGGGGTCGGAGGTCagggcgagcgtctc
	*************************************************************
rat	(((((..((((((..((.((((.(((.....))).))))...))..))))))..))).)).	0.970 -18.90

rat

chromosome:10:90759027:90759087:1

intergenic

block126826 [novel_lenNOK_5varHIGH_loopOverlap_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	0.317	no	no	0.56/0.60	18/20/0.50	1.5	0.5	2	0	1	0	24	-3	5arm_loop	1	nd	0.50	3	2	1	na	na

		reads	miRBase family seed
seed	-------------------------CCGAGCA-----------------------------------------------------------	1	novel
seed	----------------------------AGCACGA--------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	------------------------ACCGAGCACGAGCAAGACCA-----------------------------------------------	20	1
	---------------------------GAGCACGAGCAAGACCAA----------------------------------------------	18	1
rat	gctgtcagttggaaactgccagttACCGAGCACGAGCAAGACCAAggtgcaagctaggtgagaaggaagtggagactaccagagggaaggc
	*******************************************************************************************
rat	(((.((..((((......(((.((.((...(((.(((...((....))....)))..)))....)))).)))......))))...)).)))	0.950 -22.20