miR-Intess: classification

other hairpins

novel_shortStem_nonpairedHIGH_bulgeHIGH (2382 loci)

block213265 [novel_shortStem_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	0.803	no	no	0.38/0.38	21/21/1.00	0.0	0.0	3	0	1	0	2	16	5arm	7	nd	0.43	4	3	1	na	na

		reads	miRBase family seed
seed	---AAGUUCU--------------------------------------------------------------------------------------	3	miR-148b
		len	cloning frequencies
			T4S1
	--AAAGTTCTACAATGTGGCTGA-------------------------------------------------------------------------	21	3
rat	ccAAAGTTCTACAATGTGGCTGAggactttgattgtacattgttttttgtttttggtttttttaatagtcactccaagtatccacggcatagatgg
	************************************************************************************************
rat	(((....((((...(((((.((.(((...((((((((((........)))..............))))))).)))...)).)))))...)))))))	0.620 -14.93

rat

chromosome:12:12050220:12050315:1

intergenic

novel_lenNOK_randfoldOK_nonpairedHIGH (2321 loci)

block445 [novel_lenNOK_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	0.44/0.44	18/18/0.00	0.0	0.0	1	0	1	0	8	2	3arm	2	nd	0.44	3	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------GAAACAG------------------	1	novel
		len	cloning frequencies
			T1S2
	-------------------------------------AGAAACAGGAGTCCAACA--------	18	1
rat	tcaaaaagtgatggaagctggaaacactgaatccatcAGAAACAGGAGTCCAACAaattttgg
	***************************************************************
	-------------------------------------------------------------------------	ENSRNOT00000037611 ENSRNOG00000000029 MYH11_RAT
rat	.(((((..((.((((..(((......((((.....))))...)))...)))).))..))))).	0.530 -14.30

rat

chromosome:10:668007:668069:-1

block1054 [novel_lenNOK_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	0.008	no	no	0.44/0.44	18/18/0.00	0.0	0.0	1	0	1	0	10	29	5arm	1	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	-----------AGUACGC------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S2
	----------GAGTACGCATTGCATTGT--------------------------------------------------------------------------------------	18	1
rat	tcaccaatgtGAGTACGCATTGCATTGTtttgcatgtgcatgtttaaaggtggattcatgtgagtcagggtgcacatgcatctgcgagtatgtgtgtgtgtgtgtgcgtgtgtg
	******************************************************************************************************************
rat	.(((..(((((..((((((.(((((...((((((.((((((((.((......(((((....)))))....)).)))))))).))))))...)))))))))))..)))))..)))	0.900 -38.80

rat

chromosome:10:1967248:1967361:-1

intergenic

block1802 [novel_lenNOK_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	0.004	no	no	0.44/0.44	18/18/0.00	0.0	0.0	1	0	1	0	37	1	5arm	1	nd	0.39	2	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------CUGUCAU---------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	-------------------------------------TCTGTCATTTCCAGGAAC-----------------------------------------------------------------	18	1
rat	caggaggaccacaggtatggggaccagagctctgtctTCTGTCATTTCCAGGAACacaaccacttgctccctgaaccgactgggcttgctctcctctcccctatcattggataccttctt
	************************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000003150 ENSRNOG00000002294 LOC687335
rat	.((((((.(((..((((.(((((..(((((...((((...(((..(((..(((.((........)).)))..)))..))).))))..)))))....)))))))))..)))...)))))).	1.000 -40.10

rat

chromosome:10:4032079:4032198:-1

block4216 [novel_lenNOK_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	0.61/0.63	18/19/0.00	0.0	0.5	2	0	2	0	13	4	3arm	1	nd	0.32	3	2	2	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------GGGGACC------------------------	2	novel
		len	cloning frequencies
			T1S2	T2S1
	--------------------------------------------------------TGGGGACCAAGTCCAGTG--------------	18	1	-
	--------------------------------------------------------TGGGGACCAAGTCCAGTGG-------------	19	-	1
rat	aagtcccttgtctcagggaaagggtaggtcattatctccagggaagtcaacatcccTGGGGACCAAGTCCAGTGGacagaaggatttt
	****************************************************************************************
rat	((((((.((((((...(((...((..........((((((((((........))))))))))))...)))...))))))..)))))).	0.940 -33.20

rat

chromosome:10:9396026:9396113:-1

intergenic

block4816 [novel_lenNOK_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	0.001	no	no	0.28/0.28	18/18/0.00	0.0	0.0	1	0	1	0	14	13	5arm	3	nd	0.33	2	1	1	na	na

		reads	miRBase family seed
seed	---------------UUUUGUU----------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	--------------TTTTTGTTTTCTCCCTTT------------------------------------------------------------------------------------	18	1
rat	tatggtatattttgTTTTTGTTTTCTCCCTTTccaaggatcttggctttttctttttttcttttccttttcttcctttttttgggggggtgggggtgggggcaaggtttctctgtg
	********************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000000219 ENSRNOG00000003773 Hmox2
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000005031 ENSRNOG00000003773 Hmox2
rat	(((((...((((((((((..(((((..(((..(((((((....((............................))..)))))))..))).)))))..))))))))))....)))))	0.750 -26.49

rat

chromosome:10:10919321:10919436:-1

Same_strand|Intronic_non-coding|ENSRNOT00000005031|ENSRNOG00000003773 ## ENSRNOG00000003773|protein_coding|Hmox2|Heme oxygenase 2 (EC 1.14.99.3) (HO-2). [Source:UniProtKB/Swiss-Prot;Acc:P23711] ## {Repeats: dust 10919405 10919423 0 class=dust}

block6974 [novel_lenNOK_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	0.58/0.58	19/19/0.00	0.0	0.0	1	0	1	0	13	12	3arm	1	nd	0.32	3	1	1	na	na

		reads	miRBase family seed
seed	----------------------------------------------------------GACCCAG------------------------	1	novel
		len	cloning frequencies
			T4S2
	---------------------------------------------------------TGACCCAGGAAGACCCCAA-------------	19	1
rat	gatggggtgacaggggctctgcctgggcttgtccacccactaagcgtggttgtctacTGACCCAGGAAGACCCCAAccaggccttatca
	*****************************************************************************************
rat	((((((((....((((.(((.((((((...((.((.((((.....)))).))...))...)))))).)))))))......)))))))).	0.990 -38.10

rat

chromosome:10:14423861:14423949:-1

intergenic

block8291 [novel_lenNOK_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	0.010	no	no	0.50/0.50	18/18/0.00	0.0	0.0	1	0	1	0	28	4	5arm	1	nd	0.33	2	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------AGCUUGC------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S2
	----------------------------TAGCTTGCTGAGAGTCTC--------------------------------------------------------------------	18	1
rat	ggtggggccctagcagatgggctcattcTAGCTTGCTGAGAGTCTCtagcccaggcttctgtgaggttccacagcaggagaggagaacatggcttacgctggggagctccgccc
	******************************************************************************************************************
rat	((((((((((((((...((((((..((((..(((((((.((..(((.(((....))).....)))..))..)))))))..))))......)))))).))))))..)))))))).	1.000 -52.50

rat

chromosome:10:16510943:16511056:-1

intergenic

block9047 [novel_lenNOK_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	0.68/0.68	19/19/0.00	0.0	0.0	1	0	1	0	10	7	5arm	1	nd	0.32	3	1	1	na	na

		reads	miRBase family seed
seed	-----------AGGGUGG------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S1
	----------TAGGGTGGGGGTGGGATGG-------------------------------------------------	19	1
rat	gtttgtaggtTAGGGTGGGGGTGGGATGGctgaaggaggtgaaccttcagcagtcaactcttcatgagtatgtgtgga
	******************************************************************************
rat	.((..((.((....((((((((..(((.((((((((.......)))))))).))).)).))))))....)).))..))	1.000 -25.60

rat

chromosome:10:17862211:17862288:-1

intergenic

block9339 [novel_lenNOK_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	0.68/0.68	19/19/0.00	0.0	0.0	1	0	1	0	28	11	3arm	1	nd	0.42	3	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------GAGGUGG---------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	----------------------------------------------------------------------TGAGGTGGCTTGGGGGAGG----------------------------	19	1
rat	gctcaggggtgctccctccggtgctccctccagcacattctacactgctttcccaactctggagtgggcaTGAGGTGGCTTGGGGGAGGtgagggcattggaaagtccctctgagtg
	*********************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000059873 ENSRNOG00000005365 Kcnip1
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000044394 ENSRNOG00000005365 Kcnip1
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000007187 ENSRNOG00000005365 Kcnip1
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000040737 ENSRNOG00000005365 Kcnip1
rat	(((((((((..((...(((((((((((((((....((..((((..(((((..(((....)))...)))))....))))..))..)))))...)))))))))).))..))))))))).	1.000 -53.50