miR-Intess: classification

other hairpins

novel_shortStem_5varHIGH_randfoldOK (7 loci)

block1397828 [novel_shortStem_5varHIGH_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
no	0.001	no	no	0.57/0.60	19/23/0.86	1.7	0.7	7	0	5	0	4	6	5arm	1	nd	0.05	1	7	5	na	na

		reads	miRBase family seed
seed	-------ACCUGCC------------------------------------------------------------	6	novel
seed	-----GAACCUG--------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S2	T3S1	T3S2	T4S1	T4S2
	------AACCTGCCTGTCTTGGCTCC------------------------------------------------	20	1	-	1	1	-
	------AACCTGCCTGTCTTGGCTCCT-----------------------------------------------	21	-	-	1	-	1
	------AACCTGCCTGTCTTGGCTC-------------------------------------------------	19	-	1	-	-	-
	----AGAACCTGCCTGTCTTGGCTCCT-----------------------------------------------	23	-	-	-	-	1
rat	atggAGAACCTGCCTGTCTTGGCTCCTcaacagaagctgcccacaggaggcaggacagtgcttaggtcattcat
	**************************************************************************
rat	(((((..((((((((((((((.(((((...(((...))).....))))).)))))))).))..))))..)))))	1.000 -31.70

rat

chromosome:3:107001061:107001134:-1

intergenic

block2256512 [novel_shortStem_5varHIGH_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
no	0.002	no	no	0.57/0.61	21/24/1.00	1.3	3.0	3	0	2	0	2	30	5arm	1	nd	0.29	2	3	2	na	na

		reads	miRBase family seed
seed	---UAGAGCA---------------------------------------------------------------------------------------------------------	2	novel
seed	-------GCAGAGA-----------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T3S2
	--CTAGAGCAGAGAGCAGTGGAG--------------------------------------------------------------------------------------------	21	1	-
	--CTAGAGCAGAGAGCAGTGGAGCC------------------------------------------------------------------------------------------	23	1	-
	------AGCAGAGAGCAGTGGAGCCACAGA-------------------------------------------------------------------------------------	24	-	1
rat	ggCTAGAGCAGAGAGCAGTGGAGCCACAGAtgaagtacagagaatatctgaaacagcagcacctcagctgccatcccagatctctgctgctgtgtgacatgcctctctgtagctg
	*******************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000013398 ENSRNOG00000009756 Pacsin2
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000013428 ENSRNOG00000009756 Pacsin2
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000042978 ENSRNOG00000009756 Pacsin2
rat	(((((.((.((((.(((.((..((.((((....((..((((((...((((.....(((((......))))).....)))))))))))).))))))..))))))))))).))))).	0.960 -44.90

rat

chromosome:7:121493849:121493963:1

Same_strand|Intronic_non-coding|ENSRNOT00000013398|ENSRNOG00000009756 ## ENSRNOG00000009756|protein_coding|Pacsin2|Protein kinase C and casein kinase substrate in neurons 2 protein (Synaptic dynamin-associated protein II) (Syndapin 2) (Syndapin-II) (SdpII). [Source:UniProtKB/Swiss-Prot;Acc:Q9QY17]

block2258453 [novel_shortStem_5varHIGH_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
no	0.001	no	no	0.50/0.52	21/24/1.00	1.7	0.7	3	0	2	0	0	12	3arm	1	nd	0.05	1	3	2	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------------------GAGAACA-------------	2	novel
seed	--------------------------------------------------------------AGGCUGA------------------	1	novel
		len	cloning frequencies
			T2S2	T4S1
	------------------------------------------------------------------TGAGAACAGGAACCTAGACCC	21	2	-
	-------------------------------------------------------------AAGGCTGAGAACAGGAACCTAGAC--	24	-	1
rat	cgggtttaagttcctgttctcacccctccagtaggtcctgttctccttccagagcccctggAAGGCTGAGAACAGGAACCTAGACCC
	***************************************************************************************
rat	.(((((((.(((((((((((((.((.(((((..((..(((.........)))..)).))))).)).))))))))))))).)))))))	0.990 -48.90

rat

chromosome:7:123810261:123810347:1

intergenic

block1973183 [novel_shortStem_5varHIGH_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
no	0.008	no	no	0.35/0.45	19/23/0.88	3.0	4.6	8	0	2	0	4	0	5arm	1	nd	0.20	2	8	2	na	na

		reads	miRBase family seed
seed	------------GACAUUU---------------------------------------------------------------	4	novel
seed	-----UGCCCAU----------------------------------------------------------------------	2	novel
seed	--------CCAUGAC-------------------------------------------------------------------	1	novel
seed	------GCCCAUG---------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S2	T5S1
	-----------TGACATTTGCAAGTGAATCTGAG------------------------------------------------	23	-	2
	-------CCCATGACATTTGCAAGTGA-------------------------------------------------------	20	-	1
	----TTGCCCATGACATTTGCAAGTGA-------------------------------------------------------	23	-	1
	-----------TGACATTTGCAAGTGAATC----------------------------------------------------	19	-	1
	-----------TGACATTTGCAAGTGAATCT---------------------------------------------------	20	1	-
	-----TGCCCATGACATTTGCAAGTGA-------------------------------------------------------	22	1	-
	----TTGCCCATGACATTTGCAAGT---------------------------------------------------------	21	-	1
rat	ccacTTGCCCATGACATTTGCAAGTGAATCTGAGtgatcaatttcagatatcccatcttgaatgatttctgggaaggagtgg
	**********************************************************************************
rat	((((((.((((.((.(((..((((.(((((((((........))))))).))....))))...))).))))))...))))))	1.000 -25.80

rat

chromosome:6:122566347:122566428:-1

intergenic

block1600303 [novel_shortStem_5varHIGH_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
no	0.001	no	no	0.42/0.50	19/20/0.75	5.0	4.8	4	0	2	0	1	32	5arm	1	nd	0.15	2	4	2	na	na

		reads	miRBase family seed
seed	----------CACUGUA-------------------------------------------------------------------------------------------------------	2	novel
seed	--UGCAGGU---------------------------------------------------------------------------------------------------------------	1	novel
seed	------GGUGCAC-----------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S2	T5S1
	---------GCACTGTATGCATTCAAAC--------------------------------------------------------------------------------------------	19	-	1
	-TTGCAGGTGCACTGTATGCA---------------------------------------------------------------------------------------------------	20	-	1
	---------GCACTGTATGCATTCAAACC-------------------------------------------------------------------------------------------	20	1	-
	-----AGGTGCACTGTATGCATTCA-----------------------------------------------------------------------------------------------	20	-	1
rat	cTTGCAGGTGCACTGTATGCATTCAAACCggagaatagacttgtctcttgcttagcactgagaattaggagaagcggagagagagctccgtgtttaagaatgcagactgttcttgcaggg
	************************************************************************************************************************
rat	((((((((.(((..((.((((((((((((((((.......((.((((((((((....((((...))))...))))).))))).))))))).))))..))))))).))))).)))))))).	1.000 -44.61

rat

chromosome:4:164232359:164232478:-1

intergenic

novel_shortStem_loopOverlap_randfoldOK_bulgeHIGH (7 loci)

block118296 [novel_shortStem_loopOverlap_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	0.003	no	no	0.59/0.59	22/22/1.00	0.0	0.0	2	0	1	0	0	-1	3arm	1	nd	0.29	4	2	1	na	na

		reads	miRBase family seed
seed	-----------------------CUGCCCC--------------	2	novel
		len	cloning frequencies
			T2S1
	----------------------ACTGCCCCAAGCTTCTGAGCCA	22	2
rat	ggaactcaggagcgaggaggagACTGCCCCAAGCTTCTGAGCCA
	********************************************
rat	((..(((((((((..((((....)).))....))))))))))).	1.000 -21.10

rat

chromosome:11:32773170:32773213:-1

intergenic

block686492 [novel_shortStem_loopOverlap_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	0.008	no	no	0.50/0.50	20/20/1.00	0.0	0.0	1	0	1	0	1	-4	5arm_loop_3arm	1	nd	0.30	4	1	1	na	na

		reads	miRBase family seed
seed	--AUGCUCU---------------------------------	1	novel
		len	cloning frequencies
			T1S1
	-AATGCTCTGTGGAAACCCCA---------------------	20	1
rat	gAATGCTCTGTGGAAACCCCAgtttctacactcatagcagtc
	******************************************
rat	((.((((.(((((((((....))))))))).....)))).))	1.000 -12.10

rat

chromosome:18:6628935:6628976:-1

intergenic

block693420 [novel_shortStem_loopOverlap_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	0.55/0.55	20/20/1.00	0.0	0.0	1	0	1	0	4	-4	5arm_loop	1	nd	0.25	5	1	1	na	na

		reads	miRBase family seed
seed	-----CCCCAGA------------------------------------------------------	1	novel
		len	cloning frequencies
			T4S2
	----TCCCCAGAAGGAAAGGCCTT------------------------------------------	20	1
rat	cacaTCCCCAGAAGGAAAGGCCTTtattttttcatcttctttctttccttttttgacgggggtgtg
	******************************************************************
rat	((((((((((((((((((((.....................))))))))))).....)))))))))	0.990 -23.60

rat

chromosome:18:24997232:24997297:-1

intergenic ## {Repeats: dust 24997274 24997276 0 class=dust}

block713242 [novel_shortStem_loopOverlap_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	0.29/0.33	21/24/1.00	0.0	1.5	2	0	1	0	4	-2	3arm_loop	1	nd	0.21	4	2	1	na	na

		reads	miRBase family seed
seed	------------------------------------AAAGUUU--------------------	2	novel
		len	cloning frequencies
			T5S1
	-----------------------------------TAAAGTTTCCATTTATGCTCA-------	21	1
	-----------------------------------TAAAGTTTCCATTTATGCTCAGTC----	24	1
rat	tttgactgagcaagttttaaatgtttcccctttatTAAAGTTTCCATTTATGCTCAGTCaaga
	***************************************************************
rat	((((((((((((.....((((((......(((.....)))....)))))))))))))))))).	1.000 -18.20

rat

chromosome:18:63579329:63579391:-1

intergenic

block1009505 [novel_shortStem_loopOverlap_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	0.004	no	no	0.62/0.62	21/21/1.00	0.0	0.0	1	0	1	0	3	-4	5arm_loop	1	nd	0.29	5	1	1	na	na

		reads	miRBase family seed
seed	----CAGGCCA---------------------------------------	1	novel
		len	cloning frequencies
			T2S1
	---CCAGGCCAGCCAACCTTACTG--------------------------	21	1
rat	gggCCAGGCCAGCCAACCTTACTGcaagagcttggctggtcctggaagcc
	**************************************************
	------------------------------------------------------------	ENSRNOT00000024281 ENSRNOG00000017976 Slco2b1
rat	((.(((((((((((((.(((.......))).)))))))).)))))...))	1.000 -26.20