miR-Intess: classification

other hairpins

novel_shortStem_nonpairedHIGH (1938 loci)

block1785316 [novel_shortStem_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	0.574	no	no	0.65/0.65	20/20/1.00	0.0	0.0	1	0	1	0	0	16	3arm	1	nd	0.37	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------CCACACU------------	1	novel
		len	cloning frequencies
			T3S1
	--------------------------------------------------------CCCACACTCTACTGCCCGAC	20	1
rat	gtccgcagccagtgcgccaagggaagaggccgcccgggtcccagcgaaccctagtcCCCACACTCTACTGCCCGAC
	****************************************************************************
	-------------------------------------------------------------------------------------<	ENSRNOT00000035637 ENSRNOG00000025716 NP_001102446.1
rat	(((.((((..((((......((((..(((.(((..((...)).)))...)))..))))..))))...))))..)))	0.990 -21.70

rat

chromosome:5:145450563:145450638:-1

block1789277 [novel_shortStem_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	0.395	no	no	0.55/0.55	22/22/1.00	0.0	0.0	1	0	1	0	2	24	5arm	1	nd	0.32	2	1	1	na	na

		reads	miRBase family seed
seed	---CCUAAGG-----------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	--TCCTAAGGCTGGCATGATGACC---------------------------------------------------------------------	22	1
rat	tcTCCTAAGGCTGGCATGATGACCataagctgcctttctaagtggtggggcccacctctgaaaatgctgtgcccatgttgacccctgggggga
	*********************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000018316 ENSRNOG00000013515 P70643_RAT
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000036148 ENSRNOG00000013515 P70643_RAT
rat	((((((.(((..((((..(((..(((.(((....((((..((.(((((...))))).))))))..))))))..)))..)).))))).))))))	0.990 -28.80

rat

chromosome:5:150689656:150689748:-1

block1848515 [novel_shortStem_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	0.044	no	no	0.61/0.61	23/23/1.00	0.0	0.0	3	0	2	0	4	31	5arm	1	nd	0.35	3	3	2	na	na

		reads	miRBase family seed
seed	-----CAGAGGC---------------------------------------------------------------------------------------------------------	3	novel
		len	cloning frequencies
			T3S2	T5S1
	----TCAGAGGCACCAGGGAGCAAGAC------------------------------------------------------------------------------------------	23	1	2
rat	gcctTCAGAGGCACCAGGGAGCAAGACgctgtcgggatggtaaaggagggcatctctgcaggcaaacagggactccaactgctgacctcaggttctgactcccttagccttgctggc
	*********************************************************************************************************************
rat	(((....(((((...((((((((..((.(((..(((.(((((..((((....((((((........))))))))))...))))).))))))))..)).))))))..)))))...)))	1.000 -45.90

rat

chromosome:5:79246838:79246954:1

intergenic

block1891279 [novel_shortStem_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	0.067	no	no	0.67/0.67	21/21/1.00	0.0	0.0	1	0	1	0	3	17	5arm	1	22	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	----CCCUGAG----------------------------------------------------------------------------------	1	miR-125a/125b/351
		len	cloning frequencies
			T1S2
	---TCCCTGAGCCCACGCATGTCC---------------------------------------------------------------------	21	1
rat	ggcTCCCTGAGCCCACGCATGTCCtcaccctactgctggcttgcagtccccagcctacaccctggtgtggacccgtctgcacaacgggaagct
	*********************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000055950 ENSRNOG00000021437 O08591_RAT
	+++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000055948 ENSRNOG00000021437 O08591_RAT
	+++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000039341 ENSRNOG00000021437 O08591_RAT
rat	(((((((((.((..(((...((((.((((....((..((((..........))))..))....)))).)))).)))..)).))..)))).)))	0.730 -30.90

rat

chromosome:5:156295215:156295307:1

block1901794 [novel_shortStem_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	0.978	no	no	0.57/0.57	21/21/1.00	0.0	0.0	1	0	1	0	3	16	5arm	1	nd	0.38	3	1	1	na	na

		reads	miRBase family seed
seed	----GUGGUUU------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	---AGTGGTTTGCTGAGCCGGTCT-----------------------------------------------------------------------	21	1
rat	atcAGTGGTTTGCTGAGCCGGTCTaggacagggaagatgaatgattctggcttctgttgtgctttacccccactcctcttgaagcttgtttggtg
	***********************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000000079 ENSRNOG00000010580 Acot7
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000014213 ENSRNOG00000010580 Acot7
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000047920 ENSRNOG00000010580 Acot7
rat	(((((.(((((...(((..(((..((.(((((((((..((.....))...))))).)))).))..))).......)))...)))))...))))).	0.440 -19.50

rat

chromosome:5:169432332:169432426:1

Same_strand|Intronic_coding|ENSRNOT00000047920|ENSRNOG00000010580 ## ENSRNOG00000010580|protein_coding|Acot7|Cytosolic acyl coenzyme A thioester hydrolase (EC 3.1.2.2) (Long chain acyl-CoA thioester hydrolase) (CTE-II) (CTE-IIa) (Brain acyl-CoA hydrolase) (ACT) (CTE-IIb) (LACH1) (MTE-II) (ACH1) (Acyl-CoA thioesterase 7). [Source:UniProtKB/Swiss-Prot;Acc:Q64559]

block1928921 [novel_shortStem_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	0.723	no	no	0.50/0.50	20/20/1.00	0.0	0.0	1	0	1	0	2	25	3arm	1	nd	0.40	3	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------------------------AGGUAGU--------------	1	miR-196a/196b/196c
		len	cloning frequencies
			T1S1
	------------------------------------------------------------------------AAGGTAGTCCAGGGAAGACA--	20	1
rat	atatgcattcaataggtgcttagatttatctcccaaattggaagtgacttggttgggatggggtggttctgcAAGGTAGTCCAGGGAAGACAtg
	**********************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000009639 ENSRNOG00000007237 Id2
rat	.((((..(((....((((((((((.(((((((((((...((......))...))))))...))))).))))...))))..))...)))..))))	0.420 -19.20

rat

chromosome:6:42780222:42780315:-1

novel_loopOverlap_nonpairedHIGH (1826 loci)

block190 [novel_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	0.172	no	no	0.50/0.50	22/22/1.00	0.0	0.0	1	0	1	0	7	-4	3arm_loop	1	nd	0.36	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------GUUAGAG---------------------	1	novel
		len	cloning frequencies
			T4S2
	--------------------------------TGTTAGAGGTGCTGCTGTCTAG-------	22	1
rat	gagaaatctgtcagcagtccaactcttagacgTGTTAGAGGTGCTGCTGTCTAGttaagct
	*************************************************************
rat	.((....(((.(((((((....((((..........))))..)))))))..))).....))	0.610 -14.10

rat

chromosome:10:390248:390308:-1

intergenic

block1539 [novel_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	0.377	no	no	0.25/0.25	20/20/1.00	0.0	0.0	1	0	1	0	18	-3	3arm_loop	1	nd	0.40	2	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------UUUUGUU------------------------------	1	novel
		len	cloning frequencies
			T3S1
	----------------------------------------TTTTTGTTTCCCACAAAATT------------------	20	1
rat	ctggagataagagaatggatatggggggggtaataaaagaTTTTTGTTTCCCACAAAATTaacttttgcatttgtagg
	******************************************************************************
rat	(((.((((..((((...(((.((.((((..(((..........)))..)))).))..)))...))))..)))).))).	0.990 -12.90

rat

chromosome:10:3294822:3294899:-1

intergenic

block3818 [novel_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	0.397	no	no	0.60/0.60	20/20/1.00	0.0	0.0	1	0	1	0	16	-2	3arm_loop	1	nd	0.35	3	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------CCACCCC----------------------------	1	novel
		len	cloning frequencies
			T2S1
	-------------------------------ACCACCCCCTTCTGTGCTGT----------------	20	1
rat	ggactgtcattgcagacaagagttgctgtgaACCACCCCCTTCTGTGCTGTacctgattcatctcca
	*******************************************************************
rat	(((..((((.((((((((..((.....(((...)))...))..))).)))))..)))).....))).	0.970 -13.40

rat

chromosome:10:8125260:8125326:-1

intergenic

block4383 [novel_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	0.281	no	no	0.50/0.50	22/22/1.00	0.0	0.0	1	0	1	0	31	-2	3arm_loop	1	nd	0.36	3	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------UGGGGAC---------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	-------------------------------------------------TTGGGGACTACACTTCTGTGAG-------------------------------	22	1
rat	gctattctctaatggtcatctggggactgacattgaatgtgactctgatTTGGGGACTACACTTCTGTGAGcagcctatggctcttgagtaagtaagtagca
	******************************************************************************************************
rat	(((((((((.((.((((((...(((.(((.(((.(((((((.(((......)))...)))).))).)))..)))))))))))).)))))......)))))).	0.990 -26.50