miR-Intess: classification

other hairpins

novel_Multihit_randfoldOK_bulgeHIGH (26 loci)

block1347260 [novel_Multihit_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	0.005	no	no	0.60/0.60	20/20/1.00	0.0	0.0	1	0	1	0	16	1	5arm	13	nd	0.30	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------CCUUUGG------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S2
	----------------ACCTTTGGGAGGACACTGCC------------------------------------------	20	1
rat	ccccaatcactggctaACCTTTGGGAGGACACTGCCaccctctgaaatgtcctccccagctgtttaccttccctgggg
	******************************************************************************
rat	(((((......((..(((..(((((((((((....((.....))...))))))))).))..)))..)).....)))))	1.000 -25.80

rat

chromosome:3:888533:888610:-1

intergenic

block1985463 [novel_Multihit_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	0.71/0.71	21/21/1.00	0.0	0.0	3	0	1	0	23	6	5arm	24	nd	0.29	4	3	1	na	na

		reads	miRBase family seed
seed	------------------------GACCUGG---------------------------------------------------------------------------------	3	novel
		len	cloning frequencies
			T3S2
	-----------------------GGACCTGGTCTGGTGCAGCCC--------------------------------------------------------------------	21	3
rat	cccaggtgcagctgaaggagtcaGGACCTGGTCTGGTGCAGCCCtcacagaccctgtccctcacctgcactgtctccgggttctcactaaccagctgtggtgtacactgggt
	****************************************************************************************************************
rat	((((((((((((((....(((.(((((((((..((((((((.....((((...)))).......))))))))...))))))))).)))...))))))).....)).))))).	1.000 -47.60

rat

chromosome:6:139439196:139439307:-1

intergenic

block1984986 [novel_Multihit_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	0.67/0.67	24/24/1.00	0.0	0.0	2	0	1	0	16	13	5arm	15	nd	0.29	4	2	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------CUGGUGG------------------------------------------------	1	novel
seed	-----------------CUGGUGG------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	----------------GCTGGTGGAGTCTGGGGGAGGCTT--------------------------------------------------------------------	24	1
	----------------------------------------------------GCTGGTGGAGTCTGGGGGAGGCTT--------------------------------	24	1
rat	acttagtgcagactttGCTGGTGGAGTCTGGGGGAGGCTTagtgcagactttGCTGGTGGAGTCTGGGGGAGGCTTagtgcagactttgctggtggagtctgggggag
	************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000041706 ENSRNOG00000034190 LOC678701
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000006888 ENSRNOG00000034190 LOC678701
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000040702 ENSRNOG00000034190 LOC678701
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000048378 ENSRNOG00000034190 LOC678701
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000056845 ENSRNOG00000034190 LOC678701
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000056844 ENSRNOG00000034190 LOC678701
rat	.(((....(((((((..((((..(((((((....((((((....(((((((((....)))))))))....))))))....)))))))..))))..)))))))...)))	1.000 -51.00

rat

chromosome:6:138621499:138621606:-1

Same_strand|Intronic_coding|ENSRNOT00000056845|ENSRNOG00000034190 ## Same_strand|Boundary_non-coding|ENSRNOT00000007140|ENSRNOG00000034190 ## ENSRNOG00000034190|protein_coding|LOC678701|LOC366747 protein (Fragment). [Source:UniProtKB/TrEMBL;Acc:Q5I0L9] ## {Repeats: trf 8 32 0 class=trf}

block1984987 [novel_Multihit_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	0.67/0.67	24/24/1.00	0.0	0.0	2	0	1	0	16	13	5arm	15	nd	0.29	4	2	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------CUGGUGG------------------------------------------------	1	novel
seed	-----------------CUGGUGG------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	----------------GCTGGTGGAGTCTGGGGGAGGCTT--------------------------------------------------------------------	24	1
	----------------------------------------------------GCTGGTGGAGTCTGGGGGAGGCTT--------------------------------	24	1
rat	acttagtgcagactttGCTGGTGGAGTCTGGGGGAGGCTTagtgcagactttGCTGGTGGAGTCTGGGGGAGGCTTagtgcagactttgctggtggagtctgggggag
	************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000041706 ENSRNOG00000034190 LOC678701
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000006888 ENSRNOG00000034190 LOC678701
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000040702 ENSRNOG00000034190 LOC678701
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000048378 ENSRNOG00000034190 LOC678701
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000056845 ENSRNOG00000034190 LOC678701
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000056844 ENSRNOG00000034190 LOC678701
rat	.(((....(((((((..((((..(((((((....((((((....(((((((((....)))))))))....))))))....)))))))..))))..)))))))...)))	1.000 -51.00

rat

chromosome:6:138621499:138621606:-1

block1984988 [novel_Multihit_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	0.67/0.67	24/24/1.00	0.0	0.0	2	0	1	0	16	13	5arm	15	nd	0.29	4	2	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------CUGGUGG------------------------------------------------	1	novel
seed	-----------------CUGGUGG------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	----------------GCTGGTGGAGTCTGGGGGAGGCTT--------------------------------------------------------------------	24	1
	----------------------------------------------------GCTGGTGGAGTCTGGGGGAGGCTT--------------------------------	24	1
rat	acttagtgcagactttGCTGGTGGAGTCTGGGGGAGGCTTagtgcagactttGCTGGTGGAGTCTGGGGGAGGCTTagtgcagactttgctggtggagtctgggggag
	************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000041706 ENSRNOG00000034190 LOC678701
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000006888 ENSRNOG00000034190 LOC678701
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000040702 ENSRNOG00000034190 LOC678701
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000048378 ENSRNOG00000034190 LOC678701
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000056845 ENSRNOG00000034190 LOC678701
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000056844 ENSRNOG00000034190 LOC678701
rat	.(((....(((((((..((((..(((((((....((((((....(((((((((....)))))))))....))))))....)))))))..))))..)))))))...)))	1.000 -51.00

rat

chromosome:6:138621499:138621606:-1

block353461 [novel_Multihit_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	0.002	no	no	0.45/0.45	20/20/1.00	0.0	0.0	1	0	1	0	16	25	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	tgctccttttgcagaaTAGACTTATAGCCTGTGGCTtgccttggagatatagtagacaagcagttagtgatggtaacaatcttttcgagaggagtggaagtaggtctgttttgttggagt
	************************************************************************************************************************
rat	.(((((....(((((((((((((((..((....((((..((((((((.((.((...((.((.....))..))...)).)).))))))))..))))))..))))))))))))))).)))))	0.560 -38.90

rat

chromosome:14:49044174:49044293:-1

intergenic

block1667807 [novel_Multihit_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	0.010	no	no	0.58/0.58	24/24/1.00	0.0	0.0	1	0	1	0	24	5	3arm	38	nd	0.29	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------CUGGCAU----------------------------------------	1	novel
		len	cloning frequencies
			T4S1
	----------------------------------------------------------ACTGGCATGGCCTTCCGTGTTCCT------------------------	24	1
rat	atccactggtactgccaagtctgcgggcaaggtcatcccagagctgaactggaagctcACTGGCATGGCCTTCCGTGTTCCTactcccagtgtatccattgtggat
	**********************************************************************************************************
	--------------------------------------------------------------------------------------------------------------------	ENSRNOT00000046145 ENSRNOG00000038042
rat	((((((((((((((...(((..(((((.((((((((.((((((((........)))))..))).)))))))))).)))....)))..)))))...)))..))))))	0.830 -38.40

rat

chromosome:4:112101714:112101819:1

Opposite_strand|Intronic_coding|ENSRNOT00000046145|ENSRNOG00000038042 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000047926|ENSRNOG00000038042 ## ENSRNOG00000038042|protein_coding||

novel_lenNOK_Multihit_shortStem_5varHIGH (26 loci)

block427977 [novel_lenNOK_Multihit_shortStem_5varHIGH]

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	0.355	no	no	0.60/0.60	20/25/0.50	2.5	0.0	2	0	2	0	2	1	5arm	13	nd	0.20	2	2	2	na	na

		reads	miRBase family seed
seed	--------GAGAGCC---------------------------------------------------------	1	novel
seed	---AUGCCGA--------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T4S2
	--CATGCCGAGAGCCATCATCCAGCCA---------------------------------------------	25	-	1
	-------CGAGAGCCATCATCCAGCCA---------------------------------------------	20	1	-
rat	ccCATGCCGAGAGCCATCATCCAGCCAttccgatggccaatgcccctgagagatgatgtgcatcacagagga
	************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000050459 ENSRNOG00000034265
rat	((..((..((..(((((((((..(((((....)))))..............))))))).)).)).))..)).	0.580 -17.59

rat

chromosome:15:4637684:4637755:-1

Same_strand|Intronic_coding|ENSRNOT00000050459|ENSRNOG00000034265 ## ENSRNOG00000034265|protein_coding||

block428659 [novel_lenNOK_Multihit_shortStem_5varHIGH]

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	0.725	no	no	0.60/0.60	20/25/0.50	2.5	0.0	2	0	2	0	2	1	5arm	13	nd	0.20	2	2	2	na	na

		reads	miRBase family seed
seed	--------GAGAGCC--------------------------------------------------------	1	novel
seed	---AUGCCGA-------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T4S2
	-------CGAGAGCCATCATCCAGCCA--------------------------------------------	20	1	-
	--CATGCCGAGAGCCATCATCCAGCCA--------------------------------------------	25	-	1
rat	ccCATGCCGAGAGCCATCATCCAGCCAttccgatggcccgtgcccctgagagatgatgtgcatcacagagg
	***********************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000050624 ENSRNOG00000040004
rat	((..((..((..(((((((((..(((((....)))))..............))))))).)).)).))..))	0.410 -16.49

rat

chromosome:15:5609105:5609175:-1

Same_strand|Intronic_coding|ENSRNOT00000050624|ENSRNOG00000040004 ## ENSRNOG00000040004|protein_coding||

block428698 [novel_lenNOK_Multihit_shortStem_5varHIGH]

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	0.564	no	no	0.60/0.60	20/25/0.50	2.5	0.0	2	0	2	0	2	1	5arm	13	nd	0.20	2	2	2	na	na

		reads	miRBase family seed
seed	--------GAGAGCC--------------------------------------------------------	1	novel
seed	---AUGCCGA-------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T4S2
	-------CGAGAGCCATCATCCAGCCA--------------------------------------------	20	1	-
	--CATGCCGAGAGCCATCATCCAGCCA--------------------------------------------	25	-	1
rat	ccCATGCCGAGAGCCATCATCCAGCCAttccgatggccaatgcccctgagagatgatgtgcatcacagagg
	***********************************************************************
rat	((..((..((..(((((((((..(((((....)))))..............))))))).)).)).))..))	0.580 -16.49