miR-Intess: classification

other hairpins

novel_lenNOK_Multihit_shortStem_randfoldOK (182 loci)

block1232519 [novel_lenNOK_Multihit_shortStem_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	0.56/0.56	18/18/0.00	0.0	0.0	2	0	1	0	4	13	5arm	214	nd	0.28	3	2	1	na	na

		reads	miRBase family seed
seed	-----CUCACUA--------------------------------------------------------------	1	novel
seed	-------------------------------------CUCACUA------------------------------	1	novel
		len	cloning frequencies
			T1S1
	----GCTCACTACCATCCACGT----------------------------------------------------	18	1
	------------------------------------GCTCACTACCATCCACGT--------------------	18	1
rat	gtgaGCTCACTACCATCCACGTgagtgtcactgtgaGCTCACTACCATCCACGTgagtgtcactgtgagctcac
	**************************************************************************
rat	((((((((((...((..((((((..((.....(((....)))...))..))))))..)).....))))))))))	0.510 -33.00

rat

chromosome:2:252863675:252863748:-1

intergenic ## {Repeats: trf 13424 13442 0 class=trf}

block1232521 [novel_lenNOK_Multihit_shortStem_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	0.56/0.56	18/18/0.00	0.0	0.0	2	0	1	0	4	29	5arm	214	nd	0.28	3	2	1	na	na

		reads	miRBase family seed
seed	-----CUCACUA------------------------------------------------------------------------------------------	1	novel
seed	-----------------------------------------------------------------CUCACUA------------------------------	1	novel
		len	cloning frequencies
			T1S1
	----GCTCACTACCATCCACGT--------------------------------------------------------------------------------	18	1
	----------------------------------------------------------------GCTCACTACCATCCACGT--------------------	18	1
rat	gtgaGCTCACTACCATCCACGTgtcactgtgagctcactaccatccatgtgattgtcactgtgaGCTCACTACCATCCACGTgagtgtcactgtgagctcac
	******************************************************************************************************
rat	((((((((((...((..((((((.....((((((((((..........(((.....))).)))))))))).......))))))..)).....))))))))))	1.000 -46.70

rat

chromosome:2:252863707:252863808:-1

intergenic ## {Repeats: trf 13488 13506 0 class=trf}

block1232522 [novel_lenNOK_Multihit_shortStem_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	0.56/0.56	18/18/0.00	0.0	0.0	2	0	1	0	4	29	5arm	214	nd	0.28	3	2	1	na	na

		reads	miRBase family seed
seed	-----CUCACUA------------------------------------------------------------------------------------------	1	novel
seed	-----------------------------------------------------------------CUCACUA------------------------------	1	novel
		len	cloning frequencies
			T1S1
	----GCTCACTACCATCCACGT--------------------------------------------------------------------------------	18	1
	----------------------------------------------------------------GCTCACTACCATCCACGT--------------------	18	1
rat	gtgaGCTCACTACCATCCACGTgtcactgtgagctcactaccatccatgtgattgtcactgtgaGCTCACTACCATCCACGTgagtgtcactgtgagctcac
	******************************************************************************************************
rat	((((((((((...((..((((((.....((((((((((..........(((.....))).)))))))))).......))))))..)).....))))))))))	1.000 -46.70

rat

chromosome:2:252863707:252863808:-1

intergenic ## {Repeats: trf 13520 13538 0 class=trf}

block1232523 [novel_lenNOK_Multihit_shortStem_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	0.56/0.56	18/18/0.00	0.0	0.0	2	0	1	0	4	29	5arm	214	nd	0.28	3	2	1	na	na

		reads	miRBase family seed
seed	-----CUCACUA------------------------------------------------------------------------------------------	1	novel
seed	-----------------------------------------------------------------CUCACUA------------------------------	1	novel
		len	cloning frequencies
			T1S1
	----GCTCACTACCATCCACGT--------------------------------------------------------------------------------	18	1
	----------------------------------------------------------------GCTCACTACCATCCACGT--------------------	18	1
rat	gtgaGCTCACTACCATCCACGTgtcactgtgagctcactaccatccatgtgattgtcactgtgaGCTCACTACCATCCACGTgagtgtcactgtgagctcac
	******************************************************************************************************
rat	((((((((((...((..((((((.....((((((((((..........(((.....))).)))))))))).......))))))..)).....))))))))))	1.000 -46.70

rat

chromosome:2:252863707:252863808:-1

intergenic ## {Repeats: trf 13580 13598 0 class=trf}

block822805 [novel_lenNOK_Multihit_shortStem_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	0.010	no	no	0.44/0.47	18/19/0.00	1.0	1.5	2	0	2	0	1	20	3arm	18	nd	0.26	3	2	2	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------------------UUCUUAA------------	1	novel
seed	-----------------------------------------------------------------CCUUCUU--------------	1	novel
		len	cloning frequencies
			T1S2	T3S2
	----------------------------------------------------------------GCCTTCTTAAATGGTCCT----	18	1	-
	------------------------------------------------------------------CTTCTTAAATGGTCCTGGC-	19	-	1
rat	agccaatcagaagagaaggcgggcatttccgtatgccttgttgcaggattcgcttagtggccaaGCCTTCTTAAATGGTCCTGGCt
	**************************************************************************************
rat	(((((((((...((((((((((.((((..((....(((......)))...))...)))).))..))))))))...))))..)))))	0.460 -30.80

rat

chromosome:1:579717:579802:-1

intergenic

block2652572 [novel_lenNOK_Multihit_shortStem_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	0.005	no	no	0.44/0.47	18/19/0.00	1.0	1.5	2	0	2	0	1	20	3arm	18	nd	0.28	3	2	2	na	na

		reads	miRBase family seed
seed	----------------------------------------------------------------CCUUCUU--------------	1	novel
seed	------------------------------------------------------------------UUCUUAA------------	1	novel
		len	cloning frequencies
			T1S2	T3S2
	---------------------------------------------------------------GCCTTCTTAAATGGTCCT----	18	1	-
	-----------------------------------------------------------------CTTCTTAAATGGTCCTGGC-	19	-	1
rat	gccaatcagaagagaaggcgggctttaccgggtgccttggtgtagtaatcaggtagtagctaaGCCTTCTTAAATGGTCCTGGCt
	*************************************************************************************
rat	((((((((...((((((((.(((((((((.(((..((......))..))).))))).))))..))))))))...))))..)))).	0.990 -33.50

rat

chromosome:9:113249230:113249314:1

intergenic

novel_lenNOK_cloningOK_loopOverlap_nonpairedHIGH (179 loci)

block9687 [novel_lenNOK_cloningOK_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	0.073	no	no	0.53/0.56	18/19/0.00	0.0	0.2	14	0	2	0	25	-2	3arm_loop	1	nd	0.37	3	14	2	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------GGAGUGU------------------------------------	14	miR-122
		len	cloning frequencies
			T2S1	T2S2
	----------------------------------------------------TGGAGTGTGAAAACCCCC--------------------------	18	7	4
	----------------------------------------------------TGGAGTGTGAAAACCCCCT-------------------------	19	3	-
rat	gctactgtcacactctggatcttaattcctgttggcctgttttcctctcactTGGAGTGTGAAAACCCCCTggtagtctcccttgtgggacagtgt
	************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000009648 ENSRNOG00000007292 RGD1306908
rat	..(((((((.(((...(((.((.....((....((...((((((..(((.....)))...))))))..)).)).))..)))...))).))))))).	0.730 -25.20

rat

chromosome:10:19693295:19693390:-1

block20848 [novel_lenNOK_cloningOK_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	0.379	no	no	0.50/0.53	18/19/0.00	0.0	0.3	37	0	8	0	31	-3	3arm_loop	1	nd	0.32	2	44	8	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------GGGACUC------------------------------------------	44	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T4S1	T4S2	T5S1	T5S2
	----------------------------------------------------TGGGACTCTGGGAAACTTG-------------------------------	19	5	5	2	1	8	5	2	3
	----------------------------------------------------TGGGACTCTGGGAAACTT--------------------------------	18	7	1	-	-	1	4	-	-
rat	gctcttggcccagtgctatggccggaacaagaaagattcagggagtcaggtgTGGGACTCTGGGAAACTTGcttaaggctattacttcgtaaggatgggggc
	******************************************************************************************************
rat	((((((..((...(((.((((((.....(((.(((.(((..((((((........))))))..))).))).)))..))))))......))).))..))))))	0.460 -29.70

rat

chromosome:10:46834472:46834573:-1

intergenic

block57046 [novel_lenNOK_cloningOK_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	0.407	no	no	0.67/0.68	18/19/0.00	0.0	0.0	13	0	4	0	14	-2	3arm_loop	1	nd	0.39	3	18	4	na	na

		reads	miRBase family seed
seed	---------------------------------UGACCUA------------------------	18	miR-192/215
		len	cloning frequencies
			T2S1	T2S2	T5S1	T5S2
	--------------------------------CTGACCTAGAGGCCAGGG--------------	18	9	2	2	4
	--------------------------------CTGACCTAGAGGCCAGGGC-------------	19	-	1	-	-
rat	ctgatacccattccccttcgctaagctcttgaCTGACCTAGAGGCCAGGGcatgtggacacaga
	****************************************************************
rat	(((....((((..((((..(((.((.((......)).))...))).))))...))))...))).	0.990 -14.50

rat

chromosome:10:7392145:7392208:1

intergenic

block57774 [novel_lenNOK_cloningOK_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	0.104	no	no	0.53/0.56	18/19/0.00	0.0	0.2	16	0	6	0	15	-2	5arm_loop	2	nd	0.33	2	16	6	na	na

		reads	miRBase family seed
seed	----------------GACUCAG------------------------------------------------	16	novel
		len	cloning frequencies
			T1S1	T1S2	T4S1	T4S2	T5S1	T5S2
	---------------TGACTCAGGGAGACAGGAA-------------------------------------	19	1	2	2	2	3	2
	---------------TGACTCAGGGAGACAGGA--------------------------------------	18	1	-	-	1	2	-
rat	gggatagcctgtgcaTGACTCAGGGAGACAGGAAtagcccatgtatggctctgggagacagggataccccg
	***********************************************************************
rat	(((.((.(((((......(((((((..(((((......)).)))....)))))))..)))))..)).))).	0.990 -23.50