miR-Intess: classification

other hairpins

novel_lenNOK_cloningOK_loopOverlap_nonpairedHIGH (179 loci)

block203675 [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	0.022	no	no	0.42/0.61	19/25/0.06	0.8 0.0	0.8 0.0	12 1	0 0	2 1	0 0	26 14	-17 10	3arm_loop 3arm	3 3	nd nd	0.37 0.37	3 4	16	2	na	na

		reads	miRBase family seed
seed	---------------------------------------------ACAGAUG-------------------------------------	6	novel
seed	--------------------------------------------GACAGAU--------------------------------------	5	novel
seed	------------------------------------------GUGACAG----------------------------------------	3	miR-542
seed	------------------------------------GCCCAUG----------------------------------------------	1	novel
seed	---------------------------------------------------------GGAAAUU-------------------------	1	novel
		len	cloning frequencies
			T1S1	T5S1
	-------------------------------------------TGACAGATGCCTGAGGAAA---------------------------	19	-	5
	--------------------------------------------GACAGATGCCTGAGGAAAT--------------------------	19	1	4
	-----------------------------------------TGTGACAGATGCCTGAGGA-----------------------------	19	-	3
	--------------------------------------------GACAGATGCCTGAGGAAATTCAAGT--------------------	25	-	1
	--------------------------------------------------------AGGAAATTCAAGTGTGAGC--------------	19	-	1
	-----------------------------------GGCCCATGTGACAGATGCCTGAG-------------------------------	23	-	1
rat	agctggaggtgggctcagaatgaatgtgttgcccaggcccaTGTGACAGATGCCTGAGGAAATtcaagtgtgagcacacactcaggttg
	*****************************************************************************************
rat	((((.((((((.(((((...(((((......(((((((...((...))...))))).))..)))))....))))).))).))).)))).	1.000 -30.30

rat

chromosome:12:44281137:44281225:-1

intergenic

block713365 [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	0.276	no	no	0.38/0.40	21/25/0.60	0.0	1.5	8	0	2	0	16	-1	5arm_loop	1	nd	0.33	3	10	2	na	na

		reads	miRBase family seed
seed	-----------------GGGUAGA-----------------------------------------------------------	9	novel
seed	-------------------------AGAGUAA---------------------------------------------------	1	novel
		len	cloning frequencies
			T2S1	T5S1
	----------------TGGGTAGACAGAGTAATTTCT----------------------------------------------	21	-	5
	----------------TGGGTAGACAGAGTAATTTCTAGAG------------------------------------------	25	1	3
	------------------------CAGAGTAATTTCTAGAGCAGT--------------------------------------	21	-	1
rat	caagccaagaagcaaaTGGGTAGACAGAGTAATTTCTAGAGcagtatcttaatgggggagcagggtctggccacgtgggttgg
	***********************************************************************************
rat	(((.(((.........(((.(((((...((..((((.(((......)))....))))..))...))))).)))..))).))).	0.660 -19.10

rat

chromosome:18:63583528:63583610:-1

intergenic

block775619 [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	0.059	no	no	0.53/0.60	18/23/0.12	0.9	0.8	14	0	6	0	22	-4	5arm_loop_3arm	1	nd	0.37	2	24	6	na	na

		reads	miRBase family seed
seed	-------------------------UCCAGUG-------------------------------------------------------	6	novel
seed	--------------------------CCAGUGA------------------------------------------------------	6	novel
seed	-----------------------UGUCCAG---------------------------------------------------------	5	novel
seed	---------------------------CAGUGAG-----------------------------------------------------	3	novel
seed	------------------------GUCCAGU--------------------------------------------------------	2	novel
seed	----------------------CUGUCCA----------------------------------------------------------	2	novel
		len	cloning frequencies
			T1S1	T2S1	T3S1	T3S2	T5S1	T5S2
	-------------------------TCCAGTGAGCAAGACCAG--------------------------------------------	18	-	-	-	5	-	-
	------------------------GTCCAGTGAGCAAGACCA---------------------------------------------	18	-	-	-	5	-	-
	----------------------CTGTCCAGTGAGCAAGACC----------------------------------------------	19	-	-	2	1	-	-
	--------------------------CCAGTGAGCAAGACCAGA-------------------------------------------	18	-	-	-	1	-	2
	----------------------CTGTCCAGTGAGCAAGACCAGAG------------------------------------------	23	-	-	1	-	-	-
	---------------------GCTGTCCAGTGAGCAAGACC----------------------------------------------	20	-	-	-	1	-	-
	------------------------GTCCAGTGAGCAAGACCAG--------------------------------------------	19	-	-	-	-	-	1
	-----------------------TGTCCAGTGAGCAAGACCA---------------------------------------------	19	1	-	-	-	-	-
	-----------------------TGTCCAGTGAGCAAGACC----------------------------------------------	18	-	-	-	1	-	-
	----------------------CTGTCCAGTGAGCAAGACCA---------------------------------------------	20	-	-	-	-	1	-
	-------------------------TCCAGTGAGCAAGACCAGA-------------------------------------------	19	-	1	-	-	-	-
	---------------------GCTGTCCAGTGAGCAAGAC-----------------------------------------------	19	-	-	1	-	-	-
rat	cctctgttgagtgataaaccagCTGTCCAGTGAGCAAGACCAGAgttgggctcaaggaaggaagcgttgtagctcgcgtccaggggc
	***************************************************************************************
	...................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000005915 ENSRNOG00000004373 Ddx39
rat	((((((.(((((.((((....(((.(((..(((((..(((....)))..))))).)))....))).)))).)))))....)))))).	0.990 -30.90

rat

chromosome:19:26117301:26117387:-1

intergenic

block1413304 [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	0.213	no	no	0.42/0.42	19/19/0.00	0.0	0.0	7	0	5	0	40	-1	5arm_loop	4	nd	0.32	3	12	5	na	na

		reads	miRBase family seed
seed	-----------------------------------------CUUUUCU---------------------------------------------------------------------	12	novel
		len	cloning frequencies
			T1S1	T2S1	T2S2	T5S1	T5S2
	----------------------------------------TCTTTTCTCTCCAGACAGA----------------------------------------------------------	19	2	1	1	7	1
rat	cagtaaagaaagtggggggagtacattacgttttcttcagTCTTTTCTCTCCAGACAGAtcaggtagctagtccaagagaaggtgtgaagggagggtccctcatccttcttttaatg
	*********************************************************************************************************************
rat	((..((((((.(((((((.........((.((..(((((..((.((((((...(((((.........)).)))..))))))))..)))))..)).)))))))))..))))))...))	0.630 -31.70

rat

chromosome:3:140683499:140683615:-1

intergenic

block1469568 [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	0.903	no	no	0.37/0.45	18/23/0.36	0.5	1.8	11	0	2	0	10	-4	3arm	1	nd	0.48	3	14	2	na	na

		reads	miRBase family seed
seed	---------------------------------------GAUAACA----------------------------	9	novel
seed	------------------------------------------AACAGUA-------------------------	3	novel
seed	----------------------------------------AUAACAG---------------------------	1	novel
seed	-------------------------------------------ACAGUAC------------------------	1	miR-101a/101b
		len	cloning frequencies
			T1S1	T5S1
	--------------------------------------TGATAACAGTACTGAGTTG-----------------	19	2	5
	-----------------------------------------TAACAGTACTGAGTTGGCCAACA----------	23	-	2
	--------------------------------------TGATAACAGTACTGAGTTGGCC--------------	22	-	2
	------------------------------------------AACAGTACTGAGTTGGCCAACA----------	22	-	1
	---------------------------------------GATAACAGTACTGAGTTGG----------------	19	-	1
	-----------------------------------------TAACAGTACTGAGTTGGC---------------	18	-	1
rat	tgaaattcagagtaagctgatgaaaagtttcgggttctTGATAACAGTACTGAGTTGGCCAACAtggacatttc
	**************************************************************************
rat	.(((((((...((..((..((....(((.....(((......)))...)))..))..))..))...)).)))))	0.580 -10.10

rat

chromosome:3:76945746:76945819:1

intergenic

novel_Multihit_loopOverlap_nonpairedHIGH (175 loci)

block69701 [novel_Multihit_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	0.506	no	no	0.50/0.50	20/20/1.00	0.0	0.0	1	0	1	0	29	-1	5arm_loop	35	nd	0.35	3	1	1	na	na

		reads	miRBase family seed
seed	------------------------------GUAACAC---------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	-----------------------------TGTAACACAGAGTGTCCCAG---------------------------------------------------------------	20	1
rat	atatgtaacacagagtcccagtgtaaataTGTAACACAGAGTGTCCCAGcgtcaatatgtaacacagagtcttagtgtaaatatgtaacacagagtcccagtgtaaatatgt
	****************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000007131 ENSRNOG00000005097 Cdkl3
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000059040 ENSRNOG00000005097 Cdkl3
rat	((((((.((((.((.((...((((..((((...(((((((((((..((.........))..))))....)))..))))..))))...)))).)).))...))))..))))))	0.660 -19.10

rat

chromosome:10:37561617:37561728:1

Same_strand|Intronic_coding|ENSRNOT00000007131|ENSRNOG00000005097 ## ENSRNOG00000005097|protein_coding|Cdkl3|Cyclin-dependent kinase-like 3 (EC 2.7.11.22) (Serine/threonine protein kinase NKIATRE). [Source:UniProtKB/Swiss-Prot;Acc:Q9JM01] ## {Repeats: trf 559 579 0 class=trf}

block69717 [novel_Multihit_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	0.506	no	no	0.50/0.50	20/20/1.00	0.0	0.0	1	0	1	0	29	-1	5arm_loop	35	nd	0.35	3	1	1	na	na

		reads	miRBase family seed
seed	------------------------------GUAACAC---------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	-----------------------------TGTAACACAGAGTGTCCCAG---------------------------------------------------------------	20	1
rat	atatgtaacacagagtcccagtgtaaataTGTAACACAGAGTGTCCCAGcgtcaatatgtaacacagagtcttagtgtaaatatgtaacacagagtcccagtgtaaatatgt
	****************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000007131 ENSRNOG00000005097 Cdkl3
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000059040 ENSRNOG00000005097 Cdkl3
rat	((((((.((((.((.((...((((..((((...(((((((((((..((.........))..))))....)))..))))..))))...)))).)).))...))))..))))))	0.660 -19.10

rat

chromosome:10:37562327:37562438:1

block178827 [novel_Multihit_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	0.149	no	no	0.43/0.43	21/21/1.00	0.0	0.0	1	0	1	0	24	-3	3arm_loop	13	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------CCUCUUG-------------------------------------	1	novel
		len	cloning frequencies
			T2S1
	--------------------------------------ACCTCTTGGCATAGAACATCA------------------------	21	1
rat	atgtttgaaaagtgacaatacatgtctgagctaaggaaACCTCTTGGCATAGAACATCAttccagcttataatcctgtaaaca
	***********************************************************************************
rat	.((((((..((((........(((((((.(((((((.....))))))).)))).))).......)))).........))))))	0.640 -14.66

rat

chromosome:12:4737251:4737333:-1

intergenic

block188555 [novel_Multihit_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	0.063	no	no	0.57/0.57	23/23/1.00	0.0	0.0	1	0	1	0	26	-1	5arm_loop	14	nd	0.35	2	1	1	na	na

		reads	miRBase family seed
seed	---------------------------CCACAGC-------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	--------------------------CCCACAGCCTTCCATGTCTTCTC----------------------------------------------------------	23	1
rat	gttgttggtgattacacaccctgcatCCCACAGCCTTCCATGTCTTCTCgctgggagtcagagatcatggctgcaggattctcttgtgaaaatcattcttggataac
	***********************************************************************************************************
rat	(((((((((((((.((((......((((..(((((.((..((.(((((....))))).))..))....)))))..)))).....))))..)))))))....))))))	0.930 -29.30

rat

chromosome:12:20431045:20431151:-1

intergenic

block217961 [novel_Multihit_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	0.063	no	no	0.57/0.57	23/23/1.00	0.0	0.0	1	0	1	0	26	-1	5arm_loop	14	nd	0.35	2	1	1	na	na

		reads	miRBase family seed
seed	---------------------------CCACAGC-------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	--------------------------CCCACAGCCTTCCATGTCTTCTC----------------------------------------------------------	23	1
rat	gttgttggtgattacacaccctgcatCCCACAGCCTTCCATGTCTTCTCgctgggagtcagagatcatggctgcaggattctcttgtgaaaatcattcttggataac
	***********************************************************************************************************
rat	(((((((((((((.((((......((((..(((((.((..((.(((((....))))).))..))....)))))..)))).....))))..)))))))....))))))	0.930 -29.30