miR-Intess: classification

other hairpins

novel_Multihit_randfoldOK_nonpairedHIGH_bulgeHIGH (370 loci)

block1773291 [novel_Multihit_randfoldOK_nonpairedHIGH_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	0.68/0.71	21/22/1.00	0.5	1.0	4	0	2	0	23	6	5arm	23	nd	0.32	4	4	2	na	na

		reads	miRBase family seed
seed	-------------------------UGCCCAC--------------------------------------------------------------------------------------	1	novel
seed	------------------------------------------------------------CUGCCCA---------------------------------------------------	1	novel
seed	-------------------------------------------------------------UGCCCAC--------------------------------------------------	1	novel
seed	------------------------CUGCCCA---------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S2	T3S1
	-----------------------------------------------------------CCTGCCCACTGTCAGGGTCCC--------------------------------------	21	1	-
	------------------------------------------------------------CTGCCCACTGTCAGGGTCCCTG------------------------------------	22	-	1
	-----------------------CCTGCCCACTGTCAGGGTCCC--------------------------------------------------------------------------	21	1	-
	------------------------CTGCCCACTGTCAGGGTCCCTG------------------------------------------------------------------------	22	-	1
rat	cagggtccctgccccagaccacaCCTGCCCACTGTCAGGGTCCCTGccccagacccacaCCTGCCCACTGTCAGGGTCCCTGccccagactcacacctgctcactgtcagggtccctg
	**********************************************************************************************************************
rat	(((((.(((((...(((....((..((....(((.(((((.(((((...(((...............))).))))).)))))...))).....))..))....))).))))).)))))	0.420 -40.06

rat

chromosome:5:127251736:127251853:-1

intergenic ## {Repeats: trf 78 101 0 class=trf}

block1773292 [novel_Multihit_randfoldOK_nonpairedHIGH_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	0.68/0.71	21/22/1.00	0.5	1.0	4	0	2	0	23	6	5arm	23	nd	0.32	4	4	2	na	na

		reads	miRBase family seed
seed	-------------------------UGCCCAC--------------------------------------------------------------------------------------	1	novel
seed	------------------------------------------------------------CUGCCCA---------------------------------------------------	1	novel
seed	-------------------------------------------------------------UGCCCAC--------------------------------------------------	1	novel
seed	------------------------CUGCCCA---------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S2	T3S1
	-----------------------------------------------------------CCTGCCCACTGTCAGGGTCCC--------------------------------------	21	1	-
	------------------------------------------------------------CTGCCCACTGTCAGGGTCCCTG------------------------------------	22	-	1
	-----------------------CCTGCCCACTGTCAGGGTCCC--------------------------------------------------------------------------	21	1	-
	------------------------CTGCCCACTGTCAGGGTCCCTG------------------------------------------------------------------------	22	-	1
rat	cagggtccctgccccagaccacaCCTGCCCACTGTCAGGGTCCCTGccccagacccacaCCTGCCCACTGTCAGGGTCCCTGccccagactcacacctgctcactgtcagggtccctg
	**********************************************************************************************************************
rat	(((((.(((((...(((....((..((....(((.(((((.(((((...(((...............))).))))).)))))...))).....))..))....))).))))).)))))	0.420 -40.06

rat

chromosome:5:127251736:127251853:-1

intergenic ## {Repeats: trf 114 137 0 class=trf}

block1773300 [novel_Multihit_randfoldOK_nonpairedHIGH_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	0.71/0.71	21/21/1.00	0.0	0.0	1	0	1	0	13	8	3arm	22	nd	0.52	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------CUGCCCA--------------------------	1	novel
		len	cloning frequencies
			T1S2
	----------------------------------------------------------CCTGCCCACTGTCAGGGTCCC-------------	21	1
rat	gggtccctgccccagacccacacctgctcactgtcagggtccctacctcagacccacaCCTGCCCACTGTCAGGGTCCCtaccccagaccca
	********************************************************************************************
rat	(((((.........((((((((...((....(((..(((((.........))))))))...))....)))..))))).........))))).	0.590 -26.07

rat

chromosome:5:127252227:127252318:-1

intergenic ## {Repeats: trf 546 567 0 class=trf}

novel_lenNOK_Multihit_shortStem_nonpairedHIGH (370 loci)

block1665 [novel_lenNOK_Multihit_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	0.236	no	no	0.42/0.44	18/19/0.00	0.0	0.5	2	0	1	0	2	37	3arm	13	nd	0.42	3	2	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------------------------UUUCCAA-------------	2	novel
		len	cloning frequencies
			T1S1
	-------------------------------------------------------------------------------------------------TTTTCCAAAAGGGGGGAAA--	19	1
	-------------------------------------------------------------------------------------------------TTTTCCAAAAGGGGGGAA---	18	1
rat	ccatagttaactcttgataagtttgtttaacttgttggaacttgtctatgatctttctaaaagaatcattactgttttgaatcatgctaaacaaaacTTTTCCAAAAGGGGGGAAAgg
	**********************************************************************************************************************
rat	((....((..(((((((.(((((((((((...((((..(((..((..((((((((.....)))).)))).)).)))..))..))...)))))))).))).))...)))))..))..))	0.770 -20.60

rat

chromosome:10:3756656:3756773:-1

intergenic

block7417 [novel_lenNOK_Multihit_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	0.507	no	no	0.56/0.56	18/18/0.00	0.0	0.0	1	0	1	0	4	20	3arm	11	nd	0.39	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------------------GCGCUCC--------------	1	novel
		len	cloning frequencies
			T3S2
	--------------------------------------------------------------------AGCGCTCCTGCAAACATG----	18	1
rat	ctcctcagaagtctgcttgattctgttagggtaagaggagggaggtggccttctctttctgagctgatAGCGCTCCTGCAAACATGgtga
	******************************************************************************************
	........................................................................................>>>>>>>>>>>>	ENSRNOT00000031538 ENSRNOG00000021511
rat	.((.(((...((.(((..((..(((((((((.(((((((((.......))))))))).))...)))))))...))..))).)).))).))	0.810 -24.50

rat

chromosome:10:15217344:15217433:-1

Same_strand|Boundary_non-coding|ENSRNOT00000031538|ENSRNOG00000021511 ## ENSRNOG00000021511|pseudogene||

block84149 [novel_lenNOK_Multihit_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	0.277	no	no	0.58/0.58	19/19/0.00	0.0	0.0	2	0	1	0	1	30	5arm	11	nd	0.32	3	2	1	na	na

		reads	miRBase family seed
seed	--GAAUCCC---------------------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			T5S2
	-GGAATCCCACCTCATCCCA----------------------------------------------------------------------------------	19	2
rat	gGGAATCCCACCTCATCCCAtcttttaagtgtaaatggtttatgttttggtacaaccagaaaatagcagggtactgaatcaggagaggttgtgactgtctca
	******************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000005283 ENSRNOG00000003971 Gosr1
rat	((((.((.((((((.(((.....((((...(((....(((....((((((.....))))))...)))....)))))))...))))))).)).))...)))).	0.600 -23.10

rat

chromosome:10:67433264:67433365:1

block135149 [novel_lenNOK_Multihit_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	0.452	no	no	0.32/0.32	19/19/0.00	0.7	0.7	3	0	2	0	4	30	5arm	12	nd	0.32	3	3	2	na	na

		reads	miRBase family seed
seed	-----UGGUUAA---------------------------------------------------------------------------------------------------	2	novel
seed	-------GUUAAUG-------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1	T3S2
	----CTGGTTAATGATAACAATG----------------------------------------------------------------------------------------	19	-	2
	------GGTTAATGATAACAATGCA--------------------------------------------------------------------------------------	19	1	-
rat	aagaCTGGTTAATGATAACAATGCAtcgtaaaaccttcagaaggaaaaagtgttttgtggaccattttttttttgtgtgtgtgtgtgtggcagttttaagttattagtttt
	***************************************************************************************************************
rat	((((((((.((((...(((..(((........((...((.((((((((((((.((....)).)))))))))))).))...)).......))))))....))))))))))))	0.980 -19.96

rat

chromosome:11:75632128:75632238:-1

intergenic

block139530 [novel_lenNOK_Multihit_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	0.015	no	no	0.61/0.61	18/18/0.00	0.0	0.0	1	0	1	0	3	25	5arm	24	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	----CCUGUAG------------------------------------------------------------------------------	1	miR-10b
		len	cloning frequencies
			T2S2
	---CCCTGTAGAGAAGGCCCT--------------------------------------------------------------------	18	1
rat	ggaCCCTGTAGAGAAGGCCCTtcaaaatgccaaactagacaagtcacagatccatgatattgtcttggtaggttgttctaccaggatcc
	*****************************************************************************************
rat	(((.(((((((((...(((........(((((....((((((((((........)))).))))))))))))))..)))))).))).)))	0.880 -26.10

rat

chromosome:11:83513782:83513870:-1

intergenic

block174752 [novel_lenNOK_Multihit_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	0.062	no	no	0.72/0.72	18/18/0.00	0.0	0.0	2	0	1	0	4	21	5arm	23	nd	0.44	3	2	1	na	na

		reads	miRBase family seed
seed	-----GAGCACC----------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			T4S1
	----GGAGCACCCCACCCAGTC------------------------------------------------------------------	18	2
rat	agagGGAGCACCCCACCCAGTCcacctgtcctctctgagtgggagcacctcacccagtccacctgtcctctctgagtgggagcacctc
	****************************************************************************************
rat	.((((..((..(((((.(((..............(((.(((((.....))))).)))..............))).))))).)).))))	0.920 -28.69

rat

chromosome:11:84774258:84774345:1

intergenic ## {Repeats: trf 1431 1449 0 class=trf}

block178720 [novel_lenNOK_Multihit_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	0.069	no	no	0.37/0.37	19/19/0.00	0.0	0.0	1	0	1	0	1	18	3arm	36	nd	0.42	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------------AGCUUAA------------	1	novel
		len	cloning frequencies
			T1S2
	--------------------------------------------------------------TAGCTTAATTAGACAGCAG-	19	1
rat	agctgcgaacctgaggacgtggacttcatggtcattttctcatgagaaagtaactttgtttaTAGCTTAATTAGACAGCAGc
	**********************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000061414 ENSRNOG00000039967
rat	.(((((....((((((..((((((.....(((.(((((((....))))))).)))..))))))..))...))))...)))))	0.540 -21.10