miR-Intess: classification

other hairpins

novel_Multihit_shortStem_randfoldOK_nonpairedHIGH_bulgeHIGH (13 loci)

block1080817 [novel_Multihit_shortStem_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	0.006	no	no	0.65/0.65	20/20/1.00	0.0	0.0	1	0	1	0	2	18	3arm	27	nd	0.35	4	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------------------GGGGAGA--------------	1	novel
		len	cloning frequencies
			T1S1
	------------------------------------------------------------------TGGGGAGAGCGTCTCCACTC--	20	1
rat	ttgagagagaggcagctcaggtgttgcatgcatttggggaactgcaacttccagatgtacagggccTGGGGAGAGCGTCTCCACTCga
	****************************************************************************************
	--------------------------------------------------------------------------------------------------	ENSRNOT00000044322 ENSRNOG00000028669 RGD1565550_predicted
rat	(((((.((((.((..(((((((.(((..(((((((((((.........)))))))))))))).)))))))....)).))))..)))))	1.000 -36.40

rat

chromosome:20:38051909:38051996:-1

block1280540 [novel_Multihit_shortStem_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	0.003	no	no	0.48/0.48	23/23/1.00	0.0	0.0	1	0	1	0	1	22	3arm	14	nd	0.43	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------AUUGCCA----------------	1	novel
		len	cloning frequencies
			T2S2
	----------------------------------------------------------------------------AATTGCCAATGACCAGGGTAACC-	23	1
rat	aggaacctgcagttggcattgatcttggcaccacctactcatgtgtgggtgtcttccagcatggaaaggtggaagtAATTGCCAATGACCAGGGTAACCg
	****************************************************************************************************
rat	.((..((((..(((((((.....(((....((((((..((((((.((((.....))))))))))..)))))))))....)))))))...))))....)).	0.960 -37.70

rat

chromosome:2:108278419:108278518:1

intergenic

block1655473 [novel_Multihit_shortStem_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	0.002	no	no	0.57/0.57	21/21/1.00	0.0	0.0	1	0	1	0	2	9	5arm	18	nd	0.33	4	1	1	na	na

		reads	miRBase family seed
seed	---GGCUGGU-------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	--AGGCTGGTCCCAAGATGGAGT------------------------------------------------------------------------------------	21	1
rat	ggAGGCTGGTCCCAAGATGGAGTagatttggactctcactctcctctctctctctctctctctctctctctctctctctctctctctctttctttctcctatcctcc
	***********************************************************************************************************
rat	(((((.(((....((((.((((.(((...(((............................................)))...))))))).))))....))).)))))	0.900 -16.70

rat

chromosome:4:85762293:85762399:1

intergenic

block1910990 [novel_Multihit_shortStem_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	0.009	no	no	0.70/0.70	20/20/1.00	0.0	0.0	1	0	1	0	0	31	3arm	32	nd	0.42	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------------CACGGCA------------	1	novel
		len	cloning frequencies
			T1S2
	-------------------------------------------------------------------------------------TCACGGCACACCTAGGCCCC	20	1
rat	ggacacctaggccccaccgcacacctaggcccctcggcacacctaggtccctcgggactcctaggcccctcggcacacctaggccTCACGGCACACCTAGGCCCC
	*********************************************************************************************************
rat	((...((((((.....(((....((((((....((((....(((((((((....)))..))))))....))))....)))))).....)))....)))))).)).	0.900 -36.70

rat

chromosome:6:10701991:10702095:-1

intergenic ## {Repeats: trf 2723 2743 0 class=trf}

block2283193 [novel_Multihit_shortStem_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	0.007	no	no	0.35/0.35	20/20/1.00	0.0	0.0	2	0	1	0	2	33	5arm	14	nd	0.45	5	2	1	na	na

		reads	miRBase family seed
seed	---UCCUUGU-------------------------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			T1S1
	--TTCCTTGTGATTTTGTGTCT-------------------------------------------------------------------------------------	20	2
rat	agTTCCTTGTGATTTTGTGTCTattcagctctaaggttctcagtgttaaagaagtctccatgctacctttttcataaggaaccttatgttgaacaaaacaagaattg
	***********************************************************************************************************
rat	((((.(((((...(((((......(((((..(((((((((..(((..((((.(((......)))..))))..)))..))))))))).))))))))))))))))))).	0.670 -26.80

rat

chromosome:8:16024266:16024372:-1

intergenic

block846255 [novel_Multihit_shortStem_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	0.38/0.38	24/24/1.00	0.0	0.0	1	0	1	0	2	23	5arm	22	nd	0.46	4	1	1	na	na

		reads	miRBase family seed
seed	---AUCCUCU------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S2
	--GATCCTCTCATTTTTGTCATTCTC--------------------------------------------------------------------------------------	24	1
rat	tgGATCCTCTCATTTTTGTCATTCTCtcctgcaggagattcagtccttcctctgaggggctactcattcctgcaggtgatttagacactcttgaagggaattctgtctccag
	****************************************************************************************************************
rat	(((((((..(((....((((....((.((((((((((....((((((((....)))))))).....)))))))))).))....))))....)))..)))........)))).	0.980 -43.60

rat

chromosome:1:51012248:51012359:-1

intergenic

block1286264 [novel_Multihit_shortStem_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	0.55/0.55	20/20/1.00	0.0	0.0	3	0	1	0	4	21	5arm	157	nd	0.35	4	3	1	na	na

		reads	miRBase family seed
seed	----------------------------------CUCUGAC---------------------------------------------------------	1	novel
seed	---------------------------------------------------------------CUCUGAC----------------------------	1	novel
seed	-----CUCUGAC--------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	--------------------------------------------------------------GCTCTGACTCTATCCCTAGC----------------	20	1
	----GCTCTGACTCTATCCCTAGC--------------------------------------------------------------------------	20	1
	---------------------------------GCTCTGACTCTATCCCTAGC---------------------------------------------	20	1
rat	caggGCTCTGACTCTATCCCTAGCacgttcaggGCTCTGACTCTATCCCTAGCatgtgcagaGCTCTGACTCTATCCCTAGCatgtgcagagctctga
	**************************************************************************************************
	------------------------------------------------------------------------------------------------------------	ENSRNOT00000017711 ENSRNOG00000012734 NP_001101138.1
rat	((((((((((((.(((....(((...((.((((((((((((.(((....)))...)).)))))))))))).)))....)))...)).)))))))))).	0.790 -37.80

rat

chromosome:2:122363671:122363768:1

Opposite_strand|Intronic_coding|ENSRNOT00000017711|ENSRNOG00000012734 ## ENSRNOG00000012734|protein_coding|NP_001101138.1|DCN1, defective in cullin neddylation 1, domain containing 1 [Source:RefSeq_peptide;Acc:NP_001101138] ## {Repeats: trf 3937 3957 0 class=trf}

block1611404 [novel_Multihit_shortStem_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	0.002	no	no	0.60/0.60	20/20/1.00	0.0	0.0	2	0	1	0	2	29	5arm	32	nd	0.50	4	2	1	na	na

		reads	miRBase family seed
seed	-----------------------------------GAGCCGG----------------------------------------------------------------------	1	novel
seed	---GAGCCGG------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	----------------------------------TGAGCCGGGAACACTGTGAG----------------------------------------------------------	20	1
	--TGAGCCGGGAACACTGTGAG------------------------------------------------------------------------------------------	20	1
rat	tgTGAGCCGGGAACACTGTGAGctgagaacactgTGAGCCGGGAACACTGTGAGccgggaacagtgtgagctgggaacacagtgagctgagaacactgtgagctgagaacac
	****************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000021306 ENSRNOG00000015910 Ifltd1_predicted
rat	(((....(((...(((.(((..((.((..(((((((..((.((.(((((((.........)))))))...)).))..)))))))..)).))..))).)))..)))...))).	1.000 -41.60

rat

chromosome:4:183058511:183058622:-1

Same_strand|Intronic_coding|ENSRNOT00000021306|ENSRNOG00000015910 ## ENSRNOG00000015910|protein_coding|Ifltd1_predicted| ## {Repeats: trf 1737 1757 0 class=trf}

block1611405 [novel_Multihit_shortStem_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	0.002	no	no	0.60/0.60	20/20/1.00	0.0	0.0	2	0	1	0	2	29	5arm	32	nd	0.50	4	2	1	na	na

		reads	miRBase family seed
seed	-----------------------------------GAGCCGG----------------------------------------------------------------------	1	novel
seed	---GAGCCGG------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	----------------------------------TGAGCCGGGAACACTGTGAG----------------------------------------------------------	20	1
	--TGAGCCGGGAACACTGTGAG------------------------------------------------------------------------------------------	20	1
rat	tgTGAGCCGGGAACACTGTGAGctgagaacactgTGAGCCGGGAACACTGTGAGccgggaacagtgtgagctgggaacacagtgagctgagaacactgtgagctgagaacac
	****************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000021306 ENSRNOG00000015910 Ifltd1_predicted
rat	(((....(((...(((.(((..((.((..(((((((..((.((.(((((((.........)))))))...)).))..)))))))..)).))..))).)))..)))...))).	1.000 -41.60

rat

chromosome:4:183058511:183058622:-1

Same_strand|Intronic_coding|ENSRNOT00000021306|ENSRNOG00000015910 ## ENSRNOG00000015910|protein_coding|Ifltd1_predicted| ## {Repeats: trf 9 29 0 class=trf,trf 1769 1789 0 class=trf}

novel_lenNOK_Multihit_shortStem_randfoldOK_nonpairedHIGH_bulgeHIGH (13 loci)

block97435 [novel_lenNOK_Multihit_shortStem_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	0.006	no	no	0.32/0.33	18/19/0.00	0.0	0.5	6	0	1	0	0	22	5arm	16	nd	0.37	4	6	1	na	na

		reads	miRBase family seed
seed	-AGGCAUA----------------------------------------------------------------------------------	6	novel
		len	cloning frequencies
			T5S1
	TAGGCATAAGATGGTAAA------------------------------------------------------------------------	18	3
	TAGGCATAAGATGGTAAAT-----------------------------------------------------------------------	19	3
rat	TAGGCATAAGATGGTAAATataaaagtgtcccttaaagctcaagggacagggcttgccttgaggggcatgtgtggttccgagttctgcct
	******************************************************************************************
rat	.(((((.((..(((....((((...((((((((((((((((........))))))....)))))))))).))))...)))..)).)))))	0.990 -32.10