miR-Intess: classification

other hairpins

block4139 [novel_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	0.470	no	no	0.55/0.55	20/20/1.00	0.0	0.0	1	0	1	0	20	5	3arm	8	nd	0.30	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------UUUGAAU--------------------------------	1	novel
		len	cloning frequencies
			AF16
	-------------------------------------------------GTTTGAATGCAGGCCGTTGG--------------------	20	1
cbriggsae	ttggtggagtgtacgcacgagtcgcttcaaactggtgacgttggcgggaGTTTGAATGCAGGCCGTTGGggtgtaaaagatctgaagaa
	*****************************************************************************************
	---------------------------------------------------------------------------------------------------	NM_074155
	---------------------------------------------------------------------------------------------------	NM_001028773
	---------------------------------------------------------------------------------------------------	NM_001027854
	---------------------------------------------------------------------------------------------------	NM_074150
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001113262
	---------------------------------------------------------------------------------------------------	NM_136816
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001113262
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001113262
cbriggsae	((..((((...((((((((.(((((((((((((.....((....))..)))))))).)).))))))....))))).....))))..)).	0.890 -21.70

cbriggsae

chromosome:chrV:12162601:12162689:1

Opposite_strand|Intronic_non-coding|NM_074155|F47B8.10 ## Opposite_strand|Intronic_coding|NM_001028773|F47B8.14 ## Same_strand|Intronic_coding|NM_001113262|Fib-h ## {Repeats: no}

block4450 [novel_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	0.695	no	no	0.60/0.60	20/20/1.00	0.0	0.0	1	0	1	0	8	20	5arm	3	nd	0.30	4	1	1	na	na

		reads	miRBase family seed
seed	---------UGUCGCG---------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	--------TTGTCGCGGTACTGGAAGCC---------------------------------------------------------------------------------	20	1
cbriggsae	tgaggacgTTGTCGCGGTACTGGAAGCCatcaaagtaggatcaattaggaaaagcactttgaacactgatgagaaagatggtcctctccgtttggacgattcactacaa
	*************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_153821
	-----------------------------------------------------------------------------------------------------------------------	NM_125756
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_204793
	-----------------------------------------------------------------------------------------------------------------------	NM_079593
	-----------------------------------------------------------------------------------------------------------------------	NM_169386
	-----------------------------------------------------------------------------------------------------------------------	NM_176459
	-----------------------------------------------------------------------------------------------------------------------	NM_001016575
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001085944
cbriggsae	((((((.((((((((((....((..((((((....(((..((((..((........))))))...)))........))))))))...))))...)))))))).)).)).	0.590 -22.50

cbriggsae

chromosome:chrX:6635550:6635658:-1

Same_strand|Intronic_non-coding|NM_153821|Prrx1 ## Opposite_strand|Intronic_coding|NM_125756|HEN3 ## Opposite_strand|Intronic_non-coding|NM_079593|pros ## {Repeats: no}

block4823 [novel_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	0.216	no	no	0.67/0.67	21/21/1.00	0.0	0.0	1	0	1	0	11	20	3arm	2	nd	0.24	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------------------GUGGCCG------------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------------------------------------------------------------------------CGTGGCCGTGGAAGAGTGGCT-----------	21	1
cbriggsae	ttgtcctcgtagaaggtattcaaaagattctgccaagcgatcttcaggagtagcagcagcttcaactactgtagcttcgtctggtggtCGTGGCCGTGGAAGAGTGGCTacaggagcaac
	************************************************************************************************************************
	----------------------------------------------------------------------------------------------------------------------------------	NM_070961
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001011629
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001047939
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001013793
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001094367
cbriggsae	(((((((.((((....(((((......((((((...((((((.(((((...(((.((((.........)))).)))...))))).))))))....))))))))))).)))))))).))).	0.750 -36.50

cbriggsae

chromosome:chrX:2137746:2137865:1

Opposite_strand|Intronic_coding|NM_070961|ergo-1 ## Same_strand|Intronic_non-coding|NM_001011629|Mblk-1 ## Same_strand|Intronic_coding|NM_001047939|LOC499407 ## {Repeats: no}

block1460 [novel_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	0.734	no	no	0.48/0.48	21/21/1.00	0.0	0.0	2	0	1	0	8	13	5arm	7	nd	0.29	4	2	1	na	na

		reads	miRBase family seed
seed	---------CUUACGA------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			AF16
	--------GCTTACGACCATATCACGTTG-----------------------------------------------------------------	21	2
cbriggsae	gatgtgatGCTTACGACCATATCACGTTGaatgcacgccatcccgtccgatctggcaagttaagcaacgttgagtccagttagtacttggatcg
	**********************************************************************************************
	--------------------------------------------------------------------------------------------------------	NM_001092591
	--------------------------------------------------------------------------------------------------------	NM_177186
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001030661
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001027534
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001027535
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_066897
cbriggsae	(((.(((((((.(((((((....((((((...((..((((((......))..))))..))....)))))))).)))..)).)))).))).))).	0.500 -20.70

cbriggsae

chromosome:chrIII:8638808:8638901:-1

Opposite_strand|Intronic_non-coding|NM_001092591|MGC81879 ## Same_strand|Intronic_non-coding|NM_001030661|SETD1B ## {Repeats: no}

block1467 [novel_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	0.734	no	no	0.48/0.48	21/21/1.00	0.0	0.0	2	0	1	0	8	13	5arm	7	nd	0.29	4	2	1	na	na

		reads	miRBase family seed
seed	---------CUUACGA------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			AF16
	--------GCTTACGACCATATCACGTTG-----------------------------------------------------------------	21	2
cbriggsae	gatgtgatGCTTACGACCATATCACGTTGaatgcacgccatcccgtccgatctggcaagttaagcaacgttgagtccagttagtacttggatcg
	**********************************************************************************************
	--------------------------------------------------------------------------------------------------------	NM_001092591
	--------------------------------------------------------------------------------------------------------	NM_177186
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001030661
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001027534
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001027535
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_066897
	................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<.	NM_170601
cbriggsae	(((.(((((((.(((((((....((((((...((..((((((......))..))))..))....)))))))).)))..)).)))).))).))).	0.500 -20.70

cbriggsae

chromosome:chrIII:8639745:8639838:-1

Opposite_strand|Intronic_non-coding|NM_001092591|MGC81879 ## Same_strand|Intronic_non-coding|NM_001030661|SETD1B ## Opposite_strand|Boundary_non-coding|NM_170601|SIAE ## {Repeats: no}

block1474 [novel_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	0.734	no	no	0.48/0.48	21/21/1.00	0.0	0.0	2	0	1	0	8	13	5arm	7	nd	0.29	4	2	1	na	na

		reads	miRBase family seed
seed	---------CUUACGA------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			AF16
	--------GCTTACGACCATATCACGTTG-----------------------------------------------------------------	21	2
cbriggsae	gatgtgatGCTTACGACCATATCACGTTGaatgcacgccatcccgtccgatctggcaagttaagcaacgttgagtccagttagtacttggatcg
	**********************************************************************************************
	--------------------------------------------------------------------------------------------------------	NM_001092591
	--------------------------------------------------------------------------------------------------------	NM_177186
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001030661
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001027534
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001027535
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_066897
	................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<.	NM_170601
cbriggsae	(((.(((((((.(((((((....((((((...((..((((((......))..))))..))....)))))))).)))..)).)))).))).))).	0.500 -20.70

cbriggsae

chromosome:chrIII:8640681:8640774:-1

Opposite_strand|Intronic_non-coding|NM_001092591|MGC81879 ## Same_strand|Intronic_non-coding|NM_001030661|SETD1B ## Opposite_strand|Boundary_non-coding|NM_170601|SIAE ## {Repeats: no}

block3249 [novel_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	0.757	no	no	0.48/0.48	21/21/1.00	0.0	0.0	2	0	1	0	9	13	5arm	7	nd	0.29	4	2	1	na	na

		reads	miRBase family seed
seed	----------CUUACGA------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			AF16
	---------GCTTACGACCATATCACGTTG-----------------------------------------------------------------	21	2
cbriggsae	gagaaaaatGCTTACGACCATATCACGTTGaatgcacgccatcccgtccgatctggcaagttaagcaacgttgagtccagttagtacttggatcg
	***********************************************************************************************
	.................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<.	NM_170601
cbriggsae	((...((.((((.(((((((....((((((...((..((((((......))..))))..))....)))))))).)))..)).)))).))...)).	0.690 -18.90

cbriggsae

chromosome:chrUn:4857921:4858015:-1

Opposite_strand|Boundary_non-coding|NM_170601|SIAE ## {Repeats: no}

block3265 [novel_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	0.757	no	no	0.48/0.48	21/21/1.00	0.0	0.0	2	0	1	0	9	13	5arm	7	nd	0.29	4	2	1	na	na

		reads	miRBase family seed
seed	----------CUUACGA------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			AF16
	---------GCTTACGACCATATCACGTTG-----------------------------------------------------------------	21	2
cbriggsae	gagaaaaatGCTTACGACCATATCACGTTGaatgcacgccatcccgtccgatctggcaagttaagcaacgttgagtccagttagtacttggatcg
	***********************************************************************************************
cbriggsae	((...((.((((.(((((((....((((((...((..((((((......))..))))..))....)))))))).)))..)).)))).))...)).	0.690 -18.90

cbriggsae

chromosome:chrUn:5165593:5165687:-1

{Repeats: no}

block3271 [novel_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	0.757	no	no	0.48/0.48	21/21/1.00	0.0	0.0	2	0	1	0	9	13	5arm	7	nd	0.29	4	2	1	na	na

		reads	miRBase family seed
seed	----------CUUACGA------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			AF16
	---------GCTTACGACCATATCACGTTG-----------------------------------------------------------------	21	2
cbriggsae	gagaaaaatGCTTACGACCATATCACGTTGaatgcacgccatcccgtccgatctggcaagttaagcaacgttgagtccagttagtacttggatcg
	***********************************************************************************************
	.................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<.	NM_170601
cbriggsae	((...((.((((.(((((((....((((((...((..((((((......))..))))..))....)))))))).)))..)).)))).))...)).	0.690 -18.90

cbriggsae

chromosome:chrUn:5166289:5166383:-1

Opposite_strand|Boundary_non-coding|NM_170601|SIAE ## {Repeats: no}

novel_lenNOK_shortStem (21 loci)

block3 [novel_lenNOK_shortStem]

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	0.381	no	no	0.61/0.61	18/18/0.00	0.0	0.0	1	0	1	0	4	31	5arm	1	nd	0.17	2	1	1	na	na

		reads	miRBase family seed
seed	-----UCUGAUG-------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	----GTCTGATGCGACTGCTGG---------------------------------------------------------------------------------------	18	1
cbriggsae	tggcGTCTGATGCGACTGCTGGatcatctcgtcgcttagacgctggaactcgaaatcgtcgtcgatgggcggtgcgaatgattgtcgtggcggtggtggtggagcgtcg
	*************************************************************************************************************
	-----------------------------------------------------------------------------------------------------------------------	NM_001011629
	-----------------------------------------------------------------------------------------------------------------------	NM_004525
	-----------------------------------------------------------------------------------------------------------------------	NM_004525
	-----------------------------------------------------------------------------------------------------------------------	NM_059726
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_184109
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_184109
	-----------------------------------------------------------------------------------------------------------------------	NM_018557
	-----------------------------------------------------------------------------------------------------------------------	NM_001107843
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_184109
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_184109
	-----------------------------------------------------------------------------------------------------------------------	NM_074182
	-----------------------------------------------------------------------------------------------------------------------	NM_071760
cbriggsae	.(((((((..(((.((((((((((.(((...((((.....((((.....((((........))))..))))..))))..))).))).))))))).)))..))).)))).	0.490 -37.00

cbriggsae

chromosome:chrI:189795:189903:-1

Opposite_strand|Intronic_non-coding|NM_001011629|Mblk-1 ## Opposite_strand|Intronic_coding|NM_004525|LRP2 ## Same_strand|Intronic_coding|NM_184109|Rtl1 ## {Repeats: no}

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miR-Intess™

block4139 [novel_bulgeHIGH]

block4450 [novel_bulgeHIGH]

block4823 [novel_bulgeHIGH]

block1460 [novel_bulgeHIGH]

block1467 [novel_bulgeHIGH]

block1474 [novel_bulgeHIGH]

block3249 [novel_bulgeHIGH]

block3265 [novel_bulgeHIGH]

block3271 [novel_bulgeHIGH]

block3 [novel_lenNOK_shortStem]