miR-Intess: classification

other hairpins

block4490 [novel]

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	0.436	no	no	0.67/0.67	21/21/1.00	0.0	0.0	1	0	1	0	11	20	3arm	2	nd	0.19	2	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------------------GUGGCCG------------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------------------------------------------------------------------------CGTGGCCGTGGAAGAGTGGCT-----------	21	1
cbriggsae	ttgtccttgtagaagatattcaaaagattatgccaagcgatcttcagaagtagcagcagcttcgactactctagcttcgtctggtggtCGTGGCCGTGGAAGAGTGGCTacagaagcaac
	************************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_129875
	----------------------------------------------------------------------------------------------------------------------------------	NM_007789
cbriggsae	((((..((((((....(((((......(((((((..((((((.(((((...(((((.((.........)))).)))...))))).))))))))).))))..))))).))))))..)))).	0.700 -31.00

cbriggsae

chromosome:chrX:9409221:9409340:-1

Same_strand|Intronic_non-coding|NM_129875|ARA4 ## Opposite_strand|Intronic_non-coding|NM_007789|Ncan ## {Repeats: no}

block4497 [novel]

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	0.458	no	no	0.52/0.52	21/21/1.00	0.0	0.0	2	0	1	0	16	6	5arm	2	nd	0.29	3	2	1	na	na

		reads	miRBase family seed
seed	-----------------AUGGAAG----------------------------------------------------------------------	2	novel
		len	cloning frequencies
			AF16
	----------------GATGGAAGCTGGTCGTCAGAT---------------------------------------------------------	21	2
cbriggsae	caatgagagatggaatGATGGAAGCTGGTCGTCAGATcgttgggggcggagtcaaaagtcttgggacgaatgcgtcatggtgagagagcgttgg
	**********************************************************************************************
	--------------------------------------------------------------------------------------------------------	NM_007789
	--------------------------------------------------------------------------------------------------------	NM_001047210
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_076367
cbriggsae	(((((.........((.((((..((...(((((((((..((((........))))..))))...)))))..)).)))).)).......))))).	0.420 -20.49

cbriggsae

chromosome:chrX:9574479:9574572:-1

Opposite_strand|Intronic_non-coding|NM_007789|Ncan ## Same_strand|Intronic_coding|NM_076367|atg-16.1 ## {Repeats: no}

block4720 [novel]

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	0.698	no	no	0.52/0.52	21/21/1.00	0.0	0.0	1	0	1	0	17	1	5arm	1	nd	0.10	2	1	1	na	na

		reads	miRBase family seed
seed	------------------UGGAUUG--------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	-----------------GTGGATTGTACGCAGGGATAG-------------------------------------------------------	21	1
cbriggsae	cgatgatcccttgttttGTGGATTGTACGCAGGGATAGagaagtttgtctcgatgcagacggaatgtttcacaaaatcggccgatgcttattg
	*********************************************************************************************
	-------------------------------------------------------------------------------------------------------	NM_203923
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001111199
	-------------------------------------------------------------------------------------------------------	NM_001030661
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001003666
cbriggsae	((((((((.((.((((((((((((((..(((((((((((....))))))))..)))..)))).....)))))))))).))..))...))))))	0.630 -20.40

cbriggsae

chromosome:chrX:18759447:18759539:-1

Opposite_strand|Intronic_non-coding|NM_203923|abcb4 ## Same_strand|Intronic_non-coding|NM_001111199|zgc:173710 ## Same_strand|Intronic_coding|NM_001003666|Zfp457 ## {Repeats: no}

block4807 [novel]

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	0.62/0.62	21/21/1.00	0.0	0.0	2	0	1	0	11	25	3arm	1	nd	0.24	2	2	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------CAUUUCG------------------------	2	novel
		len	cloning frequencies
			AF16
	-------------------------------------------------------------------------------GCATTTCGACAGGCGGTCTCG-----------	21	2
cbriggsae	tcaagttgtgagactgcttcttcctgagcattctttgggccacttccgctattcagcggggactggaacactcggacggGCATTTCGACAGGCGGTCTCGagaagatttgg
	***************************************************************************************************************
	-------------------------------------------------------------------------------------------------------------------------	NM_001089360
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_007473
	-------------------------------------------------------------------------------------------------------------------------	NM_007496
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001011629
	-------------------------------------------------------------------------------------------------------------------------	NM_001084210
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_134696
	-------------------------------------------------------------------------------------------------------------------------	NM_103590
cbriggsae	.((((((.(((((((((((..((..((((..(((.((..(((.(((((((....)))))))..)))..))...)))...)).))..)).)))))))))))....)))))).	0.430 -37.70

cbriggsae

chromosome:chrX:1329867:1329977:1

Opposite_strand|Intronic_coding|NM_001089360|zgc:162345 ## Same_strand|Intronic_non-coding|NM_007473|Aqp7 ## Opposite_strand|Intronic_non-coding|NM_007496|Zfhx3 ## Same_strand|Intronic_coding|NM_134696|CG2839 ## {Repeats: no}

block4861 [novel]

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	0.223	no	no	0.55/0.55	22/22/1.00	0.0	0.0	1	0	1	0	5	26	3arm	1	nd	0.23	2	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------------UCCGGUA-------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------------------------------------------------------------------GTCCGGTACGTGTAAGGGTTGT-----	22	1
cbriggsae	gcctcgcggtcatttcttgcagtatcaattgtcccacgttgttagtgtattgcggaagagccctgatgatttctgtgggggtGTCCGGTACGTGTAAGGGTTGTtgagg
	*************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001105250
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_004796
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_138970
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001087279
	-----------------------------------------------------------------------------------------------------------------------	NM_166414
cbriggsae	.(((((....((.(((((((((((((.((..((((((((..((((.((.((.....)).)).))))..))....))))))..))..))))).)))))))).)).)))))	0.480 -31.80

cbriggsae

chromosome:chrX:5118605:5118713:1

Same_strand|Intronic_non-coding|NM_001105250|NRXN3 ## Opposite_strand|Intronic_coding|NM_166414|Act57B ## {Repeats: no}

block4891 [novel]

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	0.483	no	no	0.38/0.38	21/21/1.00	0.0	0.0	1	0	1	0	7	1	3arm	1	nd	0.29	2	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------UUUUGAG--------------------	1	novel
		len	cloning frequencies
			AF16
	------------------------------------------------GTTTTGAGACTAGCTTCCAAT-------	21	1
cbriggsae	attgatcctactttgatggcttccagtaccgcgacaacgtcctcattcGTTTTGAGACTAGCTTCCAATacttcaa
	****************************************************************************
	--------------------------------------------------------------------------------------	NM_153821
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_125756
	--------------------------------------------------------------------------------------	NM_204793
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_079593
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_169386
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_176459
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001016575
	--------------------------------------------------------------------------------------	NM_001085944
cbriggsae	.((((.......(((..((((...(((....(((.((((........)))))))..)))))))..)))....))))	0.600 -10.50

cbriggsae

chromosome:chrX:6635614:6635689:1

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

block5131 [novel]

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	0.061	no	no	0.60/0.60	20/20/1.00	0.0	0.0	1	0	1	0	26	5	5arm	1	nd	0.15	1	1	1	na	na

		reads	miRBase family seed
seed	---------------------------GCCGAUG--------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	--------------------------TGCCGATGTCGGCTTGGGTT--------------------------------------------------------------------	20	1
cbriggsae	ttttataaatcctccgacgagagccgTGCCGATGTCGGCTTGGGTTgtaccatctcgaaatccggctataaccaggtccacatctgcattgatctgtatcgtaggttcatggag
	******************************************************************************************************************
cbriggsae	.(((((.((.(((.(((..(((...((((.(((((.(((((.(((((((((............)).)))))))))))).))))).))))...)))...))).))))).))))).	0.470 -34.40

cbriggsae

chromosome:chrX:15341197:15341310:1

{Repeats: no}

novel_nonpairedHIGH (48 loci)

block152 [novel_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	0.680	no	no	0.35/0.35	20/20/1.00	0.0	0.0	1	0	1	0	10	9	3arm	1	nd	0.40	3	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------UGCAACU----------------------	1	novel
		len	cloning frequencies
			AF16
	-------------------------------------------------------------------TTGCAACTTAGGTATGAATG----------	20	1
cbriggsae	agaactatggttgttttttttctgtttcagtgatgaaatttacaatatttaatactattttcctcgaTTGCAACTTAGGTATGAATGacgatttcta
	*************************************************************************************************
	-----------------------------------------------------------------------------------------------------------	NM_001087279
	-----------------------------------------------------------------------------------------------------------	NM_001099171
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_176035
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_205985
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_205986
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_102365
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001084127
cbriggsae	((((..((.((..(((..(((..(((.((((((.((((....................)))).)).)))).)))..)))...)))..)).)))))).	0.800 -12.45

cbriggsae

chromosome:chrI:7961992:7962088:-1

Opposite_strand|Intronic_non-coding|NM_001087279|fbxl5 ## Same_strand|Intronic_coding|NM_176035|nAcRalpha-34E ## {Repeats: no}

block267 [novel_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	0.084	no	no	0.38/0.38	21/21/1.00	0.0	0.0	1	0	1	0	10	1	5arm	1	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	-----------AAUGAGU--------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	----------AAATGAGTGAAAACGTTCGCT-------------------------------------------	21	1
cbriggsae	ggagctaggcAAATGAGTGAAAACGTTCGCTacgttttggcgggtttttttgtttttcctggccgcgaattccg
	**************************************************************************
	------------------------------------------------------------------------------------	NM_057259
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_057282
	------------------------------------------------------------------------------------	NM_008855
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_061553
	------------------------------------------------------------------------------------	NM_067080
cbriggsae	(((((((((.....(((..((((..(((((((.....)))))))..))))..)))..)))))).......))).	0.990 -22.11

cbriggsae

chromosome:chrI:1517089:1517162:1

Opposite_strand|Intronic_non-coding|NM_057259|l(2)37Cc ## Same_strand|Intronic_non-coding|NM_057282|RpLP1 ## Opposite_strand|Intronic_coding|NM_067080|Y66D12A.21 ## {Repeats: no}

block286 [novel_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	0.351	no	no	0.50/0.50	20/20/1.00	0.0	0.0	1	0	1	0	10	17	3arm	2	nd	0.35	3	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------AAUAGCA----------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------------------------------------------------------CAATAGCAGTCTGGGCATCT----------	20	1
cbriggsae	gttatccaccggaaccgagatttcattgaatgcagagaacggaagccttttgtggtgttccgatagtagtCAATAGCAGTCTGGGCATCTtgtctgaaca
	****************************************************************************************************
	--------------------------------------------------------------------------------------------------------------	NM_080376
	--------------------------------------------------------------------------------------------------------------	NM_166030
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_131292
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_058465
	--------------------------------------------------------------------------------------------------------------	NM_025451
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_005379
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_005235
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001042599
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_170794
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001123230
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001004111
cbriggsae	(((....((.(((.((.(((((..(((((.(((......((((((((......))).)))))...))).)))))...))))).))..))).))...))).	0.940 -24.20

cbriggsae

chromosome:chrI:2681756:2681855:1

Opposite_strand|Intronic_coding|NM_080376|mam ## Same_strand|Intronic_coding|NM_131292|col2a1a ## Same_strand|Intronic_non-coding|NM_058465|src-1 ## Opposite_strand|Intronic_non-coding|NM_025451|Camk2n1 ## {Repeats: no}

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other hairpins:

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miR-Intess™

block4490 [novel]

block4497 [novel]

block4720 [novel]

block4807 [novel]

block4861 [novel]

block4891 [novel]

block5131 [novel]

block152 [novel_nonpairedHIGH]

block267 [novel_nonpairedHIGH]

block286 [novel_nonpairedHIGH]