miR-Intess: classification

other hairpins

block4944 [novel_shortStem_randfoldOK]

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	0.57/0.57	21/21/1.00	0.0	0.0	1	0	1	0	4	10	5arm	2	nd	0.29	3	1	1	na	na

		reads	miRBase family seed
seed	-----UUCCGGU---------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	----TTTCCGGTGCTGACTGGATGG--------------------------------------------------------	21	1
cbriggsae	aaagTTTCCGGTGCTGACTGGATGGcttcttgactcttcttggtcattttttgagaagttgttcgattaatctggaaattt
	*********************************************************************************
	-------------------------------------------------------------------------------------------	NM_129875
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_007789
cbriggsae	.((((((((((...(((.((((..(((((((((((......))))).......))))))..)))).)))..))))))))))	1.000 -26.51

cbriggsae

chromosome:chrX:9410470:9410550:1

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

novel_Multihit_shortStem_nonpairedHIGH_bulgeHIGH (2 loci)

block4622 [novel_Multihit_shortStem_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	0.856	no	no	0.55/0.55	20/20/1.00	0.0	0.0	1	0	1	0	0	17	3arm	49	nd	0.37	4	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------------CGUUCGU------------	1	novel
		len	cloning frequencies
			AF16
	------------------------------------------------------------GCGTTCGTGGTGTAATGGTC	20	1
cbriggsae	actgtcagtccatgtaatcgtttcgttttatttccgttacaatgtaaagagtgaacatgcGCGTTCGTGGTGTAATGGTC
	********************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001030307
cbriggsae	(((((....(((((....(((..((((((((((...((((...)))).))))))).))).)))..)))))....))))).	0.990 -13.30

cbriggsae

chromosome:chrX:15747130:15747209:-1

Same_strand|Intronic_non-coding|NM_001030307|Dkc1 ## {Repeats: no}

block4937 [novel_Multihit_shortStem_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	0.839	no	no	0.55/0.55	20/20/1.00	0.0	0.0	1	0	1	0	3	26	3arm	49	nd	0.35	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------------CGUUCGU---------------	1	novel
		len	cloning frequencies
			AF16
	-------------------------------------------------------------------------------------GCGTTCGTGGTGTAATGGTC---	20	1
cbriggsae	ctgctaaacaaaccaagttgatgagtggtgacgaatggtggggattgcaaatcaaatacgaaaccttgtgatttttttctcaaccGCGTTCGTGGTGTAATGGTCagc
	************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001091421
	----------------------------------------------------------------------------------------------------------------------	NM_019747
	----------------------------------------------------------------------------------------------------------------------	NM_178498
	----------------------------------------------------------------------------------------------------------------------	NM_016530
	----------------------------------------------------------------------------------------------------------------------	NM_001011629
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_177732
cbriggsae	((((((.....((((...(((...(((((((.(((....((((((..(((.((......))....)))..)))))))))))).))))..)))))))....))).))).	0.890 -21.80

cbriggsae

chromosome:chrX:8957982:8958089:1

Same_strand|Intronic_non-coding|NM_001091421|MGC83888 ## Opposite_strand|Intronic_non-coding|NM_019747|Zfp113 ## {Repeats: no}

novel_cloningOK_5varHIGH (2 loci)

block2942 [novel_cloningOK_5varHIGH]

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	0.152	no	no	0.22/0.30	18/27/0.60	2.2	2.4	5	0	1	0	7	0	3arm	2	nd	0.18	2	5	1	na	na

		reads	miRBase family seed
seed	----------------------------------------------------GUAAUUA------------------------	3	novel
seed	-------------------------------------------------------AUUAUAG---------------------	1	novel
seed	--------------------------------------------------UUGUAAU--------------------------	1	novel
		len	cloning frequencies
			AF16
	---------------------------------------------------TGTAATTATAGGGTTTTTAGTAG---------	23	1
	-------------------------------------------------CTTGTAATTATAGGGTTTTTAGTAGCT-------	27	1
	------------------------------------------------------AATTATAGGGTTTTTAGTAGCT-------	22	1
	---------------------------------------------------TGTAATTATAGGGTTTTT--------------	18	1
	---------------------------------------------------TGTAATTATAGGGTTTTTAGTA----------	22	1
cbriggsae	ttgatgatcttactaatgtagctatgatagtttaattaagaatatataaCTTGTAATTATAGGGTTTTTAGTAGCTttgttag
	***********************************************************************************
cbriggsae	.((((((..(((((((...((((...((((((....((((.........)))).))))))..)))).)))))))..)))))).	0.940 -13.90

cbriggsae

chromosome:chrM:7359:7441:-1

{Repeats: no}

block3113 [novel_cloningOK_5varHIGH]

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	0.152	no	no	0.22/0.30	18/27/0.60	2.2	2.4	5	0	1	0	7	0	3arm	2	nd	0.18	2	5	1	na	na

		reads	miRBase family seed
seed	----------------------------------------------------GUAAUUA------------------------	3	novel
seed	-------------------------------------------------------AUUAUAG---------------------	1	novel
seed	--------------------------------------------------UUGUAAU--------------------------	1	novel
		len	cloning frequencies
			AF16
	---------------------------------------------------TGTAATTATAGGGTTTTTAGTAG---------	23	1
	-------------------------------------------------CTTGTAATTATAGGGTTTTTAGTAGCT-------	27	1
	------------------------------------------------------AATTATAGGGTTTTTAGTAGCT-------	22	1
	---------------------------------------------------TGTAATTATAGGGTTTTT--------------	18	1
	---------------------------------------------------TGTAATTATAGGGTTTTTAGTA----------	22	1
cbriggsae	ttgatgatcttactaatgtagctatgatagtttaattaagaatatataaCTTGTAATTATAGGGTTTTTAGTAGCTttgttag
	***********************************************************************************
cbriggsae	.((((((..(((((((...((((...((((((....((((.........)))).))))))..)))).)))))))..)))))).	0.940 -13.90

cbriggsae

chromosome:chrUn:4221422:4221504:-1

{Repeats: no}

novel_cloningOK_nonpairedHIGH_bulgeHIGH (2 loci)

block2015 [novel_cloningOK_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	0.681	no	no	0.35/0.35	20/20/1.00	0.0	0.0	5	0	1	0	8	14	5arm	1	nd	0.35	4	5	1	na	na

		reads	miRBase family seed
seed	---------UUUUCAC------------------------------------------------------------------------------	5	novel
		len	cloning frequencies
			AF16
	--------TTTTTCACAGAGTCAATAGG------------------------------------------------------------------	20	5
cbriggsae	tttgacaaTTTTTCACAGAGTCAATAGGaagttttgctaatttttcaactaattgtaagttcactaaatttaaactcaaaaaaatttttcgaat
	**********************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_020714
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_060105
cbriggsae	(((((.(((((((....((((...((((((..(((((.((((........)))))))))))).))).......))))..)))))))..))))).	0.800 -8.90

cbriggsae

chromosome:chrIV:2639177:2639270:-1

Same_strand|Intronic_non-coding|NM_020714|ZNF490 ## {Repeats: no}

block2550 [novel_cloningOK_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	0.939	no	no	0.43/0.43	21/21/1.00	0.0	0.0	9	0	1	0	17	5	3arm	1	nd	0.38	4	9	1	na	na

		reads	miRBase family seed
seed	---------------------------------------CGAUAAG------------------------------	9	novel
		len	cloning frequencies
			AF16
	--------------------------------------TCGATAAGTATCCAGTCAGTG-----------------	21	9
cbriggsae	gcttgttctgaaacgtatttttgaaatgtttttgctaaTCGATAAGTATCCAGTCAGTGtccattttaattgcagc
	****************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_069173
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001028426
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001028425
cbriggsae	((.(((.((((...((((((((((...((....))...)))).))))))....))))..............)))))	0.850 -8.16

cbriggsae

chromosome:chrIV:4024558:4024633:1

Same_strand|Intronic_coding|NM_069173|Y73F4A.1 ## {Repeats: no}

novel_lenNOK_5varHIGH_loopOverlap (2 loci)

block2953 [novel_lenNOK_5varHIGH_loopOverlap]

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	0.060	no	no	0.28/0.29	18/21/0.50	1.5	0.0	2	0	1	0	19	-3	3arm	2	nd	0.22	3	2	1	na	na

		reads	miRBase family seed
seed	------------------------------------------AGAAUUG--------------------------------	1	novel
seed	---------------------------------------------AUUGUUG-----------------------------	1	novel
		len	cloning frequencies
			AF16
	--------------------------------------------AATTGTTGACTGTTAATC-------------------	18	1
	-----------------------------------------AAGAATTGTTGACTGTTAATC-------------------	21	1
cbriggsae	gttttgaggtaactcgtagtttttaagagttagtttaattaAAGAATTGTTGACTGTTAATCaaaaggtatacctcttaat
	*********************************************************************************
cbriggsae	(((..(((((((((........((((.((((((..(((((....))))))))))).))))......))).))))))..)))	0.970 -15.44

cbriggsae

chromosome:chrM:12384:12464:-1

{Repeats: no}

block3129 [novel_lenNOK_5varHIGH_loopOverlap]

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	0.060	no	no	0.28/0.29	18/21/0.50	1.5	0.0	2	0	1	0	19	-3	3arm	2	nd	0.22	3	2	1	na	na

		reads	miRBase family seed
seed	------------------------------------------AGAAUUG--------------------------------	1	novel
seed	---------------------------------------------AUUGUUG-----------------------------	1	novel
		len	cloning frequencies
			AF16
	--------------------------------------------AATTGTTGACTGTTAATC-------------------	18	1
	-----------------------------------------AAGAATTGTTGACTGTTAATC-------------------	21	1
cbriggsae	gttttgaggtaactcgtagtttttaagagttagtttaattaAAGAATTGTTGACTGTTAATCaaaaggtatacctcttaat
	*********************************************************************************
cbriggsae	(((..(((((((((........((((.((((((..(((((....))))))))))).))))......))).))))))..)))	0.970 -15.44

cbriggsae

chromosome:chrUn:4430354:4430434:-1

{Repeats: no}

novel_lenNOK_Multihit_loopOverlap (2 loci)

block758 [novel_lenNOK_Multihit_loopOverlap]

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	0.238	no	no	0.62/0.62	26/26/0.00	0.0	0.0	2	0	1	0	6	-3	3arm_loop	12	nd	0.23	2	2	1	na	na

		reads	miRBase family seed
seed	---------------------------------------GUGGGAC------------------------	2	novel
		len	cloning frequencies
			AF16
	--------------------------------------GGTGGGACGGATTGAGCCATGGCGAT------	26	2
cbriggsae	agacgatcttggcgtttggttgggtttggatgtctcctGGTGGGACGGATTGAGCCATGGCGATggtttg
	**********************************************************************
	--------------------------------------------------------------------------------	NM_071091
	--------------------------------------------------------------------------------	NM_004845
cbriggsae	((((.(((...((...(((((.((((....((((.((....)))))))))).)))))..))))).)))).	0.680 -19.40