miR-Intess: classification

other hairpins

block7 [novel_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	0.338	no	no	0.50/0.50	22/22/1.00	0.0	0.0	2	0	1	0	12	0	5arm	3	nd	0.36	4	2	1	na	na

		reads	miRBase family seed
seed	-------------UAUCCCA--------------------------------------------------------	2	novel
		len	cloning frequencies
			AF16
	------------GTATCCCAAGTGTCTCTTACGG------------------------------------------	22	2
cbriggsae	gcattgggaccaGTATCCCAAGTGTCTCTTACGGttccaccagttttatcggggcgaggctactgagaccaatagc
	****************************************************************************
	--------------------------------------------------------------------------------------	NM_001011629
	--------------------------------------------------------------------------------------	NM_001051257
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_026191
	--------------------------------------------------------------------------------------	NM_067594
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_184109
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_184109
cbriggsae	(((((((...(((((.((....((((((..((((.....)).))......)))))).)).)))))...))))).))	0.740 -20.30

cbriggsae

chromosome:chrI:421218:421293:-1

Opposite_strand|Intronic_non-coding|NM_001011629|Mblk-1 ## Opposite_strand|Intronic_coding|NM_001051257|Os01g0834700 ## Same_strand|Intronic_non-coding|NM_026191|Dhx40 ## Same_strand|Intronic_coding|NM_184109|Rtl1 ## {Repeats: no}

block128 [novel_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	0.091	no	no	0.38/0.38	21/21/1.00	0.0	0.0	1	0	1	0	11	0	3arm	5	nd	0.43	4	1	1	na	na

		reads	miRBase family seed
seed	------------------------------------UUGAGAU------------------------	1	novel
		len	cloning frequencies
			AF16
	-----------------------------------GTTGAGATGGTAGTTAACAGT-----------	21	1
cbriggsae	gaaccgtgactgctatgcaacccttggcttcttccGTTGAGATGGTAGTTAACAGTggattggttca
	*******************************************************************
	-----------------------------------------------------------------------------	NM_013927
cbriggsae	((((((...(((((..((.(((((..((.......))..))..))).))....)))))..)))))).	0.990 -19.40

cbriggsae

chromosome:chrI:5952653:5952719:-1

Opposite_strand|Intronic_non-coding|NM_013927|Cngb3 ## {Repeats: no}

block195 [novel_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	0.095	no	no	0.38/0.38	21/21/1.00	0.0	0.0	1	0	1	0	11	0	3arm	5	nd	0.43	4	1	1	na	na

		reads	miRBase family seed
seed	------------------------------------UUGAGAU------------------------	1	novel
		len	cloning frequencies
			AF16
	-----------------------------------GTTGAGATGGTAGTTAACAGT-----------	21	1
cbriggsae	gaaccgtgactgctatgcaacccttggctccttccGTTGAGATGGTAGTTAACAGTggattggttca
	*******************************************************************
	-----------------------------------------------------------------------------	NM_067080
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_004098
cbriggsae	((((((...(((((..((.(((((..((.......))..))..))).))....)))))..)))))).	0.990 -19.40

cbriggsae

chromosome:chrI:9350765:9350831:-1

Opposite_strand|Intronic_coding|NM_067080|Y66D12A.21 ## Same_strand|Intronic_non-coding|NM_004098|EMX2 ## {Repeats: no}

block227 [novel_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	0.390	no	no	0.50/0.50	20/20/1.00	0.0	0.0	1	0	1	0	33	2	3arm	1	nd	0.35	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------AAUUAGG---------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	-------------------------------------------------------------------GAATTAGGACTGGAGATGGG---------------------------------	20	1
cbriggsae	tcgcaaaatgaacaagttgggaggggagtgtttatttatcgctcgggccgagtcaagaggaaaaattGAATTAGGACTGGAGATGGGaaaacaatacaaaacacaattcaagaaaacgaa
	************************************************************************************************************************
	----------------------------------------------------------------------------------------------------------------------------------	NM_001093196
	----------------------------------------------------------------------------------------------------------------------------------	NM_061066
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_067049
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_212577
	----------------------------------------------------------------------------------------------------------------------------------	NM_009594
cbriggsae	(((.....(((....((((.........(((((.((((((..((((.((...((((.........))))....)).)))).)))))).)))))..........)))))))......))).	0.480 -18.71

cbriggsae

chromosome:chrI:10467962:10468081:-1

Opposite_strand|Intronic_coding|NM_001093196|syk ## Opposite_strand|Intronic_non-coding|NM_061066|K03D10.3 ## Same_strand|Intronic_non-coding|NM_067049|Y47D3A.21 ## {Repeats: no}

block316 [novel_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	0.367	no	no	0.41/0.43	21/22/1.00	0.5	0.0	2	0	1	0	6	14	3arm	1	nd	0.36	4	2	1	na	na

		reads	miRBase family seed
seed	----------------------------------------------------------UCAUAGU-------------------	1	novel
seed	---------------------------------------------------------GUCAUAG--------------------	1	novel
		len	cloning frequencies
			AF16
	--------------------------------------------------------TGTCATAGTTACACTGATGGGT------	22	1
	---------------------------------------------------------GTCATAGTTACACTGATGGGT------	21	1
cbriggsae	gcgttttccatgtgatgataaaactatagcgtgagctggcagcagtgatcgctaaaTGTCATAGTTACACTGATGGGTttttgt
	************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_020367
	----------------------------------------------------------------------------------------------	NM_031809
	----------------------------------------------------------------------------------------------	NM_134696
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001082005
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_058685
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001021974
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_007842
cbriggsae	(((...((((((((.((((...((..(((((...((((....))))...)))))...))....)))))))..)))))....)))	0.570 -18.40

cbriggsae

chromosome:chrI:4952467:4952550:1

Same_strand|Intronic_non-coding|NM_020367|PARP11 ## Opposite_strand|Intronic_coding|NM_031809|Cngb1 ## Same_strand|Intronic_coding|NM_058685|Y54E10BL.3 ## {Repeats: no}

block465 [novel_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	0.031	no	no	0.46/0.46	24/24/1.00	0.0	0.0	1	0	1	0	6	13	5arm	1	nd	0.54	4	1	1	na	na

		reads	miRBase family seed
seed	-------ACUGUUG--------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	------GACTGTTGACACGTCATTTCTCAC----------------------------------------------------------	24	1
cbriggsae	ttgatcGACTGTTGACACGTCATTTCTCACaatcgattatcgatttttcgaattcgattttcagatcagacgaaaaaatttcagacaa
	****************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_061066
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_011945
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001027735
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001027736
	--------------------------------------------------------------------------------------------------	NM_001047975
	<<<<<<<<<<<<<<<<..................................................................................	NM_061075
cbriggsae	.((.((....(((....((((...(((...((((((...((((....))))..))))))...)))...))))....)))....)))).	0.690 -17.60

cbriggsae

chromosome:chrI_random:2162925:2163012:-1

Same_strand|Intronic_non-coding|NM_061066|K03D10.3 ## Opposite_strand|Intronic_coding|NM_001047975|LOC683871 ## Opposite_strand|Boundary_non-coding|NM_061075|ZK849.1 ## {Repeats: no}

block477 [novel_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	0.380	no	no	0.48/0.48	21/21/1.00	0.0	0.0	1	0	1	0	13	11	3arm	1	nd	0.38	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------UUCAGUC--------------------------	1	novel
		len	cloning frequencies
			AF16
	-------------------------------------------------------GTTCAGTCTAGTTTGGGCGTT-------------	21	1
cbriggsae	cctaaaacagcctagttccaacctggagtgttactgatttcatcgatcagatcttGTTCAGTCTAGTTTGGGCGTTccttgtctctggt
	*****************************************************************************************
cbriggsae	((....((((....((.((((.(((((.((...((((((.....))))))........)).))))).)))))).....))))....)).	0.830 -18.60

cbriggsae

chromosome:chrI_random:2682170:2682258:-1

{Repeats: no}

block567 [novel_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	0.200	no	no	0.45/0.45	22/22/1.00	0.0	0.0	1	0	1	0	10	11	3arm	5	nd	0.41	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------AAUAUCG------------------------	1	novel
		len	cloning frequencies
			AF16
	-------------------------------------------------------------GAATATCGAAACAACTGCCTCG----------	22	1
cbriggsae	caggtaatggtgttgaggggctgcgaattgccggacttcagggcgccgtcccccgaagtccGAATATCGAAACAACTGCCTCGatgggcctgg
	*********************************************************************************************
	-------------------------------------------------------------------------------------------------------	NM_011074
	-------------------------------------------------------------------------------------------------------	NM_001027762
	-------------------------------------------------------------------------------------------------------	NM_001129008
	-------------------------------------------------------------------------------------------------------	NM_001012534
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_075505
cbriggsae	(((((.....((((((((((.(((((.....((((((((.(((.......))).))))))))....)))...)).)).)))))))).))))).	0.810 -34.10

cbriggsae

chromosome:chrI_random:3101570:3101662:1

Opposite_strand|Intronic_non-coding|NM_011074|Pftk1 ## Same_strand|Intronic_non-coding|NM_075505|psa-1 ## {Repeats: no}

block593 [novel_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	0.193	no	no	0.52/0.52	21/21/1.00	0.0	0.0	1	0	1	0	6	23	3arm	3	nd	0.38	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------AACCAUC-------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------------------------------------------------------------GAACCATCGTGTTGGGACTAC------	21	1
cbriggsae	ttggggtcatctcggcaataaaggatcctaatttgtcaatgtttttgtaaaccgcaacaagacacttaaatccagaGAACCATCGTGTTGGGACTACatccaa
	*******************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_075282
	-----------------------------------------------------------------------------------------------------------------	NM_011794
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_062387
cbriggsae	.((((((..((((((((.....((.((((.(((((....(((((((((.....))))..)))))..)))))..)).)).))....))))))))..)).)))).	0.750 -21.50

cbriggsae

chromosome:chrII:2335847:2335949:-1

Same_strand|Intronic_non-coding|NM_075282|wrs-1 ## Opposite_strand|Intronic_non-coding|NM_011794|Bpnt1 ## Same_strand|Intronic_coding|NM_062387|W06B4.3 ## {Repeats: no}

block989 [novel_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	0.327	no	no	0.38/0.38	21/21/1.00	0.0	0.0	1	0	1	0	19	0	3arm	5	nd	0.43	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------UUGAGAU--------------------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------------------------------GTTGAGATGGTAGTTAACAGT-------------------	21	1
cbriggsae	acactcctagcgaaccgtgactgctatgcaacccttggctccttccGTTGAGATGGTAGTTAACAGTggattggttcacaatgtgt
	**************************************************************************************
	------------------------------------------------------------------------------------------------	NM_001047975
	------------------------------------------------------------------------------------------------	NM_001047939
	------------------------------------------------------------------------------------------------	NM_001047939
	------------------------------------------------------------------------------------------------	NM_127141
	------------------------------------------------------------------------------------------------	NM_001003414
	------------------------------------------------------------------------------------------------	NM_182152
	------------------------------------------------------------------------------------------------	NM_063631
	------------------------------------------------------------------------------------------------	NM_063623
	------------------------------------------------------------------------------------------------	NM_063620
	------------------------------------------------------------------------------------------------	NM_063619
	------------------------------------------------------------------------------------------------	NM_063628
	------------------------------------------------------------------------------------------------	NM_063626
	------------------------------------------------------------------------------------------------	NM_063625
	------------------------------------------------------------------------------------------------	NM_063630
	------------------------------------------------------------------------------------------------	NM_063617
	------------------------------------------------------------------------------------------------	NM_062054
	------------------------------------------------------------------------------------------------	NM_074369
	------------------------------------------------------------------------------------------------	NM_063618
	------------------------------------------------------------------------------------------------	NM_068454
cbriggsae	((((.......((((((...(((((..((.(((((..((.......))..))..))).))....)))))..)))))).....))))	0.760 -20.70