miR-Intess: classification

other hairpins

block980 [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	0.046	no	no	0.32/0.32	22/22/1.00	0.0	0.0	1	0	1	0	29	1	5arm	1	nd	0.14	2	1	1	na	na

		reads	miRBase family seed
seed	------------------------------UUUUUGG-------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	-----------------------------ATTTTTGGATGCCAATTCTAAG-----------------------------------------------------------------	22	1
cbriggsae	ttttcaaaaaatgcgtcttctattccttaATTTTTGGATGCCAATTCTAAGctattgttgggtaattgatccagaagtttcggatccttatatgtaggccaattttttcaggaaga
	********************************************************************************************************************
	------------------------------------------------------------------------------------------------------------------------------	NM_121608
	------------------------------------------------------------------------------------------------------------------------------	NM_214509
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001101718
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001103783
	------------------------------------------------------------------------------------------------------------------------------	NM_001106371
	------------------------------------------------------------------------------------------------------------------------------	NM_008234
	------------------------------------------------------------------------------------------------------------------------------	NM_001036812
	------------------------------------------------------------------------------------------------------------------------------	NM_001125761
	------------------------------------------------------------------------------------------------------------------------------	NM_205021
	------------------------------------------------------------------------------------------------------------------------------	NM_001090075
cbriggsae	(((((((((((((.((((..((((((..(((((((((((..(((((((.(((....))).)).))))))))))))))))..))).....)))...)))))).))))))..))))).	0.670 -24.50

cbriggsae

chromosome:chrII:7834111:7834226:1

Opposite_strand|Intronic_coding|NM_121608|AT5G16030 ## Same_strand|Intronic_coding|NM_001101718|LOC100009540 ## {Repeats: no}

block996 [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	0.018	no	no	0.58/0.62	21/24/1.00	0.0	1.5	2	0	1	0	6	7	3arm	3	nd	0.08	1	2	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------------GGGUUCG----------------------	2	novel
		len	cloning frequencies
			AF16
	------------------------------------------------------------TGGGTTCGAACCCCACTCGTG---------	21	1
	------------------------------------------------------------TGGGTTCGAACCCCACTCGTGCTA------	24	1
cbriggsae	agcacgatggccgagtggttaaggcgttggacttaagttccaatggtggataacaccgcgTGGGTTCGAACCCCACTCGTGCTAtagctt
	******************************************************************************************
	----------------------------------------------------------------------------------------------------	NM_001047975
	----------------------------------------------------------------------------------------------------	NM_001047939
	----------------------------------------------------------------------------------------------------	NM_064155
	----------------------------------------------------------------------------------------------------	NM_101724
	----------------------------------------------------------------------------------------------------	NM_001055069
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001090075
	----------------------------------------------------------------------------------------------------	NM_202130
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_062737
cbriggsae	(((...((((((((((((....((..(((((((((.((......((((.....)))))).))))))))).))))))))).))))).))).	0.630 -33.90

cbriggsae

chromosome:chrII:9109117:9109206:1

Opposite_strand|Intronic_coding|NM_001047975|LOC683871 ## Opposite_strand|Intronic_non-coding|NM_064155|Y17G7B.3 ## Same_strand|Intronic_coding|NM_001090075|MGC69046 ## {Repeats: no}

block1033 [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	0.309	no	no	0.60/0.60	20/20/1.00	0.0	0.0	1	0	1	0	8	11	5arm	1	nd	0.30	3	1	1	na	na

		reads	miRBase family seed
seed	---------UCCUCCC---------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	--------TTCCTCCCTCTCCCTTTCGC---------------------------------------------------------	20	1
cbriggsae	ttacttggTTCCTCCCTCTCCCTTTCGCacggtcattcttgcaagaattcttgtgaaacccagtaagagttggtatttttggtga
	*************************************************************************************
cbriggsae	(((((.(((.((...((((..((((((((.((..(((((....))))))).))))))....))..))))..)).)))...)))))	0.990 -16.70

cbriggsae

chromosome:chrII:11672287:11672371:1

{Repeats: no}

block1037 [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	0.454	no	no	0.48/0.48	21/21/1.00	0.0	0.0	1	0	1	0	21	14	3arm	1	nd	0.24	2	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------GCAAAAG----------------------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------------------------------------------------------------AGCAAAAGCATTCTTCCGAGG---------------------	21	1
cbriggsae	gttgtttctgaatcacctccggcttcttttggtacgaatttttgttctggttattctcatttgtattcttcttgtgAGCAAAAGCATTCTTCCGAGGgggcatggtttctggaaagga
	**********************************************************************************************************************
	--------------------------------------------------------------------------------------------------------------------------------	NM_001039389
cbriggsae	.((.((((((((..(((....((..((.((((...((((((((((((.((.(((........))).....))...))))))))..))))..))))))..))..)))))).))))).))	0.970 -25.50

cbriggsae

chromosome:chrII:11713235:11713352:1

Opposite_strand|Intronic_non-coding|NM_001039389|Wdr37 ## {Repeats: no}

block1128 [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	0.080	no	no	0.52/0.52	23/23/1.00	0.0	0.0	2	0	1	0	13	9	3arm	1	nd	0.17	2	2	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------------------CAAUUGA----------------------------	2	novel
		len	cloning frequencies
			AF16
	--------------------------------------------------------------------CCAATTGATATGCTGGAGCCGTC-------------	23	2
cbriggsae	ttgaaatcagtttatgaacatgtttcaggatcgtcaagtgcgaaaaaattggaaatctctcccgtttcCCAATTGATATGCTGGAGCCGTCgccagctgttcaa
	********************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_053514
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_018362
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001039354
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001033223
cbriggsae	.((((..(((((..(((....(((((((.((.(((((.((.((((.....(((......)))..)))).)).))))))).)))))))..)))..))))))))).	0.990 -26.40

cbriggsae

chromosome:chrII_random:243963:244066:-1

Same_strand|Intronic_coding|NM_053514|Lin7a ## Same_strand|Intronic_non-coding|NM_018362|LIN7C ## {Repeats: no}

block1185 [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	0.404	no	no	0.40/0.40	20/20/1.00	0.0	0.0	1	0	1	0	9	28	3arm	1	nd	0.20	3	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------------------UUCGGAG---------------------	1	novel
		len	cloning frequencies
			AF16
	-------------------------------------------------------------------------------------------TTTCGGAGATAGTAGTTGAG---------	20	1
cbriggsae	agaagtctctcaatacgttcactcgcggaccggatagttctaatggcctcgttgacgtctttcttgacgacggaaaagaattttcccaagcTTTCGGAGATAGTAGTTGAGaagtattcg
	************************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001012230
cbriggsae	.(((...(((((((((.....(((.((((..(((.((((((.....(((((((((........))))))).))...)))))).)))......)))))))...))).))))))....))).	0.870 -29.10

cbriggsae

chromosome:chrII_random:2031245:2031364:-1

Same_strand|Intronic_non-coding|NM_001012230|Xkrx ## {Repeats: no}

block1209 [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	0.162	no	no	0.39/0.39	23/23/1.00	0.0	0.0	1	0	1	0	20	2	5arm	1	nd	0.22	2	1	1	na	na

		reads	miRBase family seed
seed	---------------------AGCCAGU------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	--------------------TAGCCAGTATACTTGTAAATCCC---------------------------------------------------------	23	1
cbriggsae	ttactgtttgcctcgctgggTAGCCAGTATACTTGTAAATCCCcaagcagtggaaggttctcgagtaatcggctttggatggatgtgaggagttcagtgt
	****************************************************************************************************
	--------------------------------------------------------------------------------------------------------------	NM_053514
	--------------------------------------------------------------------------------------------------------------	NM_018362
	--------------------------------------------------------------------------------------------------------------	NM_001039354
	--------------------------------------------------------------------------------------------------------------	NM_001033223
cbriggsae	.(((((....((((((.....((((.((.((((((..((((.(((.....)))..))))..)))))))).))))..........))))))....))))).	0.820 -29.56

cbriggsae

chromosome:chrII_random:244624:244723:1

Opposite_strand|Intronic_coding|NM_053514|Lin7a ## Opposite_strand|Intronic_non-coding|NM_018362|LIN7C ## {Repeats: no}

block1229 [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	0.057	no	no	0.43/0.43	21/21/1.00	0.0	0.0	1	0	1	0	22	11	5arm	9	nd	0.29	2	1	1	na	na

		reads	miRBase family seed
seed	-----------------------CAGAAGA----------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------TCAGAAGAGATTGTGTGATGG---------------------------------------------------------------	21	1
cbriggsae	agtatgcatattccctagggacTCAGAAGAGATTGTGTGATGGaaacccccgagatacctagggtatatcccgggaattttctgagctctcaacggcttgtgttgc
	**********************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_030676
	--------------------------------------------------------------------------------------------------------------------	NM_062055
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_062055
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_074739
	--------------------------------------------------------------------------------------------------------------------	NM_204717
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001087841
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001097628
	--------------------------------------------------------------------------------------------------------------------	NM_174951
	--------------------------------------------------------------------------------------------------------------------	NM_061898
	--------------------------------------------------------------------------------------------------------------------	NM_061996
	--------------------------------------------------------------------------------------------------------------------	NM_062066
	--------------------------------------------------------------------------------------------------------------------	NM_062066
	--------------------------------------------------------------------------------------------------------------------	NM_061927
	--------------------------------------------------------------------------------------------------------------------	NM_061927
	--------------------------------------------------------------------------------------------------------------------	NM_061910
	--------------------------------------------------------------------------------------------------------------------	NM_061910
	--------------------------------------------------------------------------------------------------------------------	NM_061900
	--------------------------------------------------------------------------------------------------------------------	NM_061903
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001123635
	--------------------------------------------------------------------------------------------------------------------	NM_001001460
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001129182
	--------------------------------------------------------------------------------------------------------------------	NM_001129182
cbriggsae	.(((.(((((..((...(((((((((((((..((.((.((((...((((...((....)).)))).)))).)).)).))))))))).))))...))..))))))))	0.580 -32.40

cbriggsae

chromosome:chrII_random:1427927:1428032:1

Same_strand|Intronic_coding|NM_030676|Nr5a2 ## Opposite_strand|Intronic_coding|NM_062055|sri-54 ## Opposite_strand|Intronic_non-coding|NM_204717|ECE1 ## {Repeats: no}

block1261 [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	0.135	no	no	0.40/0.40	20/20/1.00	0.0	0.0	3	0	1	0	13	18	3arm	1	nd	0.25	2	3	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------------------GGAAUAG-------------------------	3	novel
		len	cloning frequencies
			AF16
	-----------------------------------------------------------------------TGGAATAGCTAGTTGTTGTC-------------	20	3
cbriggsae	tcaggagttttggaaatttttatctgtttcagaaaatatttttaagagattttatttatcaaaaatagtatTGGAATAGCTAGTTGTTGTCaaaagttgaatga
	********************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001102902
	------------------------------------------------------------------------------------------------------------------	NM_001077612
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_065190
	------------------------------------------------------------------------------------------------------------------	NM_001129219
cbriggsae	(((.((.(((((..(((..(((.(((((((((....(((((((...((((...))))...)))))))...))))))))).)))..)))..))))).))...)))	0.980 -18.10

cbriggsae

chromosome:chrIII:189094:189197:-1

Same_strand|Intronic_non-coding|NM_001102902|LOC100124966 ## Opposite_strand|Intronic_coding|NM_001077612|zgc:153009 ## Opposite_strand|Intronic_non-coding|NM_001129219|nhr-121 ## {Repeats: no}

block1315 [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	0.135	no	no	0.58/0.58	24/24/1.00	0.0	0.0	1	0	1	0	9	1	5arm	10	nd	0.12	2	1	1	na	na

		reads	miRBase family seed
seed	----------AUAACCC----------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	---------CATAACCCAGAGGTCGGTGGATCG------------------------------------------------	24	1
cbriggsae	tgctgggccCATAACCCAGAGGTCGGTGGATCGaaaccactcgctgctagaaccttttttgcggttttttgggttacggta
	*********************************************************************************
	-------------------------------------------------------------------------------------------	NM_001027762
	-------------------------------------------------------------------------------------------	NM_067650
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_075282
	-------------------------------------------------------------------------------------------	NM_061817
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_075513
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_071129
	-------------------------------------------------------------------------------------------	NM_071129
	-------------------------------------------------------------------------------------------	NM_075409
	-------------------------------------------------------------------------------------------	NM_172925
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001129219
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001027762
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001090026
	-------------------------------------------------------------------------------------------	NM_001079600
	-------------------------------------------------------------------------------------------	NM_172541
	-------------------------------------------------------------------------------------------	NM_067650
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_067787
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_067659
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_075459
	-------------------------------------------------------------------------------------------	NM_061965
	-------------------------------------------------------------------------------------------	NM_075282
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_070558
	-------------------------------------------------------------------------------------------	NM_001037901
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_064510
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_072208
	-------------------------------------------------------------------------------------------	NM_065010
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_077859
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001129266
cbriggsae	(((((((((((.(((((((((((((((((..(((......)))))))).)).))))...)).))))...)))))).)))))	0.590 -25.60

cbriggsae

chromosome:chrIII:1765911:1765991:-1

Opposite_strand|Intronic_coding|NM_001027762|smr-1 ## Opposite_strand|Intronic_non-coding|NM_067650|Y104H12D.3 ## Same_strand|Intronic_non-coding|NM_075282|wrs-1 ## Same_strand|Intronic_coding|NM_075513|ZC15.5 ## {Repeats: no}

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other hairpins:

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miR-Intess™

block980 [novel]

block996 [novel]

block1033 [novel]

block1037 [novel]

block1128 [novel]

block1185 [novel]

block1209 [novel]

block1229 [novel]

block1261 [novel]

block1315 [novel]