miR-Intess: classification

other hairpins

novel_lenNOK_multiarm_DicerNOK_nonpairedHIGH (250 loci)

sblock9780 [novel_lenNOK_multiarm_DicerNOK_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	0.385	no	no	0.44/0.50	18/18/0.00	0.0 0.0	0.0 0.0	1 2	0 0	1 2	0 0	32 25	1 0	5arm 3arm	1 1	nd nd	0.50 0.33	7 3	3	3	-1	2

		reads	miRBase family seed
seed	----------------------------------------------------------CUUAGUU-----------------------------------	2	novel
seed	---------------------------------UGGGGUG------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S2	T3S1	T4S1
	---------------------------------------------------------GCTTAGTTTTCCCCTTCC-------------------------	18	-	1	1
	--------------------------------TTGGGGTGCTTTTGTTTG--------------------------------------------------	18	1	-	-
rat	tttagttctgatacacaacgatgccaatgaaaTTGGGGTGCTTTTGTTTGcttgcttGCTTAGTTTTCCCCTTCCtggtaagctacatgtataattaagt
	****************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000015601 ENSRNOG00000011630 Ak3l1
rat	(((((((...(((((......(((((..(((...((((.(((.......((......))..)))...))))))).))))).......)))))))))))).	0.560 -17.42

rat

chromosome:5:122140137:122140236:1

sblock9849 [novel_lenNOK_multiarm_DicerNOK_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	0.026	no	no	0.56/0.57	18/21/0.50	0.0 0.0	0.0 0.0	1 1	0 0	1 1	0 0	22 8	9 18	5arm 3arm	1 1	nd nd	0.33 0.43	3 7	2	2	12	15

		reads	miRBase family seed
seed	-----------------------CACCUGU------------------------------------------------------------------------	1	novel
seed	--------------------------------------------------------------------------GGUCCAG---------------------	1	novel
		len	cloning frequencies
			T3S1	T5S2
	-------------------------------------------------------------------------AGGTCCAGAACACAGCCCAGA--------	21	1	-
	----------------------ACACCTGTGCGGAGAGAA--------------------------------------------------------------	18	-	1
rat	aggcgggaaagcactgggcagtACACCTGTGCGGAGAGAAtagagccaggctacactcggcgtctcctttgaaAGGTCCAGAACACAGCCCAGAttcccgtc
	******************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000012455 ENSRNOG00000009325 Fuca
rat	.((((((((....((((((.((..((((...((((((((.....(((((......)).))).)))).))))..)))).......)).)))))).))))))))	0.890 -38.30

rat

chromosome:5:154704276:154704377:1

sblock9970 [novel_lenNOK_multiarm_DicerNOK_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	0.266	no	no	0.39/0.50	18/18/0.00	0.0 0.0	0.0 0.0	1 1	0 0	1 1	0 0	25 8	12 21	5arm 3arm	1 1	nd nd	0.44 0.33	4 3	2	2	9	9

		reads	miRBase family seed
seed	--------------------------AGGUUUG-------------------------------------------------------------------------	1	novel
seed	---------------------------------------------------------------------------------AAAACAC------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2
	--------------------------------------------------------------------------------TAAAACACGTTAGGCTTC--------	18	-	1
	-------------------------TAGGTTTGTTTGCCCAGG---------------------------------------------------------------	18	1	-
rat	gtgaagaatactaggggaagcgtggTAGGTTTGTTTGCCCAGGgtaccaagggggtctcccttccaggacaaaaggcaacTAAAACACGTTAGGCTTCagctttac
	**********************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000033550 ENSRNOG00000024338 LOC686463
rat	((((((..........(((((.(((...((((..(((((....((.((..(((((....)))))..))))....)))))...))))...))).)))))..))))))	0.950 -29.30

rat

chromosome:6:40697917:40698022:-1

sblock8413 [novel_lenNOK_multiarm_DicerNOK_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	0.053	no	no	0.67/0.79	18/19/0.00	0.0 1.0	0.0 1.0	1 2	0 0	1 2	0 0	6 3	10 7	5arm 3arm	2 4	nd nd	0.53 0.33	8 2	3	3	-3	4

		reads	miRBase family seed
seed	--------------------------------------------------CAGGCAG-------------	1	novel
seed	-------GCGACCG--------------------------------------------------------	1	novel
seed	------------------------------------------------GGCAGGC---------------	1	novel
		len	cloning frequencies
			T1S1	T4S1	T5S2
	------CGCGACCGCCAGGTGTCGG---------------------------------------------	19	-	1	-
	-------------------------------------------------GCAGGCAGGGAGTGAGTG---	18	-	-	1
	-----------------------------------------------AGGCAGGCAGGGAGTGAG-----	18	1	-	-
rat	ttcgggCGCGACCGCCAGGTGTCGGcgtcgcgccggaatgcggtgcgAGGCAGGCAGGGAGTGAGTGagt
	**********************************************************************
rat	((((..(((..(((((........((.((((((((.....)))))))).)).))).))..)))..)))).	0.860 -32.40

rat

chromosome:4:75901243:75901312:-1

intergenic ## {SimpF: oe = 1.00 -1 CpG}

novel_lenNOK_multiarm_DicerNOK_loopOverlap_nonpairedHIGH (249 loci)

sblock3166 [novel_lenNOK_multiarm_DicerNOK_loopOverlap_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	0.270	no	no	0.53/0.58	19/23/0.40	0.0 0.0 0.3	0.0 0.0 0.0	1 1 3	0 0 0	1 1 2	0 0 0	27 40 27	-1 -18 -4	5arm_loop 5arm_loop_3arm 3arm_loop	2 2 2	25 26 16	0.42 0.52 0.42	4 8 3	5	3	0	-2

		reads	miRBase family seed
seed	---------------------------------------------------AAGCUCA--------------------------------------	2	novel
seed	--------------------------------------------------CAAGCUC---------------------------------------	1	novel
seed	----------------------------GCCCUGU-------------------------------------------------------------	1	novel
seed	-----------------------------------------UGGUGGA------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1	T3S2	T5S2
	--------------------------------------------------CAAGCTCACTGTCCTAGGT---------------------------	19	-	2	-
	----------------------------------------GTGGTGGAACCAAGCTCACTGTC---------------------------------	23	1	-	-
	---------------------------TGCCCTGTTTTCGGTGGTG--------------------------------------------------	19	-	-	1
	-------------------------------------------------CCAAGCTCACTGTCCTAGGT---------------------------	20	1	-	-
rat	aggttttgggttgagtctcagtcactgTGCCCTGTTTTCGGTGGTGGAACCAAGCTCACTGTCCTAGGTaagtggctttaatgcttcttcctatcc
	************************************************************************************************
	++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++	ENSRNOT00000050106 ENSRNOG00000030506 LAC2_RAT
	++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++	ENSRNOT00000041581 ENSRNOG00000030506 LAC2_RAT
rat	.((...((((..((((...(((((((....((((....(((((((........)).)))))...))))..))))))).....))))...)))).))	0.430 -25.40

rat

chromosome:11:84193061:84193156:1

sblock5462 [novel_lenNOK_multiarm_DicerNOK_loopOverlap_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	0.156	no	no	0.50/0.67	18/19/0.00	0.0 0.0 0.0	0.0 0.0 0.0	1 1 1	0 0 0	1 1 1	0 0 0	18 49 16	14 -17 15	5arm 5arm_loop_3arm 3arm	1 2 2	56 25 5	0.33 0.44 0.42	3 4 7	3	2	-1	2

		reads	miRBase family seed
seed	--------------------------------------------------UGCAGUU-----------------------------------------------	1	novel
seed	-------------------CCAGACU------------------------------------------------------------------------------	1	novel
seed	----------------------------------------------------------------------CCCCUGU---------------------------	1	novel
		len	cloning frequencies
			T2S1	T2S2
	---------------------------------------------------------------------ACCCCTGTAAGTCCCCCTC----------------	19	1	-
	------------------CCCAGACTGACATGGCGG--------------------------------------------------------------------	18	-	1
	-------------------------------------------------TTGCAGTTTCTCCTTGGC-------------------------------------	18	1	-
rat	ttatggattaacctgactCCCAGACTGACATGGCGGtacctggacgaaaTTGCAGTTTCTCCTTGGCccACCCCTGTAAGTCCCCCTCaaggcaagaccgtgaa
	********************************************************************************************************
	.................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++	ENSRNOT00000019596 ENSRNOG00000014376 Proc
rat	((((((.((..(((........((((.(((.((.(((.((.(((.(((((....))))))))..))...)))))))).)))).......)))..)).)))))).	0.980 -27.86

rat

chromosome:18:24573656:24573759:-1

Same_strand|Boundary_non-coding|ENSRNOT00000019596|ENSRNOG00000014376 ## Same_strand|Exonic_non-coding|ENSRNOT00000019596|ENSRNOG00000014376 ## intergenic ## ENSRNOG00000014376|protein_coding|Proc|Vitamin K-dependent protein C precursor (EC 3.4.21.69) (Autoprothrombin IIA) (Anticoagulant protein C) (Blood coagulation factor XIV) [Contains: Vitamin K-dependent protein C light chain; Vitamin K-dependent protein C heavy chain; Activation peptide]. [Source:UniProtKB/Swiss-Prot;Acc:P31394]

block20455 [novel_lenNOK_multiarm_DicerNOK_loopOverlap_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	0.570	no	no	0.63/0.69	19/27/0.00	0.0 0.0 0.0	0.0 0.0 0.0	1 1 1	0 0 0	1 1 1	0 0 0	16 29 19	-2 -16 -1	5arm_loop 5arm_loop_3arm 3arm	1 1 1	nd nd nd	0.35 0.41 0.37	3 3 3	3	2	0	-9

		reads	miRBase family seed
seed	-----------------GGGGCAG--------------------------------------------------------	1	novel
seed	-------------------------------------------GGACAGU------------------------------	1	novel
seed	------------------------------GGCGACA-------------------------------------------	1	novel
		len	cloning frequencies
			T2S1	T3S2
	------------------------------------------AGGACAGTTGCGAGCGGGT-------------------	19	-	1
	----------------AGGGGCAGAACGGTGGCGACAGCCTC--------------------------------------	26	-	1
	-----------------------------TGGCGACAGCCTCAGGACAGTTGCGAG------------------------	27	1	-
rat	gcctgcggaacgggcgAGGGGCAGAACGGTGGCGACAGCCTCAGGACAGTTGCGAGCGGGTtccggcccagcatccggga
	********************************************************************************
rat	.((..((((....((...((((.((((.((.(((((..((...))...)))))..))..))))..)))).)).)))))).	0.760 -27.20

rat

chromosome:10:46129364:46129443:-1

intergenic

sblock10017 [novel_lenNOK_multiarm_DicerNOK_loopOverlap_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	0.532	no	no	0.58/0.71	19/21/0.67	0.0 0.0	0.0 0.0	2 1	0 0	1 1	0 0	10 15	6 -1	5arm 3arm	1 1	nd nd	0.33 0.47	3 3	3	2	-8	-10

		reads	miRBase family seed
seed	-----------AGACGCG--------------------------------------------------------------	2	novel
seed	-----------------------------------------------GAACAGC--------------------------	1	novel
		len	cloning frequencies
			T3S2	T5S1
	----------AAGACGCGGGTCTCCGACCCG-------------------------------------------------	21	2	-
	----------------------------------------------GGAACAGCCTCTTCGGTAC---------------	19	-	1
rat	cgtctcggagAAGACGCGGGTCTCCGACCCGgcgctcaacaaggaaGGAACAGCCTCTTCGGTACggcccgcgcggggcc
	********************************************************************************
rat	.((((((.......((((((((.((((...(((..((..........))...)))...))))...)))))))))))))).	0.560 -30.81

rat

chromosome:6:91978912:91978991:-1

intergenic ## {SimpF: -1 Eponine}

sblock10057 [novel_lenNOK_multiarm_DicerNOK_loopOverlap_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	0.170	no	no	0.44/0.55	18/20/0.33	0.0 0.0	0.0 0.0	1 2	0 0	1 2	0 0	13 3	-15 -2	5arm_loop 3arm_loop	5 5	nd nd	0.80 0.33	16 2	3	3	8	0

		reads	miRBase family seed
seed	----------------------------------AGAGGCU-------------	2	novel
seed	--------------CCUUGUU---------------------------------	1	novel
		len	cloning frequencies
			T2S2	T3S2	T4S2
	---------------------------------TAGAGGCTCAGATTGATC---	18	-	1	1
	-------------GCCTTGTTATCTCCTCCAGC---------------------	20	1	-	-
rat	cagctctgttctgGCCTTGTTATCTCCTCCAGCTAGAGGCTCAGATTGATCctg
	******************************************************
rat	(((.((...(((((((((.................))))).))))..))..)))	1.000 -12.23

rat

chromosome:6:109412223:109412276:-1

intergenic

sblock10087 [novel_lenNOK_multiarm_DicerNOK_loopOverlap_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	0.101	no	no	0.32/0.42	19/20/0.25	0.0 0.0 0.0 0.0	0.0 0.0 0.0 0.0	1 1 1 1	0 0 0 0	1 1 1 1	0 0 0 0	6 28 24 19	11 -12 -7 -2	5arm 5arm_loop_3arm 3arm_loop 3arm_loop	1 1 1 1	nd nd nd nd	0.37 0.60 0.63 0.42	3 8 6 4	4	1	0	0

		reads	miRBase family seed
seed	--------------------------------------GUAGUAC-----------------------------------	1	novel
seed	-------ACAUAUA------------------------------------------------------------------	1	novel
seed	-----------------------------UCCAAUG--------------------------------------------	1	novel
seed	-------------------------------------------ACAUGUG------------------------------	1	novel
		len	cloning frequencies
			T5S1
	----------------------------TTCCAATGATGTAGTACATG--------------------------------	20	1
	------------------------------------------TACATGTGAAAATGCAGGC-------------------	19	1
	------TACATATAGCTCAGTCTGG-------------------------------------------------------	19	1
	-------------------------------------TGTAGTACATGTGAAAATG------------------------	19	1
rat	ggtgtaTACATATAGCTCAGTCTGGagcTTCCAATGATGTAGTACATGTGAAAATGCAGGCgtagctataattgaagcat
	********************************************************************************
rat	.((((.....(((((((..(((((....(((..(((........)))..)))....)))))..)))))))......))))	0.610 -16.20