miR-Intess: classification

other hairpins

novel_lenNOK_Multihit_loopOverlap_nonpairedHIGH_bulgeHIGH (387 loci)

block360184 [novel_lenNOK_Multihit_loopOverlap_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	0.176	no	no	0.37/0.39	18/19/0.00	0.7	1.0	3	0	2	0	35	-1	3arm	15	nd	0.32	4	3	2	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------UGGAAAC------------------------------------------------	2	novel
seed	-------------------------------------------------------------GAAACAA----------------------------------------------	1	novel
		len	cloning frequencies
			T2S1	T5S2
	----------------------------------------------------------ATGGAAACAACTTGACCA--------------------------------------	18	2	-
	------------------------------------------------------------GGAAACAACTTGACCAAAA-----------------------------------	19	-	1
rat	ttttgtgtgtgtgggggggcagttttaagttattagttttcaaaatcagtactttttaATGGAAACAACTTGACCAAAAatctgtcaccgaattttgagacccattaaaacaaa
	******************************************************************************************************************
	>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.....................................................................	ENSRNOT00000054493 ENSRNOG00000036375
rat	.(((((....((((((((((((((((..((((...(((((((.................)))))))....))))..)))).))))).))...........)))))....)))))	0.710 -23.13

rat

chromosome:14:67222642:67222755:-1

intergenic

block522341 [novel_lenNOK_Multihit_loopOverlap_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	0.723	no	no	0.32/0.39	18/22/0.25	1.0	2.2	4	0	2	0	30	-1	3arm	15	nd	0.32	4	4	2	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------UGGAAAC----------------------------------------------	2	novel
seed	-------------------------------------------------------------------GAAACAA--------------------------------------------	2	novel
		len	cloning frequencies
			T2S1	T5S2
	----------------------------------------------------------------ATGGAAACAACTTGACCA------------------------------------	18	2	-
	------------------------------------------------------------------GGAAACAACTTGACCAAAA---------------------------------	19	-	1
	------------------------------------------------------------------GGAAACAACTTGACCAAAAATT------------------------------	22	1	-
rat	tgtgtgtgtgtgtgtgtgtgtgtggcagttttaagttattagttttcaaaatcagtactttttaATGGAAACAACTTGACCAAAAATTtgtcacagaattttgagacccattaaaaca
	**********************************************************************************************************************
rat	.((..(((.((......((.((((((((((((..((((...(((((((.................)))))))....))))..)))))).))))))..))......)).)))....)).	0.830 -17.63

rat

chromosome:16:13908892:13909009:-1

intergenic

block1393213 [novel_lenNOK_Multihit_loopOverlap_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	0.173	no	no	0.63/0.63	19/19/0.00	0.0	0.0	1	0	1	0	34	-3	5arm_loop	71	nd	0.42	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------AUCCCAG-----------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	----------------------------------CATCCCAGAGCTGAACGGG------------------------------------------------------	19	1
rat	catccactggtgctgccaaggctgtgggcaaggtCATCCCAGAGCTGAACGGGaagttcactggcatggccttccgtgttcctacccccagtgtatccgttgtggat
	***********************************************************************************************************
rat	.((((((.(((((.((...((..(((((.((((((((.((((...(((((.....))))))))).)))))))).......)))))..)).)))))))....))))))	0.410 -37.20

rat

chromosome:3:97329468:97329574:-1

intergenic

novel_Multihit_randfoldOK_nonpairedHIGH_bulgeHIGH (370 loci)

block139234 [novel_Multihit_randfoldOK_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	0.005	no	no	0.59/0.59	22/22/1.00	0.0	0.0	2	0	1	0	7	27	5arm	100	nd	0.41	4	2	1	na	na

		reads	miRBase family seed
seed	--------CACCAGC-------------------------------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			T2S1
	-------CCACCAGCTCAATGGGGTCTAC-----------------------------------------------------------------------------------------	22	2
rat	aggaaaaCCACCAGCTCAATGGGGTCTACatcatgggcaatcaccaccagctgagccttcttgttctccaccaaggtggtgactgtattgacccctgcttggagaaaggtggtctctt
	**********************************************************************************************************************
rat	((((..((((((..(((...((((((..........(((.((((((((....((((......))))........)))))))).)))...))))))......)))...)))))).))))	0.710 -42.32

rat

chromosome:11:82935833:82935950:-1

intergenic

block327541 [novel_Multihit_randfoldOK_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	0.010	no	no	0.59/0.59	22/22/1.00	0.0	0.0	2	0	1	0	7	27	5arm	100	nd	0.41	4	2	1	na	na

		reads	miRBase family seed
seed	--------CACCAGC---------------------------------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			T2S1
	-------CCACCAGCTCAATGGGGTCTAC-------------------------------------------------------------------------------------------	22	2
rat	aggaaaaCCACCAGCTCAATGGGGTCTACatcatgggcaatcaccaccagctgagctttcttgttctccaccaaggtggtgactgtattgacccctgctcagaggacaggtggtctctta
	************************************************************************************************************************
rat	((((..((((((..(((...((((((..........(((.((((((((....((((......))))........)))))))).)))...))))))......)))....)))))).)))).	0.660 -41.32

rat

chromosome:13:99315220:99315339:1

intergenic

block380775 [novel_Multihit_randfoldOK_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	0.002	no	no	0.40/0.40	20/20/1.00	0.0	0.0	1	0	1	0	25	9	5arm	41	nd	0.35	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------------CUUGAGA------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T4S1
	-------------------------TCTTGAGATGTCCACATTGT------------------------------------------------------------------------	20	1
rat	tgtgtcagccattgtccagtgactgTCTTGAGATGTCCACATTGTcagctgagtgagggcagggcagggcagggcaagggattggggcagggcagggctgggcaggggattggggca
	*********************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000042632 ENSRNOG00000033121 LOC501237
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000039905 ENSRNOG00000033121 LOC501237
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000040779 ENSRNOG00000033121 LOC501237
	-------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000044993 ENSRNOG00000026588 LOC680812
	-------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000061378 ENSRNOG00000026588 LOC680812
	-------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000061377 ENSRNOG00000039950
rat	.((.((((((.(((((((((..((((((((....((((...(((((.(((..((.........))..)))..))))).)))).....)))))))).))))))))).)).)))).)).	0.740 -47.80

rat

chromosome:14:4582606:4582722:1

Same_strand|Intronic_non-coding|ENSRNOT00000042632|ENSRNOG00000033121 ## Same_strand|Boundary_non-coding|ENSRNOT00000061428|ENSRNOG00000033121 ## Opposite_strand|Intronic_coding|ENSRNOT00000061377|ENSRNOG00000039950 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000061382|ENSRNOG00000026588 ## Opposite_strand|Intronic_non-coding|ENSRNOT00000044993|ENSRNOG00000026588 ## ENSRNOG00000033121|protein_coding|LOC501237| ## ENSRNOG00000039950|protein_coding|| ## ENSRNOG00000026588|protein_coding|LOC680812|similar to RIKEN cDNA 1700081O22 (LOC363337), mRNA [Source:RefSeq_dna;Acc:NM_001014221]

block733447 [novel_Multihit_randfoldOK_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	0.006	no	no	0.59/0.59	22/22/1.00	0.0	0.0	2	0	1	0	7	27	5arm	100	nd	0.41	4	2	1	na	na

		reads	miRBase family seed
seed	--------CACCAGC---------------------------------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			T2S1
	-------CCACCAGCTCAATGGGGTCTAC-------------------------------------------------------------------------------------------	22	2
rat	aggaaaaCCACCAGCTCAATGGGGTCTACatcatgggcagtcaccaccagctgagccttcttgttctccaccgaggtggtgactgtattgacccctgctcagaggacaggtggtctctta
	************************************************************************************************************************
	.............................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	ENSRNOT00000061007 ENSRNOG00000039767
rat	((((..((((((..(((...((((((..........((((((((((((....((((......))))........))))))))))))...))))))......)))....)))))).)))).	0.630 -46.12

rat

chromosome:18:24585897:24586016:1

intergenic

block843551 [novel_Multihit_randfoldOK_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	0.007	no	no	0.41/0.41	22/22/1.00	0.0	0.0	1	0	1	0	15	24	5arm	17	nd	0.32	4	1	1	na	na

		reads	miRBase family seed
seed	----------------AGGUUGU------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	---------------TAGGTTGTCTTCTGTGTTCTCA----------------------------------------------------------------------------	22	1
rat	gacaaagagagataaTAGGTTGTCTTCTGTGTTCTCAttgctgcttctgttctgcctgaggctgcctgaggttgaatgaaggcagaagacactctggcatgtatgttttgtcc
	*****************************************************************************************************************
rat	(((((((....(((.(((..((((((((((.(((..............((((.((((.(((...))).)))).))))))).))))))))))..)))...)))...))))))).	0.550 -38.73

rat

chromosome:1:49859146:49859258:-1

intergenic

block843643 [novel_Multihit_randfoldOK_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	0.001	no	no	0.43/0.45	20/21/1.00	0.0 0.0	0.0 0.0	1 1	0 0	1 1	0 0	2 10	12 3	5arm 5arm	18 18	nd nd	0.45 0.33	6 4	2	1	na	na

		reads	miRBase family seed
seed	-----------GACAACA--------------------------------------------------	1	novel
seed	---GCAAAGC----------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	--TGCAAAGCAGACAACAGAGA----------------------------------------------	20	1
	----------AGACAACAGAGATTGGATGAG-------------------------------------	21	1
rat	ccTGCAAAGCAGACAACAGAGATTGGATGAGgataaaatcctctaggaaagtctcagtgtctcacagg
	********************************************************************
rat	((((......(((((...((((((....((((((...))))))......))))))..)))))..))))	0.980 -21.00

rat

chromosome:1:49933486:49933553:-1

intergenic

block844963 [novel_Multihit_randfoldOK_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	0.003	no	no	0.57/0.57	21/21/1.00	0.0	0.0	1	0	1	0	17	12	3arm	62	nd	0.38	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------GCCCCAG------------------------------	1	novel
		len	cloning frequencies
			T3S1
	-------------------------------------------------------TGCCCCAGGCGAGGTTTCTTT-----------------	21	1
rat	gctgcttgttctctggactctccctgtggctcatttctcgggtgagatgctgttcTGCCCCAGGCGAGGTTTCTTTctccttggcaagcagca
	*********************************************************************************************
rat	((((((((((....(((..(((((((.(((.((..((((....))))...))....))).)))).)))..))).........)))))))))).	0.770 -35.52