miR-Intess: classification

other hairpins

block1577946 [novel_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	0.464	no	no	0.52/0.57	21/22/1.00	2.0 0.7	2.5 0.7	2 3	0 0	2 1	0 0	24 16	2 13	3arm 3arm	1 1	nd nd	0.14 0.29	1 4	5	2	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------CACAAGG-------------------------------	2	novel
seed	---------------------------------------------------------------------AGCUGGA------------------------------------------	1	novel
seed	-------------------------------------------------------------------------GGACAGU--------------------------------------	1	novel
seed	----------------------------------------------------------------------------------CAAGGAC-----------------------------	1	novel
		len	cloning frequencies
			T4S2	T5S1
	-------------------------------------------------------------------------------TCACAAGGACGAGAGCAGGAG------------------	21	-	2
	--------------------------------------------------------------------TAGCTGGACAGTCACAAGGAC-----------------------------	21	1	-
	------------------------------------------------------------------------TGGACAGTCACAAGGACGAGAG------------------------	22	-	1
	---------------------------------------------------------------------------------ACAAGGACGAGAGCAGGAGCT----------------	21	-	1
rat	tccctgcccaaccttgtggcttctcatccctaatgatgtgactggccaggtgcctctgtgacccctgcTAGCTGGACAGTCACAAGGACGAGAGCAGGAGCTgggaagtgtgcttgga
	**********************************************************************************************************************
rat	(((..((.((.(((.((.((.((((.(((.......((((((((.((((..((.............))...)))).)))))))).))).))))))....)).)))...)).))..)))	0.710 -37.72

rat

chromosome:4:122192764:122192881:-1

intergenic

block1600519 [novel_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	0.094	no	no	0.53/0.62	19/24/0.80	1.2	1.4	5	0	3	0	10	2	5arm	1	nd	0.17	2	5	3	na	na

		reads	miRBase family seed
seed	-----------GCUACCU----------------------------------------------------------------------------	3	novel
seed	--------------ACCUUCG-------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			T1S1	T4S2	T5S1
	----------TGCTACCTTCGCTTCCTTGCAC--------------------------------------------------------------	22	2	-	-
	-------------TACCTTCGCTTCCTTGCACGGGGC---------------------------------------------------------	24	-	-	1
	----------TGCTACCTTCGCTTCCTTGC----------------------------------------------------------------	20	-	1	-
	-------------TACCTTCGCTTCCTTGCAC--------------------------------------------------------------	19	-	-	1
rat	gttcaagtgaTGCTACCTTCGCTTCCTTGCACGGGGCtggttattatacagccctgtaatggtgggctagcttaagaggacagggtttgggagc
	**********************************************************************************************
rat	((((....(((.((..(((((((..((((((((((((((.........)))))))))....)))))..)))....))))..)).)))...))))	0.650 -30.50

rat

chromosome:4:164240753:164240846:-1

intergenic

block1695960 [novel_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	0.133	no	no	0.33/0.35	20/23/1.00	3.0	1.6	5	0	1	0	5	10	3arm	1	nd	0.24	2	5	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------------------CUCCCAU--------------------	2	novel
seed	------------------------------------------------------------------------CCAUUCU-----------------	2	novel
seed	---------------------------------------------------------------GAGAAUC--------------------------	1	novel
		len	cloning frequencies
			T5S1
	-----------------------------------------------------------------------CCCATTCTTTTTGATTAGTG-----	20	2
	--------------------------------------------------------------TGAGAATCTCCCATTCTTTTTGA-----------	23	1
	--------------------------------------------------------------------TCTCCCATTCTTTTTGATTAG-------	21	1
	--------------------------------------------------------------------TCTCCCATTCTTTTTGATTAGTG-----	23	1
rat	gagggatgagactaaaagggggaagggccaagaagtggggggaaagtgacttctttacccttTGAGAATCTCCCATTCTTTTTGATTAGTGcctta
	************************************************************************************************
rat	.((((.....(((((.((..(((((((...(((..(((((((((((......)))).)))))))....)))))).))))..))..))))).)))).	0.880 -24.90

rat

chromosome:4:164252625:164252720:1

intergenic

block1766897 [novel_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	0.099	no	no	0.35/0.35	23/23/1.00	0.0 2.5	0.0 2.5	1 2	0 0	1 1	0 0	28 15	1 9	3arm 3arm	1 1	nd nd	0.30 0.48	3 5	3	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------------------AAACACC------------------------------	1	novel
seed	-------------------------------------------------------------------CCUAUAA-----------------------------------	1	novel
seed	-----------------------------------------------------------UGAGUGA-------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	----------------------------------------------------------TTGAGTGATCCTATAAACACCTT----------------------------	23	1
	-----------------------------------------------------------------------TAAACACCTTACTTGAACTTGGA---------------	23	1
	------------------------------------------------------------------TCCTATAAACACCTTACTTGAAC--------------------	23	1
rat	cttttaggagtcttttccacattggtgtctaccatgagattctactcaattcaaaacaTTGAGTGATCCTATAAACACCTTACTTGAACTTGGAtaaaaggctgagaag
	*************************************************************************************************************
rat	(((((...(((((((((((((..(((((.((.....((..((.(((((((.......)))))))))..)).)).))))).....))....))))..))))))).)))))	0.810 -23.10

rat

chromosome:5:114551776:114551884:-1

intergenic

block1767274 [novel_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	0.124	no	no	0.50/0.62	21/23/1.00	5.8	6.5	4	0	1	0	9	0	3arm	1	nd	0.10	1	4	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------GCCGUUC-----------------------------	1	novel
seed	------------------------------------------------------------------CACUGUC-----------------------	1	novel
seed	-------------------------------------------------------UGAAUGC----------------------------------	1	novel
seed	--------------------------------------------------------------CGUUCAC---------------------------	1	novel
		len	cloning frequencies
			T5S1
	------------------------------------------------------GTGAATGCCGTTCACTGTCAG---------------------	21	1
	-------------------------------------------------------------CCGTTCACTGTCAGCGGGAGT--------------	21	1
	-----------------------------------------------------------TGCCGTTCACTGTCAGCGGGAGT--------------	23	1
	-----------------------------------------------------------------TCACTGTCAGCGGGAGTATTGT---------	22	1
rat	caggagaagcacaagtgtctgttgatcatagtagtggtttggctttctgctaatGTGAATGCCGTTCACTGTCAGCGGGAGTATTGTatacatctt
	************************************************************************************************
rat	.((((.....((((...(((((((((......(((((..((((.(((.((....))))).)))).))))))))))))))....)))).....))))	0.820 -26.00

rat

chromosome:5:114565275:114565370:-1

intergenic

block1814210 [novel_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	0.331	no	no	0.57/0.65	23/23/1.00	1.5	1.5	2	0	2	0	11	14	5arm	1	nd	0.30	3	2	2	na	na

		reads	miRBase family seed
seed	------------UUGUGUG---------------------------------------------------------------------------------------	1	novel
seed	---------------UGUGCUG------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1	T3S2
	--------------GTGTGCTGCGTAGCTCGGGACCA---------------------------------------------------------------------	23	1	-
	-----------TTTGTGTGCTGCGTAGCTCGGGA------------------------------------------------------------------------	23	-	1
rat	ccgctgttctgTTTGTGTGCTGCGTAGCTCGGGACCAccgggtctggtgaccaagttcgtcaccagctccgcttcgagtcagtgatgtgccgactggatctacgga
	**********************************************************************************************************
rat	(((....(((..(((.((((.((...(((((((.....(((..((((((((.......))))))))..))).)))))))..))...)))))))..)))....))).	0.890 -36.20

rat

chromosome:5:12432788:12432893:1

intergenic

novel_Multihit_shortStem_randfoldOK (69 loci)

block155396 [novel_Multihit_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	0.46/0.46	24/24/1.00	0.0	0.0	1	0	1	0	4	30	5arm	158	nd	0.12	1	1	1	na	na

		reads	miRBase family seed
seed	-----GGAAUAC------------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	----AGGAATACATGGTAGCCAGTGTGT--------------------------------------------------------------------------------------------	24	1
rat	tcacAGGAATACATGGTAGCCAGTGTGTtcacgggaatacatggcagccagtgtgttcacaggaatacatggcagccagtgtgttcacgggaatacatggtagccagtgtgttcacagga
	************************************************************************************************************************
	----------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000051546 ENSRNOG00000032380
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000042801 ENSRNOG00000028216 LOC304000
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000032566 ENSRNOG00000028216 LOC304000
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000032555 ENSRNOG00000028216 LOC304000
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000042063 ENSRNOG00000028216 LOC304000
rat	((....(((((((((((.((((.(((((((.((.(((((((((((.((((.(((((((....))))))))))).)))).))))))).)).))))))))))).)))).)))))))....))	1.000 -59.00

rat

chromosome:11:36736011:36736130:1

Same_strand|Intronic_coding|ENSRNOT00000042801|ENSRNOG00000028216 ## Opposite_strand|Intronic_coding|ENSRNOT00000051546|ENSRNOG00000032380 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000043924|ENSRNOG00000032380 ## ENSRNOG00000028216|protein_coding|LOC304000|immunoglobulin superfamily, member 5 [Source:RefSeq_peptide;Acc:NP_001006991] ## ENSRNOG00000032380|protein_coding|| ## {Repeats: trf 7917 7941 0 class=trf}

block353684 [novel_Multihit_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	0.002	no	no	0.52/0.52	23/23/1.00	0.0	0.0	1	0	1	0	0	17	3arm	11	nd	0.18	2	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------------------------UAGCCCC---------------	1	novel
		len	cloning frequencies
			T1S1
	------------------------------------------------------------------------TTAGCCCCAGACAGCATTCACTG	23	1
rat	ccagtgccaactctgtgctgttggcacattctgacctgtctcctaagggttgtcagccacaaaagggacgggTTAGCCCCAGACAGCATTCACTG
	***********************************************************************************************
	---------------------------------------------------------------------------------------------------------	ENSRNOT00000049147 ENSRNOG00000032644
rat	.(((((........((((((((((......((((((((((.(((...(((.....))).....)))))))))))))..)))).)))))).)))))	0.450 -35.70

rat

chromosome:14:49169005:49169099:-1

Opposite_strand|Intronic_coding|ENSRNOT00000049147|ENSRNOG00000032644 ## ENSRNOG00000032644|protein_coding||

block354331 [novel_Multihit_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	0.002	no	no	0.57/0.57	21/21/1.00	0.0	0.0	1	0	1	0	3	34	5arm	110	nd	0.29	3	1	1	na	na

		reads	miRBase family seed
seed	----UUCAGUC---------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	---CTTCAGTCAGGCTCACTGGCT--------------------------------------------------------------------------------------------	21	1
rat	gctCTTCAGTCAGGCTCACTGGCTagcctctgctcttcagtcaggctcactgtctagcctctgctcttcagcctggctcactggctagcctctgctcttcagtcagactcactggc
	********************************************************************************************************************
	------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000043791 ENSRNOG00000032207 LOC690700
	------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000045975 ENSRNOG00000032207 LOC690700
	------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000059076 ENSRNOG00000032207 LOC690700
rat	(((....((((.((((((..((((((((..((......((((((((....((...(((....)))...))))))))))))..))))))))..))......)))).))))....)))	0.690 -38.70

rat

chromosome:14:49636930:49637045:-1

Opposite_strand|Boundary_non-coding|ENSRNOT00000050021|ENSRNOG00000032207 ## Opposite_strand|Intronic_non-coding|ENSRNOT00000043791|ENSRNOG00000032207 ## Opposite_strand|Intronic_coding|ENSRNOT00000045975|ENSRNOG00000032207 ## ENSRNOG00000032207|protein_coding|LOC690700|LOC501224 protein. [Source:UniProtKB/TrEMBL;Acc:Q0P5Q7] ## {Repeats: trf 681 702 0 class=trf}

block400332 [novel_Multihit_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	0.010	no	no	0.50/0.50	20/20/1.00	0.0	0.0	1	0	1	0	0	3	3arm	17	nd	0.21	2	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------ACCUGUA------------	1	novel
		len	cloning frequencies
			T2S2
	--------------------------------AACCTGTATGCAGTGGGATC	20	1
rat	gattctgcagcaacaacttccttgggaataggAACCTGTATGCAGTGGGATC
	****************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000043791 ENSRNOG00000032207 LOC690700
rat	((((((((.((((((..(((((.......)))))..))).))).))))))))	1.000 -17.70