miR-Intess: classification

other hairpins

novel_lenNOK_loopOverlap_randfoldOK_nonpairedHIGH (845 loci)

block1518208 [novel_lenNOK_loopOverlap_randfoldOK_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	0.001	no	no	0.58/0.58	19/19/0.00	0.0	0.0	1	0	1	0	37	-1	5arm_loop	6	nd	0.42	3	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------UCCAGGC-----------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	-------------------------------------ATCCAGGCTTGCATCCCTC------------------------------------------------------------	19	1
rat	aggcttgcacccctctgatcaggcttgcatccctctgATCCAGGCTTGCATCCCTCtgaccagccttgcatccctctgatcanncttgcacccctctgatccaggcttgcatccct
	********************************************************************************************************************
rat	(((..((((..(((..(((((((..((((......(((((.(((..((((...((......))...))))..)))..)))))....))))....))))))).)))..))))..)))	1.000 -35.80

rat

chromosome:4:880754:880869:-1

intergenic ## {Repeats: trf 951 970 0 class=trf}

block1518209 [novel_lenNOK_loopOverlap_randfoldOK_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	0.001	no	no	0.58/0.58	19/19/0.00	0.0	0.0	2	0	1	0	37	-1	5arm_loop	6	nd	0.42	3	2	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------------------------------------------------UCCAGGC-----------	1	novel
seed	--------------------------------------UCCAGGC------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	-------------------------------------ATCCAGGCTTGCATCCCTC-------------------------------------------------------------	19	1
	--------------------------------------------------------------------------------------------------ATCCAGGCTTGCATCCCTC	19	1
rat	aggcttgcacccctctgatcaggcttgcatccctctgATCCAGGCTTGCATCCCTCtgaccagccttgcatccctctgatcanncttgcacccctctgATCCAGGCTTGCATCCCTC
	*********************************************************************************************************************
rat	(((..((((..(((..(((((((..((((......(((((.(((..((((...((......))...))))..)))..)))))....))))....))))))).)))..))))..))).	1.000 -35.90

rat

chromosome:4:880753:880869:-1

intergenic ## {Repeats: trf 1012 1031 0 class=trf}

block1798661 [novel_lenNOK_loopOverlap_randfoldOK_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	0.001	no	no	0.67/0.67	18/18/0.00	0.0	0.0	2	0	1	0	34	-1	5arm_loop	5	nd	0.33	3	2	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------------------------GUGCCCC----------------------------	1	novel
seed	-----------------------------------GUGCCCC--------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	----------------------------------AGTGCCCCAGGTGCTGTG----------------------------------------------------------	18	1
	--------------------------------------------------------------------------AGTGCCCCAGGTGCTGTG------------------	18	1
rat	ccaggtgctgtggcctaagctgcacctggagaggAGTGCCCCAGGTGCTGTGgcctaaactgcacctggagaggAGTGCCCCAGGTGCTGTGgcctaaactgcacctgga
	**************************************************************************************************************
rat	((((((((.((((((...((.((((((((...((....((((((((((.((.......)).))))))))...))....)))))))))).))))))...)).)))))))).	0.930 -60.50

rat

chromosome:5:161446425:161446534:-1

intergenic ## {Repeats: trf 258 276 0 class=trf}

block1864496 [novel_lenNOK_loopOverlap_randfoldOK_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	0.005	no	no	0.53/0.53	19/19/0.00	0.0	0.0	4	0	1	0	29	-2	3arm_loop	1	nd	0.32	3	4	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------GGCCUUG----------------------------------------	4	novel
		len	cloning frequencies
			T3S1
	----------------------------------------------------AGGCCTTGAGCAAACACTG-----------------------------	19	4
rat	gggcgtcctcaggctggcagccccggctgccggtttcagtttctgaagagctAGGCCTTGAGCAAACACTGgctggcaggaggagggtgctggacgcctt
	****************************************************************************************************
rat	((((((((.......((((.((((..(((((((((...((((((.(((.((...))))).)).))))...)))))))))..)).)).)))))))))))).	0.780 -49.01

rat

chromosome:5:115464889:115464988:1

intergenic

novel_lenNOK_cloningOK (833 loci)

block2172 [novel_lenNOK_cloningOK]

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	0.67/0.67	18/18/0.00	0.0	0.0	16	0	5	0	23	15	3arm	1	nd	0.28	2	19	5	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------GCUCACA---------------------------------	19	novel
		len	cloning frequencies
			T1S1	T1S2	T4S1	T4S2	T5S1
	-------------------------------------------------------------------------GGCTCACAAGTGCAGGGG-----------------------	18	5	1	4	7	2
rat	ggtgagggggctcacaggtgcaggagctcataggtgcagtggctcataggtgagggggctcacaggtgcagggGGCTCACAAGTGCAGGGGctcacagggtgaggctcccacta
	******************************************************************************************************************
	----------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000003412 ENSRNOG00000002520 Litaf
rat	((((.((((.(((((...((...((((((....((((.(((((((((..(((((....)))))..))).....))).)))..))))..)))))).))..))))).)))))))).	0.980 -48.40

rat

chromosome:10:4620175:4620288:-1

Opposite_strand|Intronic_coding|ENSRNOT00000003412|ENSRNOG00000002520 ## ENSRNOG00000002520|protein_coding|Litaf|Lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog (LPS-induced TNF-alpha factor homolog) (Estrogen-enhanced transcript protein 1) (Eet-1). [Source:UniProtKB/Swiss-Prot;Acc:P0C0T0] ## {Repeats: trf 9 27 0 class=trf}

block7764 [novel_lenNOK_cloningOK]

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	0.020	no	no	0.41/0.60	18/22/0.40	0.8	1.3	10	0	4	0	7	11	3arm	2	nd	0.16	1	10	4	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------------------------------------AAGCCUG---------------------	5	novel
seed	----------------------------------------------------------------------------------------AGCCUGA--------------------	2	novel
seed	-----------------------------------------------------------------------------------------GCCUGAG-------------------	1	novel
seed	--------------------------------------------------------------------------------------AAAGCCU----------------------	1	novel
seed	------------------------------------------------------------------------------------AUAAAGC------------------------	1	novel
		len	cloning frequencies
			T1S2	T2S2	T4S2	T5S2
	--------------------------------------------------------------------------------------AAAGCCTGAGTAGGAAGC-----------	18	-	2	1	-
	--------------------------------------------------------------------------------------AAAGCCTGAGTAGGAAGCA----------	19	1	1	-	-
	-----------------------------------------------------------------------------------AATAAAGCCTGAGTAGGAAGCA----------	22	-	-	1	-
	---------------------------------------------------------------------------------------AAGCCTGAGTAGGAAGCAGCC-------	21	-	-	1	-
	-------------------------------------------------------------------------------------TAAAGCCTGAGTAGGAAGCA----------	20	1	-	-	-
	----------------------------------------------------------------------------------------AGCCTGAGTAGGAAGCAGCC-------	20	1	-	-	-
	---------------------------------------------------------------------------------------AAGCCTGAGTAGGAAGCA----------	18	-	-	-	1
rat	gtaccgttaagccgcctcctgccgggcttgccttctgaccaggcccttcttccctcccttgcacctatacctcttggtctttgAATAAAGCCTGAGTAGGAAGCAGCCtgtgtgc
	*******************************************************************************************************************
	>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................	ENSRNOT00000051483 ENSRNOG00000029886 Hba-a1
rat	((((...((.((.((.(((((((((((((...(((.(((((((.............................)))))))...)))..))))))).)))))).)).)).)).))))	1.000 -37.15

rat

chromosome:10:15584349:15584463:-1

block11074 [novel_lenNOK_cloningOK]

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	0.802	no	no	0.28/0.28	18/18/0.00	0.1	0.1	28	0	9	0	28	8	5arm	1	nd	0.28	2	33	9	na	na

		reads	miRBase family seed
seed	-----------------------------CUUUUAA----------------------------------------------------------------------------------	27	novel
seed	------------------------------UUUUAAU---------------------------------------------------------------------------------	6	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1
	----------------------------ACTTTTAATGCTCTTGTT------------------------------------------------------------------------	18	3	2	3	3	4	3	1	6	2
	-----------------------------CTTTTAATGCTCTTGTTA-----------------------------------------------------------------------	18	1	-	2	1	1	-	-	1	-
rat	gtgtcttaatttctataggtattttgtaACTTTTAATGCTCTTGTTAgtttatggtattttacttccatccctttcccaagctattaaattcatttgttgattctaaagaaacaagca
	**********************************************************************************************************************
rat	.((.(((..(((((.((((............(((((((..((((..((...((((..........))))....))..)))).))))))).............)))).))))).)))))	0.570 -12.41

rat

chromosome:10:23575349:23575466:-1

intergenic

block11562 [novel_lenNOK_cloningOK]

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	0.036	no	no	0.16/0.17	18/19/0.00	0.0	0.2	17	0	2	0	32	2	3arm	1	nd	0.26	3	17	2	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------AAAAUGU-------------------------------------------	17	novel
		len	cloning frequencies
			T1S1	T1S2
	----------------------------------------------------------------TAAAATGTAATTGTAATG---------------------------------	18	10	4
	----------------------------------------------------------------TAAAATGTAATTGTAATGA--------------------------------	19	3	-
rat	atacaagggcctgaatatttggtattacttaccagtagctttttgcaaactctgattcctaatgTAAAATGTAATTGTAATGAgtgaaataaaatgagaagcaggtcttgagtat
	*******************************************************************************************************************
rat	((((.((((((((..(((((.((.(((((((.((((.((.(((((((...............))))))).)).))))...))))))).)).))))).....))))))))..))))	0.920 -26.06

rat

chromosome:10:25158021:25158135:-1

intergenic

block16905 [novel_lenNOK_cloningOK]

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	0.015	no	no	0.50/0.50	18/18/0.00	0.0	0.0	9	0	6	0	24	0	3arm	1	nd	0.11	2	12	6	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------GAGGUAG----------------------------------	12	let-7a/7b/7c/7d/7e/7f/7i/miR-98
		len	cloning frequencies
			T1S1	T1S2	T2S2	T3S1	T3S2	T4S2
	----------------------------------------------------TGAGGTAGTAGTAGGTGC------------------------	18	2	5	1	1	1	2
rat	ggagggtgcacggaggctcagtacaatcctgctgaaagatttcagtagtaggTGAGGTAGTAGTAGGTGCttaggcctgtaggagcaacctctg
	**********************************************************************************************
	--------------------------------------------------------------------------------------------------------	ENSRNOT00000008692 ENSRNOG00000006565 NP_001100470.1
rat	(((((.(((....(((((.((((....(((((((....((((((........))))))..)))))))))))..)))))......))).))))).	0.810 -30.10

rat

chromosome:10:38567990:38568083:-1

block18121 [novel_lenNOK_cloningOK]

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	0.045	no	no	0.43/0.47	19/21/0.38	0.0	0.3	7	0	5	0	6	3	3arm	1	nd	0.21	2	13	5	na	na

		reads	miRBase family seed
seed	-------------------------------------------------CUCUUGG------------------	13	novel
		len	cloning frequencies
			T2S1	T2S2	T3S1	T3S2	T5S1
	------------------------------------------------TCTCTTGGTCCTTGTACCA-------	19	1	5	-	1	1
	------------------------------------------------TCTCTTGGTCCTTGTACCAA------	20	2	-	1	-	-
	------------------------------------------------TCTCTTGGTCCTTGTACCAAA-----	21	1	1	-	-	-
rat	ggcttcctggtctcagcacagaccaaactccaggaggcttggcatgccTCTCTTGGTCCTTGTACCAAatgctt
	**************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000058665 ENSRNOG00000012575 Fath2
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000017105 ENSRNOG00000012575 Fath2
rat	(((....((((....(((..((((((......((((((.......)))))).))))))..)))))))...))).	0.420 -22.60