miR-Intess: classification

other hairpins

block804788 [novel_loopOverlap_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	0.003	no	no	0.52/0.52	23/23/1.00	0.0	0.0	1	0	1	0	29	-2	3arm_loop	1	8	0.22	2	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------UACCUAG--------------------------------------------	1	novel
		len	cloning frequencies
			T1S2
	--------------------------------------------CTACCTAGGTCTGACCCTTGTCT-----------------------------	23	1
rat	cccaggtgaggaggcagccctgaggcaagggtgggctggtctctCTACCTAGGTCTGACCCTTGTCTacccacaggactgtcccccagtgacctgg
	************************************************************************************************
	>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000045180 ENSRNOG00000006747 RGD1306108
	>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000009806 ENSRNOG00000006747 RGD1306108
rat	.((((((..((.(((((.((((((((((((((((((((((......)))..))))).)))))))))).....)))).))))).)).....))))))	1.000 -44.90

rat

chromosome:19:25707791:25707886:1

Same_strand|Intronic_coding|ENSRNOT00000009806|ENSRNOG00000006747 ## ENSRNOG00000006747|protein_coding|RGD1306108|Coiled-coil and C2 domain-containing protein 1A (Five repressor element under dual repression-binding protein 1) (FRE under dual repression-binding protein 1) (Freud-1). [Source:UniProtKB/Swiss-Prot;Acc:Q66HA5]

block1067285 [novel_loopOverlap_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	0.48/0.48	23/23/1.00	0.0	0.0	1	0	1	0	44	-2	5arm_loop	1	nd	0.26	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------CCCAGAG---------------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	--------------------------------------------TCCCAGAGACTTGTCAAGTTGGT------------------------------------------------	23	1
rat	aggcaggcccacctatctaaatactccttgcctctcctacattaTCCCAGAGACTTGTCAAGTTGGTaccaaccatgtcagggcctttgggggtgggggaggggtgggcagtcct
	*******************************************************************************************************************
rat	(((...(((((((.................((((((((((....((((((((.((((.((.((((....))))..)).))))..)))))))))))))))))))))))))...)))	0.760 -52.82

rat

chromosome:20:13204885:13204999:-1

intergenic

block1469300 [novel_loopOverlap_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	0.006	no	no	0.50/0.59	18/22/0.83	1.0	2.0	6	0	2	0	19	-4	3arm_loop	2	nd	0.27	3	6	2	na	na

		reads	miRBase family seed
seed	---------------------------------------------AAAGACA------------------------------------	4	miR-743b
seed	------------------------------------------------GACAGGU---------------------------------	2	novel
		len	cloning frequencies
			T1S1	T5S1
	--------------------------------------------TAAAGACAGGTGGCTCAGGA------------------------	20	1	2
	-----------------------------------------------AGACAGGTGGCTCAGGATCCAG-------------------	22	-	2
	--------------------------------------------TAAAGACAGGTGGCTCAG--------------------------	18	-	1
rat	gaatcacagatgaaagccttgctggagcagagtgggctggagtcTAAAGACAGGTGGCTCAGGATCCAGcaggtcttttgagctggtc
	****************************************************************************************
rat	......(((..(((((.(((((((((......(((((((..(((....)))...)))))))...))))))))).)))))...)))...	0.990 -31.40

rat

chromosome:3:76935855:76935942:1

intergenic

block1469484 [novel_loopOverlap_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	0.41/0.44	18/22/0.75	0.0	1.2	4	0	2	0	34	-2	3arm_loop	1	nd	0.18	2	4	2	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------GGACAAA------------------------------------------------	4	novel
		len	cloning frequencies
			T5S1	T5S2
	-----------------------------------------------------------TGGACAAATGATAGCTCCTTGT----------------------------------	22	2	-
	-----------------------------------------------------------TGGACAAATGATAGCTCCTTG-----------------------------------	21	-	1
	-----------------------------------------------------------TGGACAAATGATAGCTCC--------------------------------------	18	1	-
rat	atcctcctctctttcctctcaatattcagggtagtttacatggggctgttaaatgtcacTGGACAAATGATAGCTCCTTGTaagacttggagactctcggaggctgactaggata
	*******************************************************************************************************************
rat	(((((..((.....(((((.....((((((....((((((.((((((((((..((((....))))..)))))))))).)))))).)))))).......)))))..))..))))).	0.990 -40.80

rat

chromosome:3:76942746:76942860:1

intergenic

novel_randfoldOK_bulgeHIGH (220 loci)

block13387 [novel_randfoldOK_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	0.74/0.74	23/23/1.00	0.0	0.0	1	0	1	0	8	25	5arm	1	nd	0.30	4	1	1	na	na

		reads	miRBase family seed
seed	---------GGGGGUG---------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	--------TGGGGGTGGGGGTTGTGGGGGGT------------------------------------------------------------------------------------	23	1
rat	gggggttgTGGGGGTGGGGGTTGTGGGGGGTgtgattagctctaaatgaagttctaaaccactggaacatgaaatgaaactatttttccccctctttctccttccccttccctta
	*******************************************************************************************************************
rat	(((((....(((((.(((((....((((((...((.(((...........((((((......))))))...........))).))..))))))....))))).))))).))))).	0.540 -41.95

rat

chromosome:10:30184752:30184866:-1

intergenic ## {Repeats: trf 1 22 0 class=trf,trf 2 25 0 class=trf,dust 30184836 30184859 0 class=dust}

block18767 [novel_randfoldOK_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	0.65/0.65	20/20/1.00	0.0	0.0	1	0	1	0	9	19	3arm	1	nd	0.25	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------GGGGUGG---------------------	1	novel
		len	cloning frequencies
			T1S1
	-------------------------------------------------------------------------------TGGGGTGGGGTTGGGAGGTT---------	20	1
rat	catactgacagcttcccagtatagataaactctgtaattgctttgataacagactcaacagagttagcaaagaaaggtgTGGGGTGGGGTTGGGAGGTTgggaagtgt
	************************************************************************************************************
rat	.(((((..(((((((((((.........((((..((....(((((......(((((....)))))..))))).....))..))))....)))))))))))...)))))	0.980 -34.22

rat

chromosome:10:42122153:42122260:-1

intergenic

block20754 [novel_randfoldOK_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	0.67/0.67	21/21/1.00	0.0	0.0	1	0	1	0	15	3	3arm	1	nd	0.24	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------GGACACA----------------------------	1	novel
		len	cloning frequencies
			T1S2
	----------------------------------------------TGGACACACGGGAGAGGAGCC---------------	21	1
rat	agcctccccctgtccagtcctctcctgtgcgtccactgggtcacgcTGGACACACGGGAGAGGAGCCcatggagggcatgct
	**********************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000058155 ENSRNOG00000003463 Srebf1
	--------------------------------------------------------------------------------------------	ENSRNOT00000032685 ENSRNOG00000021303 Lrrc48
	--------------------------------------------------------------------------------------------	ENSRNOT00000032674 ENSRNOG00000021303 Lrrc48
rat	(((...(((...((((.((((((((((((.(((((.((.....)).))))).)))))))))))).....)))))))...)))	0.930 -42.10

rat

chromosome:10:46653092:46653173:-1

Same_strand|Boundary_non-coding|ENSRNOT00000004753|ENSRNOG00000003463 ## Opposite_strand|Intronic_coding|ENSRNOT00000032685|ENSRNOG00000021303 ## Same_strand|Intronic_coding|ENSRNOT00000058155|ENSRNOG00000003463 ## ENSRNOG00000021303|protein_coding|Lrrc48|Leucine-rich repeat-containing protein 48. [Source:UniProtKB/Swiss-Prot;Acc:Q5XI54] ## ENSRNOG00000003463|protein_coding|Srebf1|Sterol regulatory element-binding protein 1 (SREBP-1) (Sterol regulatory element-binding transcription factor 1) (Adipocyte determination- and differentiation-dependent factor 1) (ADD1) [Contains: Processed sterol regulatory element-binding protein 1] (Fr [Source:UniProtKB/Swiss-Prot;Acc:P56720]

block27818 [novel_randfoldOK_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	0.65/0.65	20/20/1.00	0.0	0.0	1	0	1	0	27	2	3arm	1	nd	0.25	4	1	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------------------CCGUUGA---------------------------------------	1	novel
		len	cloning frequencies
			T5S2
	-----------------------------------------------------------------------GCCGTTGAGTGAGAGGCACC---------------------------	20	1
rat	ccctccccctgccgccgctgcctcctccttcttcttctcctctcctcgctctcaaaatggcggccgcgacgGCCGTTGAGTGAGAGGCACCgaggagggggccctggcctgggagggc
	**********************************************************************************************************************
rat	(((((((......((((..(((((((((((........((((((((((...........(((((((...))))))))))).))))))....)))))))))))..))))..))))))).	0.950 -62.80

rat

chromosome:10:62037318:62037435:-1

intergenic ## {SimpF: oe = 0.81 -1 CpG}

block45558 [novel_randfoldOK_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	0.55/0.55	20/20/1.00	0.0	0.0	1	0	1	0	6	12	3arm	1	nd	0.20	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------UGCUGGA------------------	1	novel
		len	cloning frequencies
			T5S2
	-------------------------------------------------------CTGCTGGAAGAGAAGGGTGT------	20	1
rat	gaccatgacatccttcaggccgtggtaccccgccaccatatactggtgtcaggggCTGCTGGAAGAGAAGGGTGTctgctc
	*********************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000035474 ENSRNOG00000025143 Icam2
rat	((.((.((((((((((...((..((((((((..(((((.....)))))...)))).))))))....)))))))))))).))	1.000 -35.50

rat

chromosome:10:95772943:95773023:-1

block52363 [novel_randfoldOK_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	0.45/0.45	22/22/1.00	0.0	0.0	1	0	1	0	25	0	5arm	1	nd	0.27	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------------AGUAUGC---------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T4S1
	-------------------------CAGTATGCATCACTCAGAAGAG-------------------------------------------------------	22	1
rat	cgtaagggatctgagtgagcagtccCAGTATGCATCACTCAGAAGAGcatagacactcctttggccctgcatgctggactgtccccatactggatcccatac
	******************************************************************************************************
rat	.(((.(((((((.((((.(((((.((((((((((....(((((.(((........))).)))))...))))))))))))))).....))))))))))).)))	0.990 -41.90