miR-Intess: classification

other hairpins

novel_lenNOK_mirtron_nonpairedHIGH (140 loci)

block3022671 [novel_lenNOK_mirtron_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	0.890	no	no	0.16/0.16	19/19/0.00	0.0	0.0	3	0	3	0	32	0	5arm	4	2	0.42	3	3	3	na	na

		reads	miRBase family seed
seed	---------------------------------ACUAUUU----------------------------------------------------------------	3	novel
		len	cloning frequencies
			T2S1	T2S2	T5S2
	--------------------------------AACTATTTTTTTTTCTTGT-----------------------------------------------------	19	1	1	1
rat	ccatgtggagctcgaatgtagactaaaacttgAACTATTTTTTTTTCTTGTaggacagccagtagaggggacttcatgttttctgcggatcgtttggtaggtgg
	********************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>+++++++++++++	ENSRNOT00000033494 ENSRNOG00000021552 RGD1564806_predicted
rat	((((.((.....(((.((((((...((((.((((...((..((((.((.((......)).)).))))..)).)))).))))))))))..))).....)).))))	0.740 -20.20

rat

chromosome:X:92523232:92523335:1

Same_strand|Intronic_coding|ENSRNOT00000033494|ENSRNOG00000021552 ## ENSRNOG00000021552|protein_coding|RGD1564806_predicted| ## {Repeats: dust 92523269 92523277 0 class=dust}

block780322 [novel_lenNOK_mirtron_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	0.268	no	no	0.47/0.47	19/19/0.00	0.0	0.0	1	0	1	0	25	8	3arm	1	3	0.37	3	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------GUCCUUC------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	----------------------------------------------------------------------AGTCCTTCATCTCTCCCTA-------------------------	19	1
rat	gcctttgatgctccgtatccctcagattgcttgggtgggaataggctagggctccagtcaagctggcgctAGTCCTTCATCTCTCCCTAcagggtgtgcatgctgggcaatagg
	******************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000026730 ENSRNOG00000019651 Slc12a4
rat	.(((....(((((.((((....((..(((...(((.((((..(((((((.((..(((.....))))).)))).)))...)))).)))..)))..))...)))).)))))..)))	0.650 -38.40

rat

chromosome:19:35793894:35794007:-1

Same_strand|Intronic_coding|ENSRNOT00000026730|ENSRNOG00000019651 ## ENSRNOG00000019651|protein_coding|Slc12a4|Solute carrier family 12 member 4 (Electroneutral potassium-chloride cotransporter 1) (Erythroid K-Cl cotransporter 1) (rKCC1) (Furosemide- sensitive K-Cl cotransporter). [Source:UniProtKB/Swiss-Prot;Acc:Q63632]

block1407874 [novel_lenNOK_mirtron_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	0.908	no	no	0.50/0.50	18/18/0.00	0.0	0.0	1	0	1	0	18	7	3arm	1	3	0.33	2	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------AGUAACU----------------------------	1	novel
		len	cloning frequencies
			T2S2
	----------------------------------------------------------------GAGTAACTGTGGTTGTCC------------------	18	1
rat	gtcacgcgaaggattgtgggaatgtgctccatgtgaactcagactgggatcggaaaagagtagtGAGTAACTGTGGTTGTCCgtcggtatctcctgtgat
	****************************************************************************************************
	...................................................>>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000006333 ENSRNOG00000004777 RGD1306067
rat	((((((.((...((((..(((....((..((.((..((((..((((...((......)).)))))))).))))..))..)))..))))...)).))))))	0.790 -22.40

rat

chromosome:3:128353658:128353757:-1

block1645728 [novel_lenNOK_mirtron_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	0.578	no	no	0.32/0.32	19/19/0.00	0.0	0.0	1	0	1	0	11	23	5arm	1	0	0.37	3	1	1	na	na

		reads	miRBase family seed
seed	------------UUUUGUU------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	-----------TTTTTGTTTTTTTGGGCAG-------------------------------------------------------------------------------	19	1
rat	gtgtggtttgtTTTTTGTTTTTTTGGGCAGcatcgagttacagctacaagaactaggtcctgtcatccgtagtggtgtctactcccatcttgaagcatttgtgccatgc
	*************************************************************************************************************
	+++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000007388 ENSRNOG00000005564 RGD1310722_predicted
	+++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000047641 ENSRNOG00000005564 RGD1310722_predicted
rat	(((((((........((((((..((((.((.....((.(((.(((((....((........)).....))))).))).)).))))))....)))))).....)))))))	0.580 -23.62

rat

chromosome:4:66038555:66038663:1

Same_strand|Intronic_coding|ENSRNOT00000007388|ENSRNOG00000005564 ## ENSRNOG00000005564|protein_coding|RGD1310722_predicted| ## {Repeats: dust 66038561 66038574 0 class=dust}

block1793111 [novel_lenNOK_mirtron_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	0.030	no	no	0.44/0.44	18/18/0.00	0.0	0.0	1	0	1	0	23	2	5arm	1	1	0.39	2	1	1	na	na

		reads	miRBase family seed
seed	------------------------UGAGUAG----------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	-----------------------GTGAGTAGAGCAAGAGTT------------------------------------------------------	18	1
rat	tcttcctgttctccaccatggcgGTGAGTAGAGCAAGAGTTgcttttgcctctctttcatccatctccatccgcggccggcggagcccacgaggg
	***********************************************************************************************
	.....>>>>>>>>>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000030043 ENSRNOG00000026260 Rpl11
rat	.((((.((..((((.((...((((.(((..((..(((((..((....))..)))))...))...)))...))))....)).))))..)).)))).	0.970 -33.20

rat

chromosome:5:154830411:154830505:-1

novel_lenNOK_5varHIGH_nonpairedHIGH_bulgeHIGH (135 loci)

block11406 [novel_lenNOK_5varHIGH_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	0.565	no	no	0.58/0.63	19/19/0.00	1.5	1.5	2	0	2	0	6	19	5arm	5	nd	0.32	5	2	2	na	na

		reads	miRBase family seed
seed	-------UUGUGGG----------------------------------------------------------------------------------	1	novel
seed	----------UGGGCUA-------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S2	T3S1
	---------GTGGGCTAGTCACCTCTGC--------------------------------------------------------------------	19	1	-
	------GTTGTGGGCTAGTCACCTC-----------------------------------------------------------------------	19	-	1
rat	gttatgGTTGTGGGCTAGTCACCTCTGCtggtcggagaagctggggacacgtccttagacgccgcgagtcgtccttgaccgtagccccgccgctgc
	************************************************************************************************
rat	((..(((.((.((((((((((.....(((.((.((.....(((((((....)))))))...)))).)))......))))..)))))))))))..))	0.510 -32.60

rat

chromosome:10:24654714:24654809:-1

intergenic

block15827 [novel_lenNOK_5varHIGH_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	0.016	no	no	0.47/0.50	19/22/0.20	1.2	0.6	5	0	2	0	6	2	5arm	1	nd	0.45	4	5	2	na	na

		reads	miRBase family seed
seed	----------ACUAACU---------------------------------------------	3	novel
seed	-------GCUACUA------------------------------------------------	2	novel
		len	cloning frequencies
			T1S1	T5S1
	---------TACTAACTACCGCCAAAGG----------------------------------	19	-	3
	------TGCTACTAACTACCGCCAA-------------------------------------	19	1	-
	------TGCTACTAACTACCGCCAAAGG----------------------------------	22	-	1
rat	gactgcTGCTACTAACTACCGCCAAAGGcttgggggcaaggacgggaatagaaggggtagtc
	**************************************************************
rat	(((((((.((.(((....(((((....(((....)))..)).)))...))).)).)))))))	1.000 -22.60

rat

chromosome:10:36519939:36520000:-1

intergenic

block15849 [novel_lenNOK_5varHIGH_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	0.467	no	no	0.53/0.57	18/23/0.33	2.0	3.0	3	0	1	0	10	5	5arm	1	nd	0.37	4	3	1	na	na

		reads	miRBase family seed
seed	--------------GACGGCA------------------------------------------------------------	2	novel
seed	-----------UCUGACG---------------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	----------TTCTGACGGCAGAGGAACA----------------------------------------------------	19	1
	-------------TGACGGCAGAGGAACAAGGAAGG---------------------------------------------	23	1
	-------------TGACGGCAGAGGAACAAG--------------------------------------------------	18	1
rat	gagaggtgctTTCTGACGGCAGAGGAACAAGGAAGGcttgaatccataactcttaagtctcctcctgacagggacagtttt
	*********************************************************************************
rat	.((((.((.((((((.(((..(((((........(((((((...........))))))))))))))).)))))))).))))	0.480 -18.90

rat

chromosome:10:36520953:36521033:-1

intergenic

block24682 [novel_lenNOK_5varHIGH_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	0.044	no	no	0.58/0.64	19/22/0.33	1.3	2.3	3	0	3	0	7	22	3arm	1	nd	0.37	4	3	3	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------------------------CCAAUGC----------------------	2	novel
seed	----------------------------------------------------------------------------------UGCGCUC------------------	1	novel
		len	cloning frequencies
			T3S2	T5S1	T5S2
	---------------------------------------------------------------------------------ATGCGCTCAGGATGCCTCA-------	19	-	1	-
	-----------------------------------------------------------------------------GCCAATGCGCTCAGGATGCCTC--------	22	-	-	1
	-----------------------------------------------------------------------------GCCAATGCGCTCAGGATGC-----------	19	1	-	-
rat	ggctgtgtcacacacatccttgcacgtggacttgggtgctggtgctgggctgaagggcctcagacaccgctcagtcaGCCAATGCGCTCAGGATGCCTCAtacagtc
	***********************************************************************************************************
rat	((((((((......((((((.((.(((.(((.(((((...(((((((((((....)))).))).)))))))))))).....))).))..))))))....))))))))	0.990 -43.00

rat

chromosome:10:55857976:55858082:-1

intergenic

block35014 [novel_lenNOK_5varHIGH_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	0.121	no	no	0.42/0.50	18/20/0.20	2.2	2.0	5	0	4	0	11	3	3arm	1	nd	0.37	4	5	4	na	na

		reads	miRBase family seed
seed	----------------------------------------------UGCGAUA-----------------------	3	novel
seed	---------------------------------------------AUGCGAU------------------------	1	novel
seed	-------------------------------------------UAAUGCG--------------------------	1	novel
		len	cloning frequencies
			T1S1	T2S1	T3S1	T3S2
	---------------------------------------------ATGCGATAATGGAAGGGC-------------	18	1	-	-	1
	---------------------------------------------ATGCGATAATGGAAGGGCAG-----------	20	-	-	1	-
	------------------------------------------GTAATGCGATAATGGAAGG---------------	19	1	-	-	-
	--------------------------------------------AATGCGATAATGGAAGGGC-------------	19	-	1	-	-
rat	tggccccgcgatttaatccagtcgtgtttctgtttcgctgcaGTAATGCGATAATGGAAGGGCAGcttgcaggcta
	****************************************************************************
rat	(((((..((((.....((((((((((((.((((......)))).))))))))..))))........)))).)))))	0.640 -23.72