miR-Intess: classification

other hairpins

novel_Multihit_5varHIGH_loopOverlap (11 loci)

block961904 [novel_Multihit_5varHIGH_loopOverlap]

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	0.050	no	no	0.43/0.46	20/24/1.00	2.0	0.2	4	0	2	0	13	-4	3arm	24	nd	0.24	3	4	2	na	na

		reads	miRBase family seed
seed	-------------------------------------------GGACUUA--------------------------	2	novel
seed	---------------------------------------AGCUGGA------------------------------	2	novel
		len	cloning frequencies
			T1S2	T5S1
	--------------------------------------TAGCTGGACTTACACTGTTGCAGT--------------	24	-	2
	------------------------------------------TGGACTTACACTGTTGCAGTA-------------	21	1	-
	------------------------------------------TGGACTTACACTGTTGCAGT--------------	20	-	1
rat	caatttaaaggacctctactataacaggttatccactcTAGCTGGACTTACACTGTTGCAGTAcctcaactgttgc
	****************************************************************************
rat	((((....(((.....((((.((((((((..((((.......))))...)).)))))).))))))).....)))).	0.990 -15.10

rat

chromosome:1:51065960:51066035:1

intergenic

block962051 [novel_Multihit_5varHIGH_loopOverlap]

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	0.088	no	no	0.43/0.46	20/24/1.00	2.0	0.2	4	0	2	0	13	-4	3arm	24	nd	0.24	3	4	2	na	na

		reads	miRBase family seed
seed	-------------------------------------------GGACUUA--------------------------	2	novel
seed	---------------------------------------AGCUGGA------------------------------	2	novel
		len	cloning frequencies
			T1S2	T5S1
	--------------------------------------TAGCTGGACTTACACTGTTGCAGT--------------	24	-	2
	------------------------------------------TGGACTTACACTGTTGCAGTA-------------	21	1	-
	------------------------------------------TGGACTTACACTGTTGCAGT--------------	20	-	1
rat	caatttaaaggacctctactataacaggttatccactgTAGCTGGACTTACACTGTTGCAGTAcctcaactgttgc
	****************************************************************************
rat	((((....(((.....((((.((((((((..((((.......))))...)).)))))).))))))).....)))).	0.780 -15.10

rat

chromosome:1:51122405:51122480:1

intergenic

block965379 [novel_Multihit_5varHIGH_loopOverlap]

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	0.115	no	no	0.35/0.38	19/24/0.89	4.0	1.9	9	0	3	0	12	-21	3arm	39	nd	0.15	2	9	3	na	na

		reads	miRBase family seed
seed	--------------------------------------------GUCUAUG---------------------------------	3	novel
seed	------------------------------------------GUGUCUA-----------------------------------	3	novel
seed	-----------------------------------------------------GUGUUCA------------------------	2	miR-124*
seed	--------------------------------------------------GUUGUGU---------------------------	1	novel
		len	cloning frequencies
			T4S2	T5S1	T5S2
	-----------------------------------------TGTGTCTATGTTGTGTTCACTTCT-------------------	24	-	3	-
	-------------------------------------------TGTCTATGTTGTGTTCACTTCT-------------------	22	-	3	-
	----------------------------------------------------TGTGTTCACTTCTATTCCTA------------	20	-	1	-
	----------------------------------------------------TGTGTTCACTTCTATTCCT-------------	19	1	-	-
	-------------------------------------------------TGTTGTGTTCACTTCTATTC---------------	20	-	-	1
rat	tcatagagatacactaggccattggaagatgaggagaacaaTGTGTCTATGTTGTGTTCACTTCTATTCCTAtttagtcctaga
	************************************************************************************
	----------------------------------------------------------------------------------------------	ENSRNOT00000059908 ENSRNOG00000030267 RGD1561185_predicted
rat	...(((.(((....((((....((((((.((((....(((((((....))))))).))))))))))..))))....))))))..	0.930 -18.00

rat

chromosome:1:52816557:52816640:1

block1564948 [novel_Multihit_5varHIGH_loopOverlap]

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	0.338	no	no	0.50/0.57	21/24/1.00	5.3	3.3	3	0	1	0	10	-6	5arm_loop_3arm	12	nd	0.08	1	3	1	na	na

		reads	miRBase family seed
seed	-----------------UCAGUGG-------------------------------------------------------------	1	novel
seed	---------------------UGGCAGU---------------------------------------------------------	1	novel
seed	-----------CAAGGUU-------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	----------TCAAGGTTCAGTGGCAGTGGATCT---------------------------------------------------	24	1
	----------------TTCAGTGGCAGTGGATCTGGT------------------------------------------------	21	1
	--------------------GTGGCAGTGGATCTGGTACAG--------------------------------------------	21	1
rat	aggcatcccaTCAAGGTTCAGTGGCAGTGGATCTGGTACAGattacacactcaccatcagcagcctgcagcctgaagattttgcc
	*************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000040279 ENSRNOG00000030066
rat	.((((....(((.(((((((((((.((((((((((...))))))...))))..)))........))).)))))...)))..))))	0.480 -21.00

rat

chromosome:4:99961935:99962019:-1

Same_strand|Boundary_non-coding|ENSRNOT00000041885|ENSRNOG00000030066 ## Same_strand|Intronic_non-coding|ENSRNOT00000040279|ENSRNOG00000030066 ## ENSRNOG00000030066|protein_coding||

block965424 [novel_Multihit_5varHIGH_loopOverlap]

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	0.139	no	no	0.43/0.46	20/24/1.00	2.0	0.2	4	0	2	0	13	-4	3arm	24	nd	0.19	2	4	2	na	na

		reads	miRBase family seed
seed	-------------------------------------------GGACUUA--------------------------	2	novel
seed	---------------------------------------AGCUGGA------------------------------	2	novel
		len	cloning frequencies
			T1S2	T5S1
	--------------------------------------TAGCTGGACTTACACTGTTGCAGT--------------	24	-	2
	------------------------------------------TGGACTTACACTGTTGCAGTA-------------	21	1	-
	------------------------------------------TGGACTTACACTGTTGCAGT--------------	20	-	1
rat	caatttaaaggacctctactataacagggtatccactgTAGCTGGACTTACACTGTTGCAGTAcctcaactgttgc
	****************************************************************************
	--------------------------------------------------------------------------------------	ENSRNOT00000059908 ENSRNOG00000030267 RGD1561185_predicted
rat	((((....(((.....((((.((((((.(((((((.......))))..))).)))))).))))))).....)))).	0.790 -15.70

rat

chromosome:1:52818207:52818282:1

block706423 [novel_Multihit_5varHIGH_loopOverlap]

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	0.035	no	no	0.45/0.59	18/25/0.75	2.8 0.0 0.0	3.0 0.0 0.0	6 1 1	0 0 0	4 1 1	0 0 0	25 22 17	-20 8 11	3arm 3arm 3arm	14 20 20	nd nd nd	0.32 0.22 0.35	3 2 3	8	6	na	na

		reads	miRBase family seed
seed	-------------------------------------AUCAAGC---------------------------------------------	2	novel
seed	------------------------------------------GCGCAAU----------------------------------------	1	novel
seed	--------------------------------UCCUCAU--------------------------------------------------	1	novel
seed	-----------------------------------------------------CCAUUCC-----------------------------	1	novel
seed	--------------------------------------UCAAGCG--------------------------------------------	1	novel
seed	-------------------------------------------CGCAAUA---------------------------------------	1	novel
seed	--------------------------------------------------CCACCAU--------------------------------	1	novel
		len	cloning frequencies
			T1S2	T2S1	T2S2	T4S1	T5S1	T5S2
	------------------------------------CATCAAGCGCAATACCACCA---------------------------------	20	-	-	-	2	-	-
	------------------------------------------GCGCAATACCACCATTCCCACC-------------------------	22	-	-	-	-	1	-
	----------------------------------------------------ACCATTCCCACCAAGCAGAC-----------------	20	1	-	-	-	-	-
	-------------------------------------------------ACCACCATTCCCACCAAG----------------------	18	-	1	-	-	-	-
	-------------------------------GTCCTCATCAAGCGCAATACCACCA---------------------------------	25	-	-	-	1	-	-
	-----------------------------------------AGCGCAATACCACCATTCCCAC--------------------------	22	-	-	1	-	-	-
	-------------------------------------ATCAAGCGCAATACCACCATTC------------------------------	22	-	-	-	-	-	1
rat	tgggactgaaactgctggtggagtcatggctGTCCTCATCAAGCGCAATACCACCATTCCCACCAAGCAGACagattttcaccacctac
	*****************************************************************************************
rat	((((..((((((((((((((((((..(((.(((.((.....)).)))...)))..))))).)))).))))......)))))...)))).	0.970 -24.00

rat

chromosome:18:49533505:49533593:-1

intergenic

novel_cloningHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH (11 loci)

block133244 [novel_cloningHIGH_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	0.267	no	no	0.35/0.39	18/23/0.84	0.0	0.0	43	0	3	0	13	-4	5arm_loop	4	nd	0.41	5	57	3	na	na

		reads	miRBase family seed
seed	--------------UGCAUGA-----------------------------------------------------	54	novel
seed	-------------AUGCAUG------------------------------------------------------	3	novel
		len	cloning frequencies
			T1S1	T1S2	T4S1
	-------------ATGCATGATGACTACAACATTG---------------------------------------	22	28	15	1
	-------------ATGCATGATGACTACAAC-------------------------------------------	18	3	5	-
	------------CATGCATGATGACTACAACATTG---------------------------------------	23	1	2	-
	-------------ATGCATGATGACTACAACA------------------------------------------	19	1	-	-
	-------------ATGCATGATGACTACAACAT-----------------------------------------	20	-	1	-
rat	ataatagttgtacATGCATGATGACTACAACATTGcgagtctgaggtccacatcataaaaaaataataattata
	**************************************************************************
rat	(((((.(((((......(((((((((.((((.......)).)).))))...)))))......))))).))))).	0.780 -9.10

rat

chromosome:11:70959733:70959806:-1

intergenic

block816949 [novel_cloningHIGH_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	0.180	no	no	0.43/0.53	18/23/0.72	0.0	0.7	339	0	10	0	35	-6	3arm_loop	1	nd	0.43	5	558	10	na	na

		reads	miRBase family seed
seed	------------------------------------------------------AGUUCAG------------------------------------------------	539	novel
seed	-----------------------------------------------------CAGUUCA-------------------------------------------------	12	novel
seed	-------------------------------------------------------GUUCAGG-----------------------------------------------	5	novel
seed	---------------------------------------------------------UCAGGUU---------------------------------------------	2	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	-----------------------------------------------------CAGTTCAGGTTCTGACTCCTT-----------------------------------	21	4	4	11	4	14	7	23	51	21	40
	-----------------------------------------------------CAGTTCAGGTTCTGACTCCT------------------------------------	20	4	2	15	6	7	6	25	52	22	29
	-----------------------------------------------------CAGTTCAGGTTCTGACTCC-------------------------------------	19	2	-	5	4	3	4	9	28	11	18
	-----------------------------------------------------CAGTTCAGGTTCTGACTC--------------------------------------	18	2	1	6	2	3	4	4	30	7	7
	-----------------------------------------------------CAGTTCAGGTTCTGACTCCTTT----------------------------------	22	1	-	2	1	5	-	4	11	1	15
	----------------------------------------------------TCAGTTCAGGTTCTGACTCCTT-----------------------------------	22	-	-	1	-	-	-	-	2	1	2
	----------------------------------------------------TCAGTTCAGGTTCTGACTC--------------------------------------	19	-	-	-	-	-	-	-	2	1	-
	--------------------------------------------------------TTCAGGTTCTGACTCCTT-----------------------------------	18	-	-	-	-	-	-	1	1	-	-
	------------------------------------------------------AGTTCAGGTTCTGACTCC-------------------------------------	18	-	-	-	-	-	1	-	1	-	-
	------------------------------------------------------AGTTCAGGTTCTGACTCCT------------------------------------	19	-	-	-	-	-	-	-	1	1	-
	----------------------------------------------------TCAGTTCAGGTTCTGACTCCT------------------------------------	21	-	-	-	-	-	-	-	-	1	1
	-----------------------------------------------------CAGTTCAGGTTCTGACTCCTTTT---------------------------------	23	-	-	-	-	-	-	-	1	-	1
	------------------------------------------------------AGTTCAGGTTCTGACTCCTT-----------------------------------	20	-	-	-	-	-	-	-	-	-	1
	----------------------------------------------------TCAGTTCAGGTTCTGACTCC-------------------------------------	20	-	-	-	-	-	-	-	-	1	-
rat	tctttgttgtcaagaatgctcgctctccgtagaaaaatgagtcacctccttctCAGTTCAGGTTCTGACTCCTTttactctaacattttcttgttctcatagccttaga
	*************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000019298 ENSRNOG00000014371 Cdh13
rat	(((..(((((..(((((............((((((((.((((((...(((.........)))...)))))).))))..))))..........))))).)))))...)))	0.580 -17.55

rat

chromosome:19:49233299:49233407:1

block850481 [novel_cloningHIGH_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	0.634	no	no	0.56/0.63	18/20/0.78	0.0	0.0	30	0	10	0	8	-4	5arm_loop_3arm	1	nd	0.40	4	51	10	na	na

		reads	miRBase family seed
seed	---------CGUUUCC--------------------------------------------------	46	novel
seed	----------GUUUCCG-------------------------------------------------	3	novel
seed	-------UUCGUUU----------------------------------------------------	2	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	--------TCGTTTCCGGCTCGAAGGAC--------------------------------------	20	2	5	7	2	6	12	2	2	-	2
	--------TCGTTTCCGGCTCGAAGGA---------------------------------------	19	-	-	-	-	2	2	-	-	1	-
	---------CGTTTCCGGCTCGAAGGAC--------------------------------------	19	1	-	1	-	-	1	-	-	-	-
	--------TCGTTTCCGGCTCGAAGG----------------------------------------	18	-	-	1	-	-	-	-	-	-	-
	------GTTCGTTTCCGGCTCGAA------------------------------------------	18	-	-	-	-	-	-	-	-	1	-
	------GTTCGTTTCCGGCTCGAAG-----------------------------------------	19	-	-	-	-	-	1	-	-	-	-
rat	tacctggtTCGTTTCCGGCTCGAAGGACttcgtgcactacttgttggggatttagctcagtggtag
	******************************************************************
	----------------------------------------------------------------------------	ENSRNOT00000031821 ENSRNOG00000029957 LOC682131
	----------------------------------------------------------------------------	ENSRNOT00000040045 ENSRNOG00000029957 LOC682131
	----------------------------------------------------------------------------	ENSRNOT00000044359 ENSRNOG00000029957 LOC682131
	----------------------------------------------------------------------------	ENSRNOT00000046206 ENSRNOG00000029957 LOC682131
	----------------------------------------------------------------------------	ENSRNOT00000029113 ENSRNOG00000029957 LOC682131
rat	((((.((((.((..(((((.((((....))))..........)))))..))..))))....)))).	0.840 -15.00

rat

chromosome:1:59315282:59315347:-1

block1337224 [novel_cloningHIGH_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	0.603	no	no	0.50/0.56	18/22/0.95	0.0	0.0	603	0	10	0	21	-4	5arm_loop_3arm	1	nd	0.35	4	780	10	na	na

		reads	miRBase family seed
seed	----------------------AGAAAGC------------------------------------------------------	777	novel
seed	------------------------AAAGCGC----------------------------------------------------	3	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	---------------------AAGAAAGCGCATGGAGGTCA------------------------------------------	20	51	10	59	8	3	6	198	163	176	66
	---------------------AAGAAAGCGCATGGAGGTC-------------------------------------------	19	-	3	1	-	-	-	4	1	6	5
	---------------------AAGAAAGCGCATGGAGGT--------------------------------------------	18	-	4	2	-	-	-	3	1	1	2
	---------------------AAGAAAGCGCATGGAGGTCAC-----------------------------------------	21	1	-	-	-	-	-	-	1	1	-
	-----------------------GAAAGCGCATGGAGGTCA------------------------------------------	18	1	-	-	-	-	-	-	-	1	1
	---------------------AAGAAAGCGCATGGAGGTCACT----------------------------------------	22	-	-	-	-	-	-	-	1	-	-
rat	cataaaataaaatcttaagacAAGAAAGCGCATGGAGGTCActcatgctcagcctgcactctgtgtcccagtcactgttatgg
	***********************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000013993 ENSRNOG00000010487 Dnajb14
rat	(((((........((...(((((((..((((((.(((....))))))).......))..))).))))..))......))))).	0.510 -14.45