miR-Intess: classification

other hairpins

novel_multiarm_DicerNOK_Multihit_loopOverlap (29 loci)

sblock6160 [novel_multiarm_DicerNOK_Multihit_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	0.968	no	no	0.45/0.55	20/22/1.00	0.0 0.0	0.0 0.0	1 1	0 0	1 1	0 0	43 32	-18 2	5arm_loop 3arm	9 12	nd nd	0.86 0.25	19 2	2	1	0	18

		reads	miRBase family seed
seed	--------------------------------------------GACUGAC---------------------------------------------------------------------	1	novel
seed	---------------------------------------------------------------------CUCCAUA--------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	--------------------------------------------------------------------TCTCCATAGCCAGTGGACTG--------------------------------	20	1
	-------------------------------------------TGACTGACTTTTTCCTGACCCT-------------------------------------------------------	22	1
rat	cataagactcccttgaggtggacctgcctcgtctgtggctagaTGACTGACTTTTTCCTGACCCTtgtTCTCCATAGCCAGTGGACTGacctgacccacagcctgaagactgtcctgatg
	************************************************************************************************************************
rat	(((..(((...(((.((((((.......(((((((((((((((.(((...................))).))..)))))).))))).))......))...)))).)))...)))...)))	0.420 -24.43

rat

chromosome:2:186403053:186403172:-1

intergenic ## {Repeats: trf 31 47 0 class=trf}

sblock7038 [novel_multiarm_DicerNOK_Multihit_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	0.048	no	no	0.43/0.55	20/21/1.00	0.0 0.0	0.0 0.0	1 1	0 0	1 1	0 0	20 17	-2 7	5arm_loop 3arm	1 48	nd nd	0.33 0.30	3 3	2	2	6	5

		reads	miRBase family seed
seed	------------------------------------------------------UCCUAUC-----------------------------	1	novel
seed	---------------------CUGCUGG--------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S2	T5S2
	-----------------------------------------------------CTCCTATCCAGAAGACACCC-----------------	20	-	1
	--------------------TCTGCTGGATAATCTCTAGTC-------------------------------------------------	21	1	-
rat	tttcaagaagaatatgaggcTCTGCTGGATAATCTCTAGTCccagcctggaagCTCCTATCCAGAAGACACCCgcattccacacttgaga
	******************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000040584 ENSRNOG00000029509 LOC502486
rat	(((((((..((((.((.((.(((.(((((((...(((((.......)))))......))))))).)))..)))).))))....)))))))	0.730 -22.90

rat

chromosome:20:38493110:38493199:-1

novel_multiarm_DicerNOK_randfoldOK (29 loci)

sblock10061 [novel_multiarm_DicerNOK_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	0.004	no	no	0.43/0.57	20/23/1.00	0.0 0.5	0.0 1.0	1 2	0 0	1 2	0 0	25 32	5 5	5arm 3arm	1 1	nd nd	0.10 0.15	1 2	3	2	0	0

		reads	miRBase family seed
seed	--------------------------UGUUGGG------------------------------------------------------------------------------------	1	novel
seed	---------------------------------------------------------------UAGUUCU-----------------------------------------------	1	novel
seed	----------------------------------------------------------------AGUUCUU----------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T5S2
	--------------------------------------------------------------TTAGTTCTTGCTATCCTGCAGGT--------------------------------	23	-	1
	---------------------------------------------------------------TAGTTCTTGCTATCCTGCAG----------------------------------	20	1	-
	-------------------------GTGTTGGGTGGCAAGGACTGA-----------------------------------------------------------------------	21	1	-
rat	tcttgaacagtttcagtgctagtgaGTGTTGGGTGGCAAGGACTGAtttggaagaggcttacTTAGTTCTTGCTATCCTGCAGGTatctcatggtccataaaagagactgctgggag
	*********************************************************************************************************************
rat	((((...(((((((.(((...((((((((.((((((((((((((((...((......))...)))))))))))))))).))).....)))))....)))....)))))))..)))).	0.720 -39.70

rat

chromosome:6:111868455:111868571:-1

intergenic

sblock10232 [novel_multiarm_DicerNOK_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	0.70/0.83	23/23/1.00	0.0 0.0	0.0 0.0	1 1	0 0	1 1	0 0	14 19	7 9	5arm 3arm	1 1	nd nd	0.26 0.26	2 2	2	2	-3	-3

		reads	miRBase family seed
seed	---------------------------------------------------------UCGCUCC----------------------------------	1	novel
seed	---------------CCGCGGU----------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S1	T4S1
	--------------------------------------------------------CTCGCTCCCTCCCAGCTCTCCAC-------------------	23	-	1
	--------------GCCGCGGTCGGCTCGGGAGGAGC-------------------------------------------------------------	23	1	-
rat	gtcccggcagcgtgGCCGCGGTCGGCTCGGGAGGAGCacggctgctccagccgctaCTCGCTCCCTCCCAGCTCTCCACgcccacagttgcaagcaca
	**************************************************************************************************
	------------------------------------------------------------------------------------------------------------	ENSRNOT00000006725 ENSRNOG00000005067 Zfp36l2
rat	((....(((((((((.((.((..((((.(((((((((.((((((...))))))......))))).))))))))..)).)).)))).)))))....)).	1.000 -48.70

rat

chromosome:6:7534464:7534561:1

Opposite_strand|Intronic_coding|ENSRNOT00000006725|ENSRNOG00000005067 ## ENSRNOG00000005067|protein_coding|Zfp36l2|zinc finger protein 36, C3H type-like 2 [Source:RefSeq_peptide;Acc:NP_001031703] ## {SimpF: oe = 0.80 1 CpG}

sblock1094 [novel_multiarm_DicerNOK_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	0.008	no	no	0.70/0.70	20/20/1.00	0.0 0.0	0.0 0.0	1 1	0 0	1 1	0 0	15 10	6 5	5arm 3arm	1 1	nd nd	0.30 0.15	3 1	2	2	-1	0

		reads	miRBase family seed
seed	----------------GGAGUCC----------------------------------------------------------	1	novel
seed	----------------------------------------------------CCCGCAU----------------------	1	novel
		len	cloning frequencies
			T3S1	T5S2
	---------------AGGAGTCCAGGAGGCGGGAG----------------------------------------------	20	1	-
	---------------------------------------------------GCCCGCATCTCTGGATCCCC----------	20	-	1
rat	gtagagctgggcgggAGGAGTCCAGGAGGCGGGAGctgccgcggtctggtaGCCCGCATCTCTGGATCCCCgcagcctgca
	*********************************************************************************
rat	((((.(((..(((((....((((((((.((((..(((((((.....))))))))))).)).)))))).)))))))))))).	1.000 -44.10

rat

chromosome:1:253307488:253307568:-1

intergenic

sblock11032 [novel_multiarm_DicerNOK_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	0.50/0.61	18/22/0.75	0.0 0.0	0.0 0.7	1 3	0 0	1 2	0 0	17 33	17 3	5arm 3arm	1 1	nd nd	0.44 0.30	5 3	4	2	-15	-11

		reads	miRBase family seed
seed	--------------------------------------------------------------GUCUCCU-----------------------------------------------	3	novel
seed	------------------CCUCGAC-------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T5S1
	-------------------------------------------------------------AGTCTCCTAATGCCACACAGAC---------------------------------	22	2	-
	-------------------------------------------------------------AGTCTCCTAATGCCACACAG-----------------------------------	20	-	1
	-----------------GCCTCGACCAGGAAAGTG---------------------------------------------------------------------------------	18	-	1
rat	tactgtctgaatccccaGCCTCGACCAGGAAAGTGtggcaaaaggtgacgctgtgctaggcAGTCTCCTAATGCCACACAGACccctgggaagccacagtaggggatggggggtaa
	********************************************************************************************************************
rat	((((.(((..((((((.((.....(((((...((((((((..(((.((((((......))).))).)))..)))))))).....))))).........)).))))))))).)))).	0.730 -49.04

rat

chromosome:7:123662742:123662857:-1

intergenic

sblock11092 [novel_multiarm_DicerNOK_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	0.43/0.48	20/23/1.00	1.0 0.0	1.5 0.5	2 6	0 0	2 3	0 0	11 13	0 2	5arm 3arm	2 2	nd nd	0.26 0.30	2 3	8	4	2	0

		reads	miRBase family seed
seed	---------------------------------------------------AGAAGCC---------------------------	6	novel
seed	--------------CUGAACC----------------------------------------------------------------	1	novel
seed	------------UACUGAA------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S2	T3S1	T3S2	T5S1
	--------------------------------------------------TAGAAGCCAGATGGTTCAAGCA-------------	22	2	-	2	-
	-------------ACTGAACCCTTCATGCTTCTATG-------------------------------------------------	23	1	-	-	-
	-----------CTACTGAACCCTTCATGCTTCT----------------------------------------------------	22	-	-	-	1
	--------------------------------------------------TAGAAGCCAGATGGTTCAAG---------------	20	1	-	-	-
	--------------------------------------------------TAGAAGCCAGATGGTTCAAGC--------------	21	-	1	-	-
rat	ggacagttagtCTACTGAACCCTTCATGCTTCTATGcctctgccctctcaTAGAAGCCAGATGGTTCAAGCAacatagctctccc
	*************************************************************************************
rat	(((.(((((((....((((((..((..(((((((((............)))))))))..)).))))))....)).))))).))).	1.000 -26.60

rat

chromosome:7:142100876:142100960:-1

intergenic

sblock1821 [novel_multiarm_DicerNOK_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	0.52/0.63	19/22/0.75	0.0 0.3	0.0 0.0	1 3	0 0	1 2	0 0	25 24	11 6	5arm 3arm	1 1	nd nd	0.21 0.14	3 3	4	3	-2	2

		reads	miRBase family seed
seed	------------------------------------------------------------------UGGUCUG--------------------------------------	2	novel
seed	-------------------------------------------------------------------GGUCUGG-------------------------------------	1	novel
seed	--------------------------UGCCCAC------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T4S1	T5S2
	-----------------------------------------------------------------CTGGTCTGGATCTTGGGCATGA------------------------	22	2	-	-
	------------------------------------------------------------------TGGTCTGGATCTTGGGCATGA------------------------	21	-	-	1
	-------------------------ATGCCCACTCTCCAGCACC-------------------------------------------------------------------	19	-	1	-
rat	tcagtcaagtgctggaccagtgaccATGCCCACTCTCCAGCACCgtctctcacgctgcagcagagCTGGTCTGGATCTTGGGCATGAttgattccagtgcaaaggcatgac
	***************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000050109 ENSRNOG00000037152
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000019441 ENSRNOG00000014530 Nav2
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000019460 ENSRNOG00000014530 Nav2
rat	((((((..((((((((.((((...((((((((...(((((.((((.((((...((....)))))).)))))))))...))))))))))))..))))))))...))).))).	1.000 -47.20

rat

chromosome:1:99044191:99044301:1

Same_strand|Boundary_non-coding|ENSRNOT00000032691|ENSRNOG00000014530 ## Same_strand|Intronic_coding|ENSRNOT00000019441|ENSRNOG00000014530 ## ENSRNOG00000014530|protein_coding|Nav2|Retinoic acid inducible in neuroblastoma cells RAINB1 (Fragment). [Source:UniProtKB/TrEMBL;Acc:Q8R4H5] ## ENSRNOG00000037152|protein_coding||

sblock2132 [novel_multiarm_DicerNOK_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	0.57/0.62	18/23/0.80	0.0 0.0	0.0 1.8	1 4	0 0	1 2	0 0	22 20	9 4	5arm 3arm	1 1	nd nd	0.19 0.09	2 1	5	3	0	2

		reads	miRBase family seed
seed	-------------------------------------------------------------UGUUUGC-----------------------------------	4	novel
seed	-----------------------UGGCUGA-------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T4S1	T4S2	T5S1
	------------------------------------------------------------ATGTTTGCCCAGCCAGCCTGAGT--------------------	23	-	2	-
	----------------------TTGGCTGACTGCGGCAGGCAA------------------------------------------------------------	21	-	-	1
	------------------------------------------------------------ATGTTTGCCCAGCCAGCC-------------------------	18	1	-	-
	------------------------------------------------------------ATGTTTGCCCAGCCAGCCTGA----------------------	21	-	1	-
rat	catttccaggactgttcccagcTTGGCTGACTGCGGCAGGCAAgctggcaccattcgggcATGTTTGCCCAGCCAGCCTGAGTtgagatcagcccctgctttg
	*******************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000027875 ENSRNOG00000020532 Kcnq1
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000027871 ENSRNOG00000020532 Kcnq1
rat	......((((.(((.((.(((((((((((.(((.((((((((.....((.((....)))).))))))))))).))))).)))))).)).)))..)))).....	1.000 -45.20

rat

chromosome:1:203762350:203762452:1

Same_strand|Intronic_coding|ENSRNOT00000027875|ENSRNOG00000020532 ## ENSRNOG00000020532|protein_coding|Kcnq1|Potassium voltage-gated channel subfamily KQT member 1 (Voltage-gated potassium channel subunit Kv7.1) (IKs producing slow voltage-gated potassium channel subunit alpha KvLQT1) (KQT-like 1). [Source:UniProtKB/Swiss-Prot;Acc:Q9Z0N7]

sblock2172 [novel_multiarm_DicerNOK_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	0.007	no	no	0.35/0.61	18/22/0.75	0.0 0.0 1.0	0.0 0.0 0.0	1 1 2	0 0 0	1 1 2	0 0 0	0 11 5	7 3 11	5arm 3arm 3arm	9 9 9	nd nd nd	0.20 0.50 0.35	2 4 4	4	3	-9	-7

		reads	miRBase family seed
seed	------------------------------------GAAGUAA-------------------------	1	novel
seed	--------------------------------------------UCAGCUA-----------------	1	novel
seed	-GCAAUGG------------------------------------------------------------	1	novel
seed	----------------------------------------------AGCUACA---------------	1	novel
		len	cloning frequencies
			T1S2	T4S1	T5S1
	---------------------------------------------CAGCTACAGGGTGACCAG-----	18	-	-	1
	-------------------------------------------TTCAGCTACAGGGTGACCAG-----	20	1	-	-
	-----------------------------------AGAAGTAATTCAGCTACAGGGT-----------	22	1	-	-
	TGCAATGGTACTGTAATTGA------------------------------------------------	20	-	1	-
rat	TGCAATGGTACTGTAATTGAgcatccagaatatggAGAAGTAATTCAGCTACAGGGTGACCAGcgcaa
	********************************************************************
rat	(((..((((.(((((.((((((.((((.....))))...))...)))).)))))....))))..))).	0.810 -20.90