miR-Intess: classification

other hairpins

novel_multiarm_DicerNOK_5varHIGH_nonpairedHIGH (1 loci)

novel_multiarm_DicerNOK_5varHIGH_randfoldOK_bulgeHIGH (1 loci)

sblock1876 [novel_multiarm_DicerNOK_5varHIGH_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	0.005	no	no	0.28/0.35	18/23/0.83	0.0 4.2	0.0 2.8	1 5	0 0	1 2	0 0	8 17	11 3	5arm 3arm	1 2	nd nd	0.24 0.52	4 12	6	2	-9	0

		reads	miRBase family seed
seed	-------------------------------------------------------AACUCAU--------------------------------	3	novel
seed	------------------------------------------------AGCUCUU---------------------------------------	2	novel
seed	---------CUGUAUG------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S2	T5S1
	-----------------------------------------------TAGCTCTTAACTCATAACCAAAA------------------------	23	-	2
	--------TCTGTATGTAGTTTTTCCAGT-----------------------------------------------------------------	21	-	1
	------------------------------------------------------TAACTCATAACCAAAATGGACTG-----------------	23	-	1
	------------------------------------------------------TAACTCATAACCAAAATGGAC-------------------	21	-	1
	------------------------------------------------------TAACTCATAACCAAAATG----------------------	18	1	-
rat	gaccttgcTCTGTATGTAGTTTTTCCAGTttgggctgctgactacagTAGCTCTTAACTCATAACCAAAATGGACTGcaggggcagcgctgtca
	**********************************************************************************************
rat	(((...((.((((.((((((((....((((.(((((((((....)))))))))..))))............))))))))...)))).)).))).	0.490 -32.99

rat

chromosome:1:124857498:124857591:1

intergenic

novel_multiarm_DicerNOK_Multihit_5varHIGH_loopOverlap_bulgeHIGH (1 loci)

sblock1452 [novel_multiarm_DicerNOK_Multihit_5varHIGH_loopOverlap_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	0.455	no	no	0.35/0.61	20/23/1.00	1.0 2.5	1.0 2.5	2 2	0 0	2 1	0 0	29 12	-6 12	5arm_loop_3arm 3arm	19 19	nd nd	0.50 0.30	6 4	4	3	10	0

		reads	miRBase family seed
seed	------------------------------UUCCUAA------------------------------------------------------------------	1	novel
seed	----------------------------------------------------------------UAGCCAG--------------------------------	1	novel
seed	--------------------------------CCUAAUU----------------------------------------------------------------	1	novel
seed	---------------------------------------------------------------------AGCCACU---------------------------	1	novel
		len	cloning frequencies
			T1S2	T4S2	T5S1
	--------------------------------------------------------------------CAGCCACTGATGGGGACAGACTC------------	23	-	-	1
	---------------------------------------------------------------TTAGCCAGCCACTGATGGGGACA-----------------	23	-	-	1
	-----------------------------ATTCCTAATTTCTTGGACCA------------------------------------------------------	20	1	-	-
	-------------------------------TCCTAATTTCTTGGACCATC----------------------------------------------------	20	-	1	-
rat	tgagcacaggaacactgcttcatttggaaATTCCTAATTTCTTGGACCATCccttgaatcctcTTAGCCAGCCACTGATGGGGACAGACTCgccctctcctca
	*******************************************************************************************************
rat	.(((...(((....(((((((((((((......((((.(((..((......))..))).....))))....)))..))))))).)))......)))...))).	0.400 -19.70

rat

chromosome:1:51426931:51427033:1

intergenic

novel_multiarm_DicerNOK_Multihit_5varHIGH_loopOverlap_nonpairedHIGH (1 loci)

sblock329 [novel_multiarm_DicerNOK_Multihit_5varHIGH_loopOverlap_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	0.657	no	no	0.35/0.50	19/24/0.75	0.0 1.5	0.5 3.5	2 2	0 0	2 1	0 0	16 15	-1 -1	5arm_loop 3arm	39 46	nd nd	0.32 0.35	3 4	4	2	0	-2

		reads	miRBase family seed
seed	-----------------GUGUUCA--------------------------------------------------------	2	miR-124*
seed	------------------------------------------CCUAGAG-------------------------------	1	novel
seed	---------------------------------------AGUCCUA----------------------------------	1	novel
		len	cloning frequencies
			T4S2	T5S1
	----------------TGTGTTCACTTCTATTCCT---------------------------------------------	19	1	-
	----------------TGTGTTCACTTCTATTCCTA--------------------------------------------	20	-	1
	-----------------------------------------TCCTAGAGGGAAATCAGCAAGGGT---------------	24	-	1
	--------------------------------------TAGTCCTAGAGGGAAATCAG----------------------	20	-	1
rat	agcaatgtgtctaattTGTGTTCACTTCTATTCCTAttTAGTCCTAGAGGGAAATCAGCAAGGGTgtgaggaatgctgct
	********************************************************************************
rat	((((..((..((..(((((.(((.((((((...((....))...)))))))))....)))))......))..))..))))	0.940 -15.10

rat

chromosome:1:50445948:50446027:-1

intergenic ## {Repeats: trf 189 191 0 class=trf}

novel_multiarm_DicerNOK_Multihit_bulgeHIGH (1 loci)

sblock10200 [novel_multiarm_DicerNOK_Multihit_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	0.048	no	no	0.52/0.71	21/23/1.00	0.0 0.0 0.0	0.0 0.0 0.0	1 3 1	0 0 0	1 1 1	0 0 0	0 26 17	33 8 16	5arm 5arm 3arm	34 34 34	nd nd nd	0.27 0.29 0.30	4 4 3	5	1	10	11

		reads	miRBase family seed
seed	---------------------------GACCUGG--------------------------------------------------------------------------------	3	novel
seed	---------------------------------------------------------------------------UCUCUGG--------------------------------	1	novel
seed	-GUCCCAG----------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	--------------------------GGACCTGGTCTGGTGCAGCCC-------------------------------------------------------------------	21	3
	--------------------------------------------------------------------------GTCTCTGGGTTCTCACTAAGCAG-----------------	23	1
	TGTCCCAGGTGCAGCTGAAGGA--------------------------------------------------------------------------------------------	22	1
rat	TGTCCCAGGTGCAGCTGAAGGAgtcaGGACCTGGTCTGGTGCAGCCCtcacagaccctgtctctcacctgcactGTCTCTGGGTTCTCACTAAGCAGctatggtgtaatctggg
	******************************************************************************************************************
rat	...((((((((((((((....(((.(((((((((..((((((((.......((((...)))).....))))))))...))))))))).)))...))))).....))).))))))	1.000 -42.40

rat

chromosome:6:139035361:139035474:-1

intergenic

novel_multiarm_DicerNOK_Multihit_shortStem_5varHIGH (1 loci)

sblock1659 [novel_multiarm_DicerNOK_Multihit_shortStem_5varHIGH]

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	0.019	no	no	0.50/0.52	18/23/0.86	1.2 0.0	1.0 0.0	6 1	0 0	3 1	0 0	0 27	26 -5	5arm 3arm_loop	25 25	nd nd	0.28 0.35	3 4	7	4	0	17

		reads	miRBase family seed
seed	--------CACAGGA---------------------------------------------------------------------------------------	5	novel
seed	--------------------------------------------------------GUCUCAG---------------------------------------	1	novel
seed	-CCACUCU----------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S2	T4S2	T5S1	T5S2
	-------TCACAGGACCTACACTGTTG---------------------------------------------------------------------------	20	1	-	3	-
	-------------------------------------------------------TGTCTCAGGACCTCGAATGA---------------------------	20	-	1	-	-
	TCCACTCTCACAGGACCTACACT-------------------------------------------------------------------------------	23	-	-	-	1
	-------TCACAGGACCTACACTGT-----------------------------------------------------------------------------	18	-	-	1	-
rat	TCCACTCTCACAGGACCTACACTGTTGcaggaactccattgtctgagcacctgcaTGTCTCAGGACCTCGAATGAtgcagaacctctaatggtgcaggacct
	******************************************************************************************************
	----------------------------------------------------------------------------------------------------------------	ENSRNOT00000059909 ENSRNOG00000030267 RGD1561185_predicted
	----------------------------------------------------------------------------------------------------------------	ENSRNOT00000059908 ENSRNOG00000030267 RGD1561185_predicted
rat	...........(((.(((.((((((((.(((..((.((((((.((((..((((.......))))..)))).)))))).))..))).)))))))).))).)))	0.990 -31.40

rat

chromosome:1:52750816:52750917:1

novel_multiarm_DicerNOK_Multihit_shortStem_loopOverlap (1 loci)

sblock6426 [novel_multiarm_DicerNOK_Multihit_shortStem_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	0.109	no	no	0.40/0.55	20/22/1.00	0.0 0.0	0.0 0.0	1 1	0 0	1 1	0 0	0 2	5 -2	5arm 3arm_loop	25 25	nd nd	0.50 0.25	6 3	2	2	0	-8

		reads	miRBase family seed
seed	-UCUUCUU--------------------------------------------	1	novel
seed	-------------------------------AGACAAG--------------	1	novel
		len	cloning frequencies
			T1S2	T2S2
	ATCTTCTTGTGCAGTGCCAGCC------------------------------	22	-	1
	------------------------------TAGACAAGATGGTAAAGGTC--	20	1	-
rat	ATCTTCTTGTGCAGTGCCAGCCttgtcccgTAGACAAGATGGTAAAGGTCag
	****************************************************
rat	.......((.((..(((((..((((((.....)))))).)))))...)))).	1.000 -14.60

rat

chromosome:2:112022156:112022207:1

intergenic

novel_multiarm_DicerNOK_loopOverlap_mirtron_bulgeHIGH (1 loci)

sblock2498 [novel_multiarm_DicerNOK_loopOverlap_mirtron_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	0.057	no	no	0.50/0.57	21/22/1.00	0.0 0.0	0.0 0.0	1 2	0 0	1 1	0 0	18 2	-3 18	5arm_loop 3arm	1 1	40 0	0.27 0.29	4 3	3	2	16	0

		reads	miRBase family seed
seed	------------------------------------------------------------UGGCCUC---------------	2	novel
seed	-------------------UGGGGUG--------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T5S2
	-----------------------------------------------------------CTGGCCTCTTCATTCTCCCAG--	21	2	-
	------------------ATGGGGTGCTTGAAAGGTTTGG------------------------------------------	22	-	1
rat	ccgctggcagggtggggaATGGGGTGCTTGAAAGGTTTGGgagcctttaagtgattttcCTGGCCTCTTCATTCTCCCAGgg
	**********************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>	ENSRNOT00000028496 ENSRNOG00000020994 RGD1306193
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>	ENSRNOT00000055181 ENSRNOG00000020994 RGD1306193
rat	((.((((.((((((..((.(((((.(((((.((((((....))))))))))).....)))))...))..)))))).))))))	1.000 -30.50

rat

chromosome:10:91512779:91512860:-1

novel_multiarm_DicerNOK_loopOverlap_mirtron_randfoldOK (1 loci)

sblock3583 [novel_multiarm_DicerNOK_loopOverlap_mirtron_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	0.55/0.70	21/24/1.00	0.0 0.0	0.5 1.3	2 3	0 0	2 3	0 0	22 11	-1 4	5arm_loop 3arm	1 1	24 1	0.23 0.14	3 2	5	3	5	10

		reads	miRBase family seed
seed	------------------------------------------------------UGAUCUC---------------------------	3	novel
seed	-----------------------GGGUGGG----------------------------------------------------------	2	novel
		len	cloning frequencies
			T1S1	T3S1	T3S2
	----------------------AGGGTGGGGCAGATGCAGCCTG--------------------------------------------	22	-	1	-
	----------------------AGGGTGGGGCAGATGCAGCCTGG-------------------------------------------	23	-	-	1
	-----------------------------------------------------CTGATCTCTACCCCTTCCCACAGC-----------	24	-	-	1
	-----------------------------------------------------CTGATCTCTACCCCTTCCCAC--------------	21	1	-	-
	-----------------------------------------------------CTGATCTCTACCCCTTCCCACA-------------	22	-	1	-
rat	taggggcaggaactgggggaccAGGGTGGGGCAGATGCAGCCTGGgcagcaggCTGATCTCTACCCCTTCCCACAGCacctccgcctg
	****************************************************************************************
	>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>	ENSRNOT00000030583 ENSRNOG00000028198 P50745-3
rat	((((((.(((..(((.((((...((((((...((((.(((((((.....)))))))))))))))))..)))).)))..))))).))))	0.770 -44.60

rat

chromosome:12:35955423:35955510:1

novel_multiarm_DicerNOK_loopOverlap_mirtron_randfoldOK_bulgeHIGH (1 loci)

sblock4149 [novel_multiarm_DicerNOK_loopOverlap_mirtron_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	0.002	no	no	0.59/0.60	20/22/1.00	0.0 0.0	0.0 0.0	1 2	0 0	1 2	0 0	8 5	-3 13	5arm_loop 3arm	1 1	35 0	0.23 0.55	4 11	3	3	15	0

		reads	miRBase family seed
seed	----------------------------------------------CAGCCAC-----------------	2	novel
seed	---------GCUGGGA------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T3S1	T5S2
	---------------------------------------------TCAGCCACTGTCTCCTGCAG-----	20	1	1	-
	--------TGCTGGGACTCAGCAGCTGTGA----------------------------------------	22	-	-	1
rat	ccgttctgTGCTGGGACTCAGCAGCTGTGAttcggctgtggagtcTCAGCCACTGTCTCCTGCAGgtacg
	**********************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>	ENSRNOT00000012661 ENSRNOG00000025695 RGD1564930_predicted
rat	.((((((((((((((((((.(((((((.....))))))).))))))))))...........))))).)))	0.590 -33.80

rat

chromosome:14:89096137:89096206:-1

novel_multiarm_DicerNOK_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH (1 loci)

sblock5297 [novel_multiarm_DicerNOK_loopOverlap_randfoldOK_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	0.001	no	no	0.43/0.52	21/24/1.00	0.0 0.0 0.0	0.0 0.0 0.0	2 1 1	0 0 0	1 1 1	0 0 0	14 29 14	-2 -14 4	5arm_loop 5arm_loop_3arm 3arm	1 1 1	nd nd nd	0.38 0.43 0.39	4 7 5	4	1	4	1

		reads	miRBase family seed
seed	---------------ACUUGCC--------------------------------------------------------------	2	novel
seed	------------------------------GCUGUCU-----------------------------------------------	1	novel
seed	------------------------------------------------AGCUUUG-----------------------------	1	novel
		len	cloning frequencies
			T5S1
	--------------TACTTGCCATGCTTTTGCTGTCTG----------------------------------------------	24	2
	-----------------------------TGCTGTCTGCTTCTGACTCAG----------------------------------	21	1
	-----------------------------------------------CAGCTTTGCATGGTTCTCTGTAA--------------	23	1
rat	cccccgccaccctcTACTTGCCATGCTTTTGCTGTCTGCTTCTGACTCAGCTTTGCATGGTTCTCTGTAAggtggtactggggc
	************************************************************************************
rat	.((((((((((...(((..(((((((....((((((.......)))..)))...))))))).....))).))))))...)))).	1.000 -33.50