miR-Intess: classification

other hairpins

novel_gcHIGH_shortStem_loopOverlap_randfoldOK_bulgeHIGH (1 loci)

block1048948 [novel_gcHIGH_shortStem_loopOverlap_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	0.91/0.91	22/22/1.00	0.0	0.0	1	0	1	0	0	-1	5arm_loop	1	nd	0.27	4	1	1	na	na

		reads	miRBase family seed
seed	-CCCCCGC-------------------------------------------------	1	novel
		len	cloning frequencies
			T2S2
	CCCCCCGCCGTGGTGGGGGGGG-----------------------------------	22	1
rat	CCCCCCGCCGTGGTGGGGGGGGaacctccnccacccgcccccccacccccctggggg
	*********************************************************
	-------------------------------------------------------------------	ENSRNOT00000020020 ENSRNOG00000014890 Mrpl43
rat	.((((((....((((((((((................))))))))))....))))))	1.000 -33.69

rat

chromosome:1:250071473:250071529:1

Opposite_strand|Intronic_non-coding|ENSRNOT00000020020|ENSRNOG00000014890 ## ENSRNOG00000014890|protein_coding|Mrpl43|mitochondrial ribosomal protein L43 Gene [Source:MGI Symbol;Acc:MGI:2137229] ## {Repeats: dust 250071499 250071521 0 class=dust}

novel_gcHIGH_shortStem_nonpairedHIGH (1 loci)

block1563150 [novel_gcHIGH_shortStem_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	0.421	no	no	0.91/0.91	22/22/1.00	0.0	0.0	1	0	1	0	2	20	3arm	1	nd	0.41	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------------------------CCCGCCG----------------	1	novel
		len	cloning frequencies
			T4S2
	--------------------------------------------------------------------------GCCCGCCGCTGCCCGCTGCCCC--	22	1
rat	cgccgctccgggcaaggagtgtgcgctggctcctaatgtcactgcagagcttgagcctctgcccctcccagcccGCCCGCCGCTGCCCGCTGCCCCgc
	**************************************************************************************************
rat	((..((..((((((.((...(((.(((((..............(((((((....)).))))).....))))).)))...))..))))))..))..)).	0.760 -36.01

rat

chromosome:4:95313137:95313234:-1

intergenic

novel_gcHIGH_shortStem_nonpairedHIGH_bulgeHIGH (1 loci)

block140100 [novel_gcHIGH_shortStem_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	0.928	no	no	0.95/0.95	20/20/1.00	0.0	0.0	1	0	1	0	2	17	5arm	1	nd	0.35	4	1	1	na	na

		reads	miRBase family seed
seed	---CGGCGGC----------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S2
	--CCGGCGGCAGGGCCGCGGCG----------------------------------------------------------	20	1
rat	acCCGGCGGCAGGGCCGCGGCGggggcgggacgagggcggagcgccgggcggccaactcctcttttgcggggtagcggga
	********************************************************************************
rat	.(((.((.((....((((((.(((((..((.((..((((...))))...)).))..)))))...)))))).)).))))).	0.400 -33.50

rat

chromosome:11:84748806:84748885:-1

intergenic ## {Repeats: GC_rich 1 53 -1 class=Low_complexity,dust 84748864 84748882 0 class=dust,GC_rich 33 53 -1 class=Low_complexity} ## {SimpF: 1 Eponine}

novel_lenNOK_5varHIGH_loopOverlap_mirtron_nonpairedHIGH (1 loci)

block2369322 [novel_lenNOK_5varHIGH_loopOverlap_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	0.536	no	no	0.50/0.52	18/21/0.50	2.5	1.0	2	0	1	0	27	-16	3arm_loop	1	1	0.44	3	2	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------CCAUGGU-------------------------------------	1	novel
seed	----------------------------------------CACAACC------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	---------------------------------------CCACAACCATGGTGAGTATCC-----------------------------	21	1
	--------------------------------------------ACCATGGTGAGTATCCTG---------------------------	18	1
rat	gccccaagtgctggcctccctgtttcctgtctgatccctCCACAACCATGGTGAGTATCCTGgtcgggagagggcccggcccgggagcg
	*****************************************************************************************
	>>>>>>>>>++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++++>>>>>++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000055777 ENSRNOG00000006244 Lztfl1
rat	(((((....(((((...((((..((((((.(((((..(((..((....))..))).)))..)).)))))))))).)))))..))).)).	0.970 -31.30

rat

chromosome:8:128489761:128489849:-1

novel_lenNOK_5varHIGH_loopOverlap_mirtron_nonpairedHIGH_bulgeHIGH (1 loci)

block2271268 [novel_lenNOK_5varHIGH_loopOverlap_mirtron_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	0.781	no	no	0.39/0.44	18/23/0.50	2.5	0.0	2	0	2	0	25	-3	5arm_loop	1	0	0.39	4	2	2	na	na

		reads	miRBase family seed
seed	-------------------------------CUAUCUC-----------------------------------------------------------	1	novel
seed	--------------------------UUUUUCU----------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S1	T3S1
	------------------------------TCTATCTCTTGTGTGCAG-------------------------------------------------	18	-	1
	-------------------------CTTTTTCTATCTCTTGTGTGCAG-------------------------------------------------	23	1	-
rat	ttcattgtggctttaagtgtcctttCTTTTTCTATCTCTTGTGTGCAGacacccaagttggcgaagtgaagaaactcaggaaagagaacggtcgagg
	*************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000014033 ENSRNOG00000010103 Eif4b
	+++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000055328 ENSRNOG00000010103 Eif4b
rat	((((((((..((((.(((...((((.((((.(((...((((.(((....))).)))).))).)))).))))..)))....))))...))))).))).	0.410 -18.80

rat

chromosome:7:140830515:140830611:1

novel_lenNOK_5varHIGH_mirtron_bulgeHIGH (1 loci)

block1059741 [novel_lenNOK_5varHIGH_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	0.283	no	no	0.68/0.71	19/21/0.50	1.5	2.5	2	0	2	0	6	23	3arm	1	2	0.21	4	2	2	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------------------------------CACCGGA-------------------	1	novel
seed	---------------------------------------------------------------------------------GGUCACC----------------------	1	novel
		len	cloning frequencies
			T3S1	T5S1
	-----------------------------------------------------------------------------------TCACCGGAGCCCCTCTTCCCC------	21	1	-
	--------------------------------------------------------------------------------TGGTCACCGGAGCCCCTCT-----------	19	-	1
rat	aggacacattgggaaggagagggaggtgatcccatcgcgggtctgaagggcgggccggtcccggacaccttgtggcagccTGGTCACCGGAGCCCCTCTTCCCCaggcct
	**************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>	ENSRNOT00000044975 ENSRNOG00000029500 Wdr46
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>	ENSRNOT00000041812 ENSRNOG00000029500 Wdr46
rat	(((.....(((((.(((((.(((.((((((((((.((.(((((((..((((......))))))))).)).)))))......)))))))....)))))))).))))).)))	0.750 -47.00

rat

chromosome:20:5117557:5117666:-1

Same_strand|Intronic_coding|ENSRNOT00000041812|ENSRNOG00000029500 ## Same_strand|Boundary_non-coding|ENSRNOT00000000552|ENSRNOG00000029500 ## ENSRNOG00000029500|protein_coding|Wdr46|WD repeat domain 46 [Source:RefSeq_peptide;Acc:NP_997656] ## {SimpF: oe = 0.75 -1 CpG}

novel_lenNOK_Multihit_5varHIGH_mirtron_nonpairedHIGH_bulgeHIGH (1 loci)

block349560 [novel_lenNOK_Multihit_5varHIGH_mirtron_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	0.435	no	no	0.38/0.42	19/24/0.50	1.5	4.0	2	0	2	0	6	4	5arm	22	1	0.33	5	2	2	na	na

		reads	miRBase family seed
seed	-------AGACCAG------------------------------------------------------------------	1	novel
seed	----------CCAGAUA---------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S2	T3S1
	---------ACCAGATAAACAGGCTTATTAGAC-----------------------------------------------	24	-	1
	------AAGACCAGATAAACAGGCT-------------------------------------------------------	19	1	-
rat	aacaggAAGACCAGATAAACAGGCTTATTAGACgatgaactaaggtattgtccgtggtatttttataatctggccggtta
	********************************************************************************
	------------------------------------------------------------------------------------------	ENSRNOT00000031329 ENSRNOG00000026472 Kctd8_predicted
	>>>>>>>>>>>++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>...............................................	ENSRNOT00000041458 ENSRNOG00000032912
	>>>>>>>>>>>++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>...............................................	ENSRNOT00000040709 ENSRNOG00000032912
rat	(((.((....(((((((((...(((.....(((((((........)))))))...)))...))))...))))))).))).	0.850 -14.50

rat

chromosome:14:41332072:41332151:-1

Same_strand|Boundary_coding|ENSRNOT00000040709|ENSRNOG00000032912 ## Opposite_strand|Intronic_coding|ENSRNOT00000031329|ENSRNOG00000026472 ## ENSRNOG00000026472|protein_coding|Kctd8_predicted|potassium channel tetramerisation domain containing 8 [Source:RefSeq_peptide;Acc:NP_001093642] ## ENSRNOG00000032912|protein_coding||

novel_lenNOK_Multihit_5varHIGH_randfoldOK (1 loci)

block1781497 [novel_lenNOK_Multihit_5varHIGH_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	0.56/0.62	18/21/0.50	2.0	0.5	2	0	2	0	34	3	5arm	30	nd	0.28	3	2	2	na	na

		reads	miRBase family seed
seed	-----------------------------------GCCCCAC------------------------------------------------------------------------------	1	novel
seed	---------------------------------------CACACUG--------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2
	----------------------------------AGCCCCACACTGTGCCATGCA-----------------------------------------------------------------	21	1	-
	--------------------------------------CCACACTGTGCCATGCAA----------------------------------------------------------------	18	-	1
rat	gtgcaaagatgctactgggggaacaagattggcaAGCCCCACACTGTGCCATGCAAggtaacaggccattgtggctctgtgttggcacttctcattcctgcccccagaggctctggcatt
	************************************************************************************************************************
rat	((((..(((.(((.(((((((..((.((.(((.(((..((((((...(((..(((((((.....))).)))))))...)))).))..))).))).)).))))))))).)))))).)))).	0.940 -47.40

rat

chromosome:5:140140024:140140143:-1

intergenic

novel_lenNOK_Multihit_loopOverlap_mirtron_nonpairedHIGH (1 loci)

block1044565 [novel_lenNOK_Multihit_loopOverlap_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	0.079	no	no	0.42/0.47	19/26/0.00	1.0	3.3	3	0	3	0	8	-5	5arm	136	3	0.32	3	3	3	na	na

		reads	miRBase family seed
seed	---------CCUCAAG----------------------------------------------------	1	novel
seed	-----------UCAAGAU--------------------------------------------------	1	novel
seed	----------CUCAAGA---------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1	T4S1	T4S2
	---------CCTCAAGATTGTCAGCAATGCATCCT---------------------------------	26	1	-	-
	----------CTCAAGATTGTCAGCAATG---------------------------------------	19	-	1	-
	--------CCCTCAAGATTGTCAGCAA-----------------------------------------	19	-	-	1
rat	tgacaactCCCTCAAGATTGTCAGCAATGCATCCTgcaccaactgcttagtcttcctggccaaggtca
	********************************************************************
	------------------------------------------------------------------------------	ENSRNOT00000025493 ENSRNOG00000018827 Htr7
	------------------------------------------------------------------------------	ENSRNOT00000025450 ENSRNOG00000018827 Htr7
	>>+++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000025428 ENSRNOG00000018819
rat	.(((.....((..(((((((.(((...(((.....)))....)))..)))))))...)).....))).	0.980 -14.70

rat

chromosome:1:240209017:240209084:1

Opposite_strand|Intronic_coding|ENSRNOT00000025450|ENSRNOG00000018827 ## Same_strand|Boundary_coding|ENSRNOT00000025428|ENSRNOG00000018819 ## ENSRNOG00000018827|protein_coding|Htr7|5-hydroxytryptamine receptor 7 (5-HT-7) (Serotonin receptor 7) (5-HT- X) (5HT7) (GPRFO). [Source:UniProtKB/Swiss-Prot;Acc:P32305] ## ENSRNOG00000018819|protein_coding||

novel_lenNOK_Multihit_loopOverlap_mirtron_nonpairedHIGH_bulgeHIGH (1 loci)

block273421 [novel_lenNOK_Multihit_loopOverlap_mirtron_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	0.036	no	no	0.52/0.58	19/25/0.00	0.0 0.5	2.0 0.5	3 2	0 0	1 2	0 0	18 11	-4 8	3arm_loop 3arm	106 106	4 16	0.42 0.42	5 7	5	3	na	na

		reads	miRBase family seed
seed	-------------------------------GCUGGUG-----------------------------------	3	miR-138
seed	--------------------------------------------GCCCAUG----------------------	1	novel
seed	-------------------------------------------UGCCCAU-----------------------	1	novel
		len	cloning frequencies
			T3S2	T4S1	T4S2
	------------------------------AGCTGGTGGTGATTGCCCATGATGT------------------	25	-	2	-
	------------------------------AGCTGGTGGTGATTGCCCA------------------------	19	-	1	-
	-------------------------------------------TGCCCATGATGTAGACCCC-----------	19	1	-	-
	------------------------------------------TTGCCCATGATGTAGACCC------------	19	-	-	1
rat	ccgagcaggggtcaatacagtcaccaactcAGCTGGTGGTGATTGCCCATGATGTAGACCCCattgagctggt
	*************************************************************************
	>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000033611 ENSRNOG00000025006 LOC364041
rat	((.(((.((((((.(((((((((((.(((.....))))))))))).......))).)))))).....))))).	0.880 -25.51