miR-Intess: classification

other hairpins

novel_lenNOK_gcHIGH_shortStem_nonpairedHIGH_bulgeHIGH (14 loci)

block1899441 [novel_lenNOK_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	0.229	no	no	0.94/0.94	18/18/0.00	0.0	0.0	1	0	1	0	0	19	3arm	1	nd	0.47	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------CCCGCCG----------	1	novel
		len	cloning frequencies
			T4S1
	----------------------------------------------------------GCCCGCCGCCACCCCGCC	18	1
rat	gtgggctcgcgcacccgtggagcggggagcgtgcgcgcgcgctctccctccccgccccGCCCGCCGCCACCCCGCC
	****************************************************************************
rat	(((((...(((.....((((.((((((((...(((....))).....)))))))).))))....)))...))))).	0.950 -39.30

rat

chromosome:5:166670945:166671020:1

intergenic ## {Repeats: GC_rich 1 37 1 class=Low_complexity,dust 166670999 166671017 0 class=dust,GC_rich 9 27 1 class=Low_complexity} ## {SimpF: oe = 0.85 1 CpG}

novel_lenNOK_multiarm_DicerNOK_shortStem_bulgeHIGH (14 loci)

sblock10235 [novel_lenNOK_multiarm_DicerNOK_shortStem_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	0.160	no	no	0.37/0.40	19/25/0.00	0.0 0.0	0.0 0.0	1 1	0 0	1 1	0 0	0 2	29 25	5arm 3arm	1 1	nd nd	0.32 0.24	3 4	2	2	-12	-5

		reads	miRBase family seed
seed	-UCCUAAU------------------------------------------------------------------------------------------------	1	novel
seed	------------------------------------------------------------------------------GUGCAAG-------------------	1	novel
		len	cloning frequencies
			T2S1	T5S1
	CTCCTAATGGTTAAGTGTT-------------------------------------------------------------------------------------	19	1	-
	-----------------------------------------------------------------------------GGTGCAAGTGTCTATACTTACTGTT--	25	-	1
rat	CTCCTAATGGTTAAGTGTTttaagcttgtgacaggtctagcttagcctcccgggtgcctagctcttgagtagtccatGGTGCAAGTGTCTATACTTACTGTTga
	********************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000061845 ENSRNOG00000030667 Ppm1b
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000048656 ENSRNOG00000030667 Ppm1b
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000040509 ENSRNOG00000030667 Ppm1b
rat	....((((((.(((((((.....((((((..((((.((((((..((((....)).))..)))).......)).)).))..))))))....))))))))))))).	0.950 -28.51

rat

chromosome:6:8376503:8376606:1

sblock11509 [novel_lenNOK_multiarm_DicerNOK_shortStem_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	0.580	no	no	0.50/0.71	18/21/0.50	0.0 0.0	0.0 0.0	1 1	0 0	1 1	0 0	0 0	18 5	5arm 3arm	2 2	nd nd	0.61 0.30	9 4	2	2	0	-10

		reads	miRBase family seed
seed	----------------------------------------------GCGGCAG-------------	1	novel
seed	-CUUAUCC----------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1	T3S2
	---------------------------------------------CGCGGCAGCGTGAACGATCGG	21	-	1
	CCTTATCCTACCGATTGG------------------------------------------------	18	1	-
rat	CCTTATCCTACCGATTGGggcccgggcctgtgagccagttggagtCGCGGCAGCGTGAACGATCGG
	******************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000048023 ENSRNOG00000030060
rat	..........(((((((.....((.(((.((((.((....))..)))))))..))....)))))))	0.660 -21.70

rat

chromosome:7:138723982:138724047:1

Same_strand|Intronic_coding|ENSRNOT00000048023|ENSRNOG00000030060 ## ENSRNOG00000030060|protein_coding|| ## {SimpF: oe = 0.96 1 CpG}

sblock11572 [novel_lenNOK_multiarm_DicerNOK_shortStem_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	0.026	no	no	0.56/0.67	18/18/0.00	0.0 0.0	0.0 0.0	2 1	0 0	1 1	0 0	0 3	39 35	5arm 3arm	1 1	nd nd	0.28 0.39	4 3	3	1	-4	-4

		reads	miRBase family seed
seed	-AGGGAUU---------------------------------------------------------------------------------------------------------------	2	miR-541
seed	---------------------------------------------------------------------------------------------------AAGCCAC-------------	1	novel
		len	cloning frequencies
			T1S2
	AAGGGATTCTGGGGGGGG-----------------------------------------------------------------------------------------------------	18	2
	--------------------------------------------------------------------------------------------------AAAGCCACTGTCCACCAC---	18	1
rat	AAGGGATTCTGGGGGGGGcatgttgtaggaagtgggccatgtaggaaggcaagtccacatgcatgggcttgtgtcttctctaaggatcacatgtatggAAAGCCACTGTCCACCACcct
	***********************************************************************************************************************
	---------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000009367 ENSRNOG00000006937 Scn3b
rat	.((((....((((.(((((...(((((....(((..((...((((((((((((((((......))))))..))))))).))).))..)))...)))))...))).)).))))...))))	0.610 -41.60

rat

chromosome:8:43242450:43242568:-1

Opposite_strand|Intronic_coding|ENSRNOT00000009367|ENSRNOG00000006937 ## ENSRNOG00000006937|protein_coding|Scn3b|Sodium channel subunit beta-3 precursor. [Source:UniProtKB/Swiss-Prot;Acc:Q9JK00] ## {Repeats: dust 43242551 43242558 0 class=dust}

sblock11736 [novel_lenNOK_multiarm_DicerNOK_shortStem_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	0.067	no	no	0.44/0.46	18/24/0.50	0.0 0.0	0.0 0.0	1 1	0 0	1 1	0 0	2 4	23 20	5arm 3arm	1 1	nd nd	0.22 0.33	4 4	2	2	-6	-2

		reads	miRBase family seed
seed	---AUCUGUC----------------------------------------------------------------------------------------	1	novel
seed	-----------------------------------------------------------------------UACCUGG--------------------	1	novel
		len	cloning frequencies
			T3S2	T5S2
	----------------------------------------------------------------------CTACCTGGCTGATCAATTGTTGAG----	24	-	1
	--CATCTGTCAATGACAGCT------------------------------------------------------------------------------	18	1	-
rat	ggCATCTGTCAATGACAGCTaggccaaagttctaaaacacctgttccaatcatccttatccttttcttgtCTACCTGGCTGATCAATTGTTGAGtgcc
	**************************************************************************************************
rat	(((((....((((((((((((((...(((............((.......)).............))).....)))))))).))).)))....)))))	0.470 -21.01

rat

chromosome:8:64514400:64514497:-1

intergenic

sblock2712 [novel_lenNOK_multiarm_DicerNOK_shortStem_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	0.799	no	no	0.47/0.67	18/19/0.00	0.0 0.0	0.0 0.0	1 2	0 0	1 1	0 0	0 1	27 24	5arm 3arm	2 2	nd nd	0.53 0.28	6 4	3	2	0	-8

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------CCGAACA-----------	2	novel
seed	-ACGUGAA------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S2	T3S2
	-------------------------------------------------------------------------------CCCGAACAGCAAGTGCCG-	18	-	2
	TACGTGAACGGTTTGGTTG-------------------------------------------------------------------------------	19	1	-
rat	TACGTGAACGGTTTGGTTGgatttggctgggtgtagcagttactgaacctcgagatcaaaggacttcttacaaacatctCCCGAACAGCAAGTGCCGt
	**************************************************************************************************
rat	.......(((((...((((...((((..((((((((.((((..(((.........)))...)))).)).....)))))).)))).))))....)))))	0.530 -21.20

rat

chromosome:10:63042374:63042471:1

intergenic

sblock2765 [novel_lenNOK_multiarm_DicerNOK_shortStem_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	0.098	no	no	0.50/0.58	19/20/0.50	0.0 0.0	0.0 0.0	1 1	0 0	1 1	0 0	0 0	10 3	5arm 3arm	1 1	nd nd	0.37 0.26	4 4	2	2	-9	-4

		reads	miRBase family seed
seed	-UGAGGUA-----------------------------------------------------	1	novel
seed	------------------------------------------GGUAUCA------------	1	novel
		len	cloning frequencies
			T3S2	T5S1
	ATGAGGTAGGCAGTGGAGG------------------------------------------	19	-	1
	-----------------------------------------AGGTATCAGTCTCTCCTACC	20	1	-
rat	ATGAGGTAGGCAGTGGAGGcaggcatgcccctggattaggcAGGTATCAGTCTCTCCTACC
	*************************************************************
rat	....((((((....((((((..((.((((.........)))).))....))))))))))))	0.890 -21.10

rat

chromosome:10:76041749:76041809:1

intergenic

sblock4282 [novel_lenNOK_multiarm_DicerNOK_shortStem_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	0.045	no	no	0.39/0.52	18/21/0.50	0.0 0.0	0.0 0.0	1 1	0 0	1 1	0 0	0 4	26 21	5arm 3arm	1 1	nd nd	0.39 0.29	4 4	2	2	-8	-4

		reads	miRBase family seed
seed	------------------------------------------------------------------------GCUCAGU-----------------	1	novel
seed	-GUUUUGG----------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S1	T2S2
	TGTTTTGGGAGTTTGAGT------------------------------------------------------------------------------	18	1	-
	-----------------------------------------------------------------------TGCTCAGTGGAGAACCATGGA----	21	-	1
rat	TGTTTTGGGAGTTTGAGTactgatgcagtcagggtggtggatttggcatggagtccctgctgtctggggccTGCTCAGTGGAGAACCATGGAaaca
	************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000043223 ENSRNOG00000006400 Tbc1d14
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000058414 ENSRNOG00000006400 Tbc1d14
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000008579 ENSRNOG00000006400 Tbc1d14
rat	.(((((....((((...((((((.((((((.(((..((((((((......))))))..))..)))..))).)))))))))..))))....))))).	0.930 -30.30

rat

chromosome:14:79795192:79795287:1

sblock5485 [novel_lenNOK_multiarm_DicerNOK_shortStem_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	0.580	no	no	0.50/0.71	18/21/0.50	0.0 0.0	0.0 0.0	1 1	0 0	1 1	0 0	0 0	18 5	5arm 3arm	2 2	nd nd	0.61 0.30	9 4	2	2	0	-10

		reads	miRBase family seed
seed	----------------------------------------------GCGGCAG-------------	1	novel
seed	-CUUAUCC----------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1	T3S2
	---------------------------------------------CGCGGCAGCGTGAACGATCGG	21	-	1
	CCTTATCCTACCGATTGG------------------------------------------------	18	1	-
rat	CCTTATCCTACCGATTGGggcccgggcctgtgagccagttggagtCGCGGCAGCGTGAACGATCGG
	******************************************************************
rat	..........(((((((.....((.(((.((((.((....))..)))))))..))....)))))))	0.660 -21.70

rat

chromosome:18:37498377:37498442:-1

intergenic

sblock6217 [novel_lenNOK_multiarm_DicerNOK_shortStem_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	0.133	no	no	0.55/0.61	18/20/0.17	0.2 0.0	0.6 0.0	5 1	0 0	4 1	0 0	0 11	13 4	5arm 3arm	1 1	nd nd	0.28 0.33	4 2	6	4	-6	-13

		reads	miRBase family seed
seed	--AGGGUUG---------------------------------------------------------------	4	miR-296
seed	--------------------------------------------CCCAAGG---------------------	1	novel
seed	-UAGGGUU----------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S2	T3S1	T4S1	T4S2
	-TAGGGTTGCTCAGGGGAT-----------------------------------------------------	18	2	-	1	-
	-------------------------------------------GCCCAAGGACATCAGCTG-----------	18	-	1	-	-
	GTAGGGTTGCTCAGGGGA------------------------------------------------------	18	-	1	-	-
	-TAGGGTTGCTCAGGGGATCT---------------------------------------------------	20	-	-	-	1
rat	GTAGGGTTGCTCAGGGGATCTgtgggtggtagacaggttgtctGCCCAAGGACATCAGCTGtgagaacttgc
	************************************************************************
rat	(((((....((((.(((((((.(((((...((((.....))))))))).)))..))..)).))))..)))))	1.000 -23.00