miR-Intess: classification

other hairpins

novel_lenNOK_Multihit_shortStem_bulgeHIGH (21 loci)

block633568 [novel_lenNOK_Multihit_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	0.012	no	no	0.60/0.60	25/25/0.00	0.0	0.0	1	0	1	0	0	1	5arm	16	nd	0.28	4	1	1	na	na

		reads	miRBase family seed
seed	-CACUCUG------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	ACACTCTGGCCACGTGCACTACTCC-------------------------------------------------------	25	1
rat	ACACTCTGGCCACGTGCACTACTCCacatctccacacactggccgtgcactactccacatctccacactctggccacgtg
	********************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000021506 ENSRNOG00000015980 Dclre1c
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000021771 ENSRNOG00000015980 Dclre1c
rat	.(((..((((((.((((((....(((.............)))..))))))....................)))))).)))	0.730 -17.12

rat

chromosome:17:85907950:85908029:-1

Same_strand|Intronic_coding|ENSRNOT00000021506|ENSRNOG00000015980 ## ENSRNOG00000015980|protein_coding|Dclre1c|Artemis protein (EC 3.1.-.-) (DNA cross-link repair 1C protein) (SNM1- like protein). [Source:UniProtKB/Swiss-Prot;Acc:Q5XIX3] ## {Repeats: trf 634 659 0 class=trf}

block633569 [novel_lenNOK_Multihit_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	0.012	no	no	0.60/0.60	25/25/0.00	0.0	0.0	1	0	1	0	0	1	5arm	16	nd	0.28	4	1	1	na	na

		reads	miRBase family seed
seed	-CACUCUG------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	ACACTCTGGCCACGTGCACTACTCC-------------------------------------------------------	25	1
rat	ACACTCTGGCCACGTGCACTACTCCacatctccacacactggccgtgcactactccacatctccacactctggccacgtg
	********************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000021506 ENSRNOG00000015980 Dclre1c
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000021771 ENSRNOG00000015980 Dclre1c
rat	.(((..((((((.((((((....(((.............)))..))))))....................)))))).)))	0.730 -17.12

rat

chromosome:17:85907950:85908029:-1

novel_lenNOK_gcHIGH_randfoldOK (21 loci)

block10657 [novel_lenNOK_gcHIGH_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	0.001	no	no	0.94/0.94	18/18/0.00	0.0	0.0	1	0	1	0	12	25	3arm	2	nd	0.17	2	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------------------GCGCGGG----------------------	1	novel
		len	cloning frequencies
			T2S2
	----------------------------------------------------------------------------------------CGCGCGGGCGGGCGCGTG------------	18	1
rat	atgtgtgcgtatgtgtgtgtctgtgtatgtgtgcgcgcgcgcgctcgcgcgagtgcatatgtgtgtgcgcgcgtgtgtgtctgtgcggCGCGCGGGCGGGCGCGTGtgtgcgcgtgca
	**********************************************************************************************************************
rat	.((..((((((((..(((((((((...(((((((.((((((.((.((((((.(((((((....))))))).)))))).)).))))))))))))).)))))))))..))))))))..))	0.940 -73.00

rat

chromosome:10:22186937:22187054:-1

intergenic ## {Repeats: dust 22186949 22186967 0 class=dust}

block168460 [novel_lenNOK_gcHIGH_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	0.005	no	no	0.94/0.94	18/18/0.00	0.0	0.0	1	0	1	0	36	4	3arm	1	nd	0.11	1	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------CGCCCCG----------------------------------------------	1	novel
		len	cloning frequencies
			T2S2
	-------------------------------------------------------------CCGCCCCGCGCCCTGCCG------------------------------------	18	1
rat	gccctgtgagagcccgcccctcggggcatgaccgcggtaggggcggggctatcttacggtcCCGCCCCGCGCCCTGCCGccgccctcccccagggttgtggccacgcgcagaggc
	*******************************************************************************************************************
rat	((((((((...(((((.((((.((((.......((((((((((((((((.(((....)))...))))))).)))))))))......)))).)))).)).)))....))))).)))	0.990 -68.62

rat

chromosome:11:70529709:70529823:1

intergenic

block559410 [novel_lenNOK_gcHIGH_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	0.001	no	no	0.94/0.94	18/18/0.00	0.0	0.0	1	0	1	0	10	26	5arm	3	nd	0.28	3	1	1	na	na

		reads	miRBase family seed
seed	-----------GGGGGCC------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T4S2
	----------GGGGGGCCGGGGAGGGGG--------------------------------------------------------------------------------------------	18	1
rat	agcacaggttGGGGGGCCGGGGAGGGGGactttggaattgacagtgacattgggccaaaccttccagagaatggctgtgaactccaaagaagctctcaatggtcattctgttacctgtgt
	************************************************************************************************************************
	----------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000060883 ENSRNOG00000039693
rat	.((((((((.(((((((((..(((((...(((((((.((.(((((....(((((........)))))......))))).)).)))))))...)))))..))))).))))...))))))))	0.890 -47.70

rat

chromosome:16:9613334:9613453:1

Opposite_strand|Intronic_coding|ENSRNOT00000060883|ENSRNOG00000039693 ## ENSRNOG00000039693|protein_coding|| ## {Repeats: dust 9613344 9613361 0 class=dust}

block618414 [novel_lenNOK_gcHIGH_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	0.94/0.94	18/18/0.00	0.0	0.0	1	0	1	0	7	7	5arm	1	nd	0.28	2	1	1	na	na

		reads	miRBase family seed
seed	--------GCGGGGA--------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	-------GGCGGGGAGGGCGGGGGG----------------------------------------------	18	1
rat	gtggcggGGCGGGGAGGGCGGGGGGaggcgcacgatgagcctctttctgctttactggaaattggcgtacg
	***********************************************************************
rat	(((((.((.(((..(((((((..((((((.((...)).))))))..))))))).)))....)).)).))).	1.000 -30.40

rat

chromosome:17:50289515:50289585:-1

intergenic

block784092 [novel_lenNOK_gcHIGH_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	0.010	no	no	0.90/0.94	18/20/0.50	0.0	1.0	2	0	1	0	27	5	3arm	1	43	0.11	1	2	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------------CCGCGGG---------------------------------------	2	novel
		len	cloning frequencies
			T3S2
	--------------------------------------------------------------CCCGCGGGCCCAGGCCGGCT---------------------------	20	1
	--------------------------------------------------------------CCCGCGGGCCCAGGCCGG-----------------------------	18	1
rat	ggtggccttccggagccacggtaagcctgcctgggtctggagggccactcggttcggcgcggCCCGCGGGCCCAGGCCGGCTatcctgacccggctcccccaacacgcc
	*************************************************************************************************************
	>>>>>>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000031243 ENSRNOG00000021517 RGD1306153
rat	((((.......((((((..(((.((((.(((((((((((..(((((...((......)).))))).))))))))))).))))......))).)))))).......))))	0.830 -59.84

rat

chromosome:19:41873689:41873797:-1

block863881 [novel_lenNOK_gcHIGH_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	0.001	no	no	1.00/1.00	19/19/0.00	0.0	0.0	1	0	1	0	28	10	5arm	2	nd	0.26	3	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------GGGCGGC---------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	----------------------------GGGGCGGCGGGGCGGGGGG----------------------------------------------------------------------	19	1
rat	aagatttatatagcgccacaaatgagcgGGGGCGGCGGGGCGGGGGGtggggagttatttataactcaactccctcctgctctctgattgcattgttttagggagctgagaatcttc
	*********************************************************************************************************************
rat	(((((((...((((.((..((((((((((...(((.(((((((((((.(((((((((....))))))..))))))))))))))))).)))).))))))...)).)))).))))))).	1.000 -46.70

rat

chromosome:1:87377945:87378061:-1

intergenic ## {Repeats: dust 87378015 87378034 0 class=dust,GC_rich 1 20 -1 class=Low_complexity,GC_rich 1 22 -1 class=Low_complexity}

block1031644 [novel_lenNOK_gcHIGH_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	0.001	no	no	0.94/0.94	18/18/0.00	0.0	0.0	1	0	1	0	41	0	3arm	1	nd	0.22	2	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------GGGCGGG---------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	-------------------------------------------------------------GGGGCGGGCGGGCAGGGG-----------------------------------------	18	1
rat	ggctgtcctgaggctctgccccgctgtttccaatcttcctagctctgcttgtgctcctgctGGGGCGGGCGGGCAGGGGttctcacatttgggagcagtgggagagcagtaggggaagca
	************************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000054830 ENSRNOG00000021028 Ehd1
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000028576 ENSRNOG00000021028 Ehd1
rat	.(((.(((((..(((((..((((((((((((((.........(((((((((((((((....)))))..))))))))))..........)))))))))))))))))))..)))))..))).	0.930 -64.01

rat

chromosome:1:209070341:209070460:1

block1108573 [novel_lenNOK_gcHIGH_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	0.006	no	no	1.00/1.00	18/18/0.00	0.0	0.0	1	0	1	0	13	30	5arm	9	nd	0.11	1	1	1	na	na

		reads	miRBase family seed
seed	--------------GGGCGGG---------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S2
	-------------GGGGCGGGGCGGCGGCGG-----------------------------------------------------------------------------------------	18	1
rat	gaggaagggagggGGGGCGGGGCGGCGGCGGctcagatataagggacccgggcgttgttggagagtccaattagcccaccatgagtgtccactgccttcccgttcttcttctccaaacct
	************************************************************************************************************************
	.....................................................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000000672 ENSRNOG00000000556 NP_001099864.1
rat	.(((..((((((..((((((((.(((((.((((((........((....((((...(((((.....)))))..)))).)).))))...)).))))).))))))))..))))))....)))	0.730 -55.40