miR-Intess: classification

other hairpins

block914705 [novel_Multihit_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	0.59/0.59	22/22/1.00	0.0	0.0	2	0	1	0	14	18	5arm	12	nd	0.18	2	2	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------CCAUGGA-------------------------------------------------------------------	1	novel
seed	---------------CCAUGGA---------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S2
	----------------------------------------CCCATGGATGCTGGAGTACCCT-----------------------------------------------------	22	1
	--------------CCCATGGATGCTGGAGTACCCT-------------------------------------------------------------------------------	22	1
rat	agagtaccctagccCCCATGGATGCTGGAGTACCCTagccCCCATGGATGCTGGAGTACCCTagcccccgtggatgctggagtaccctagcccccgtggatgctggagtacccta
	*******************************************************************************************************************
rat	((.((((.(((((..((((((..(((((.((((.(((((..((((((..(((((......)))))..))))))..))))).)))).)))))..))))))..))))).)))).)).	1.000 -61.60

rat

chromosome:1:209384108:209384222:-1

intergenic ## {Repeats: trf 288 310 0 class=trf}

block914707 [novel_Multihit_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	0.59/0.59	22/22/1.00	0.0	0.0	3	0	1	0	16	18	5arm	12	nd	0.18	2	3	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------------------------CCAUGGA----------------	1	novel
seed	-------------------------------------------CCAUGGA--------------------------------------------------------------------	1	novel
seed	-----------------CCAUGGA----------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S2
	----------------------------------------------------------------------------------------------CCCATGGATGCTGGAGTACCCT--	22	1
	------------------------------------------CCCATGGATGCTGGAGTACCCT------------------------------------------------------	22	1
	----------------CCCATGGATGCTGGAGTACCCT--------------------------------------------------------------------------------	22	1
rat	ctggagtactctagccCCCATGGATGCTGGAGTACCCTagccCCCATGGATGCTGGAGTACCCTagcccccatggaagctggagtaccctagccCCCATGGATGCTGGAGTACCCTag
	**********************************************************************************************************************
rat	((((.((((((((((..((((((..(((((.((((.(((((..((((((..(((((......)))))..))))))..))))).)))).)))))..))))))..)))))))))).))))	1.000 -70.20

rat

chromosome:1:209384523:209384640:-1

intergenic ## {Repeats: trf 626 648 0 class=trf}

block914708 [novel_Multihit_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	0.59/0.59	22/22/1.00	0.0	0.0	3	0	1	0	17	18	5arm	12	nd	0.18	2	3	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------------------------------------------CCAUGGA-----------------	1	novel
seed	------------------CCAUGGA-----------------------------------------------------------------------------------------------	1	novel
seed	--------------------------------------------CCAUGGA---------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S2
	-----------------CCCATGGATGCTGGAGTACCCT---------------------------------------------------------------------------------	22	1
	-----------------------------------------------------------------------------------------------CCCATGGATGCTGGAGTACCCT---	22	1
	-------------------------------------------CCCATGGATGCTGGAGTACCCT-------------------------------------------------------	22	1
rat	gctggagtactctagccCCCATGGATGCTGGAGTACCCTagccCCCATGGATGCTGGAGTACCCTagcccccatggaagctggagtaccctagccCCCATGGATGCTGGAGTACCCTagc
	************************************************************************************************************************
rat	(((((.((((((((((..((((((..(((((.((((.(((((..((((((..(((((......)))))..))))))..))))).)))).)))))..))))))..)))))))))).)))))	1.000 -73.60

rat

chromosome:1:209384522:209384641:-1

intergenic ## {Repeats: trf 678 700 0 class=trf}

block595534 [novel_Multihit_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	0.57/0.57	21/21/1.00	0.0	0.0	1	0	1	0	10	25	5arm	14	nd	0.24	1	1	1	na	na

		reads	miRBase family seed
seed	-----------CCUGUGG---------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T4S2
	----------GCCTGTGGTGTGTGTGTCACA--------------------------------------------------------------------------------------	21	1
rat	acttcactggGCCTGTGGTGTGTGTGTCACAgacttcactgtacctgtggtgtgtgtgtcacagacttcactgtacctgtggtgtgtgtgtcacagacttcactggacctgtggtgt
	*********************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000025914 ENSRNOG00000028871 RGD1561537_predicted
rat	((.((((.(((((.((((.((.((((.((((.((.((((.((((..((((.((.((.....)).)).)))).))))..)))).)).)))).)))).)).)))).)).))))))).))	1.000 -48.80

rat

chromosome:17:6769370:6769486:-1

Same_strand|Intronic_coding|ENSRNOT00000025914|ENSRNOG00000028871 ## ENSRNOG00000028871|protein_coding|RGD1561537_predicted| ## {Repeats: trf 217 238 0 class=trf,trf 241 262 0 class=trf,dust 6769456 6769473 0 class=dust}

block595530 [novel_Multihit_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	0.57/0.57	21/21/1.00	0.0	0.0	2	0	1	0	27	8	5arm	14	nd	0.19	1	2	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------------------CCUGUGG---------------------	1	novel
seed	----------------------------CCUGUGG-------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T4S2
	-------------------------------------------------------------------------------------------GCCTGTGGTGTGTGTGTCACA--------	21	1
	---------------------------GCCTGTGGTGTGTGTGTCACA------------------------------------------------------------------------	21	1
rat	tgtggtgtgtgtcacagacttcactggGCCTGTGGTGTGTGTGTCACAgacttcactggacctgtgatgtgtgtgtcacagacttcactggGCCTGTGGTGTGTGTGTCACAgacttcac
	************************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000025914 ENSRNOG00000028871 RGD1561537_predicted
rat	((.(((.((((.((((.((.((((.((((((((((.((.((((.((((.((.((((.......)))).)).)))).)))).)).)))).)))))))))).)).)))).)))).))).)).	1.000 -61.00

rat

chromosome:17:6769258:6769377:-1

Same_strand|Intronic_coding|ENSRNOT00000025914|ENSRNOG00000028871 ## ENSRNOG00000028871|protein_coding|RGD1561537_predicted| ## {Repeats: trf 51 72 0 class=trf,trf 27 48 0 class=trf}

block595531 [novel_Multihit_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	0.57/0.57	21/21/1.00	0.0	0.0	2	0	1	0	28	8	5arm	14	nd	0.19	1	2	1	na	na

		reads	miRBase family seed
seed	-----------------------------CCUGUGG------------------------------------------------------------------------------------	1	novel
seed	---------------------------------------------------------------------------------------------CCUGUGG--------------------	1	novel
		len	cloning frequencies
			T4S2
	----------------------------GCCTGTGGTGTGTGTGTCACA-----------------------------------------------------------------------	21	1
	--------------------------------------------------------------------------------------------GCCTGTGGTGTGTGTGTCACA-------	21	1
rat	ctgtggtgtgtgtcacagacttcactggGCCTGTGGTGTGTGTGTCACAgacttcactggacctgtgatgtgtgtgtcacagacttcactggGCCTGTGGTGTGTGTGTCACAgacttca
	************************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000025914 ENSRNOG00000028871 RGD1561537_predicted
rat	.((.(((.((((.((((.((.((((.((((((((((.((.((((.((((.((.((((.......)))).)).)))).)))).)).)))).)))))))))).)).)))).)))).))).))	1.000 -60.60

rat

chromosome:17:6769259:6769378:-1

Same_strand|Intronic_coding|ENSRNOT00000025914|ENSRNOG00000028871 ## ENSRNOG00000028871|protein_coding|RGD1561537_predicted| ## {Repeats: trf 91 112 0 class=trf,trf 115 136 0 class=trf}

novel_randfoldOK_nonpairedHIGH_bulgeHIGH (390 loci)

block4733 [novel_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	0.007	no	no	0.45/0.45	22/22/1.00	0.0	0.0	1	0	1	0	23	8	3arm	1	nd	0.32	4	1	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------------------AGAACAA-------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	-----------------------------------------------------------------------CAGAACAACTTCAGAGACACAG-----------------------	22	1
rat	cctcaaggagaaaagtataagaaaggaatgtcttctgcaagttgccgaggccctgtactctgtgtatatggCAGAACAACTTCAGAGACACAGtcccctctgatgtttgcctgggg
	********************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000004416 ENSRNOG00000003234 Mgrn1
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000040619 ENSRNOG00000003234 Mgrn1
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000037009 ENSRNOG00000003234 Mgrn1
rat	((((.(((....((((((.(((..(((.((((.((((.((((((.....(((.(((((.....))))).)))....))))))))))))))...)))..))).)))))).)))))))	1.000 -39.30

rat

chromosome:10:10762987:10763102:-1

block7409 [novel_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	0.004	no	no	0.60/0.60	20/20/1.00	0.0	0.0	1	0	1	0	7	25	3arm	1	nd	0.35	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------------------CGAUAGG-------------------	1	novel
		len	cloning frequencies
			T5S2
	----------------------------------------------------------------------------------------ACGATAGGCATCGGTGGCCT-------	20	1
rat	ctgtggtggccaaagcctcctgccttctatggctccaggctgcttaccccgtgtggccttcctgggccccccgccagcccctgcagccACGATAGGCATCGGTGGCCTtcacagc
	*******************************************************************************************************************
rat	((((((.((((...(((...(((((....(((((.((((..(((.....((...(((((....)))))...))..))).)))).)))))....)))))..))))))).)))))).	0.900 -50.20

rat

chromosome:10:15207219:15207333:-1

intergenic

block10518 [novel_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	0.45/0.45	22/22/1.00	0.0	0.0	1	0	1	0	16	18	3arm	2	nd	0.36	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------------GUUCUUC------------------------------	1	miR-22*
		len	cloning frequencies
			T1S1
	----------------------------------------------------------------------------------TGTTCTTCAGTATGCATGTGCC----------------	22	1
rat	catgcatgagacatgttcttcagcatgcatgagccatgttcttcagcatgcatgagacatgttcttcagcatgcatgagccaTGTTCTTCAGTATGCATGTGCCacattcttcagcatgc
	************************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000011922 ENSRNOG00000027341 Odz2
rat	(((((.((((..((((....((((((((.((((.((((...((((((((((.((((........)))))))))).)))).))))...)))))))))).))....))))..))))))))).	0.590 -39.20

rat

chromosome:10:21741885:21742004:-1

Same_strand|Boundary_non-coding|ENSRNOT00000045307|ENSRNOG00000027341 ## Same_strand|Intronic_coding|ENSRNOT00000011922|ENSRNOG00000027341 ## ENSRNOG00000027341|protein_coding|Odz2|Teneurin-2 (Ten-2) (Tenascin-M2) (Ten-m2) (Protein Odd Oz/ten-m homolog 2) (Neurestin). [Source:UniProtKB/Swiss-Prot;Acc:Q9R1K2] ## {Repeats: trf 294 316 0 class=trf}

block16311 [novel_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	0.55/0.55	20/20/1.00	0.0	0.0	1	0	1	0	13	21	5arm	1	nd	0.35	4	1	1	na	na

		reads	miRBase family seed
seed	--------------UGAGCUG---------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	-------------CTGAGCTGAGGGAGTAACAG---------------------------------------------------------------------------------	20	1
rat	ccttcagaagccaCTGAGCTGAGGGAGTAACAGaatttttactgcaggggagtgccagttacattctctgcagccatagtgggctgaggctcccctacactggctttctgaggg
	******************************************************************************************************************
rat	(((((((((((((.((((....((((((..(((.(((....(((((((((((((.....))).))))))))))....)))...)))..)))))))).)).)))))).)))))))	0.690 -50.00