miR-Intess: classification

other hairpins

block2326 [novel_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	0.405	no	no	0.50/0.50	20/20/1.00	0.0	0.0	1	0	1	0	10	12	5arm	1	nd	0.40	4	1	1	na	na

		reads	miRBase family seed
seed	-----------CAUCGUG--------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	----------TCATCGTGCATGTCCCATTC--------------------------------------------------	20	1
cbriggsae	gtcaaatggcTCATCGTGCATGTCCCATTCgttacgtcgatgttcacagagatgataggatggtgtgaagaaacaggacc
	********************************************************************************
	------------------------------------------------------------------------------------------	NM_065289
	------------------------------------------------------------------------------------------	NM_064155
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_061965
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_072208
	------------------------------------------------------------------------------------------	NM_075402
	------------------------------------------------------------------------------------------	NM_001026513
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_067080
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_214627
	------------------------------------------------------------------------------------------	NM_001094113
	------------------------------------------------------------------------------------------	NM_001091618
	------------------------------------------------------------------------------------------	NM_001034557
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_174568
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_011235
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001028318
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_171081
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_065139
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_075117
	------------------------------------------------------------------------------------------	NM_075282
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_061817
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_064619
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_068079
	------------------------------------------------------------------------------------------	NM_072208
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_075409
	------------------------------------------------------------------------------------------	NM_001028390
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001028390
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_067770
cbriggsae	(((...((..((.((..(((....((((((....((((..((....))..))))...))))))))))).))..)).))).	0.930 -18.70

cbriggsae

chromosome:chrIV:14273219:14273298:-1

Opposite_strand|Intronic_non-coding|NM_065289|Y53G8AR.9 ## Same_strand|Intronic_non-coding|NM_061965|F08D12.1 ## Same_strand|Intronic_coding|NM_072208|K12B6.7 ## Opposite_strand|Intronic_coding|NM_072208|K12B6.7 ## {Repeats: no}

block2463 [novel_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	0.692	no	no	0.43/0.43	21/21/1.00	0.0	0.0	1	0	1	0	8	17	5arm	1	nd	0.48	4	1	1	na	na

		reads	miRBase family seed
seed	---------UAUACUU------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	--------TTATACTTCCAGGGATACGAG-----------------------------------------------------------------------	21	1
cbriggsae	cgatacaaTTATACTTCCAGGGATACGAGattgtggtaatcgaagaatttaactcaatcattgctccaaaattctatatttccgaaaacagttgtttatc
	****************************************************************************************************
	--------------------------------------------------------------------------------------------------------------	NM_020714
cbriggsae	.(((((((((....(((..((((....((((((..(((((.((.((.......))..)))))))..)))...)))....)))))))...))))))..)))	0.950 -12.70

cbriggsae

chromosome:chrIV:2537545:2537644:1

Opposite_strand|Intronic_non-coding|NM_020714|ZNF490 ## {Repeats: no}

block2526 [novel_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	0.052	no	no	0.43/0.43	21/21/1.00	0.0	0.0	1	0	1	0	32	3	3arm	1	nd	0.38	4	1	1	na	na

		reads	miRBase family seed
seed	----------------------------------------------------------UCAAGUU---------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	---------------------------------------------------------TTCAAGTTCTAGGTCAACGAG--------------------------------	21	1
cbriggsae	actgaaattttcagtttcactcatttcatacatgaattgaaattattcaatcaccaaTTCAAGTTCTAGGTCAACGAGttctttgaaactgactcataaaatatttagtg
	**************************************************************************************************************
	------------------------------------------------------------------------------------------------------------------------	NM_001105717
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_198022
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_112886
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_079809
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_020066
cbriggsae	((((((((((((((((((((((((((...((.(((((((...............))))))).))...))))....)))).....))))))))......)))).)))))).	0.450 -18.36

cbriggsae

chromosome:chrIV:3363019:3363128:1

Opposite_strand|Intronic_non-coding|NM_001105717|Dpysl2 ## Same_strand|Intronic_non-coding|NM_198022|Tnrc6c ## Same_strand|Intronic_coding|NM_020066|FMN2 ## {Repeats: no}

block2672 [novel_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	0.280	no	no	0.48/0.48	21/21/1.00	0.0	0.0	1	0	1	0	13	10	5arm	2	nd	0.33	4	1	1	na	na

		reads	miRBase family seed
seed	--------------CCAUAUC----------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	-------------TCCATATCCTGCCAGGTTTTG---------------------------------------------------------------------------	21	1
cbriggsae	tactcgttctcagTCCATATCCTGCCAGGTTTTGaaaagatcaagaaaattttattgtcctcattttcaaagtgtggtttttcattgtgttctctcatgcagtatgagt
	*************************************************************************************************************
	-----------------------------------------------------------------------------------------------------------------------	NM_068322
	-----------------------------------------------------------------------------------------------------------------------	NM_066961
	-----------------------------------------------------------------------------------------------------------------------	NM_001001344
cbriggsae	.((((((.((.((..((((....((((..(((((((((((.(((..........)))...)).)))))))))..)))).......))))..)).......)).))))))	0.520 -19.10

cbriggsae

chromosome:chrIV:8910266:8910374:1

Opposite_strand|Intronic_coding|NM_068322|C02B10.3 ## Opposite_strand|Intronic_non-coding|NM_066961|W09D10.4 ## {Repeats: no}

block2714 [novel_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	0.709	no	no	0.48/0.48	21/21/1.00	0.0	0.0	1	0	1	0	8	32	5arm	1	nd	0.38	4	1	1	na	na

		reads	miRBase family seed
seed	---------AAGUUUG------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	--------GAAGTTTGTACAAGCCTGGCT-----------------------------------------------------------------------------------------	21	1
cbriggsae	aaaagcaaGAAGTTTGTACAAGCCTGGCTtaaacaacgcggactttggatagacgatcaagtgtgctgtaggaaagttgatcagagagtgtggcccagtcacgaagttctccgttttt
	**********************************************************************************************************************
	--------------------------------------------------------------------------------------------------------------------------------	NM_001007257
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_067526
	--------------------------------------------------------------------------------------------------------------------------------	NM_012231
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_058707
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_115609
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001032790
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001076920
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001014737
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001014738
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001014739
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_080349
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_167375
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_167376
	--------------------------------------------------------------------------------------------------------------------------------	NM_001005929
	--------------------------------------------------------------------------------------------------------------------------------	NM_139799
	--------------------------------------------------------------------------------------------------------------------------------	NM_206286
	--------------------------------------------------------------------------------------------------------------------------------	NM_015866
	--------------------------------------------------------------------------------------------------------------------------------	NM_208142
	--------------------------------------------------------------------------------------------------------------------------------	NM_121131
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001076831
	--------------------------------------------------------------------------------------------------------------------------------	NM_001052994
	--------------------------------------------------------------------------------------------------------------------------------	NM_001098050
	--------------------------------------------------------------------------------------------------------------------------------	NM_078523
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001090075
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_172592
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_009930
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_000092
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_000088
	--------------------------------------------------------------------------------------------------------------------------------	NM_001091797
	--------------------------------------------------------------------------------------------------------------------------------	NM_214491
	------------------------------<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<---	NM_001047473
	.................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<---	NM_001047474
cbriggsae	((((((.((((.(((((....((..((((......((((...((((((...(((..((.((....))....))..)))..)))))).))))))))..)).))))).))))..))))))	0.610 -25.70

cbriggsae

chromosome:chrIV:10751287:10751404:1

Opposite_strand|Intronic_coding|NM_001007257|PRDM2 ## Same_strand|Intronic_coding|NM_067526|Y66H1A.4 ## Opposite_strand|Intronic_non-coding|NM_121131|CIPK5 ## Opposite_strand|Boundary_non-coding|NM_001047473|csr-1 ## {Repeats: no}

block2748 [novel_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	0.092	no	no	0.25/0.25	20/20/1.00	0.0	0.0	1	0	1	0	12	6	3arm	1	nd	0.40	5	1	1	na	na

		reads	miRBase family seed
seed	----------------------------------------------UAUUAAG------------------------	1	novel
		len	cloning frequencies
			AF16
	---------------------------------------------ATATTAAGCCAATTAGATGA------------	20	1
cbriggsae	gataatcagttgattgattaattaatcgtttgagggataaaacgaATATTAAGCCAATTAGATGAgacctgcttgtc
	*****************************************************************************
	---------------------------------------------------------------------------------------	NM_116712
	---------------------------------------------------------------------------------------	NM_053103
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_133195
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_129811
	---------------------------------------------------------------------------------------	NM_001087925
	---------------------------------------------------------------------------------------	NM_001090594
	---------------------------------------------------------------------------------------	NM_001082840
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_147305
	---------------------------------------------------------------------------------------	NM_002073
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_201943
	.......................................................................<<<<<<<<<<<<<<<<	NM_001124655
cbriggsae	(((((.((((((((((.(((((...((((((........))))))..)))))..))))))).......))).)))))	0.840 -15.11

cbriggsae

chromosome:chrIV:12107574:12107650:1

Opposite_strand|Intronic_coding|NM_116712|CPK23 ## Opposite_strand|Intronic_non-coding|NM_053103|Entpd7 ## Same_strand|Intronic_non-coding|NM_133195|Brunol4 ## Same_strand|Intronic_coding|NM_147305|AT2G12875 ## {Repeats: no}

block2885 [novel_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	0.925	no	no	0.55/0.55	20/20/1.00	0.0	0.0	1	0	1	0	6	14	3arm	1	nd	0.45	4	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------------------UUCGAAU------------------	1	novel
		len	cloning frequencies
			AF16
	------------------------------------------------------------------GTTCGAATGGGTGGTCAGAC------	20	1
cbriggsae	cacagacgaataaactggcgaatagatgggcggttcctcgggtggactctttggtggcaccccaccGTTCGAATGGGTGGTCAGACgggtgt
	********************************************************************************************
cbriggsae	.(((..((......(((((...((..((..((((.....(((((.(((....)))..))))).))))..))..))....))))).))..)))	0.940 -23.50

cbriggsae

chromosome:chrIV_random:16381:16472:1

{Repeats: no}

block3084 [novel_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	0.386	no	no	0.59/0.59	22/22/1.00	0.0	0.0	1	0	1	0	6	11	5arm	2	nd	0.36	4	1	1	na	na

		reads	miRBase family seed
seed	-------UUACGGG----------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	------GTTACGGGACGACGTCTTGGTG--------------------------------------------------	22	1
cbriggsae	cgaattGTTACGGGACGACGTCTTGGTGagcgtttgaaggaacttttgaacttcgatctcttcgttttcttgcatttc
	******************************************************************************
	--------------------<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	NM_072718
cbriggsae	.(((.(((...((((.((((....((((((.(((..(((....)))..)))))).)))....)))).))))))).)))	0.990 -16.60

cbriggsae

chromosome:chrUn:3815610:3815687:-1

Opposite_strand|Boundary_non-coding|NM_072718|air-1 ## {Repeats: no}

block3532 [novel_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	0.124	no	no	0.38/0.38	21/21/1.00	0.0	0.0	1	0	1	0	32	1	5arm	1	nd	0.33	4	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------UGUGUGU-------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	--------------------------------GTGTGTGTGTGTGTGTTAAAA------------------------------------------------------------	21	1
cbriggsae	acaatagatacttctaaaattttcaattcattGTGTGTGTGTGTGTGTTAAAAttatctcatattttttattgctgcgggtatcttgaaatgaataattccggtatttattgt
	*****************************************************************************************************************
cbriggsae	((((((((((((.........((((.((((..(((..((((.(((....(((((........)))))....)))))))..)))..)))).)))).......))))))))))))	0.990 -21.19

cbriggsae

chromosome:chrUn:4866578:4866690:1

{Repeats: no}

block3597 [novel_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	0.603	no	no	0.45/0.45	22/22/1.00	0.0	0.0	1	0	1	0	22	14	3arm	8	nd	0.41	4	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------------------------CCAGCUA------------------------------------	1	novel
		len	cloning frequencies
			AF16
	--------------------------------------------------------------------------TCCAGCTAGTGTGTGGTAGAAT----------------------	22	1
cbriggsae	tagagtcggcgaagaagataaactaaaatgcaagtggtgtctcgggtgtgtagctgtccttatccgatggcaatTCCAGCTAGTGTGTGGTAGAATgctttactcgtctcgatgataa
	**********************************************************************************************************************
	--------------------------------------------------------------------------------------------------------------------------------	NM_202770
cbriggsae	((..((((((((.((((.....(((..(((((((((((((((((((((............))))))).))))...))).))..)))))..)))....))))..))))..))))..)).	0.980 -27.90