miR-Intess: classification

other hairpins

block4311 [novel_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	0.250	no	no	0.59/0.59	22/22/1.00	0.0	0.0	1	0	1	0	16	21	5arm	1	nd	0.32	3	1	1	na	na

		reads	miRBase family seed
seed	-----------------UUCGCGG-------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	----------------GTTCGCGGTTCCGCCGTTCTTT-----------------------------------------------------------------------------	22	1
cbriggsae	ttttcgcttcacgagtGTTCGCGGTTCCGCCGTTCTTTcgttttgccattataacctgaaaaatcagtcagaattttacgagtaacgacatggagaaatcgatattcaagcgaaa
	*******************************************************************************************************************
cbriggsae	.((((((((...(((((.(((...(((((.((((..(((((......(((.....((((....))))....)))...))))).))))...)))))....))))))))))))))))	0.540 -25.30

cbriggsae

chromosome:chrV_random:1935757:1935871:1

{Repeats: no}

block4315 [novel_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	0.814	no	no	0.55/0.55	20/20/1.00	0.0	0.0	1	0	1	0	23	0	3arm	8	nd	0.40	3	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------UUUGAAU-----------------------------------	1	novel
		len	cloning frequencies
			AF16
	------------------------------------------GTTTGAATGCAGGCCGTTGG-----------------------	20	1
cbriggsae	tggagtcgcacgagacgcttcaaactggtgacgttggcgggaGTTTGAATGCAGGCCGTTGGggtgtaaaagatctgaagaaacc
	*************************************************************************************
cbriggsae	.((..((....((.((((..(((...(((..(((((((....)))..))))...))).)))..))))......))....))..))	0.720 -16.80

cbriggsae

chromosome:chrV_random:2373372:2373456:1

{Repeats: no}

block4347 [novel_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	0.233	no	no	0.52/0.52	21/21/1.00	0.0	0.0	1	0	1	0	10	2	3arm	1	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------AUUUGGC-----------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------------------------GATTTGGCCCGGAAGCTTTTG----------	21	1
cbriggsae	gcttgaacttctgctggcattctctgccacagaccttcttGATTTGGCCCGGAAGCTTTTGgaagcatgcg
	***********************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_070961
	---------------------------------------------------------------------------------	NM_001011629
	---------------------------------------------------------------------------------	NM_001047939
	---------------------------------------------------------------------------------	NM_001013793
	---------------------------------------------------------------------------------	NM_001094367
cbriggsae	((.((..((((((..(((.((((..(((((((......)))...))))..)))))))..)))))))).)).	0.580 -18.90

cbriggsae

chromosome:chrX:2156305:2156375:-1

Same_strand|Intronic_coding|NM_070961|ergo-1 ## Opposite_strand|Intronic_non-coding|NM_001011629|Mblk-1 ## Opposite_strand|Intronic_coding|NM_001047939|LOC499407 ## {Repeats: no}

block4454 [novel_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	0.603	no	no	0.64/0.64	22/22/1.00	0.0	0.0	1	0	1	0	6	23	5arm	1	nd	0.32	3	1	1	na	na

		reads	miRBase family seed
seed	-------CACCGGU----------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	------GCACCGGTACATCCCAAGGGTC--------------------------------------------------------------------------------	22	1
cbriggsae	gtgcatGCACCGGTACATCCCAAGGGTCatcgcgaagagatgatggcaatgtttcattgagcctggttttcttcgacaataaagtggattgaggacatcggtttggac
	************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_153821
	----------------------------------------------------------------------------------------------------------------------	NM_125756
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_204793
	----------------------------------------------------------------------------------------------------------------------	NM_001016575
cbriggsae	((.((...((((((...((((((...((((..((((((((....(((((((...))))..)))....))))))))........)))).))).))).)))))).)).))	0.670 -27.10

cbriggsae

chromosome:chrX:6772901:6773008:-1

Same_strand|Intronic_non-coding|NM_153821|Prrx1 ## Opposite_strand|Intronic_coding|NM_125756|HEN3 ## {Repeats: no}

block4888 [novel_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	0.200	no	no	0.35/0.35	20/20/1.00	0.0	0.0	1	0	1	0	14	13	3arm	1	nd	0.45	3	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------AAUAACG--------------------------	1	novel
		len	cloning frequencies
			AF16
	-------------------------------------------------------------------TAATAACGTGCTTTTGAACC--------------	20	1
cbriggsae	cgcaagttctcagaaatcatgtgtatcgttttacagggcggttcttcagcgactttgaagatttcgtTAATAACGTGCTTTTGAACCtcagtgaactttgt
	*****************************************************************************************************
	---------------------------------------------------------------------------------------------------------------	NM_153821
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_125756
	---------------------------------------------------------------------------------------------------------------	NM_204793
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_079593
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_169386
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_176459
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001016575
	---------------------------------------------------------------------------------------------------------------	NM_001085944
cbriggsae	.((((((((...((..(((...(((.((((......(((((.(((((((.....)))))))..)))))...)))))))...)))...))...)))))).))	0.880 -22.90

cbriggsae

chromosome:chrX:6618777:6618877:1

Opposite_strand|Intronic_non-coding|NM_153821|Prrx1 ## Same_strand|Intronic_coding|NM_125756|HEN3 ## Same_strand|Intronic_non-coding|NM_079593|pros ## {Repeats: no}

novel_lenNOK_nonpairedHIGH_bulgeHIGH (44 loci)

block52 [novel_lenNOK_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	0.291	no	no	0.72/0.72	18/18/0.00	0.0	0.0	1	0	1	0	26	3	3arm	1	nd	0.33	4	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------CGGAAUU------------------------------------	1	novel
		len	cloning frequencies
			AF16
	--------------------------------------------------------GCGGAATTCGCGGCCAGG--------------------------	18	1
cbriggsae	aatgttgtgcatagatctttttttttcggtcgctacatacatccatttaccaataaGCGGAATTCGCGGCCAGGaaaaacaaaaaaacccgccaaaacgt
	****************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_057259
	--------------------------------------------------------------------------------------------------------------	NM_057282
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_008855
	--------------------------------------------------------------------------------------------------------------	NM_061553
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_067080
cbriggsae	.(((((..((..........(((((((((((((........(((.((((....)))).)))....)))))).)))))))...........))...)))))	0.940 -17.30

cbriggsae

chromosome:chrI:1517120:1517219:-1

Same_strand|Intronic_non-coding|NM_057259|l(2)37Cc ## Opposite_strand|Intronic_non-coding|NM_057282|RpLP1 ## Same_strand|Intronic_coding|NM_067080|Y66D12A.21 ## {Repeats: no}

block65 [novel_lenNOK_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	0.151	no	no	0.44/0.44	18/18/0.00	0.0	0.0	1	0	1	0	23	16	3arm	2	nd	0.33	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------UCAUACA---------------------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------------------------------------------------------------GTCATACAAACCGTCAAG-----------------------	18	1
cbriggsae	gaggccaagaaaagttgtaaagaaggcgtcgacatgtatgataaacgccaatattatcatgtagtcggtgaagagcGTCATACAAACCGTCAAGcgctgaaaatatataattgcttc
	*********************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_002035
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_177366
	-------------------------------------------------------------------------------------------------------------------------------	NM_001107428
	-------------------------------------------------------------------------------------------------------------------------------	NM_214177
	-------------------------------------------------------------------------------------------------------------------------------	NM_001011629
	-------------------------------------------------------------------------------------------------------------------------------	NM_058481
	-------------------------------------------------------------------------------------------------------------------------------	NM_058496
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001047248
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001047247
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_059707
	-------------------------------------------------------------------------------------------------------------------------------	NM_000087
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_010301
cbriggsae	(((((.......(((((((.....(((((.(((.((((((((...((((..(((......)))...))))......))))))))....)))..))))).......))))))))))))	0.900 -25.31

cbriggsae

chromosome:chrI:2216614:2216730:-1

Same_strand|Intronic_non-coding|NM_002035|KDSR ## Opposite_strand|Intronic_non-coding|NM_001107428|Zfp612 ## Opposite_strand|Intronic_coding|NM_214177|CNG-1 ## Same_strand|Intronic_coding|NM_001047247|Y73E7A.1 ## {Repeats: no}

block268 [novel_lenNOK_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	0.272	no	no	0.50/0.53	19/22/0.50	0.0	1.5	2	0	1	0	15	14	3arm	1	nd	0.41	4	2	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------UCUCUGC-----------------------------	2	novel
		len	cloning frequencies
			AF16
	----------------------------------------------------------------------TTCTCTGCACACCATGGAC------------------	19	1
	----------------------------------------------------------------------TTCTCTGCACACCATGGACTGT---------------	22	1
cbriggsae	caagaatcgttgacgatgaagtacaggtctgaatatttttatcctctggagttactggatatctatattaTTCTCTGCACACCATGGACTGTcaaaatattttttgg
	***********************************************************************************************************
	---------------------------------------------------------------------------------------------------------------------	NM_057259
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_057282
	---------------------------------------------------------------------------------------------------------------------	NM_008855
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_061553
	---------------------------------------------------------------------------------------------------------------------	NM_067080
cbriggsae	((((((...(((((((((..((.((((....(((((...(((((............)))))...)))))....)))).))..)))....)))))).....)))))).	0.960 -20.70

cbriggsae

chromosome:chrI:1517231:1517337:1

Opposite_strand|Intronic_non-coding|NM_057259|l(2)37Cc ## Same_strand|Intronic_non-coding|NM_057282|RpLP1 ## Opposite_strand|Intronic_coding|NM_067080|Y66D12A.21 ## {Repeats: no}

block594 [novel_lenNOK_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	0.304	no	no	0.58/0.58	19/19/0.00	0.0	0.0	1	0	1	0	26	14	3arm	1	nd	0.32	4	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------------------CUUCGAU-------------------------------------	1	novel
		len	cloning frequencies
			AF16
	--------------------------------------------------------------------GCTTCGATGATGGCTCTGG--------------------------	19	1
cbriggsae	tcaagttaccgaggtgttcgccggccttttcgaagagactcgtgatgaggtcgtcctcggcgaaacgtGCTTCGATGATGGCTCTGGctgaaaagaaattccagtgaaattga
	*****************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_075282
	---------------------------------------------------------------------------------------------------------------------------	NM_011794
cbriggsae	((((.((((.(((...((((((((((...((((((..((((((..(((((....)))))))))...)).))))))....))))..))).)))......)))..))))..))))	0.840 -31.70

cbriggsae

chromosome:chrII:2350811:2350923:-1

Same_strand|Intronic_non-coding|NM_075282|wrs-1 ## Opposite_strand|Intronic_non-coding|NM_011794|Bpnt1 ## {Repeats: no}

block634 [novel_lenNOK_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	0.488	no	no	0.67/0.67	18/18/0.00	0.0	0.0	1	0	1	0	16	14	5arm	1	nd	0.39	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------GGGAUGA-------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	----------------CGGGATGAACGCCACGTC---------------------------------------------------------------------	18	1
cbriggsae	ggaccgcttcctgcccCGGGATGAACGCCACGTCaaagccgatgctcacctttgggattggcaatgtggatattgtgacatatgcgggagagcaatggctacc
	*******************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_006287
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_009829
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001039276
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_201578
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001114006
cbriggsae	.....(((((((((..((.((((....((((((....((((((.((((....)))))))))).)))))).)))).))......)))))).)))..........	0.780 -31.00