miR-Intess: classification

other hairpins

block3415 [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	0.041	no	no	0.36/0.36	22/22/1.00	0.0	0.0	1	0	1	0	8	19	3arm	1	nd	0.45	3	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------AAAUUGU----------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------------------------------------------------AAAATTGTTGGGATATCTAGCC--------	22	1
cbriggsae	gctcttctcgaaacccatatttttcattggtatgtgccaattcatgattgccacgtagcattatAAAATTGTTGGGATATCTAGCCttatagca
	**********************************************************************************************
	--------------------------------------------------------------------------------------------------------	NM_065950
	--------------------------------------------------------------------------------------------------------	NM_065951
cbriggsae	(((...((.((..((((.(((((....((.((((((.(((((...))))).)))))).))....)))))...))))...)).))......))).	0.630 -20.80

cbriggsae

chromosome:chrUn:2130476:2130569:1

Opposite_strand|Intronic_coding|NM_065950|C23G10.1 ## {Repeats: no}

block3485 [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	0.960	no	no	0.30/0.42	19/23/0.67	0.3	1.7	3	0	1	0	14	11	5arm	3	nd	0.35	2	3	1	na	na

		reads	miRBase family seed
seed	----------------AUCAAAG-----------------------------------------------------------------------------	2	novel
seed	---------------AAUCAAA------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	---------------AATCAAAGGGTTCTAAGGATTAA--------------------------------------------------------------	23	2
	--------------CAATCAAAGGGTTCTAAGG-------------------------------------------------------------------	19	1
cbriggsae	gtatgtttgacttcCAATCAAAGGGTTCTAAGGATTAAtaaataatttttttcaaggttataatttattgtttcaacatagtttatttgctagttacatg
	****************************************************************************************************
cbriggsae	.(((((..((((..(((..(((..(((..((.(((.(((..((((((((....)))))))).))).))).))..)))....)))..)))..)))))))))	0.470 -9.80

cbriggsae

chromosome:chrUn:4250914:4251013:1

{Repeats: no}

block3531 [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	0.122	no	no	0.38/0.38	21/21/1.00	0.0	0.0	1	0	1	0	7	21	5arm	3	nd	0.38	3	1	1	na	na

		reads	miRBase family seed
seed	--------UUGAAAA------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	-------ATTGAAAATCGGTCAACGCAT-----------------------------------------------------------------------------------	21	1
cbriggsae	tttaaaaATTGAAAATCGGTCAACGCATgccggagttatggtccattgaaaatcgaaaaatcgatgcatcgtaaaagggttgtaaacgatcggaattgtcatcatttaaat
	***************************************************************************************************************
cbriggsae	((((((...(((...((((((...(((.(((....(((((((.((((((...........)))))).)))))))...))))))....)))))).....)))...)))))).	0.960 -22.70

cbriggsae

chromosome:chrUn:4857389:4857499:1

{Repeats: no}

block3606 [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	0.272	no	no	0.52/0.52	21/21/1.00	0.0	0.0	1	0	1	0	15	0	3arm	1	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	----------------------------------AGCCAGU----------------------------	1	novel
		len	cloning frequencies
			AF16
	---------------------------------GAGCCAGTTCGAATGAATGGG---------------	21	1
cbriggsae	caaagttgaacgcctctcctcttggcttaattgGAGCCAGTTCGAATGAATGGGcgaaatcatccttgg
	*********************************************************************
cbriggsae	(((...(((.(((((.((.(((((((((.....)))))))...))..))..)))))...)))...))).	0.530 -16.10

cbriggsae

chromosome:chrUn:6895347:6895415:1

{Repeats: no}

block3808 [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	0.433	no	no	0.52/0.52	21/21/1.00	0.0	0.0	1	0	1	0	20	0	5arm	1	nd	0.38	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------CACACUG----------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	--------------------ACACACTGGCTAGGTCTAGGA---------------------------------------------------------	21	1
cbriggsae	gttttgatgacgactggcgcACACACTGGCTAGGTCTAGGAgcgcagggggaatcatttgggaaagaggagagtgtgtttgctggggaggaggcaaga
	**************************************************************************************************
	------------------------------------------------------------------------------------------------------------	NM_001011629
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_182351
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_011821
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_007904
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_134696
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001040230
	------------------------------------------------------------------------------------------------------------	NM_001041377
	------------------------------------------------------------------------------------------------------------	NM_001042144
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001079844
	------------------------------------------------------------------------------------------------------------	NM_207352
cbriggsae	.(((((.......((((((.(((((((..((...(((..((...............))..)))....))..))))))).))))))........)))))	0.710 -21.52

cbriggsae

chromosome:chrV:11310270:11310367:-1

Opposite_strand|Intronic_non-coding|NM_001011629|Mblk-1 ## Same_strand|Intronic_coding|NM_182351|fipr-1 ## Same_strand|Intronic_non-coding|NM_011821|Gpc6 ## Opposite_strand|Intronic_coding|NM_001041377|ECU05_1680 ## {Repeats: no}

block3824 [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	0.802	no	no	0.38/0.38	21/21/1.00	0.0	0.0	1	0	1	0	14	8	5arm	5	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	---------------UUGAGAU----------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	--------------GTTGAGATGGTAGTTAACAGT---------------------------------------------------------	21	1
cbriggsae	ccttggctccttccGTTGAGATGGTAGTTAACAGTggattggttcacaacgtgtttattgaacactagcagggcaacagagaccccagaagg
	********************************************************************************************
	------------------------------------------------------------------------------------------------------	NM_001126434
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001028773
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001027854
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_074150
	------------------------------------------------------------------------------------------------------	NM_001113262
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_026039
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_175692
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_136816
	------------------------------------------------------------------------------------------------------	NM_001113262
	------------------------------------------------------------------------------------------------------	NM_001113262
cbriggsae	((((((....(((.((((...((.((((...((((((((..((.....))..))))))))...)))).))...)))).)))...)))..)))	0.950 -20.20

cbriggsae

chromosome:chrV:12020832:12020923:-1

Opposite_strand|Intronic_non-coding|NM_001126434|LOC570148 ## Same_strand|Intronic_coding|NM_001028773|F47B8.14 ## Opposite_strand|Intronic_coding|NM_001113262|Fib-h ## Same_strand|Intronic_non-coding|NM_026039|Med18 ## {Repeats: no}

block4198 [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	0.811	no	no	0.59/0.59	22/22/1.00	0.0	0.0	1	0	1	0	7	18	5arm	1	nd	0.32	2	1	1	na	na

		reads	miRBase family seed
seed	--------AAUCGGG--------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	-------GAATCGGGGTGTGGCGGAACAA------------------------------------------------------------------------------	22	1
cbriggsae	cacagaaGAATCGGGGTGTGGCGGAACAAcaaaaaagtgagaatacccggtggtgttgttaatatatttttagtcatttagcataataaatttgttttaaattagtg
	***********************************************************************************************************
	---------------------------------------------------------------------------------------------------------------------	NM_001026206
	---------------------------------------------------------------------------------------------------------------------	NM_071054
	---------------------------------------------------------------------------------------------------------------------	NM_074620
	---------------------------------------------------------------------------------------------------------------------	NM_074618
	---------------------------------------------------------------------------------------------------------------------	NM_074614
	---------------------------------------------------------------------------------------------------------------------	NM_077929
	---------------------------------------------------------------------------------------------------------------------	NM_001028567
	---------------------------------------------------------------------------------------------------------------------	NM_067949
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_063805
	---------------------------------------------------------------------------------------------------------------------	NM_074647
	---------------------------------------------------------------------------------------------------------------------	NM_074619
	---------------------------------------------------------------------------------------------------------------------	NM_070063
cbriggsae	......(((((.((..(((.((.(((..((.(((((.(((.((((((....)))))).))).....))))).))..))).))...)))..)).))))).........	0.580 -15.00

cbriggsae

chromosome:chrV:13790187:13790293:1

Opposite_strand|Intronic_coding|NM_001026206|nhr-50 ## Same_strand|Intronic_coding|NM_063805|srh-135 ## {Repeats: no}

block4240 [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	0.215	no	no	0.40/0.40	20/20/1.00	0.0	0.0	1	0	1	0	7	24	5arm	1	nd	0.35	3	1	1	na	na

		reads	miRBase family seed
seed	--------UUUGAUU-------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	-------GTTTGATTGTCTCATGGACT-------------------------------------------------------------------------	20	1
cbriggsae	tcgtatcGTTTGATTGTCTCATGGACTgtcgcttcatagttttgatcattgttatagtagtgttgaagacgtacatgccatgcaagcgagacgcatgcgg
	****************************************************************************************************
	--------------------------------------------------------------------------------------------------------------	NM_062385
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001089488
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001002170
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_008425
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_011764
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_077847
	......................................................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	NM_018364
	......................................................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	NM_172684
	..............................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	NM_001029095
	..........................................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	NM_136069
	......................................................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	NM_001017304
	......................................................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	NM_001080977
	......................................................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	NM_198467
cbriggsae	.(((((((((...((((..(((((..((((((((((..........(((((......))))).))))).)).)))..)))))...)))))))).))))).	0.980 -25.70

cbriggsae

chromosome:chrV:15717542:15717641:1

Opposite_strand|Intronic_coding|NM_062385|twk-2 ## Same_strand|Intronic_non-coding|NM_001089488|zgc:162612 ## Same_strand|Intronic_coding|NM_077847|collagen ## {Repeats: no}

block4287 [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	0.591	no	no	0.59/0.59	22/22/1.00	0.0	0.0	1	0	1	0	10	3	3arm	1	nd	0.32	3	1	1	na	na

		reads	miRBase family seed
seed	----------------------------------------UAGGUGU------------------------	1	novel
		len	cloning frequencies
			AF16
	---------------------------------------GTAGGTGTCGACGGTGTGGACT----------	22	1
cbriggsae	tggtgagaagaatcgactcgtgacgtggcagctgtggctGTAGGTGTCGACGGTGTGGACTccagcgatcg
	***********************************************************************
	---------------------------------------------------------------------------------	NM_001002742
	---------------------------------------------------------------------------------	NM_001094844
	---------------------------------------------------------------------------------	NM_205171
cbriggsae	.(((.....((.((.((((((((((..(((((....)))))...)))).)))).)).)).)).....))).	0.940 -20.10

cbriggsae

chromosome:chrV_random:709930:710000:1

Opposite_strand|Intronic_non-coding|NM_001002742|trappc1 ## Opposite_strand|Intronic_coding|NM_205171|SYT1 ## {Repeats: no}

block4288 [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	0.107	no	no	0.38/0.38	21/21/1.00	0.0	0.0	2	0	1	0	5	24	5arm	1	nd	0.33	3	2	1	na	na

		reads	miRBase family seed
seed	------UUUUGUG---------------------------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			AF16
	-----ATTTTGTGTTGATCGTTGTGG--------------------------------------------------------------------------------------	21	2
cbriggsae	tggacATTTTGTGTTGATCGTTGTGGagggagatctgaatttgtatatattttttcttcatatttcaccgaatctggtttacccgatacaactgtcgcatcacatagcccaa
	****************************************************************************************************************
	--------------------------------------------------------------------------------------------------------------------------	NM_001002742
	--------------------------------------------------------------------------------------------------------------------------	NM_001094844
	--------------------------------------------------------------------------------------------------------------------------	NM_205171
	---------------------------------------------------------------------------------------<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	NM_001047737
	<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<---------------------------------------------------------<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	NM_001047736
	<<<<<<<<<<<<<<<<<<<<<------------------------------------------------------------------<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	NM_072102
cbriggsae	(((......((((.((((.((((((..((((((((.((.((.((..((((.........))))...)).)).)).))))).)))..)))))).))))...))))....))).	0.920 -25.50

cbriggsae

chromosome:chrV_random:713452:713563:1

Opposite_strand|Intronic_non-coding|NM_001002742|trappc1 ## Opposite_strand|Intronic_coding|NM_205171|SYT1 ## Opposite_strand|Boundary_coding|NM_001047736|rga-4 ## {Repeats: no}

Page 12

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miR-Intess™

block3415 [novel_nonpairedHIGH]

block3485 [novel_nonpairedHIGH]

block3531 [novel_nonpairedHIGH]

block3606 [novel_nonpairedHIGH]

block3808 [novel_nonpairedHIGH]

block3824 [novel_nonpairedHIGH]

block4198 [novel_nonpairedHIGH]

block4240 [novel_nonpairedHIGH]

block4287 [novel_nonpairedHIGH]

block4288 [novel_nonpairedHIGH]