miR-Intess: classification

other hairpins

novel_lenNOK_loopOverlap_nonpairedHIGH (17 loci)

block2843 [novel_lenNOK_loopOverlap_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	0.501	no	no	0.38/0.40	24/25/0.50	0.0	0.5	2	0	1	0	8	-3	5arm_loop	1	nd	0.33	3	2	1	na	na

		reads	miRBase family seed
seed	---------AUUAGGG----------------------------------------------------------	2	novel
		len	cloning frequencies
			AF16
	--------GATTAGGGTCCAAGTTTCAAAATG------------------------------------------	24	1
	--------GATTAGGGTCCAAGTTTCAAAATGC-----------------------------------------	25	1
cbriggsae	acctctttGATTAGGGTCCAAGTTTCAAAATGCtgttcttttcctttttgattttgtatagtaatctaacctgg
	**************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_065289
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_064155
	------------------------------------------------------------------------------------	NM_061965
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_075402
	------------------------------------------------------------------------------------	NM_001024205
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001026513
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001094113
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001091618
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001034557
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_075282
	------------------------------------------------------------------------------------	NM_064619
	------------------------------------------------------------------------------------	NM_001028390
	------------------------------------------------------------------------------------	NM_001124458
cbriggsae	.((.....(((((..((.((((..((((((...............)))))).)))).))..)))))......))	0.790 -9.36

cbriggsae

chromosome:chrIV:14454728:14454801:1

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

block2863 [novel_lenNOK_loopOverlap_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	0.162	no	no	0.53/0.53	19/19/0.00	0.0	0.0	1	0	1	0	34	-2	5arm_loop	1	nd	0.42	3	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------ACGAUGU------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------------------AACGATGTTCCCGAAGCCA-------------------------------------------------------------	19	1
cbriggsae	atctgaaaccctcccgaatgtccttcagctgagtAACGATGTTCCCGAAGCCActgctctagggtatttttgtcggttaggtacattcgattcgctatttcctccggtttttga
	******************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_075117
	----------------------------------------------------------------------------------------------------------------------------	NM_001027964
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_061879
	----------------------------------------------------------------------------------------------------------------------------	NM_001027965
	----------------------------------------------------------------------------------------------------------------------------	NM_001129300
cbriggsae	.((.((((((....((((((((((..((((((.(((.((((..(((..(((....)))...))))))).)))))))))))).)))))))................)))))).))	0.710 -27.05

cbriggsae

chromosome:chrIV_random:144996:145109:-1

Same_strand|Intronic_non-coding|NM_075117|Y59A8B.22 ## Opposite_strand|Intronic_coding|NM_001027964|pme-3 ## {Repeats: no}

block2950 [novel_lenNOK_loopOverlap_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	0.302	no	no	0.21/0.21	19/19/0.00	0.0	0.0	1	0	1	0	17	-4	3arm_loop	2	nd	0.37	3	1	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------UUUUAUA----------------------------	1	novel
		len	cloning frequencies
			AF16
	-----------------------------------------------TTTTTATATCTTAACGAGT-----------------	19	1
cbriggsae	agtgttttgtgttttttattcaaagttatattttttctcgtttaatcTTTTTATATCTTAACGAGTaaaaaaaaaagatgtta
	***********************************************************************************
cbriggsae	((..((((...((((((((((.(((.((((.....................)))).)))...))))))))))..))))..)).	0.840 -10.50

cbriggsae

chromosome:chrM:10838:10920:-1

{Repeats: no}

block3126 [novel_lenNOK_loopOverlap_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	0.302	no	no	0.21/0.21	19/19/0.00	0.0	0.0	1	0	1	0	17	-4	3arm_loop	2	nd	0.37	3	1	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------UUUUAUA----------------------------	1	novel
		len	cloning frequencies
			AF16
	-----------------------------------------------TTTTTATATCTTAACGAGT-----------------	19	1
cbriggsae	agtgttttgtgttttttattcaaagttatattttttctcgtttaatcTTTTTATATCTTAACGAGTaaaaaaaaaagatgtta
	***********************************************************************************
cbriggsae	((..((((...((((((((((.(((.((((.....................)))).)))...))))))))))..))))..)).	0.840 -10.50

cbriggsae

chromosome:chrUn:4428808:4428890:-1

{Repeats: no}

block4631 [novel_lenNOK_loopOverlap_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	0.022	no	no	0.44/0.44	18/18/0.00	0.0	0.0	1	0	1	0	42	-3	3arm_loop	1	nd	0.44	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------AUCAGAA----------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	--------------------------------------------------------CATCAGAATAGACGCCTT------------------------------------------	18	1
cbriggsae	ggtggtcttcctactggcccagacgcgtcgcaaggagttctggcgtttctccttgaCATCAGAATAGACGCCTTcggctccttctcgattttttggtttgaagaatgggagccact
	********************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001030307
cbriggsae	(((((.(((((..((...(((((...((((.((((((((..(((((((....(((....)))...)))))))...))))))))..))))..))))).....))...))))))))))	0.990 -41.20

cbriggsae

chromosome:chrX:15904846:15904961:-1

Same_strand|Intronic_non-coding|NM_001030307|Dkc1 ## {Repeats: no}

block5132 [novel_lenNOK_loopOverlap_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	0.257	no	no	0.44/0.44	18/18/0.00	0.0	0.0	1	0	1	0	23	-2	5arm_loop	1	nd	0.39	3	1	1	na	na

		reads	miRBase family seed
seed	------------------------AACCGCC----------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	-----------------------GAACCGCCGTAGTATTAT------------------------------------	18	1
cbriggsae	ttgtggttccacttcttttacttGAACCGCCGTAGTATTATaaaatacagtatccgttggtcccaagtcttccacag
	*****************************************************************************
cbriggsae	.(((((.............(((((.((((.((..(((((....)))))......)).))))..)))))...))))).	0.930 -13.29

cbriggsae

chromosome:chrX:15678893:15678969:1

{Repeats: no}

novel_Multihit_nonpairedHIGH_bulgeHIGH (16 loci)

block157 [novel_Multihit_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	0.019	no	no	0.29/0.29	21/21/1.00	0.0	0.0	1	0	1	0	19	15	3arm	12	nd	0.43	5	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------AUAUGAU--------------------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------------------------------------------------------------TATATGATTTTTGGAACCTAG-------------------	21	1
cbriggsae	tagctaagatcaaagtgtagtatctgttcttatcgtattaacctacggtatacactcgaatgagtgtaataaaggtTATATGATTTTTGGAACCTAGgaaagactcggggcttgct
	********************************************************************************************************************
	------------------------------------------------------------------------------------------------------------------------------	NM_008855
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_176035
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_205985
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_205986
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001011629
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_102365
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001084127
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001009899
cbriggsae	.(((.(((.((..(((.........(((((.((((((.((((((...((.(((((((....)))))))))..))))))))))))....))))).........)))..)).))))))	0.900 -29.47

cbriggsae

chromosome:chrI:8188086:8188201:-1

Opposite_strand|Intronic_non-coding|NM_008855|Prkcb1 ## Same_strand|Intronic_coding|NM_176035|nAcRalpha-34E ## Same_strand|Intronic_non-coding|NM_001011629|Mblk-1 ## {Repeats: no}

block158 [novel_Multihit_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	0.019	no	no	0.29/0.29	21/21/1.00	0.0	0.0	1	0	1	0	19	15	3arm	12	nd	0.43	5	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------AUAUGAU--------------------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------------------------------------------------------------TATATGATTTTTGGAACCTAG-------------------	21	1
cbriggsae	tagctaagatcaaagtgtagtatctgttcttatcgtattaacctacggtatacactcgaatgagtgtaataaaggtTATATGATTTTTGGAACCTAGgaaagactcggggcttgct
	********************************************************************************************************************
	------------------------------------------------------------------------------------------------------------------------------	NM_008855
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_176035
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_205985
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_205986
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001011629
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_102365
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001084127
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001009899
	------------------------------------------------------------------------------------------------------------------------------	NM_020810
cbriggsae	.(((.(((.((..(((.........(((((.((((((.((((((...((.(((((((....)))))))))..))))))))))))....))))).........)))..)).))))))	0.900 -29.47

cbriggsae

chromosome:chrI:8194904:8195019:-1

Opposite_strand|Intronic_non-coding|NM_008855|Prkcb1 ## Same_strand|Intronic_coding|NM_176035|nAcRalpha-34E ## Same_strand|Intronic_non-coding|NM_001011629|Mblk-1 ## {Repeats: no}

block359 [novel_Multihit_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	0.028	no	no	0.29/0.29	21/21/1.00	0.0	0.0	1	0	1	0	19	15	3arm	12	nd	0.43	5	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------AUAUGAU--------------------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------------------------------------------------------------TATATGATTTTTGGAACCTAG-------------------	21	1
cbriggsae	tagctaagatcaaagtgtagtatctgttcttatcgtattaacctaccgtatacactcgaatgagtgtaataaaggtTATATGATTTTTGGAACCTAGgaaagactcggggcttgct
	********************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_008855
	------------------------------------------------------------------------------------------------------------------------------	NM_176035
	------------------------------------------------------------------------------------------------------------------------------	NM_205985
	------------------------------------------------------------------------------------------------------------------------------	NM_205986
	------------------------------------------------------------------------------------------------------------------------------	NM_102365
	------------------------------------------------------------------------------------------------------------------------------	NM_001084127
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_068405
	------------------------------------------------------------------------------------------------------------------------------	NM_001009899
cbriggsae	.(((.(((.((..(((.........(((((.((((((.((((((......(((((((....)))))))....))))))))))))....))))).........)))..)).))))))	0.900 -28.67

cbriggsae

chromosome:chrI:8160552:8160667:1

Same_strand|Intronic_non-coding|NM_008855|Prkcb1 ## Opposite_strand|Intronic_coding|NM_176035|nAcRalpha-34E ## Same_strand|Intronic_coding|NM_068405|ZK616.7 ## Opposite_strand|Intronic_non-coding|NM_001009899|KIAA2018 ## {Repeats: no}

block360 [novel_Multihit_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	0.019	no	no	0.29/0.29	21/21/1.00	0.0	0.0	1	0	1	0	19	15	3arm	12	nd	0.43	5	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------AUAUGAU--------------------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------------------------------------------------------------TATATGATTTTTGGAACCTAG-------------------	21	1
cbriggsae	tagctaagatcaaagtgtagtatctgttcttatcgtattaacctacggtatacactcgaatgagtgtaataaaggtTATATGATTTTTGGAACCTAGgaaagactcggggcttgct
	********************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_008855
	------------------------------------------------------------------------------------------------------------------------------	NM_176035
	------------------------------------------------------------------------------------------------------------------------------	NM_205985
	------------------------------------------------------------------------------------------------------------------------------	NM_205986
	------------------------------------------------------------------------------------------------------------------------------	NM_001011629
	------------------------------------------------------------------------------------------------------------------------------	NM_102365
	------------------------------------------------------------------------------------------------------------------------------	NM_001084127
	------------------------------------------------------------------------------------------------------------------------------	NM_001009899
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_015566
cbriggsae	.(((.(((.((..(((.........(((((.((((((.((((((...((.(((((((....)))))))))..))))))))))))....))))).........)))..)).))))))	0.900 -29.47

cbriggsae

chromosome:chrI:8185586:8185701:1

Same_strand|Intronic_non-coding|NM_008855|Prkcb1 ## Opposite_strand|Intronic_coding|NM_176035|nAcRalpha-34E ## Opposite_strand|Intronic_non-coding|NM_001011629|Mblk-1 ## {Repeats: no}

Page 43

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miR-Intess™

block2843 [novel_lenNOK_loopOverlap_nonpairedHIGH]

block2863 [novel_lenNOK_loopOverlap_nonpairedHIGH]

block2950 [novel_lenNOK_loopOverlap_nonpairedHIGH]

block3126 [novel_lenNOK_loopOverlap_nonpairedHIGH]

block4631 [novel_lenNOK_loopOverlap_nonpairedHIGH]

block5132 [novel_lenNOK_loopOverlap_nonpairedHIGH]

block157 [novel_Multihit_nonpairedHIGH_bulgeHIGH]

block158 [novel_Multihit_nonpairedHIGH_bulgeHIGH]

block359 [novel_Multihit_nonpairedHIGH_bulgeHIGH]

block360 [novel_Multihit_nonpairedHIGH_bulgeHIGH]