miR-Intess: classification

other hairpins

novel_cloningOK_shortStem_nonpairedHIGH (1 loci)

block2418 [novel_cloningOK_shortStem_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	0.165	no	no	0.37/0.40	19/20/0.83	0.0	0.0	5	0	1	0	0	19	3arm	1	nd	0.32	3	6	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------CUGAAUG------------	6	novel
		len	cloning frequencies
			AF16
	----------------------------------------------------------------TCTGAATGTGGTAATTAGGG	20	5
	----------------------------------------------------------------TCTGAATGTGGTAATTAGG-	19	1
cbriggsae	ccaatttgaaacaatttcggtttcgaaatatccacaatttcatctgaaaatctggaacaattgaTCTGAATGTGGTAATTAGGG
	************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_067544
	----------------------------------------------------------------------------------------------	NM_064155
	----------------------------------------------------------------------------------------------	NM_067624
cbriggsae	((...(((..(((..(((((..((((....((((...((((....))))...))))....)))).))))))))..)))...)).	0.520 -15.50

cbriggsae

chromosome:chrIV:1679359:1679442:1

Same_strand|Intronic_coding|NM_067544|F09C11.1 ## Opposite_strand|Intronic_non-coding|NM_064155|Y17G7B.3 ## {Repeats: no}

novel_lenNOK_5varHIGH_randfoldOK (1 loci)

block5068 [novel_lenNOK_5varHIGH_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	0.45/0.56	18/22/0.33	4.0	1.3	3	0	1	0	8	10	5arm	2	nd	0.28	2	3	1	na	na

		reads	miRBase family seed
seed	---------------AUGCAUG----------------------------------------------------------	1	novel
seed	------------------------------------------------AUGCAUG-------------------------	1	novel
seed	---------UUUACGA----------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	-----------------------------------------------GATGCATGAGCCCTAGAG---------------	18	1
	--------TTTTACGATGCATGAGCCCTAG--------------------------------------------------	22	1
	--------------GATGCATGAGCCCTAGAG------------------------------------------------	18	1
cbriggsae	ttacacttTTTTACGATGCATGAGCCCTAGAGcccatgcatctttacGATGCATGAGCCCTAGAGtcccatgctgtgtag
	********************************************************************************
	------------------------------------------------------------------------------------------	NM_011978
cbriggsae	.(((((...........(((((.((.((((.((.((((((((.....)))))))).)).)))).))..))))).))))).	0.940 -30.80

cbriggsae

chromosome:chrX:14750300:14750379:1

Opposite_strand|Intronic_non-coding|NM_011978|Slc27a2 ## {SimpF: trf}

novel_lenNOK_Multihit_nonpairedHIGH (1 loci)

block817 [novel_lenNOK_Multihit_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	0.484	no	no	0.62/0.62	26/26/0.00	0.0	0.0	2	0	1	0	10	4	3arm	12	nd	0.35	3	2	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------GUGGGAC----------------------------	2	novel
		len	cloning frequencies
			AF16
	--------------------------------------------GGTGGGACGGATTGAGCCATGGCGAT----------	26	2
cbriggsae	cattgaagacgatcttggcgtttgattgagcttggatgtctcctGGTGGGACGGATTGAGCCATGGCGATgatttgatgg
	********************************************************************************
	------------------------------------------------------------------------------------------	NM_001030387
cbriggsae	(((..((..((.((.(((((((((.((..(((.(((....))).)))..)))))))...)))).))))....))..))).	0.510 -19.40

cbriggsae

chromosome:chrII:12814159:12814238:-1

Opposite_strand|Intronic_non-coding|NM_001030387|ARIH1 ## {Repeats: no}

novel_lenNOK_cloningOK (1 loci)

block2082 [novel_lenNOK_cloningOK]

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	0.235	no	no	0.42/0.42	19/19/0.00	0.0	0.0	6	0	1	0	24	7	5arm	1	nd	0.16	1	6	1	na	na

		reads	miRBase family seed
seed	-------------------------AUGUGGC--------------------------------------------------------------------	6	novel
		len	cloning frequencies
			AF16
	------------------------TATGTGGCGAAAGTTAGTG---------------------------------------------------------	19	6
cbriggsae	cgtagattttattcacaattttgtTATGTGGCGAAAGTTAGTGaatgtcactctatactgctgttcataactttgttcatgactttgctcaaactttgct
	****************************************************************************************************
	--------------------------------------------------------------------------------------------------------------	NM_069173
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001047598
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001047599
cbriggsae	.(((((.(((.....(((....((((((.(((.((((((.((((((..((........))..))))))))))))))))))))).)))...))).))))).	0.760 -17.80

cbriggsae

chromosome:chrIV:4034758:4034857:-1

Opposite_strand|Intronic_coding|NM_069173|Y73F4A.1 ## Same_strand|Intronic_coding|NM_001047598|nhr-11 ## {Repeats: no}

novel_lenNOK_cloningOK_multiarm_DicerNOK (1 loci)

sblock8 [novel_lenNOK_cloningOK_multiarm_DicerNOK]

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	0.338	no	no	0.32/0.58	22/26/0.11	5.0 0.0	3.0 0.0	2 7	0 0	1 1	0 0	7 9	19 19	5arm 3arm	1 4	nd nd	0.36 0.27	3 2	9	1	0	6

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------------UGGAGAG---------------------------	7	novel
seed	------------------AUGGAAA-----------------------------------------------------------------------------------------------	1	novel
seed	--------AAAGGUU---------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	-------------------------------------------------------------------------------------ATGGAGAGTCCAATCCAGGCGACAGC---------	26	7
	-----------------GATGGAAAGTGATTTTTTCCTT---------------------------------------------------------------------------------	22	1
	-------GAAAGGTTTCGATGGAAAGTGATTTT---------------------------------------------------------------------------------------	26	1
cbriggsae	tatatttgaaaggtttcgatggaaagtgattttttccttgggtcggccaagtcttcagaagaggtcctcggaggcagttgggtccATGGAGAGTCCAATCCAGGCGACAGCcgaatatgc
	************************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001011629
	----------------------------------------------------------------------------------------------------------------------------------	NM_199320
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_014333
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_170676
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_170675
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_170674
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001098517
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_170677
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_058286
cbriggsae	(((((((....(((((((.((((...((...((((((.((((....((((((((((((........)).))))))..)))).)))).))))))..)).))))..))).))))))))))).	0.420 -32.50

cbriggsae

chromosome:chrI:1139639:1139758:1

Same_strand|Intronic_non-coding|NM_001011629|Mblk-1 ## Opposite_strand|Intronic_non-coding|NM_199320|PHF17 ## Same_strand|Intronic_coding|NM_058286|ptr-11 ## {Repeats: no}

novel_lenNOK_cloningOK_randfoldOK_bulgeHIGH (1 loci)

block2237 [novel_lenNOK_cloningOK_randfoldOK_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	0.44/0.48	23/25/0.08	0.0	0.0	12	0	1	0	16	4	5arm	1	nd	0.28	4	13	1	na	na

		reads	miRBase family seed
seed	-----------------UUUGAUU----------------------------------------------------------------------------	12	novel
seed	---------------------AUUGCUC------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	----------------TTTTGATTGCTCGTCGATGTTGTCG-----------------------------------------------------------	25	12
	--------------------GATTGCTCGTCGATGTTGTCGAA---------------------------------------------------------	23	1
cbriggsae	atctctgacttcaattTTTTGATTGCTCGTCGATGTTGTCGaagacacaaaaaattctatcgaatcatcgaaaacaatcaaagaatggagtgattgagat
	****************************************************************************************************
	--------------------------------------------------------------------------------------------------------------	NM_121448
	--------------------------------------------------------------------------------------------------------------	NM_175212
	--------------------------------------------------------------------------------------------------------------	NM_001076831
	--------------------------------------------------------------------------------------------------------------	NM_001090075
	--------------------------------------------------------------------------------------------------------------	NM_001047939
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_068895
	--------------------------------------------------------------------------------------------------------------	NM_009930
	--------------------------------------------------------------------------------------------------------------	NM_000092
	--------------------------------------------------------------------------------------------------------------	NM_000088
	--------------------------------------------------------------------------------------------------------------	NM_001036805
	--------------------------------------------------------------------------------------------------------------	NM_179831
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001039599
cbriggsae	(((((..(((((.((((((((((((....((((((...(((((((..........))).))))..))))))...)))))))))))))))))....)))))	1.000 -33.60

cbriggsae

chromosome:chrIV:10951960:10952059:-1

Opposite_strand|Intronic_coding|NM_121448|AT5G14440 ## Opposite_strand|Intronic_non-coding|NM_175212|Tmem65 ## Same_strand|Intronic_coding|NM_068895|C33H5.17 ## Same_strand|Intronic_non-coding|NM_001039599|COLEC12 ## {Repeats: no}

novel_lenNOK_cloningOK_shortStem (1 loci)

block2058 [novel_lenNOK_cloningOK_shortStem]

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	0.129	no	no	0.32/0.32	19/19/0.00	0.0	0.0	5	0	1	0	4	25	3arm	1	nd	0.21	3	5	1	na	na

		reads	miRBase family seed
seed	----------------------------------------------------------------------------------AAUCAGU---------------	5	novel
		len	cloning frequencies
			AF16
	---------------------------------------------------------------------------------TAATCAGTCCATTTCGTAT----	19	5
cbriggsae	tttgttgaaaagctgaaagtttttacaaaaattaatgtttcgaagagcatgtaaaaatttcaattcgaaaaatttagttggTAATCAGTCCATTTCGTATaaaa
	********************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001105717
	------------------------------------------------------------------------------------------------------------------	NM_112886
	------------------------------------------------------------------------------------------------------------------	NM_079809
	------------------------------------------------------------------------------------------------------------------	NM_020066
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_016802
	------------------------------------------------------------------------------------------------------------------	NM_171306
	------------------------------------------------------------------------------------------------------------------	NM_001026092
	------------------------------------------------------------------------------------------------------------------	NM_067970
	------------------------------------------------------------------------------------------------------------------	NM_070851
	------------------------------------------------------------------------------------------------------------------	NM_071203
cbriggsae	((((((((((.(((((......((((...((((((..((((((((((.((......)))))..)))))))...)))))).)))))))))...))))).))))).	0.840 -17.80

cbriggsae

chromosome:chrIV:3424093:3424196:-1

Same_strand|Intronic_non-coding|NM_001105717|Dpysl2 ## Opposite_strand|Intronic_non-coding|NM_112886|ATATM ## Opposite_strand|Intronic_coding|NM_020066|FMN2 ## {Repeats: no}

novel_lenNOK_mirtron_nonpairedHIGH_bulgeHIGH (1 loci)

block2148 [novel_lenNOK_mirtron_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	0.017	no	no	0.33/0.33	18/18/0.00	0.0	0.0	2	0	1	0	10	22	3arm	1	4	0.50	4	2	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------------------------CUCUGAC--------------------	2	novel
		len	cloning frequencies
			AF16
	------------------------------------------------------------------------TCTCTGACACTTAAAATC----------	18	2
cbriggsae	ctgatagtgagaagaaaagttgattgtctgtttcaaggtttccattattttggtgatcttctttacggtcaaTCTCTGACACTTAAAATCaagtttcagc
	****************************************************************************************************
	--------------------------------------------------------------------------------------------------------------	NM_134696
	--------------------------------------------------------------------------------------------------------------	NM_026485
	--------------------------------------------------------------------------------------------------------------	NM_004845
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>	NM_068586
cbriggsae	((((...(((.(((...((..(((((.((((...((((((.(((......))).))))))....)))).))))).))....)))....)))....)))).	0.940 -25.00

cbriggsae

chromosome:chrIV:6980234:6980333:-1

Opposite_strand|Intronic_coding|NM_134696|CG2839 ## Opposite_strand|Intronic_non-coding|NM_026485|Trabd ## Same_strand|Intronic_coding|NM_068586|Y73B6BL.1 ## {Repeats: no}

novel_lenNOK_mirtron_randfoldOK_bulgeHIGH (1 loci)

block4967 [novel_lenNOK_mirtron_randfoldOK_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	0.003	no	no	0.33/0.33	18/18/0.00	0.0	0.0	1	0	1	0	12	6	5arm	2	2	0.28	4	1	1	na	na

		reads	miRBase family seed
seed	-------------AUCACAG----------------------------------------------------------	1	miR-43
		len	cloning frequencies
			AF16
	------------AATCACAGTCAACTGTTT------------------------------------------------	18	1
cbriggsae	ttcttttttctcAATCACAGTCAACTGTTTtgttttgcgaagagaaaaatagattgagaaagagaaagagaaaaaaga
	******************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001018425
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_076422
	----------------------------------------------------------------------------------------	NM_177350
	----------------------------------------------------------------------------------------	NM_001973
	----------------------------------------------------------------------------------------	NM_001027880
	>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_172495
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_031147
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001029676
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001029675
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_177093
	----------------------------------------------------------------------------------------	NM_007471
	----------------------------------------------------------------------------------------	NM_104285
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001101683
	----------------------------------------------------------------------------------------	NM_001097229
	>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001011629
	----------------------------------------------------------------------------------------	NM_001008616
cbriggsae	.(((((((((((..((....(((((((((((.((((....)))).))))))).))))....))....)))))))))))	0.600 -20.00

cbriggsae

chromosome:chrX:10243192:10243269:1

Same_strand|Intronic_coding|NM_001018425|byr1 ## Opposite_strand|Intronic_non-coding|NM_177350|Gldn ## Same_strand|Intronic_non-coding|NM_172495|Ncoa7 ## Opposite_strand|Intronic_coding|NM_001008616|erg ## {Repeats: no}

novel_lenNOK_multiarm (1 loci)

block3101 [novel_lenNOK_multiarm]

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	0.540	no	no	0.27/0.33	18/26/0.25	0.0 0.0	0.0 1.3	1 3	0 0	1 1	0 0	36 6	-24 8	5arm_loop_3arm 3arm	3 3	nd nd	0.35 0.22	4 2	4	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------UAUUGAG--------------------	3	novel
seed	-------------------------------------AUAAUUU----------------------------------	1	novel
		len	cloning frequencies
			AF16
	--------------------------------------------------TTATTGAGTTCCAGTATG----------	18	2
	--------------------------------------------------TTATTGAGTTCCAGTATGAATG------	22	1
	------------------------------------AATAATTTGTGCTTTTATTGAGTTCC----------------	26	1
cbriggsae	aatggcagtcttagcgtgaggacattaaggtagcaaAATAATTTGTGCTTTTATTGAGTTCCAGTATGAATGaagtta
	******************************************************************************
cbriggsae	(((..((.((...((.((.((((.((((...((((.((....)).))))....))))))))))))..)).))..))).	0.660 -12.20