miR-Intess™

other hairpins

novel_lenNOK_5varHIGH_randfoldOK_bulgeHIGH (5 loci)

block1093855 [novel_lenNOK_5varHIGH_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

0.61/0.64

19/25/0.50

6.2

3.2

4

0

4

0

9

13

3arm

1

nd

0.24

4

4

4

na

na

		reads	miRBase family seed
seed	-------------------------------------------------------------------------------------CACUCAG------------------------	1	novel
seed	----------------------------------------------------------------------------GGCCACA---------------------------------	1	novel
seed	---------------------------------------------------------------------------------CACUCAC----------------------------	1	novel
seed	---------------------------------------------------------------------------------------CUCAGCA----------------------	1	novel
		len	cloning frequencies
			T2S2	T3S2	T4S2	T5S1
	--------------------------------------------------------------------------------------ACTCAGCATCCCCCACCTCAG---------	21	1	-	-	-
	--------------------------------------------------------------------------------ACACTCACTCAGCATCCCCCACC-------------	23	-	-	1	-
	------------------------------------------------------------------------------------TCACTCAGCATCCCCCACC-------------	19	-	1	-	-
	---------------------------------------------------------------------------TGGCCACACTCACTCAGCATCCCCC----------------	25	-	-	-	1
rat	gctttgggctaaactgcctgtgggggtggggagtgggcttctccggggttcttccttcctgtagaagttccggtcTGGCCACACTCACTCAGCATCCCCCACCTCAGccctgtgca
	********************************************************************************************************************
rat	((...(((((.........((((((((((((((((((((...((((((((((..........)))).))))))...)))).))))).))))....)))))))...)))))...)).	0.940 -52.90

rat

chromosome:20:5550494:5550609:1

intergenic

novel_lenNOK_Multihit_mirtron (5 loci)

block166367 [novel_lenNOK_Multihit_mirtron]

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

0.364

no

no

0.68/0.68

19/19/0.00

0.0

0.0

1

0

1

0

11

15

5arm

18

1

0.21

2

1

1

na

na

		reads	miRBase family seed
seed	------------GGUGACA----------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	-----------AGGTGACAGGCCGCTGTGG-----------------------------------------------------------------	19	1
rat	tgtgccatgcaAGGTGACAGGCCGCTGTGGctctgtgctggtgtgcctcatccccgccccagagacactggcattgtctctgctcctgtgcccaa
	***********************************************************************************************
	>>>>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>	ENSRNOT00000032266 ENSRNOG00000033941
rat	((.((((.((.(((.(((((((((..(((.(((((.((.((..((...))..)).))..))))).))))))).))))))))))...)).)).)).	0.940 -31.80

rat

chromosome:11:66476218:66476312:1

Same_strand|Boundary_non-coding|ENSRNOT00000032266|ENSRNOG00000033941 ## ENSRNOG00000033941|protein_coding||

block619347 [novel_lenNOK_Multihit_mirtron]

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

0.171

no

no

0.37/0.37

19/19/0.00

0.0

0.0

1

0

1

0

34

5

3arm

14

1

0.21

1

1

1

na

na

		reads	miRBase family seed
seed	--------------------------------------------------------------------ACAUCAC---------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	-------------------------------------------------------------------AACATCACCTACGAGATTA----------------------------------	19	1
rat	tcagagaccaggtgcccacttaactgtgaagaagatctttgttggaggtattaaagaagacactgagAACATCACCTACGAGATTAttttgagcagtatgggaaaactgaagtgattgaa
	************************************************************************************************************************
	>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000039846 ENSRNOG00000025891
rat	((((..((..(((.((((....(((((..((((((((.((((.((.(((.((..((......))...)).))).)).)))))))).))))..))))).))))...)))...))..)))).	0.980 -26.70

rat

chromosome:17:51936162:51936281:-1

Same_strand|Boundary_coding|ENSRNOT00000039846|ENSRNOG00000025891 ## ENSRNOG00000025891|protein_coding||

block143654 [novel_lenNOK_Multihit_mirtron]

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

0.820

no

no

0.26/0.30

19/20/0.50

0.0

0.5

2

0

2

0

13

29

5arm

17

2

0.30

3

2

2

na

na

		reads	miRBase family seed
seed	--------------ACUUCGA------------------------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			T3S2	T4S1
	-------------TACTTCGAATTATCAATGAG------------------------------------------------------------------------------------	20	1	-
	-------------TACTTCGAATTATCAATGA-------------------------------------------------------------------------------------	19	-	1
rat	gctggcctcaacgTACTTCGAATTATCAATGAGccaactgctgctgctattgcctatgtcttagataagaaggtcggggctgaaaggaatgtgctcatttttgacttgggaggtggc
	*********************************************************************************************************************
	>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>++++++++++++++++++++++++++++++++	ENSRNOT00000061950 ENSRNOG00000029311 Q7M081_RAT
rat	(((.(((((........((((.(((..(((((((((.((......(((...((((...((((....))))))))...)))....))...)).)))))))..))).))))))))))))	0.440 -27.80

rat

chromosome:11:5435029:5435145:1

Same_strand|Intronic_coding|ENSRNOT00000061950|ENSRNOG00000029311 ## ENSRNOG00000029311|protein_coding|Q7M081_RAT|DnaK-type molecular chaperone P72 (Fragments). [Source:UniProtKB/TrEMBL;Acc:Q7M081]

block706434 [novel_lenNOK_Multihit_mirtron]

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

0.26/0.30

19/20/0.50

0.0

0.5

2

0

2

0

22

8

5arm

17

2

0.30

3

2

2

na

na

		reads	miRBase family seed
seed	-----------------------ACUUCGA---------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			T3S2	T4S1
	----------------------TACTTCGAATTATCAATGAG---------------------------------------------------------------	20	1	-
	----------------------TACTTCGAATTATCAATGA----------------------------------------------------------------	19	-	1
rat	ggaactattgctggcctcaacgTACTTCGAATTATCAATGAGccaactgctgctgctattgcctatggcttagataagaaggttggggctgaaaggaatgtgctg
	*********************************************************************************************************
	>>>>>>>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>+++++++++++	ENSRNOT00000052146 ENSRNOG00000031487 Q7M081_RAT
rat	((.((.(((.(((((((((((...((((...(((((..(((((((...((..........))...)))))))))))))))))))))))))...)).))))).)).	0.990 -30.50

rat

chromosome:18:49534208:49534312:-1

Same_strand|Intronic_coding|ENSRNOT00000052146|ENSRNOG00000031487 ## ENSRNOG00000031487|protein_coding|Q7M081_RAT|DnaK-type molecular chaperone P72 (Fragments). [Source:UniProtKB/TrEMBL;Acc:Q7M081]

block1799620 [novel_lenNOK_Multihit_mirtron]

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

0.404

no

no

0.26/0.30

19/20/0.50

0.0

0.5

2

0

2

0

31

8

5arm

17

2

0.30

3

2

2

na

na

		reads	miRBase family seed
seed	--------------------------------ACUUCGA---------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			T3S2	T4S1
	-------------------------------TACTTCGAATTATCAATGA----------------------------------------------------------------------	19	-	1
	-------------------------------TACTTCGAATTATCAATGAG---------------------------------------------------------------------	20	1	-
rat	aaagatgctggaactattgctggcctcaacgTACTTCGAATTATCAATGAGccaactgctgctgctattgcctatggcttagataagaaggtcggggctgaaaggaatgtgctcattttt
	************************************************************************************************************************
	>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>+++++++++++++++++	ENSRNOT00000041306 ENSRNOG00000032585 Q7M081_RAT
rat	(((((((..((.((.(((.((((((((.((...((((...(((((..(((((((...((..........))...)))))))))))))))))).))))))...)).))))).)))))))))	0.950 -29.30

rat

chromosome:5:162478106:162478225:-1

Same_strand|Intronic_coding|ENSRNOT00000041306|ENSRNOG00000032585 ## ENSRNOG00000032585|protein_coding|Q7M081_RAT|DnaK-type molecular chaperone P72 (Fragments). [Source:UniProtKB/TrEMBL;Acc:Q7M081]

novel_lenNOK_Multihit_shortStem_loopOverlap_mirtron_nonpairedHIGH_bulgeHIGH (5 loci)

block1985162 [novel_lenNOK_Multihit_shortStem_loopOverlap_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

0.368

no

no

0.38/0.38

26/26/0.00

0.0

0.0

1

0

1

0

0

-3

5arm_loop

15

0

0.38

4

1

1

na

na

		reads	miRBase family seed
seed	-UCUAACC------------------------------------------------	1	novel
		len	cloning frequencies
			T4S2
	TTCTAACCAGTATTCTCTGTTTGCAG------------------------------	26	1
rat	TTCTAACCAGTATTCTCTGTTTGCAGgtgtccagtgtgaggtgcagctggtggagt
	********************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000041706 ENSRNOG00000034190 LOC678701
	+++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000006888 ENSRNOG00000034190 LOC678701
	+++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000040702 ENSRNOG00000034190 LOC678701
	..................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000056844 ENSRNOG00000034190 LOC678701
rat	((((.((((((..((((...(((........)))...))))....)))))))))).	0.410 -13.40

rat

chromosome:6:138981108:138981163:-1

Same_strand|Boundary_non-coding|ENSRNOT00000007140|ENSRNOG00000034190 ## Same_strand|Intronic_coding|ENSRNOT00000041706|ENSRNOG00000034190 ## ENSRNOG00000034190|protein_coding|LOC678701|LOC366747 protein (Fragment). [Source:UniProtKB/TrEMBL;Acc:Q5I0L9]

block1985373 [novel_lenNOK_Multihit_shortStem_loopOverlap_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

0.368

no

no

0.38/0.38

26/26/0.00

0.0

0.0

1

0

1

0

0

-3

5arm_loop

15

0

0.38

4

1

1

na

na

		reads	miRBase family seed
seed	-UCUAACC------------------------------------------------	1	novel
		len	cloning frequencies
			T4S2
	TTCTAACCAGTATTCTCTGTTTGCAG------------------------------	26	1
rat	TTCTAACCAGTATTCTCTGTTTGCAGgtgtccagtgtgaggtgcagctggtggagt
	********************************************************
	+++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000044584 ENSRNOG00000027210
	..........................................>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000041272 ENSRNOG00000027210
	.........................................................>>>>>>>>>	ENSRNOT00000056820 ENSRNOG00000027210
rat	((((.((((((..((((...(((........)))...))))....)))))))))).	0.410 -13.40

rat

chromosome:6:139325299:139325354:-1

Same_strand|Boundary_non-coding|ENSRNOT00000056820|ENSRNOG00000027210 ## Same_strand|Intronic_coding|ENSRNOT00000044584|ENSRNOG00000027210 ## ENSRNOG00000027210|protein_coding||

block1985601 [novel_lenNOK_Multihit_shortStem_loopOverlap_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

0.368

no

no

0.38/0.38

26/26/0.00

0.0

0.0

1

0

1

0

0

-3

5arm_loop

15

0

0.38

4

1

1

na

na

		reads	miRBase family seed
seed	-UCUAACC------------------------------------------------	1	novel
		len	cloning frequencies
			T4S2
	TTCTAACCAGTATTCTCTGTTTGCAG------------------------------	26	1
rat	TTCTAACCAGTATTCTCTGTTTGCAGgtgtccagtgtgaggtgcagctggtggagt
	********************************************************
	..........................................>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000049534 ENSRNOG00000030992
	..........................................>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000043763 ENSRNOG00000030992
	..........................................>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000050297 ENSRNOG00000030992
	..........................................>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000042118 ENSRNOG00000030992
	+++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000051930 ENSRNOG00000030992
rat	((((.((((((..((((...(((........)))...))))....)))))))))).	0.410 -13.40

rat

chromosome:6:139765298:139765353:-1

Same_strand|Boundary_non-coding|ENSRNOT00000042118|ENSRNOG00000030992 ## Same_strand|Intronic_coding|ENSRNOT00000051930|ENSRNOG00000030992 ## ENSRNOG00000030992|protein_coding||

block2069989 [novel_lenNOK_Multihit_shortStem_loopOverlap_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

0.368

no

no

0.38/0.38

26/26/0.00

0.0

0.0

1

0

1

0

0

-3

5arm_loop

15

0

0.38

4

1

1

na

na

		reads	miRBase family seed
seed	-UCUAACC------------------------------------------------	1	novel
		len	cloning frequencies
			T4S2
	TTCTAACCAGTATTCTCTGTTTGCAG------------------------------	26	1
rat	TTCTAACCAGTATTCTCTGTTTGCAGgtgtccagtgtgaggtgcagctggtggagt
	********************************************************
	------------------------------------------------------------------	ENSRNOT00000041706 ENSRNOG00000034190 LOC678701
	------------------------------------------------------------------	ENSRNOT00000006888 ENSRNOG00000034190 LOC678701
	------------------------------------------------------------------	ENSRNOT00000040702 ENSRNOG00000034190 LOC678701
	------------------------------------------------------------------	ENSRNOT00000056844 ENSRNOG00000034190 LOC678701
	+++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000047600 ENSRNOG00000030194
	..........................................>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000045797 ENSRNOG00000030194
rat	((((.((((((..((((...(((........)))...))))....)))))))))).	0.410 -13.40

rat

chromosome:6:138855621:138855676:1

Opposite_strand|Intronic_coding|ENSRNOT00000056844|ENSRNOG00000034190 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000056843|ENSRNOG00000034190 ## Same_strand|Boundary_non-coding|ENSRNOT00000049058|ENSRNOG00000030194 ## Same_strand|Intronic_non-coding|ENSRNOT00000047600|ENSRNOG00000030194 ## ENSRNOG00000034190|protein_coding|LOC678701|LOC366747 protein (Fragment). [Source:UniProtKB/TrEMBL;Acc:Q5I0L9] ## ENSRNOG00000030194|protein_coding||

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other hairpins:

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