miR-Intess™

other hairpins

novel_lenNOK_5varHIGH_loopOverlap (157 loci)

block1701298 [novel_lenNOK_5varHIGH_loopOverlap]

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

0.127

no

no

0.50/0.56

18/22/0.67

3.7

3.7

3

0

3

0

14

-19

3arm_loop

1

nd

0.17

1

3

3

na

na

		reads	miRBase family seed
seed	-------------------------------------------GAGUGAG------------------------	1	novel
seed	-----------------------------------GGACUAG--------------------------------	1	novel
seed	--------------------------------------CUAGAGA-----------------------------	1	novel
		len	cloning frequencies
			T3S2	T4S2	T5S2
	------------------------------------------AGAGTGAGCAGCAGAGTG--------------	18	1	-	-
	----------------------------------AGGACTAGAGAGTGAGCAGC--------------------	20	-	-	1
	-------------------------------------ACTAGAGAGTGAGCAGCAGAGT---------------	22	-	1	-
rat	ggatttctccgagaaaaccgcgcctgctggtcccAGGACTAGAGAGTGAGCAGCAGAGTGtgcagtggaaatct
	**************************************************************************
rat	(((((..((((.......(((((((((((.((.....(((....))))).)))))).)))))...)))))))))	0.760 -22.50

rat

chromosome:4:171819470:171819543:1

intergenic

block1848514 [novel_lenNOK_5varHIGH_loopOverlap]

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

0.140

no

no

0.59/0.68

19/22/0.50

3.5

3.3

6

0

2

0

18

-6

3arm

1

nd

0.11

2

6

2

na

na

		reads	miRBase family seed
seed	---------------------------------------------------GCCACAC--------------------------------	3	novel
seed	---------------------------------------------GCUGCUG--------------------------------------	2	novel
seed	------------------------------------------------GCUGCCA-----------------------------------	1	novel
		len	cloning frequencies
			T3S1	T5S1
	--------------------------------------------------TGCCACACAGCCTGCCTTC---------------------	19	-	2
	--------------------------------------------TGCTGCTGCCACACAGCCTG--------------------------	20	-	2
	-----------------------------------------------TGCTGCCACACAGCCTGCC------------------------	19	1	-
	--------------------------------------------------TGCCACACAGCCTGCCTTCAGA------------------	22	-	1
rat	gtcctccaaagccttgccggggtgagggtcgctgtgatgtggcaTGCTGCTGCCACACAGCCTGCCTTCAGAggcaccagggagcaagac
	******************************************************************************************
rat	(((((((.......((((....(((((((.(((((...((((((......)))))))))))..)))))))..))))....))))...)))	0.750 -35.80

rat

chromosome:5:79246775:79246864:1

intergenic

novel_lenNOK_cloningHIGH_nonpairedHIGH (147 loci)

block2620 [novel_lenNOK_cloningHIGH_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

0.256

no

no

0.61/0.74

18/23/0.08

0.1

0.1

2641

0

10

0

10

3

3arm

1

nd

0.33

3

4569

10

na

na

		reads	miRBase family seed
seed	-----------------------------------------UCCGGGU---------------------	3495	novel
seed	------------------------------------------CCGGGUG--------------------	1071	novel
seed	-------------------------------------------CGGGUGC-------------------	2	novel
seed	----------------------------------------AUCCGGG----------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	----------------------------------------ATCCGGGTGCCCCCTCCA-----------	18	526	419	205	98	247	218	96	372	146	277
	-----------------------------------------TCCGGGTGCCCCCTCCAT----------	18	141	150	48	61	17	35	43	191	50	62
	----------------------------------------ATCCGGGTGCCCCCTCCAT----------	19	186	125	32	33	24	22	31	71	40	52
	-----------------------------------------TCCGGGTGCCCCCTCCATA---------	19	41	44	13	9	5	1	4	38	8	15
	----------------------------------------ATCCGGGTGCCCCCTCCATA---------	20	46	23	14	4	4	5	7	19	12	14
	----------------------------------------ATCCGGGTGCCCCCTCCATAA--------	21	28	39	4	4	4	3	12	18	12	1
	-----------------------------------------TCCGGGTGCCCCCTCCATAA--------	20	20	24	2	15	1	2	2	16	6	1
	-----------------------------------------TCCGGGTGCCCCCTCCATAATC------	22	2	1	-	1	-	1	-	-	-	1
	------------------------------------------CCGGGTGCCCCCTCCATA---------	18	-	-	-	-	-	-	1	1	-	-
	----------------------------------------ATCCGGGTGCCCCCTCCATAATC------	23	-	1	-	1	-	-	-	-	-	-
	---------------------------------------GATCCGGGTGCCCCCTCCA-----------	19	-	-	1	-	-	-	-	-	-	-
rat	tccacaatcaacagagtgggtataggatgaggaagggccgATCCGGGTGCCCCCTCCATaatcacaggg
	*********************************************************************
rat	.((..........(((.((((((.((((..((.....)).))))..)))))).)))..........)).	0.990 -19.95

rat

chromosome:10:5475008:5475076:-1

intergenic

block4090 [novel_lenNOK_cloningHIGH_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

0.254

no

no

0.37/0.39

18/19/0.00

0.0

0.0

44

0

2

0

10

7

5arm

1

nd

0.39

3

50

2

na

na

		reads	miRBase family seed
seed	-----------AAGGCAA--------------------------------------------------------	50	novel
		len	cloning frequencies
			T4S1	T4S2
	----------TAAGGCAATTTCGGAATC----------------------------------------------	18	18	26
	----------TAAGGCAATTTCGGAATCT---------------------------------------------	19	3	3
rat	agctaatttaTAAGGCAATTTCGGAATCttatgactccttgtctctctgagatttacagtcactaataaaaggc
	**************************************************************************
rat	.(((..(((((.((...(((...((((((((.(((.....)))....))))))))..)))..)).))))).)))	0.720 -11.70

rat

chromosome:10:8965128:8965201:-1

intergenic

block5248 [novel_lenNOK_cloningHIGH_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

0.032

no

no

0.56/0.56

18/18/0.00

0.0

0.0

78

0

10

0

11

22

3arm

1

nd

0.33

3

88

10

na

na

reads

miRBase family seed

seed

------------------------------------------------------------------------------------GGAGACA---------------------

88

novel

len

cloning frequencies

T1S1

T1S2

T2S1

T2S2

T3S1

T3S2

T4S1

T4S2

T5S1

T5S2

-----------------------------------------------------------------------------------TGGAGACACCTGACAGGA-----------

18

16

10

19

8

1

4

6

10

5

9

rat

tggtctgacacagcctgtcctcggcaccctctgcagttctggagcaggaacacagaaaagatgtttgtcctagaccagagcctTGGAGACACCTGACAGGAgcctgagacca

****************************************************************************************************************

++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++

ENSRNOT00000009409 ENSRNOG00000007117 LOC363544

rat

.(((((.......((((((...((....(((((..(((((((...((((..(((.......)))...))))...)))))))..)))))...)).))))))......))))).

0.900 -38.52

rat

chromosome:10:11858320:11858431:-1

Same_strand|Intronic_coding|ENSRNOT00000009409|ENSRNOG00000007117 ## ENSRNOG00000007117|protein_coding|LOC363544|Clusterin-associated protein 1. [Source:UniProtKB/Swiss-Prot;Acc:Q6AYJ5]

block7340 [novel_lenNOK_cloningHIGH_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

0.209

no

no

0.67/0.72

18/20/0.00

0.0

0.0

3845

0

10

0

10

23

5arm

1

nd

0.37

3

5751

10

na

na

		reads	miRBase family seed
seed	-----------UCAGGAU--------------------------------------------------------------------------------	5748	novel
seed	------------CAGGAUG-------------------------------------------------------------------------------	2	novel
seed	---------UGUCAGG----------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	----------GTCAGGATGGCCGCCCCAA---------------------------------------------------------------------	19	172	306	194	380	348	1095	40	129	205	2750
	----------GTCAGGATGGCCGCCCCA----------------------------------------------------------------------	18	4	6	4	8	18	48	3	3	5	28
	----------GTCAGGATGGCCGCCCCAAC--------------------------------------------------------------------	20	-	-	-	-	-	1	-	-	-	1
	-----------TCAGGATGGCCGCCCCAA---------------------------------------------------------------------	18	-	1	-	-	-	-	-	-	-	1
	--------ATGTCAGGATGGCCGCCCC-----------------------------------------------------------------------	19	-	-	-	-	-	-	-	-	-	1
rat	aacttggtatGTCAGGATGGCCGCCCCAAccccaatattctggcagtcagtggagacagctgccggctggcctttgtgggcccctccaagtgcatggt
	**************************************************************************************************
rat	.(((..((((....(((.((..(((((((..(((.....((((((((...((....)))))))))).)))...))).)))))).)))..))))..)))	0.690 -34.30

rat

chromosome:10:15117969:15118066:-1

intergenic

block9472 [novel_lenNOK_cloningHIGH_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

0.125

no

no

0.56/0.56

18/18/0.00

0.0

0.0

39

0

10

0

12

15

5arm

1

nd

0.33

3

71

10

na

na

reads

miRBase family seed

seed

-------------CCCUGUA-------------------------------------------------------------------------

71

novel

len

cloning frequencies

T1S1

T1S2

T2S1

T2S2

T3S1

T3S2

T4S1

T4S2

T5S1

T5S2

------------ACCCTGTAGGCAAGTGCA---------------------------------------------------------------

18

6

2

3

6

21

18

6

2

3

4

rat

ggccctggcagaACCCTGTAGGCAAGTGCAttagtgatgtcatgccctcagtatgtatcatgttcacttctgacatggcctagtcttctgggt

*********************************************************************************************

rat

.((((.(((((..((.(((.((.(((((.....((((((.(((((.....)))))))))))...))))))).))).)).)).)))....))))

0.630 -27.90

rat

chromosome:10:19073957:19074049:-1

intergenic

block14398 [novel_lenNOK_cloningHIGH_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

0.049

no

no

0.42/0.45

18/20/0.02

0.0

0.1

382

0

10

0

7

12

3arm

2

nd

0.37

2

527

10

na

na

		reads	miRBase family seed
seed	--------------------------------------------------AAUGUUU------------------	527	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	-------------------------------------------------CAATGTTTCCACAGTGCA--------	18	71	60	48	38	84	49	6	10	19	19
	-------------------------------------------------CAATGTTTCCACAGTGCAA-------	19	19	12	11	10	32	13	2	2	6	7
	-------------------------------------------------CAATGTTTCCACAGTGCAAG------	20	-	2	3	-	1	2	-	-	-	1
rat	cccctctgcatatgctgatacttaagggctacaatcttgttggcccctgCAATGTTTCCACAGTGCAAgacggga
	***************************************************************************
rat	(((.(((((((.((..((((..((.((((((((....))).))))).))...))))..))..))))).)).))).	0.950 -22.00

rat

chromosome:10:32910794:32910868:-1

intergenic

block31379 [novel_lenNOK_cloningHIGH_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

0.653

no

no

0.55/0.61

18/20/0.02

0.0

0.0

48

0

3

0

23

5

3arm

1

nd

0.33

3

58

3

na

na

		reads	miRBase family seed
seed	---------------------------------------------------------------------GGAGUGC---------------------------------	58	novel
		len	cloning frequencies
			T2S1	T2S2	T3S1
	--------------------------------------------------------------------TGGAGTGCAGTGGCTTGC-----------------------	18	18	30	-
	--------------------------------------------------------------------TGGAGTGCAGTGGCTTGCT----------------------	19	2	6	1
	--------------------------------------------------------------------TGGAGTGCAGTGGCTTGCTT---------------------	20	-	1	-
rat	tttgcatggcaggcattttataaactgagctatctccccaatcaccagaactcacctaatcaaagtcaTGGAGTGCAGTGGCTTGCttgtttagctgtttgtctcagaa
	*************************************************************************************************************
	-----------------------------------------------------------------------------------------------------------------------	ENSRNOT00000008083 ENSRNOG00000005538 Psmd11
rat	((((...((((((((.....(((((.((((((.((...((....(((..(((...........)))..)))..)).))))))))....)))))..)))))))).)))).	0.560 -20.80

rat

chromosome:10:68684784:68684892:-1

Opposite_strand|Intronic_coding|ENSRNOT00000008083|ENSRNOG00000005538 ## ENSRNOG00000005538|protein_coding|Psmd11|proteasome (prosome, macropain) 26S subunit, non-ATPase, 11 Gene [Source:MGI (curated);Acc:Psmd11-001]

block32179 [novel_lenNOK_cloningHIGH_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

0.422

no

no

0.32/0.39

18/21/0.05

0.0

0.2

96

0

5

0

6

35

5arm

4

nd

0.53

3

131

5

na

na

		reads	miRBase family seed
seed	-------UUGGUUA-------------------------------------------------------------------------------------------------	104	novel
seed	--------UGGUUAU------------------------------------------------------------------------------------------------	14	novel
seed	------UUUGGUU--------------------------------------------------------------------------------------------------	9	novel
seed	-----UUUUGGU---------------------------------------------------------------------------------------------------	4	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T3S1	T5S2
	------TTTGGTTATCTAGCTGTA---------------------------------------------------------------------------------------	18	49	24	-	-	-
	------TTTGGTTATCTAGCTGTAC--------------------------------------------------------------------------------------	19	23	4	-	-	-
	-------TTGGTTATCTAGCTGTAC--------------------------------------------------------------------------------------	18	6	4	1	1	1
	-----TTTTGGTTATCTAGCTGTA---------------------------------------------------------------------------------------	19	6	1	-	-	-
	------TTTGGTTATCTAGCTGTACT-------------------------------------------------------------------------------------	20	2	2	-	-	-
	----CTTTTGGTTATCTAGCTG-----------------------------------------------------------------------------------------	18	2	-	-	-	-
	----CTTTTGGTTATCTAGCTGT----------------------------------------------------------------------------------------	19	-	1	-	-	-
	-----TTTTGGTTATCTAGCTGT----------------------------------------------------------------------------------------	18	-	1	-	-	-
	-------TTGGTTATCTAGCTGTACT-------------------------------------------------------------------------------------	19	1	-	-	-	-
	----CTTTTGGTTATCTAGCTGTA---------------------------------------------------------------------------------------	20	1	-	-	-	-
	-----TTTTGGTTATCTAGCTGTACT-------------------------------------------------------------------------------------	21	-	1	-	-	-
rat	ttggctTTTGGTTATCTAGCTGTACtgtttgctccctccttcttatcattgtgggttccctggttggttctgcattgagaagggagaagaggaagtgtctgtttcctgtca
	***************************************************************************************************************
rat	.((((....((..((...(((...((.((..((((((...(((((....((..((...((.....)).))..)).))))))))))))).))..)))....))..)).))))	0.420 -26.70

rat

chromosome:10:70574050:70574160:-1

intergenic

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other hairpins:

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