miR-Intess™

candidate novel miRNAs

novel_cloningOK_multiarm_DicerOK_loopOverlap_mirtron (1 loci)

novel_cloningOK_multiarm_DicerOK_shortStem (1 loci)

sblock4046_cand

Cloning frequencies

absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
sblock4046_cand 5arm	0	0	0	0	0	0	0	0	1	0
sblock4046_cand 3arm	0	0	1	1	1	1	0	1	17	1
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
sblock4046_cand 5arm	0	0	0	0	0	0	0	0	0.000	0
sblock4046_cand 3arm	0	0	0.000	0.000	0.000	0.000	0	0.000	0.001	0.000

sblock4046 [novel_cloningOK_multiarm_DicerOK_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

0.175

no

no

0.40/0.57

20/23/1.00

0.0 0.0

0.0 0.0

1 15

0 0

1 7

0 0

2 0

8 6

5arm 3arm

1 1

nd nd

0.48 0.26

3 2

24

7

1

1

		reads	miRBase family seed
seed	-----------------------------------------------ACCACCU------------	21	novel
seed	---------------------------------------------AUACCAC--------------	2	novel
seed	---UCACUUC--------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S1	T2S2	T3S1	T3S2	T4S2	T5S1	T5S2
	----------------------------------------------TACCACCTCTGTAGTTAGCA	20	1	1	1	1	1	15	1
	--------------------------------------------TATACCACCTCTGTAGTTAG--	20	-	-	-	-	-	2	-
	--GTCACTTCCAGAAGGACGGGTCT-----------------------------------------	23	-	-	-	-	-	1	-
rat	gtgtcacttccagaaggacgggtctattagttgggtcatacagctaTACCACCTCTGTAGTTAGCA
	******************************************************************
rat	((...(((..(((.(((...(((....((((((.......)))))).))).)))))).)))..)).	0.990 -16.60

rat

chromosome:14:42007055:42007120:-1

intergenic

novel_lenNOK_cloningHIGH_multiarm_DicerOK_randfoldOK (1 loci)

sblock649_cand

Cloning frequencies

absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
sblock649_cand 5arm	8.286	4.857	0	0	0	0	0	0	0	0
sblock649_cand 3arm	74.667	85.537	0	0.111	0.200	0	0	0	0	0.111
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
sblock649_cand 5arm	0.000	0.000	0	0	0	0	0	0	0	0
sblock649_cand 3arm	0.002	0.004	0	0.000	0.000	0	0	0	0	0.000

sblock649 [novel_lenNOK_cloningHIGH_multiarm_DicerOK_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

0.43/0.53

18/23/0.63

0.0 0.5 0.0

1.3 1.0 1.4

58 2 882

0 0 0

2 1 5

0 0 0

8 14 5

6 -1 7

5arm 3arm 3arm

7 8 9

nd nd nd

0.17 0.05 0.10

2 1 1

1175

5

1

2

Families

Member of family novel15 (seed GUAUAAC): sblock647_novel, sblock650_novel, sblock651_novel, sblock652_novel, sblock649_cand

		reads	miRBase family seed
seed	----------------------------------------------------------------GUAUAAC----------------------------	1066	novel
seed	-----------------------GUCAGGC---------------------------------------------------------------------	79	novel
seed	-------------------------CAGGCUG-------------------------------------------------------------------	12	novel
seed	-------------------------------------------------------------------UAACCAA-------------------------	8	novel
seed	-----------------------------------------------------------------UAUAACC---------------------------	6	novel
seed	---------------------------GGCUGCU-----------------------------------------------------------------	1	novel
seed	--------------------------------------------------------GGUCCUG------------------------------------	1	novel
seed	---------------------------------------------------------GUCCUGG-----------------------------------	1	novel
seed	--------------------------------------------------------------GGGUAUA------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S2	T3S1	T5S2
	---------------------------------------------------------------GGTATAACCAAAGCCCGACTGA--------------	22	139	288	-	1	-
	---------------------------------------------------------------GGTATAACCAAAGCCCGAC-----------------	19	193	131	1	-	1
	---------------------------------------------------------------GGTATAACCAAAGCCCGACT----------------	20	131	42	-	-	-
	---------------------------------------------------------------GGTATAACCAAAGCCCGACTG---------------	21	59	27	-	-	-
	---------------------------------------------------------------GGTATAACCAAAGCCCGA------------------	18	17	19	-	-	-
	----------------------AGTCAGGCTGCTGGTTATA----------------------------------------------------------	19	17	15	-	-	-
	----------------------AGTCAGGCTGCTGGTTAT-----------------------------------------------------------	18	17	3	-	-	-
	---------------------------------------------------------------GGTATAACCAAAGCCCGACTGAA-------------	23	7	10	-	-	-
	----------------------AGTCAGGCTGCTGGTTATATTCC------------------------------------------------------	23	9	5	-	-	-
	----------------------AGTCAGGCTGCTGGTTATATTC-------------------------------------------------------	22	3	3	-	-	-
	----------------------AGTCAGGCTGCTGGTTATAT---------------------------------------------------------	20	4	2	-	-	-
	------------------------------------------------------------------ATAACCAAAGCCCGACTGA--------------	19	1	4	-	-	-
	------------------------TCAGGCTGCTGGTTATAT---------------------------------------------------------	18	3	1	-	-	-
	------------------------TCAGGCTGCTGGTTATATTC-------------------------------------------------------	20	2	2	-	-	-
	------------------------TCAGGCTGCTGGTTATATTCC------------------------------------------------------	21	2	2	-	-	-
	----------------------------------------------------------------GTATAACCAAAGCCCGACTGA--------------	21	2	1	-	-	-
	------------------------------------------------------------------ATAACCAAAGCCCGACTG---------------	18	2	1	-	-	-
	----------------------------------------------------------------GTATAACCAAAGCCCGAC-----------------	18	2	1	-	-	-
	-------------------------------------------------------------TGGGTATAACCAAAGCCCGAC-----------------	21	-	1	-	-	-
	-------------------------------------------------------TGGTCCTGGGTATAACCAA-------------------------	19	-	1	-	-	-
	--------------------------------------------------------GGTCCTGGGTATAACCAAAG-----------------------	20	-	1	-	-	-
	--------------------------AGGCTGCTGGTTATATTCC------------------------------------------------------	19	1	-	-	-	-
	----------------------AGTCAGGCTGCTGGTTATATT--------------------------------------------------------	21	-	1	-	-	-
rat	--------------ATCTGATCAGTCAGGCTGCTGGTTATATTCCAGGACTAATCTGGTCCTGGGTATAACCAAAGCCCGACTGAATGGT---------
mouse	GTCTGCAGGGAAGGATTTGATCAGTCAGGCTTCTGGCTATATTCCAGGACATACCTGGTCCTGGGTATAACCAAAGCCCGACTGTATGGTACTAAAGAC
	** ************** **** *************  * ****************************** *****
rat	..(((.((((((.((((..((((((((.(((((((((.....))))))))))))))))).)))).)))))).))).	1.000 -42.00
mouse	((((..((......(((....(((((.(((((.(((.((((.((((((((.......)))))))))))).)))))))).)))))...))).))..))))	0.880 -37.00

rat	chromosome:1:115339512:115339587:-1	intergenic
mouse	chromosome:7:68884222:68884320:-1	intergenic

novel_lenNOK_multiarm_DicerOK_mirtron_randfoldOK (1 loci)

sblock9850_cand

Cloning frequencies

absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
sblock9850_cand 5arm	1	0	0	0	0	0	0	0	0	0
sblock9850_cand 3arm	0	0	0	1	0	1	0	0	0	0
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
sblock9850_cand 5arm	0.000	0	0	0	0	0	0	0	0	0
sblock9850_cand 3arm	0	0	0	0.000	0	0.000	0	0	0	0

sblock9850 [novel_lenNOK_multiarm_DicerOK_mirtron_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

0.50/0.58

19/21/0.67

0.0 1.0

0.0 0.5

1 2

0 0

1 2

0 0

8 5

6 8

5arm 3arm

1 1

39 0

0.29 0.21

4 2

3

3

1

1

		reads	miRBase family seed
seed	---------------------------------------------------UUGCUGG----------------	1	novel
seed	-------------------------------------------------AUUUGCU------------------	1	novel
seed	---------UGCCACG----------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T2S2	T3S2
	--------TTGCCACGATCCAGTTTCTCC---------------------------------------------	21	1	-	-
	--------------------------------------------------TTTGCTGGGTCTTGGCAGG-----	19	-	1	-
	------------------------------------------------TATTTGCTGGGTCTTGGCAG------	20	-	-	1
rat	aagtttttTTGCCACGATCCAGTTTCTCCaggagcaaagtgctaaaggTATTTGCTGGGTCTTGGCAGGtagct
	**************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>	ENSRNOT00000012853 ENSRNOG00000009422 Hmgcl
rat	.((((..(((((((.((((((((....((...(((.....)))...)).....)))))))).))))))).))))	0.990 -29.70

rat

chromosome:5:154738387:154738460:1

Same_strand|Intronic_coding|ENSRNOT00000012853|ENSRNOG00000009422 ## Same_strand|Boundary_coding|ENSRNOT00000012853|ENSRNOG00000009422 ## ENSRNOG00000009422|protein_coding|Hmgcl|Hydroxymethylglutaryl-CoA lyase, mitochondrial precursor (EC 4.1.3.4) (HMG-CoA lyase) (HL) (3-hydroxy-3-methylglutarate-CoA lyase). [Source:UniProtKB/Swiss-Prot;Acc:P97519]

novel_multiarm_DicerOK_loopOverlap_randfoldOK (1 loci)

sblock2472_cand

Cloning frequencies

absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
sblock2472_cand 5arm	0	0	0	0	0	0	0	0	0	1
sblock2472_cand 3arm	0	0	0	0	0	0	0	0	1	0
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
sblock2472_cand 5arm	0	0	0	0	0	0	0	0	0	0.000
sblock2472_cand 3arm	0	0	0	0	0	0	0	0	0.000	0

sblock2472 [novel_multiarm_DicerOK_loopOverlap_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

0.45/0.52

21/22/1.00

0.0 0.0

0.0 0.0

1 1

0 0

1 1

0 0

26 30

-1 4

5arm_loop 3arm

1 1

nd nd

0.14 0.29

2 5

2

2

3

2

		reads	miRBase family seed
seed	---------------------------CGGUUUU------------------------------------------------------------------------------------	1	novel
seed	--------------------------------------------------------------------CACCUCC-------------------------------------------	1	novel
		len	cloning frequencies
			T5S1	T5S2
	--------------------------TCGGTTTTCATGGAGGTGAGTT----------------------------------------------------------------------	22	-	1
	-------------------------------------------------------------------ACACCTCCGTGAAAACCCTCT------------------------------	21	1	-
rat	gcagtctaaacatgctgtcttttatcTCGGTTTTCATGGAGGTGAGTTaaatgtccacttcccactcACACCTCCGTGAAAACCCTCTttgatcctgccttgtgtttcctgagctgcg
	**********************************************************************************************************************
rat	((((((.((((((((.(((.........(((((((((((((((((((................))))..)))))))))))))))......)))...))...))))))...)).)))).	0.990 -37.25

rat

chromosome:10:86040404:86040521:-1

intergenic

novel_multiarm_DicerOK_shortStem_randfoldOK (1 loci)

sblock12792_cand

Cloning frequencies

absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
sblock12792_cand 5arm	2	2	1	0	0	0	0	0	0	0
sblock12792_cand 3arm	0	0	0	0	0	0	0	0	0	1
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
sblock12792_cand 5arm	0.000	0.000	0.000	0	0	0	0	0	0	0
sblock12792_cand 3arm	0	0	0	0	0	0	0	0	0	0.000

sblock12792 [novel_multiarm_DicerOK_shortStem_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

0.41/0.63

19/22/0.83

0.0 0.0

0.6 0.0

5 1

0 0

3 1

0 0

3 1

3 12

5arm 3arm

1 1

44 3

0.14 0.18

1 1

6

4

2

2

		reads	miRBase family seed
seed	----CUGGAGG--------------------------------------------------------	5	novel
seed	---------------------------------------------AUGUUUC---------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T5S2
	---CCTGGAGGGTGGGAACCATAT-------------------------------------------	21	2	1	-	-
	---CCTGGAGGGTGGGAACCAT---------------------------------------------	19	-	1	-	-
	--------------------------------------------TATGTTTCCTTCCCTCTATTCC-	22	-	-	-	1
	---CCTGGAGGGTGGGAACCATATT------------------------------------------	22	-	-	1	-
rat	ggaCCTGGAGGGTGGGAACCATATTagctcatgctgactaccaaTATGTTTCCTTCCCTCTATTCCt
	*******************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>	ENSRNOT00000059298 ENSRNOG00000024250 RGD1560666_predicted
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>	ENSRNOT00000029467 ENSRNOG00000024250 RGD1560666_predicted
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>	ENSRNOT00000059295 ENSRNOG00000024250 RGD1560666_predicted
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>	ENSRNOT00000042884 ENSRNOG00000024250 RGD1560666_predicted
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>	ENSRNOT00000029453 ENSRNOG00000024250 RGD1560666_predicted
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>	ENSRNOT00000059289 ENSRNOG00000024250 RGD1560666_predicted
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>	ENSRNOT00000059288 ENSRNOG00000024250 RGD1560666_predicted
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>	ENSRNOT00000042773 ENSRNOG00000024250 RGD1560666_predicted
rat	(((..(((((((.(((((.(((((((((....))))).......)))).))))).))))))).))).	1.000 -27.01

rat

chromosome:X:44316243:44316309:1

Same_strand|Intronic_coding|ENSRNOT00000042884|ENSRNOG00000024250 ## Same_strand|Boundary_non-coding|ENSRNOT00000059290|ENSRNOG00000024250 ## ENSRNOG00000024250|protein_coding|RGD1560666_predicted|

novel_rep_cloningHIGH_randfoldOK (1 loci)

block2683443_cand

Cloning frequencies

absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
block2683443_cand 3arm	46	214	0	0	0	0	0	1	0	0
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
block2683443_cand 3arm	0.002	0.009	0	0	0	0	0	0.000	0	0

block2683443 [novel_rep_cloningHIGH_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

LINE/L2

0.26/0.38

18/24/0.84

0.3

0.0

134

0

3

0

24

2

3arm

1

nd

0.09

1

261

3

na

na

		reads	miRBase family seed
seed	---------------------------------------------------------------------CAAAUCU---------------------------------------	185	novel
seed	----------------------------------------------------------------------AAAUCUU--------------------------------------	68	novel
seed	--------------------------------------------------------------------ACAAAUC----------------------------------------	4	novel
seed	-----------------------------------------------------------------------AAUCUUA-------------------------------------	4	novel
		len	cloning frequencies
			T1S1	T1S2	T4S2
	--------------------------------------------------------------------ACAAATCTTATTTGAGCACCTGT------------------------	23	11	89	-
	---------------------------------------------------------------------CAAATCTTATTTGAGCACCTGT------------------------	22	-	45	-
	--------------------------------------------------------------------ACAAATCTTATTTGAGCACC---------------------------	20	14	16	-
	--------------------------------------------------------------------ACAAATCTTATTTGAGCAC----------------------------	19	7	10	-
	--------------------------------------------------------------------ACAAATCTTATTTGAGCACCTG-------------------------	22	2	14	-
	--------------------------------------------------------------------ACAAATCTTATTTGAGCACCT--------------------------	21	2	8	1
	---------------------------------------------------------------------CAAATCTTATTTGAGCACC---------------------------	19	5	5	-
	--------------------------------------------------------------------ACAAATCTTATTTGAGCA-----------------------------	18	3	6	-
	---------------------------------------------------------------------CAAATCTTATTTGAGCACCT--------------------------	20	1	4	-
	---------------------------------------------------------------------CAAATCTTATTTGAGCAC----------------------------	18	1	3	-
	---------------------------------------------------------------------CAAATCTTATTTGAGCACCTG-------------------------	21	-	3	-
	----------------------------------------------------------------------AAATCTTATTTGAGCACCTGT------------------------	21	-	3	-
	-------------------------------------------------------------------AACAAATCTTATTTGAGCACCTGT------------------------	24	-	2	-
	--------------------------------------------------------------------ACAAATCTTATTTGAGCACCTGTT-----------------------	24	-	2	-
	-------------------------------------------------------------------AACAAATCTTATTTGAGCA-----------------------------	19	-	1	-
	-------------------------------------------------------------------AACAAATCTTATTTGAGCACCTG-------------------------	23	-	1	-
	---------------------------------------------------------------------CAAATCTTATTTGAGCACCTGTT-----------------------	23	-	1	-
	----------------------------------------------------------------------AAATCTTATTTGAGCACC---------------------------	18	-	1	-
rat	TTGTGTTTCTTCATGCCTGGCATATAGCAGGTCCTCAGTAAGTATTTGTTGAAAAAATAAATGAACCAACAAATCTTATTTGAGCACCTGTTATGTGGAGGATAAAAAACTACAA
mouse	--------------------CATATAGCAGGTCCTCAATAAGTATTTGTTGAAAAAATAAATGAAGCAACAAATCTTATTTGAGCACCTGTTATGTG------------------
	***************** *************************** *******************************
rat	.(((((((.......(((..((((((((((((.(((((((((.((((((((...............)))))))))))))).))).)))))))))))).))).....)))).))).	0.990 -37.26
mouse	((((((((((((.(((((((((.((((((((...............)))))))))))))).))).))))))))))))	1.000 -30.86

rat	chromosome:X:31198192:31198306:-1	intergenic
mouse	chromosome:X:143445149:143445225:1	Same_strand|Intronic_non-coding|ENSMUST00000112831|ENSMUSG00000041380|protein_coding|5-hydroxytryptamine (serotonin) receptor 2C Gene [Source:MGI (curated);Acc:Htr2c-002] ## {Repeats: L2 1 class=LINE/L2}

novel_rep_cloningOK_mirtron_randfoldOK (1 loci)

block215095_cand

Cloning frequencies

absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
block215095_cand 3arm	7	3	0	0	1	0	0	4	3	1
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
block215095_cand 3arm	0.000	0.000	0	0	0.000	0	0	0.000	0.000	0.000

block215095 [novel_rep_cloningOK_mirtron_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

0.002

no

LTR/MaLR

0.52/0.59

18/22/0.74

0.4

1.3

19

0

6

0

17

10

3arm

1

0

0.14

2

19

6

na

na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------GUCUCCA---------------------------------	15	novel
seed	-------------------------------------------------------------------------CUCCAUC-------------------------------	3	novel
seed	------------------------------------------------------------------------UCUCCAU--------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T3S1	T4S2	T5S1	T5S2
	----------------------------------------------------------------------TGTCTCCATCTGCTTCCCAC---------------------	20	-	1	-	3	-	-
	----------------------------------------------------------------------TGTCTCCATCTGCTTCCCA----------------------	19	2	-	1	-	-	-
	----------------------------------------------------------------------TGTCTCCATCTGCTTCCCACAG-------------------	22	1	-	-	1	-	1
	----------------------------------------------------------------------TGTCTCCATCTGCTTCCCACA--------------------	21	1	2	-	-	-	-
	----------------------------------------------------------------------TGTCTCCATCTGCTTCCC-----------------------	18	2	-	-	-	-	-
	------------------------------------------------------------------------TCTCCATCTGCTTCCCACAG-------------------	20	-	-	-	-	2	-
	-----------------------------------------------------------------------GTCTCCATCTGCTTCCCACA--------------------	20	1	-	-	-	-	-
	------------------------------------------------------------------------TCTCCATCTGCTTCCCACAGGG-----------------	22	-	-	-	-	1	-
rat	TCCCAGGGAGGCCTCTTGGTGCCGTGGGAGGCAGAGGGAGGAAGAACCACTAGGGCTTTACCAGGCTGTCTGTCTCCATCTGCTTCCCACAGGGCCCAGACTTCGTGCGAA
mouse	-----------------------------AGAGGAGGGAGGCAGAAGGGACAGAGCATCAGCA-----TCTGTCTCCATCTGCTTCCT----------GGCTGT-------
	*  ******** ****     ** ** * * **     *******************           * **
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000051565 ENSRNOG00000001241 Iqce_predicted
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000001667 ENSRNOG00000001241 Iqce_predicted
rat	((.((.((((.....((((.(((((((((((((((.((((..(((....((.((......))))....)))..)))).))))))))))))..))))))).)))).)).)).	0.990 -53.00
mouse	..((..((((((((((.((((((((((....)).     )))))).)).))))))))))          ..))..	1.000 -33.00

rat	chromosome:12:14426250:14426360:1	Same_strand|Boundary_coding|ENSRNOT00000001667|ENSRNOG00000001241 ## ENSRNOG00000001241|protein_coding|Iqce_predicted|
mouse	chromosome:1:39461167:39461317:-1	Same_strand|Intronic_coding|ENSMUST00000054462|ENSMUSG00000003134|protein_coding|TBC1 domain family, member 8 Gene [Source:MGI Symbol;Acc:MGI:1927225] ## {Repeats: MTE2b 1 class=LTR/MaLR,dust 0 class=dust,(TCTCCC)n -1 class=Simple_repeat,trf 0 class=trf,trf 0 class=trf}

novel_rep_cloningOK_randfoldOK (1 loci)

block630434_cand

Cloning frequencies

absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
block630434_cand 3arm	0	1	4	8	1	1	0	0	0	0
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
block630434_cand 3arm	0	0.000	0.000	0.000	0.000	0.000	0	0	0	0

block630434 [novel_rep_cloningOK_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

LTR/MaLR

0.35/0.37

19/20/0.93

0.0

0.0

11

0

5

0

33

1

3arm

1

nd

0.10

2

15

5

na

na

		reads	miRBase family seed
seed	---------------------------------------------------------------------UAUACAU---------------------------------------------	14	novel
seed	----------------------------------------------------------------------AUACAUA--------------------------------------------	1	novel
		len	cloning frequencies
			T1S2	T2S1	T2S2	T3S1	T3S2
	--------------------------------------------------------------------ATATACATACACATAGGCAC---------------------------------	20	1	4	7	1	1
	---------------------------------------------------------------------TATACATACACATAGGCAC---------------------------------	19	-	-	1	-	-
rat	ATGTGATGACCCATGTATGTGCATGTGTTTGTTTTGTGTGTATGTGCAAATGTGTATATGAAGAA-ACATATACATACACATAGGCACGCACATGCAAGCACACTCATACATGAATGGCAA
human	-----------------------------TTCTCTTTCTGTGTGTGTGGGTGTATATAT-------ACATATACATACACATAGAGAGAGAG-----------------------------
mouse	-----------------------------------GTGTGTGTGTGTGTGTGTGTGTGTGAGAAATACATATACATACACATAGGCAC---------------------------------
	* *** ****    *** * * *       ******************  *
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000042430 ENSRNOG00000029235 Sfmbt2
rat	.(((.((....((((((((....(((((((((..((((((((((((....((((((((((..... .)))))))))))))))..)))))))...)))))))))..)))))))).)).))).	1.000 -46.50
human	.((((((((((((((((((.(((((....)       ))))...)))))))))))))))))).	1.000 -31.90
mouse	((((.(((((((((((((((((((.....))))))))))))))))))).))))	1.000 -32.20

rat	chromosome:17:79259251:79259370:-1	Same_strand|Boundary_non-coding|ENSRNOT00000051529|ENSRNOG00000029235 ## Same_strand|Intronic_coding|ENSRNOT00000042430|ENSRNOG00000029235 ## ENSRNOG00000029235|protein_coding|Sfmbt2|Scm-like with four mbt domains 2 Gene [Source:MGI (curated);Acc:Sfmbt2-001] ## {Repeats: trf 527 547 0 class=trf}
human	chromosome:17:67679391:67679446:1	intergenic ## {Repeats: dust 0 class=dust,trf 0 class=trf,dust 0 class=dust}
mouse	chromosome:19:59951159:59951318:-1	intergenic ## {Repeats: ORR1B1 1 class=LTR/MaLR,(TATATG)n -1 class=Simple_repeat,trf 0 class=trf,(CA)n -1 class=Simple_repeat,dust 0 class=dust}

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candidate novel miRNAs:

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