miR-Intess: classification

candidate miRBase miRNAs

miRNAknown_lenNOK_cloningHIGH_multiarm_DicerOK_randfoldOK (62 loci)

rno-mir-429

Cloning frequencies
absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-429 5arm	0	0	0	0	0	0	0	0	0	1
rno-mir-429 3arm	405	0	42	27	8	14	1	2	820	2740
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-429 5arm	0	0	0	0	0	0	0	0	0	0.000
rno-mir-429 3arm	0.013	0	0.002	0.002	0.000	0.001	0.000	0.000	0.054	0.182

sblock9642 (miRBase rno-mir-429) [miRNAknown_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
miRBase rno-mir-429	0.001	no	no	0.33/0.53	18/25/0.64	0.0 0.0	0.0 2.0	1 2237	0 0	1 9	0 0	15 10	7 6	5arm 3arm	1 1	nd nd	0.15 0.17	2 2	4060	9	1	3

Clusters
Located in cluster 61: rno-mir-429, rno-mir-200a, rno-mir-200b

Families
Member of family miR-200b/200c/429 (seed AAUACUG): rno-mir-429, rno-mir-200b, rno-mir-200c

		reads	miRBase family seed
seed	-----------------------------------------------------AAUACUG-------------------------	3914	miR-200b/200c/429
seed	------------------------------------------------------AUACUGU------------------------	88	novel
seed	----------------------------------------------------UAAUACU--------------------------	53	novel
seed	---------------------------------------------------------CUGUCUG---------------------	2	novel
seed	-------------------------------------------------------UACUGUC-----------------------	1	novel
seed	----------------UCUUACC--------------------------------------------------------------	1	novel
seed	-----------------------------------------------------------GUCUGGU-------------------	1	novel
		len	cloning frequencies
			T1S1	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	----------------------------------------------------TAATACTGTCTGGTAATGCCGTC----------	23	53	4	4	2	1	-	-	161	808
	----------------------------------------------------TAATACTGTCTGGTAATGC--------------	19	132	13	9	3	2	1	1	233	622
	----------------------------------------------------TAATACTGTCTGGTAATGCCG------------	21	44	7	3	-	1	-	-	90	423
	----------------------------------------------------TAATACTGTCTGGTAATGCC-------------	20	50	11	2	1	4	-	1	107	384
	----------------------------------------------------TAATACTGTCTGGTAATG---------------	18	62	5	5	1	3	-	-	121	174
rno-miR-429	----------------------------------------------------TAATACTGTCTGGTAATGCCGT-----------	22	41	-	1	-	2	-	-	70	197
	----------------------------------------------------TAATACTGTCTGGTAATGCCGTCC---------	24	6	-	1	-	-	-	-	11	37
	-----------------------------------------------------AATACTGTCTGGTAATGCC-------------	19	3	-	-	-	-	-	-	10	21
	-----------------------------------------------------AATACTGTCTGGTAATGCCGTC----------	22	-	-	-	-	-	-	-	2	27
	---------------------------------------------------CTAATACTGTCTGGTAATG---------------	19	6	-	1	-	-	-	-	3	7
	-----------------------------------------------------AATACTGTCTGGTAATGCCG------------	20	1	-	-	-	-	-	-	2	12
	---------------------------------------------------CTAATACTGTCTGGTAATGCCG------------	22	3	-	-	-	-	-	-	-	8
	---------------------------------------------------CTAATACTGTCTGGTAAT----------------	18	1	-	-	-	1	-	-	4	3
	-----------------------------------------------------AATACTGTCTGGTAATGCCGT-----------	21	-	-	-	-	-	-	-	1	6
	---------------------------------------------------CTAATACTGTCTGGTAATGCC-------------	21	1	1	-	-	-	-	-	1	4
	---------------------------------------------------CTAATACTGTCTGGTAATGCCGTC----------	24	1	-	1	-	-	-	-	1	3
	---------------------------------------------------CTAATACTGTCTGGTAATGCCGTCC---------	25	-	-	-	-	-	-	-	1	1
	--------------------------------------------------------ACTGTCTGGTAATGCCGTC----------	19	1	-	-	-	-	-	-	1	-
	-----------------------------------------------------AATACTGTCTGGTAATGC--------------	18	-	-	-	-	-	-	-	1	1
	----------------------------------------------------------TGTCTGGTAATGCCGTCCA--------	19	-	-	-	1	-	-	-	-	-
	-----------------------------------------------------AATACTGTCTGGTAATGCCGTCC---------	23	-	-	-	-	-	-	-	-	1
	---------------------------------------------------CTAATACTGTCTGGTAATGCCGT-----------	23	-	-	-	-	-	-	-	-	1
	---------------GTCTTACCAGACATGGTTAG--------------------------------------------------	20	-	-	-	-	-	-	-	-	1
	------------------------------------------------------ATACTGTCTGGTAATGCCGT-----------	20	-	1	-	-	-	-	-	-	-
rat	TGCCTGCTGATGGATGTCTTACCAGACATGGTTAGATCTGGATGTATCTGTCTAATACTGTCTGGTAATGCCGTCCATCCATGGC
human	---CGGCCGATGGGCGTCTTACCAGACATGGTTAGACCTGGC--CCTCTGTCTAATACTGTCTGGTAAAACCGTCCATCCGCTG-
mouse	-------------ATGTCTTACCAGACATGGTTAGATCTGGATGCATCTGTCTAATACTGTCTGGTAATGCCGT-----------
	******************* ****************** **
	.....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.....	ENSRNOT00000053718 ENSRNOG00000035595 rno-mir-429
rat	.(((....((((((((.(((((((((((..(((((((..(((....))))))))))..)))))))))).).))))))))...)))	1.000 -37.80
human	((((.((((((((..((((((((((..(((((((..... .....)))))))..))))))))))...)))))))).))))	1.000 -39.60
mouse	..((.((((((((((..(((((((..(((....))))))))))..)))))))))).))...	1.000 -22.70

rat	chromosome:5:172897185:172897269:-1	Same_strand\|Exonic_non-coding\|ENSRNOT00000053718\|ENSRNOG00000035595 ## Same_strand\|Boundary_non-coding\|ENSRNOT00000053718\|ENSRNOG00000035595 ## ENSRNOG00000035595\|miRNA\|rno-mir-429\|rno-mir-429 [Source:miRBase;Acc:MI0001643] ## {MIR: rno-mir-429}
human	chromosome:1:1094251:1094329:1	Same_strand\|Exonic_non-coding\|ENST00000362106\|ENSG00000198976\|miRNA\|hsa-mir-429 [Source:miRBase;Acc:MI0001641] ## {MIR: hsa-mir-429}
mouse	chromosome:4:155427994:155428118:-1	Same_strand\|Boundary_non-coding\|ENSMUST00000051509\|ENSMUSG00000029074\|protein_coding\|tubulin tyrosine ligase-like family, member 10 Gene [Source:MGI (curated);Acc:Ttll10-001] ## Same_strand\|Intronic_non-coding\|ENSMUST00000097731\|ENSMUSG00000029074\|protein_coding\|tubulin tyrosine ligase-like family, member 10 Gene [Source:MGI (curated);Acc:Ttll10-001] ## {MIR: mmu-mir-429}

rno-mir-200b

Cloning frequencies
absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-200b 5arm	102	0	63	22.500	4	8	0	0	18	582
rno-mir-200b 3arm	817	4	181	187	34	59	5	1	3103	7677
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-200b 5arm	0.003	0	0.003	0.001	0.000	0.001	0	0	0.001	0.039
rno-mir-200b 3arm	0.027	0.000	0.010	0.011	0.002	0.004	0.000	0.000	0.205	0.511

sblock9644 (miRBase rno-mir-200b) [miRNAknown_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
miRBase rno-mir-200b	0.002	no	no	0.35/0.71	18/24/0.66	0.0 0.0 0.0 0.0	1.5 0.0 1.7 1.4	2 1 609 5836	0 0 0 0	1 1 7 10	0 0 0 0	0 11 20 11	21 12 0 2	5arm 5arm 5arm 3arm	1 1 2 2	nd nd nd nd	0.48 0.26 0.14 0.17	6 3 2 2	12975	10	2	2

Clusters
Located in cluster 61: rno-mir-429, rno-mir-200a, rno-mir-200b

Families
Member of family miR-200b/200c/429 (seed AAUACUG): rno-mir-429, rno-mir-200b, rno-mir-200c

		reads	miRBase family seed
seed	---------------------------------------------------------AAUACUG--------------------------	11335	miR-200b/200c/429
seed	---------------------AUCUUAC--------------------------------------------------------------	857	novel
seed	----------------------------------------------------------AUACUGC-------------------------	667	novel
seed	----------------------UCUUACU-------------------------------------------------------------	44	novel
seed	-----------------------------------------------------------UACUGCC------------------------	42	novel
seed	--------------------------------------------------------UAAUACU---------------------------	9	novel
seed	-------------------------------------------------------------CUGCCUG----------------------	9	novel
seed	------------------------------------------------------------ACUGCCU-----------------------	3	novel
seed	--------------------------------------------------------------UGCCUGG---------------------	3	novel
seed	-CAACUUG----------------------------------------------------------------------------------	2	novel
seed	------------------------UUACUGG-----------------------------------------------------------	2	novel
seed	--------------------CAUCUUA---------------------------------------------------------------	1	novel
seed	------------GCCGUGG-----------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-miR-200b	--------------------------------------------------------TAATACTGCCTGGTAATGATGAC-----------	23	165	1	61	35	5	22	1	-	763	3151
	--------------------------------------------------------TAATACTGCCTGGTAATGA---------------	19	216	2	42	50	13	13	-	-	706	1447
	--------------------------------------------------------TAATACTGCCTGGTAATGATG-------------	21	183	-	20	27	6	9	1	-	574	1238
	--------------------------------------------------------TAATACTGCCTGGTAATG----------------	18	109	1	25	27	7	8	3	1	491	796
	--------------------------------------------------------TAATACTGCCTGGTAATGAT--------------	20	59	-	8	17	-	5	-	-	200	407
	--------------------------------------------------------TAATACTGCCTGGTAATGATGA------------	22	36	-	3	9	1	-	-	-	136	233
	---------------------------------------------------------AATACTGCCTGGTAATGATGAC-----------	22	20	-	9	11	1	2	-	-	103	223
	--------------------CATCTTACTGGGCAGCATTGGA------------------------------------------------	22	28	-	9	2	-	2	-	-	-	193
	--------------------CATCTTACTGGGCAGCATTG--------------------------------------------------	20	23	-	26	7	2	4	-	-	9	147
	--------------------CATCTTACTGGGCAGCAT----------------------------------------------------	18	28	-	18	7	-	-	-	-	8	154
	--------------------CATCTTACTGGGCAGCATTGG-------------------------------------------------	21	19	-	10	6	1	-	-	-	2	115
	---------------------------------------------------------AATACTGCCTGGTAATGA---------------	18	14	-	5	5	-	-	-	-	38	61
	---------------------------------------------------------AATACTGCCTGGTAATGAT--------------	19	4	-	-	5	-	-	-	-	30	37
	---------------------------------------------------------AATACTGCCTGGTAATGATG-------------	20	6	-	3	-	1	-	-	-	22	30
	--------------------CATCTTACTGGGCAGCATT---------------------------------------------------	19	3	-	2	1	-	1	-	-	3	25
	---------------------------------------------------------AATACTGCCTGGTAATGATGA------------	21	2	-	1	-	-	-	-	-	13	17
	----------------------------------------------------------ATACTGCCTGGTAATGATGAC-----------	21	-	-	1	-	-	-	-	-	10	11
	---------------------ATCTTACTGGGCAGCATTGGA------------------------------------------------	21	2	-	4	-	1	1	-	-	-	13
	---------------------ATCTTACTGGGCAGCATTG--------------------------------------------------	19	5	-	-	3	-	-	-	-	-	3
	----------------------------------------------------------ATACTGCCTGGTAATGAT--------------	18	1	-	1	1	-	-	-	-	5	2
	------------------------------------------------------------ACTGCCTGGTAATGATGAC-----------	19	-	-	-	-	-	-	-	-	4	4
	----------------------------------------------------------ATACTGCCTGGTAATGATG-------------	19	-	-	-	-	-	-	-	-	1	6
	---------------------ATCTTACTGGGCAGCATTGG-------------------------------------------------	20	2	-	2	-	-	-	-	-	-	3
	---------------------ATCTTACTGGGCAGCATTGGAT-----------------------------------------------	22	2	-	-	-	-	-	-	-	-	2
	---------------------------------------------------------AATACTGCCTGGTAATGATGACG----------	23	-	-	2	-	-	-	-	-	1	1
	-------------------------------------------------------CTAATACTGCCTGGTAATGA---------------	20	1	-	-	-	-	-	-	-	-	2
	-------------------------------------------------------CTAATACTGCCTGGTAATGATG-------------	22	-	-	-	-	-	-	-	-	2	1
	-------------------------------------------------------------CTGCCTGGTAATGATGAC-----------	18	-	-	-	-	-	-	-	-	-	3
	-----------------------------------------------------------TACTGCCTGGTAATGATGAC-----------	20	-	-	-	-	-	-	-	-	-	3
	--------------------------------------------------------TAATACTGCCTGGTAATGATGACG----------	24	1	-	-	-	-	-	-	-	1	-
	--------------------CATCTTACTGGGCAGCATTGGAT-----------------------------------------------	23	-	-	1	-	-	-	-	-	-	1
	-----------------------CTTACTGGGCAGCATTGGA------------------------------------------------	19	2	-	-	-	-	-	-	-	-	-
	------------------------------------------------------------ACTGCCTGGTAATGATGA------------	18	-	-	-	-	-	-	-	-	1	-
	----------------------------------------------------------ATACTGCCTGGTAATGATGACG----------	22	-	-	-	-	-	-	-	-	-	1
	----------------------------------------------------------ATACTGCCTGGTAATGATGA------------	20	-	-	-	-	-	-	-	-	-	1
	CCAACTTGGGCAGCCGTGGCC---------------------------------------------------------------------	21	-	-	-	-	-	-	-	-	-	1
	-------------------CCATCTTACTGGGCAGCATTGG-------------------------------------------------	22	1	-	-	-	-	-	-	-	-	-
	-------------------------------------------------------CTAATACTGCCTGGTAATGAT--------------	21	-	-	-	-	-	-	-	-	-	1
	-----------AGCCGTGGCCATCTTACTG------------------------------------------------------------	19	1	-	-	-	-	-	-	-	-	-
	-------------------------------------------------------CTAATACTGCCTGGTAATG----------------	19	-	-	-	-	-	-	-	-	1	-
	---------------------ATCTTACTGGGCAGCATT---------------------------------------------------	18	-	-	-	-	-	-	-	-	-	1
	CCAACTTGGGCAGCCGTG------------------------------------------------------------------------	18	-	-	-	-	-	-	-	-	-	1
	-------------------------------------------------------CTAATACTGCCTGGTAATGATGAC-----------	24	-	-	-	-	-	-	-	-	-	1
	----------------------------------------------------------ATACTGCCTGGTAATGATGACGGC--------	24	-	-	-	-	-	-	-	-	1	-
rat	CCAACTTGGGCAGCCGTGGCCATCTTACTGGGCAGCATTGGATAGTGTCTGATCTCTAATACTGCCTGGTAATGATGACGGCGGAGCCCT
human	-------------------CCATCTTACTGGGCAGCATTGGATGGAGTCAGGTCTCTAATACTGCCTGGTAATGATGA------------
mouse	-------------------CCATCTTACTGGGCAGCATTGGATAGTGTCTGATCTCTAATACTGCCTGGTAATGATGA------------
	************************ * *** * **************************
	.....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000053631 ENSRNOG00000035508 rno-mir-200b
rat	.......((((.(((((...((((((((..(((((.((((((............)))))).)))))..)))).)))))))))...)))).	1.000 -40.60
human	.((((((((..(((((.((((((.((.......)))))))).)))))..)))).)))).	1.000 -25.40
mouse	.((((((((..(((((.((((((............)))))).)))))..)))).)))).	1.000 -24.80

rat	chromosome:5:172899003:172899092:-1	Same_strand\|Exonic_non-coding\|ENSRNOT00000053631\|ENSRNOG00000035508 ## ENSRNOG00000035508\|miRNA\|rno-mir-200b\|rno-mir-200b [Source:miRBase;Acc:MI0000944] ## {MIR: rno-mir-200b}
human	chromosome:1:1092327:1092456:1	Same_strand\|Boundary_non-coding\|ENST00000384997\|ENSG00000207730\|miRNA\|hsa-mir-200b [Source:miRBase;Acc:MI0000342] ## {SimpF: oe = 0.62 0 CpG} ## {MIR: hsa-mir-200b}
mouse	chromosome:4:155429762:155429891:-1	Same_strand\|Boundary_non-coding\|ENSMUST00000051509\|ENSMUSG00000029074\|protein_coding\|tubulin tyrosine ligase-like family, member 10 Gene [Source:MGI (curated);Acc:Ttll10-001] ## Same_strand\|Intronic_non-coding\|ENSMUST00000097731\|ENSMUSG00000029074\|protein_coding\|tubulin tyrosine ligase-like family, member 10 Gene [Source:MGI (curated);Acc:Ttll10-001] ## {MIR: mmu-mir-200b}

miRNAknown_cloningHIGH_multiarm_DicerNOK_randfoldOK (26 loci)

rno-mir-673

Cloning frequencies
absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-673 5arm	18	18	0	0	0	1	1	0	0	0
rno-mir-673 3arm	69	46	1	0	0	0	0	0	0	0
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-673 5arm	0.001	0.001	0	0	0	0.000	0.000	0	0	0
rno-mir-673 3arm	0.002	0.002	0.000	0	0	0	0	0	0	0

sblock10437 (miRBase rno-mir-673) [miRNAknown_cloningHIGH_multiarm_DicerNOK_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
miRBase rno-mir-673	0.003	no	no	0.56/0.65	18/25/0.72	0.0 0.0	1.0 0.2	30 60	0 0	4 3	0 0	10 10	6 6	5arm 3arm	1 1	nd nd	0.19 0.22	2 2	154	5	0	2

		reads	miRBase family seed
seed	---------------------------------------------------CCGGGAC-------------------------	115	novel
seed	-----------UCACAGC-----------------------------------------------------------------	38	miR-673
seed	--------------------------------------------------UCCGGGA--------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T3S2	T4S1
	--------------------------------------------------TCCGGGACTGAGTTCTGTGCACC----------	23	34	15	-	-	-
	--------------------------------------------------TCCGGGACTGAGTTCTGTGCAC-----------	22	11	6	-	-	-
	----------CTCACAGCTCCGGTCCTTGGA----------------------------------------------------	21	8	7	-	-	-
	--------------------------------------------------TCCGGGACTGAGTTCTGT---------------	18	5	8	-	-	-
	--------------------------------------------------TCCGGGACTGAGTTCTGTG--------------	19	7	4	1	-	-
	----------CTCACAGCTCCGGTCCTTG------------------------------------------------------	19	7	2	-	1	-
	--------------------------------------------------TCCGGGACTGAGTTCTGTGCACCC---------	24	3	5	-	-	-
	--------------------------------------------------TCCGGGACTGAGTTCTGTGC-------------	20	3	4	-	-	-
	--------------------------------------------------TCCGGGACTGAGTTCTGTGCA------------	21	5	2	-	-	-
	----------CTCACAGCTCCGGTCCTT-------------------------------------------------------	18	2	4	-	-	-
	----------CTCACAGCTCCGGTCCTTGG-----------------------------------------------------	20	-	4	-	-	-
rno-miR-673	----------CTCACAGCTCCGGTCCTTGGAG---------------------------------------------------	22	1	1	-	-	1
	--------------------------------------------------TCCGGGACTGAGTTCTGTGCACCCC--------	25	1	1	-	-	-
	-------------------------------------------------CTCCGGGACTGAGTTCTG----------------	18	-	1	-	-	-
rat	gcctgaggggctcacagctccggtccttggagctccagagaaaatgttgcTCCGGGACTGAGTTCTGTGCACCccccttgccc
	***********************************************************************************
	.....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.....	ENSRNOT00000062107 ENSRNOG00000040354 rno-mir-673
rat	((..(.((((..(((((..((((((((.(((((..((.......))..)))))))))))).)..)))))..)))).)..))..	1.000 -39.50

rat

chromosome:6:134149777:134149859:1

Same_strand|Exonic_non-coding|ENSRNOT00000062107|ENSRNOG00000040354 ## ENSRNOG00000040354|miRNA|rno-mir-673|rno-mir-673 [Source:miRBase;Acc:MI0006158] ## {MIR: rno-mir-673}

rno-mir-758

Cloning frequencies
absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-758 5arm	9	1	0	0	0	0	0	0	0	0
rno-mir-758 3arm	157	90	0	0	0	0	0	1	1	0
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-758 5arm	0.000	0.000	0	0	0	0	0	0	0	0
rno-mir-758 3arm	0.005	0.004	0	0	0	0	0	0.000	0.000	0

sblock10493 (miRBase rno-mir-758) [miRNAknown_cloningHIGH_multiarm_DicerNOK_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
miRBase rno-mir-758	0.003	no	no	0.45/0.59	18/25/0.73	0.0 0.0	0.0 0.0	5 122	0 0	2 4	0 0	11 9	3 6	5arm 3arm	1 1	nd nd	0.27 0.30	3 3	259	4	3	4

Clusters
Located in cluster 69: rno-mir-380, rno-mir-323, rno-mir-758, rno-mir-329

		reads	miRBase family seed
seed	----------------------------------------------------UUGUGAC-----------------------------	240	miR-758
seed	-----------------GGUUGAC----------------------------------------------------------------	10	novel
seed	-----------------------------------------------------UGUGACC----------------------------	7	novel
seed	------------------------------------------------------GUGACCU---------------------------	2	novel
		len	cloning frequencies
			T1S1	T1S2	T4S2	T5S1
	---------------------------------------------------TTTGTGACCTGGTCCACTAACCC--------------	23	82	40	-	-
	---------------------------------------------------TTTGTGACCTGGTCCACTA------------------	19	14	20	1	-
	---------------------------------------------------TTTGTGACCTGGTCCACTAA-----------------	20	21	9	-	-
	---------------------------------------------------TTTGTGACCTGGTCCACT-------------------	18	14	10	-	-
rno-miR-758	---------------------------------------------------TTTGTGACCTGGTCCACTAACC---------------	22	8	3	-	-
	---------------------------------------------------TTTGTGACCTGGTCCACTAAC----------------	21	5	5	-	-
	---------------------------------------------------TTTGTGACCTGGTCCACTAACCCTC------------	25	5	2	-	-
	----------------TGGTTGACCAGAGAGCACACGC--------------------------------------------------	22	5	-	-	-
	----------------------------------------------------TTGTGACCTGGTCCACTAACCC--------------	22	4	-	-	1
	----------------TGGTTGACCAGAGAGCACA-----------------------------------------------------	19	1	1	-	-
	-----------------------------------------------------TGTGACCTGGTCCACTAACCC--------------	21	2	-	-	-
	---------------------------------------------------TTTGTGACCTGGTCCACTAACCCT-------------	24	1	-	-	-
	----------------TGGTTGACCAGAGAGCACAC----------------------------------------------------	20	1	-	-	-
	----------------------------------------------------TTGTGACCTGGTCCACTAACC---------------	21	1	-	-	-
	----------------------------------------------------TTGTGACCTGGTCCACTAACCCTC------------	24	-	1	-	-
	----------------TGGTTGACCAGAGAGCAC------------------------------------------------------	18	1	-	-	-
	----------------TGGTTGACCAGAGAGCACACG---------------------------------------------------	21	1	-	-	-
rat	-----GGTGCGTGAGGTGGTTGACCAGAGAGCACACGCTATATTTGTGCCGTTTGTGACCTGGTCCACTAACCCTCAGTATCT-----
human	GCCTGGATACATGAGATGGTTGACCAGAGAGCACACGCTTTATTTGTGCCGTTTGTGACCTGGTCCACTAACCCTCAGTATCTAATGC
mouse	----GGGTGCGTGAGGTGGTTGACCAGAGAGCACACGCTATATTTGTGCCGTTTGTGACCTGGTCCACTAACCCTCAGTATCT-----
	* * * ** ******************* *****************************************
	...>> >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >....	ENSRNOT00000062139 ENSRNOG00000040386 rno-mir-758
rat	(((((.(((((((((.((((((...(((.(((.(((....))).))).)))...)))))).))))..)))))))))).	1.000 -30.90
human	...(((((((.((((.((((.((((((...(((.((((.........)).)).)))...)))))).))))...)))))))))))....	0.973 -29.40
mouse	((((((.(((((((((.((((((...(((.(((.(((....))).))).)))...)))))).))))..)))))))))))	0.996 -31.30

rat	chromosome:6:134391996:134392073:1	Same_strand\|Exonic_non-coding\|ENSRNOT00000062139\|ENSRNOG00000040386 ## ENSRNOG00000040386\|miRNA\|rno-mir-758\|rno-mir-758 [Source:miRBase;Acc:MI0006163] ## {MIR: rno-mir-758}
human	chromosome:14:100562110:100562197:1	Same_strand\|Exonic_non-coding\|ENST00000390227\|ENSG00000211582\|miRNA\|hsa-mir-758 [Source:miRBase;Acc:MI0003757] ## {MIR: hsa-mir-758}
mouse	chromosome:12:110951021:110951099:1	Same_strand\|Exonic_non-coding\|ENSMUST00000103260\|ENSMUSG00000076459\|miRNA\|mmu-mir-758 [Source:miRBase;Acc:MI0004129] ## {MIR: mmu-mir-758}

rno-mir-543

Cloning frequencies
absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-543 5arm	99	78	0	0	0	0	1	0	0	0
rno-mir-543 3arm	2338	1673	1	0	1	5	2	1	3	6
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-543 5arm	0.003	0.003	0	0	0	0	0.000	0	0	0
rno-mir-543 3arm	0.078	0.073	0.000	0	0.000	0.000	0.000	0.000	0.000	0.000

sblock10499 (miRBase rno-mir-543) [miRNAknown_cloningHIGH_multiarm_DicerNOK_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
miRBase rno-mir-543	0.001	no	no	0.40/0.58	18/26/0.76	0.4 0.0	0.8 1.4	101 3543	0 0	3 9	0 0	12 10	0 6	5arm 3arm	1 1	nd nd	0.05 0.14	1 2	4208	9	5	2

Clusters
Located in cluster 71: mmu-mir-666, rno-mir-543

		reads	miRBase family seed
seed	--------------------------------------------------------------------AACAUUC------------------------------------------	3898	miR-543*
seed	---------------------------------AGUUGCC-----------------------------------------------------------------------------	76	miR-543
seed	---------------------------------------------------------------------ACAUUCG-----------------------------------------	50	novel
seed	----------------------------------GUUGCCC----------------------------------------------------------------------------	49	novel
seed	------------------------------------------------------------------GAAACAU--------------------------------------------	48	miR-494
seed	--------------------------------AAGUUGC------------------------------------------------------------------------------	47	novel
seed	-------------------------------------------------------------------AAACAUU-------------------------------------------	18	novel
seed	----------------------------------------------------------------------CAUUCGC----------------------------------------	16	novel
seed	-----------------------------GAGAAGU---------------------------------------------------------------------------------	5	novel
seed	------------------------------------UGCCCGC--------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	-------------------------------------------------------------------AAACATTCGCGGTGCACTTCTT----------------------------	22	856	555	-	1	1	-	1	-	3
	-------------------------------------------------------------------AAACATTCGCGGTGCACT--------------------------------	18	424	334	-	-	-	-	-	1	2
rno-miR-543*	-------------------------------------------------------------------AAACATTCGCGGTGCACTTCT-----------------------------	21	399	294	-	-	2	-	-	-	1
	-------------------------------------------------------------------AAACATTCGCGGTGCACTTC------------------------------	20	395	286	1	-	2	1	-	-	-
	-------------------------------------------------------------------AAACATTCGCGGTGCACTTCTTT---------------------------	23	108	80	-	-	-	1	-	1	-
	-------------------------------------------------------------------AAACATTCGCGGTGCACTT-------------------------------	19	76	56	-	-	-	-	-	-	-
	--------------------------------AAGTTGCCCGCGTGTTTTTC-----------------------------------------------------------------	20	27	14	-	-	-	-	-	-	-
	-------------------------------GAAGTTGCCCGCGTGTTTT-------------------------------------------------------------------	19	9	17	-	-	-	-	-	-	-
rno-miR-543	--------------------------------AAGTTGCCCGCGTGTTTTTCGC---------------------------------------------------------------	22	15	6	-	-	-	-	-	-	-
	---------------------------------AGTTGCCCGCGTGTTTTTC-----------------------------------------------------------------	19	10	9	-	-	-	-	-	-	-
	-----------------------------------------------------------------CGAAACATTCGCGGTGCACTTC------------------------------	22	8	7	-	-	-	-	-	-	-
	--------------------------------------------------------------------AACATTCGCGGTGCACTTCTT----------------------------	21	10	4	-	-	-	-	-	1	-
	--------------------------------------------------------------------AACATTCGCGGTGCACTTC------------------------------	19	7	8	-	-	-	-	-	-	-
	---------------------------------AGTTGCCCGCGTGTTTTTCGCT--------------------------------------------------------------	22	6	6	-	-	-	-	-	-	-
	--------------------------------AAGTTGCCCGCGTGTTTT-------------------------------------------------------------------	18	6	4	-	-	-	1	-	-	-
	-------------------------------------------------------------------AAACATTCGCGGTGCACTTCTTTT--------------------------	24	5	6	-	-	-	-	-	-	-
	--------------------------------------------------------------------AACATTCGCGGTGCACTTCT-----------------------------	20	8	2	-	-	-	-	-	-	-
	---------------------------------AGTTGCCCGCGTGTTTTTCGC---------------------------------------------------------------	21	5	5	-	-	-	-	-	-	-
	-----------------------------------------------------------------CGAAACATTCGCGGTGCACT--------------------------------	20	5	5	-	-	-	-	-	-	-
	-------------------------------GAAGTTGCCCGCGTGTTTTTC-----------------------------------------------------------------	21	4	6	-	-	-	-	-	-	-
	-----------------------------------------------------------------CGAAACATTCGCGGTGCA----------------------------------	18	5	4	-	-	-	-	-	-	-
	--------------------------------------------------------------------AACATTCGCGGTGCACTTCTTT---------------------------	22	6	3	-	-	-	-	-	-	-
	------------------------------------------------------------------GAAACATTCGCGGTGCACT--------------------------------	19	5	3	-	-	-	-	-	-	-
	-----------------------------------------------------------------CGAAACATTCGCGGTGCAC---------------------------------	19	4	4	-	-	-	-	-	-	-
	-------------------------------GAAGTTGCCCGCGTGTTT--------------------------------------------------------------------	18	5	2	-	-	-	-	-	-	-
	---------------------------------------------------------------------ACATTCGCGGTGCACTTC------------------------------	18	1	5	-	-	-	-	-	-	-
	---------------------------------------------------------------------ACATTCGCGGTGCACTTCTTT---------------------------	21	5	1	-	-	-	-	-	-	-
	---------------------------------AGTTGCCCGCGTGTTTTT------------------------------------------------------------------	18	1	5	-	-	-	-	-	-	-
	-----------------------------------------------------------------CGAAACATTCGCGGTGCACTTCT-----------------------------	23	1	4	-	-	-	-	-	-	-
	------------------------------------------------------------------GAAACATTCGCGGTGCAC---------------------------------	18	1	3	-	-	-	-	-	-	-
	----------------------------TGAGAAGTTGCCCGCGTGTTT--------------------------------------------------------------------	21	3	-	-	-	-	-	-	-	-
	-------------------------------------------------------------------AAACATTCGCGGTGCACTTCTTTTT-------------------------	25	1	2	-	-	-	-	-	-	-
	---------------------------------------------------------------------ACATTCGCGGTGCACTTCT-----------------------------	19	1	2	-	-	-	-	-	-	-
	-------------------------------GAAGTTGCCCGCGTGTTTTTCG----------------------------------------------------------------	22	3	-	-	-	-	-	-	-	-
	-------------------------------------------------------------------AAACATTCGCGGTGCACTTCTTTTTC------------------------	26	2	1	-	-	-	-	-	-	-
	------------------------------------------------------------------GAAACATTCGCGGTGCACTTCT-----------------------------	22	2	1	-	-	-	-	-	-	-
	--------------------------------AAGTTGCCCGCGTGTTTTTCG----------------------------------------------------------------	21	2	-	-	-	-	-	-	-	-
	------------------------------------------------------------------GAAACATTCGCGGTGCACTT-------------------------------	20	1	1	-	-	-	-	-	-	-
	---------------------------------AGTTGCCCGCGTGTTTTTCG----------------------------------------------------------------	20	-	2	-	-	-	-	-	-	-
	----------------------------TGAGAAGTTGCCCGCGTGTTTTTC-----------------------------------------------------------------	24	1	-	-	-	-	-	-	-	-
	---------------------------------------------------------------------ACATTCGCGGTGCACTTCTT----------------------------	20	-	1	-	-	-	-	-	-	-
	--------------------------------AAGTTGCCCGCGTGTTTTT------------------------------------------------------------------	19	-	1	-	-	-	-	-	-	-
	-----------------------------------TTGCCCGCGTGTTTTTCGC---------------------------------------------------------------	19	-	1	-	-	-	-	-	-	-
	------------------------------------------------------------------GAAACATTCGCGGTGCACTTCTT----------------------------	23	-	1	-	-	-	-	-	-	-
	-------------------------------GAAGTTGCCCGCGTGTTTTTCGC---------------------------------------------------------------	23	1	-	-	-	-	-	-	-	-
	----------------------------TGAGAAGTTGCCCGCGTGTTTT-------------------------------------------------------------------	22	1	-	-	-	-	-	-	-	-
	-----------------------------------------------------------------CGAAACATTCGCGGTGCACTT-------------------------------	21	1	-	-	-	-	-	-	-	-
	--------------------------------------------------------------------AACATTCGCGGTGCACTT-------------------------------	18	1	-	-	-	-	-	-	-	-
rat	-------------------GGTGCTTAATGAGAAGTTGCCCGCGTGTTTTTCGCTTTATATGTGACGAAACATTCGCGGTGCACTTCTTTTTCAGCATC------------------
human	GTCAACGGTGCTGACGTGCGGTACTTAATGAGAAGTTGCCCGTGTTTTTTTCGCTTTATTTGTGACGAAACATTCGCGGTGCACTTCTTTTTCAGTATCCTATTCTGCCTTGAAGAC
mouse	-------CTGCTGACGTACGGTGCTTAATGAGAAGTTGCCCGCGTGTTTTTCGCTTTATATGTGACGAAACATTCGCGGTGCACTTCTTTTTCAGCATCCTATTCTACGTTGAAG--
	* *************** *********** ******************************* *
	..... >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> .....	ENSRNOT00000054599 ENSRNOG00000036491 rno-mir-543
rat	((((((.((.(((((((.(((((((((((((((((.......)))).))))))..))))).))))))))).)).))))))	1.000 -35.00
human	(((..(((.((.((.(((.((((((.((.((((((.((((((((.((((.((((.......)))).))))....))))).))))))))).)).)))))).))))).)).)))..)))	0.980 -36.70
mouse	.....((((((.((((((.((.((((((.((((((((((((((((((.......)))).))))))..))))).))))))))).)).))))))......))))))....	0.992 -39.40

rat	chromosome:6:134397158:134397237:1	Same_strand\|Boundary_non-coding\|ENSRNOT00000054599\|ENSRNOG00000036491 ## Same_strand\|Exonic_non-coding\|ENSRNOT00000054599\|ENSRNOG00000036491 ## ENSRNOG00000036491\|miRNA\|rno-mir-543\|rno-mir-543 [Source:miRBase;Acc:MI0003525] ## {MIR: rno-mir-543}
human	chromosome:14:100568056:100568172:1	Same_strand\|Boundary_non-coding\|ENST00000390751\|ENSG00000212040\|miRNA\|hsa-mir-543 [Source:miRBase;Acc:MI0005565] ## {MIR: hsa-mir-543}
mouse	chromosome:12:110955454:110955561:1	Same_strand\|Boundary_non-coding\|ENSMUST00000102286\|ENSMUSG00000076241\|miRNA\|mmu-mir-543 [Source:miRBase;Acc:MI0003519] ## {MIR: mmu-mir-543}

rno-mir-495

Cloning frequencies
absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-495 5arm	4	3	0	0	0	0	0	0	0	0
rno-mir-495 3arm	7971	5035	6	9	18	28	9	7	24	37
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-495 5arm	0.000	0.000	0	0	0	0	0	0	0	0
rno-mir-495 3arm	0.265	0.220	0.000	0.001	0.001	0.002	0.001	0.000	0.002	0.002

sblock10500 (miRBase rno-mir-495) [miRNAknown_cloningHIGH_multiarm_DicerNOK_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
miRBase rno-mir-495	0.001	no	no	0.32/0.47	18/26/0.80	0.0 0.0	1.6 1.0	7 9447	0 0	2 10	0 0	10 10	2 6	5arm 3arm	1 1	nd nd	0.11 0.18	1 3	13151	10	4	2

		reads	miRBase family seed
seed	----------------------------------------------------AACAAAC-----------------------------------	11660	miR-495
seed	-----------------------------------------------------ACAAACA----------------------------------	1352	novel
seed	------------------------------------------------------CAAACAU---------------------------------	120	novel
seed	--------------AAGUUGC-------------------------------------------------------------------------	7	novel
seed	--------------------------------------------------GAAACAA-------------------------------------	5	novel
seed	-------------------------------------------------------AAACAUG--------------------------------	4	novel
seed	---------------------------------------------------AAACAAA------------------------------------	2	novel
seed	---------------------------------------------------------ACAUGGU------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-miR-495	---------------------------------------------------AAACAAACATGGTGCACTTCTT---------------------	22	3020	1578	1	-	2	9	8	1	6	10
	---------------------------------------------------AAACAAACATGGTGCACTTCT----------------------	21	1423	1079	2	4	1	4	-	2	5	2
	---------------------------------------------------AAACAAACATGGTGCACT-------------------------	18	1196	791	-	1	4	4	-	3	-	4
	---------------------------------------------------AAACAAACATGGTGCACTTC-----------------------	20	1151	774	-	-	1	5	1	-	5	3
	----------------------------------------------------AACAAACATGGTGCACTTCTT---------------------	21	294	201	2	-	1	1	-	-	1	3
	---------------------------------------------------AAACAAACATGGTGCACTTCTTT--------------------	23	212	101	-	-	-	1	-	-	-	-
	----------------------------------------------------AACAAACATGGTGCACTTC-----------------------	19	144	128	-	1	2	1	-	-	1	5
	----------------------------------------------------AACAAACATGGTGCACTTCT----------------------	20	140	105	1	3	-	1	-	-	2	1
	----------------------------------------------------AACAAACATGGTGCACTTCTTT--------------------	22	136	98	-	-	4	1	-	1	2	2
	---------------------------------------------------AAACAAACATGGTGCACTT------------------------	19	138	86	-	-	-	-	-	-	1	1
	----------------------------------------------------AACAAACATGGTGCACTT------------------------	18	29	25	-	-	-	-	-	-	-	1
	-----------------------------------------------------ACAAACATGGTGCACTTCTT---------------------	20	20	19	-	-	1	1	-	-	-	3
	-----------------------------------------------------ACAAACATGGTGCACTTCT----------------------	19	15	12	-	-	1	-	-	-	-	-
	-----------------------------------------------------ACAAACATGGTGCACTTCTTT--------------------	21	12	9	-	-	-	-	-	-	-	1
	-----------------------------------------------------ACAAACATGGTGCACTTC-----------------------	18	16	4	-	-	-	-	-	-	-	-
	---------------------------------------------------AAACAAACATGGTGCACTTCTTTT-------------------	24	9	6	-	-	1	-	-	-	-	-
	----------------------------------------------------AACAAACATGGTGCACTTCTTTT-------------------	23	7	5	-	-	-	-	-	-	-	1
	-----------------------------------------------------ACAAACATGGTGCACTTCTTTT-------------------	22	2	3	-	-	-	-	-	-	1	-
	-------------GAAGTTGCCCATGTTATTT--------------------------------------------------------------	19	1	2	-	-	-	-	-	-	-	-
	------------------------------------------------------CAAACATGGTGCACTTCTT---------------------	19	2	1	-	-	-	-	-	-	-	-
	---------------------------------------------------AAACAAACATGGTGCACTTCTTTTT------------------	25	1	2	-	-	-	-	-	-	-	-
	----------------------------------------------------AACAAACATGGTGCACTTCTTTTT------------------	24	-	2	-	-	-	-	-	-	-	-
	-------------------------------------------------CGAAACAAACATGGTGCA---------------------------	18	-	2	-	-	-	-	-	-	-	-
	-------------GAAGTTGCCCATGTTATTTTTC-----------------------------------------------------------	22	1	1	-	-	-	-	-	-	-	-
	-------------------------------------------------CGAAACAAACATGGTGCACTTCT----------------------	23	-	2	-	-	-	-	-	-	-	-
	-------------GAAGTTGCCCATGTTATT---------------------------------------------------------------	18	2	-	-	-	-	-	-	-	-	-
	------------------------------------------------------CAAACATGGTGCACTTCTTT--------------------	20	-	1	-	-	-	-	-	-	-	-
	--------------------------------------------------GAAACAAACATGGTGCACTTCTT---------------------	23	1	-	-	-	-	-	-	-	-	-
	---------------------------------------------------AAACAAACATGGTGCACTTCTTTTTC-----------------	26	-	1	-	-	-	-	-	-	-	-
	--------------------------------------------------GAAACAAACATGGTGCAC--------------------------	18	1	-	-	-	-	-	-	-	-	-
	-------------------------------------------------CGAAACAAACATGGTGCAC--------------------------	19	1	-	-	-	-	-	-	-	-	-
	--------------------------------------------------------AACATGGTGCACTTCTTT--------------------	18	1	-	-	-	-	-	-	-	-	-
rat	---TACCTGAAAAGAAGTTGCCCATGTTATTTTTCGCTTTTATTTGTGACGAAACAAACATGGTGCACTTCTTTTTCGATATC-----------
human	TGGTACCTGAAAAGAAGTTGCCCATGTTA-TTTTCGC-TTTATATGTGACGAAACAAACATGGTGCACTTCTTTTTCGGTATCAAATATCTCCT
mouse	-----------AAGAAGTTGCCCATGTTATTTTTCGCTTTTATTTGTGACGAAACAAACATGGTGCACTTCTT---------------------
	**************** *** * ***************************
	..... >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> .....	ENSRNOT00000054386 ENSRNOG00000036263 rno-mir-495
rat	...(.((((((((((.(((((((((.(((.((((........)))).)))...))))))).)))))))))))).).....	1.000 -26.00
human	(((((((.(((((((((.((((((((((. .(((((. ((.......)))))))..))))))).)))))))))))).)))))))..........	1.000 -35.70
mouse	((((((.((((((((((.(((.((((........)))).)))...))))))).)))))))))	1.000 -22.10

rat	chromosome:6:134399218:134399297:1	Same_strand\|Boundary_non-coding\|ENSRNOT00000054386\|ENSRNOG00000036263 ## Same_strand\|Exonic_non-coding\|ENSRNOT00000054386\|ENSRNOG00000036263 ## ENSRNOG00000036263\|miRNA\|rno-mir-495\|rno-mir-495 [Source:miRBase;Acc:MI0006152] ## {MIR: rno-mir-495}
human	chromosome:14:100569845:100569936:1	Same_strand\|Boundary_non-coding\|ENST00000385010\|ENSG00000207743\|miRNA\|hsa-mir-495 [Source:miRBase;Acc:MI0003135] ## {MIR: hsa-mir-495}
mouse	chromosome:12:110956937:110957056:1	Same_strand\|Boundary_non-coding\|ENSMUST00000093597\|ENSMUSG00000070105\|miRNA\|mmu-mir-495 [Source:miRBase;Acc:MI0004639] ## {MIR: mmu-mir-495}

rno-mir-412

Cloning frequencies
absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-412 5arm	157	126	3	1	1	1	0	0	0	2
rno-mir-412 3arm	85	69	1	0	0	0	0	0	0	5
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-412 5arm	0.005	0.005	0.000	0.000	0.000	0.000	0	0	0	0.000
rno-mir-412 3arm	0.003	0.003	0.000	0	0	0	0	0	0	0.000

sblock10520 (miRBase rno-mir-412) [miRNAknown_cloningHIGH_multiarm_DicerNOK_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
miRBase rno-mir-412	0.009	no	no	0.33/0.62	18/24/0.71	0.0 0.0 0.0	0.9 0.0 0.3	221 1 64	0 0 0	6 1 4	0 0 0	8 31 5	3 -19 7	5arm 5arm_loop_3arm 3arm	1 1 1	nd nd nd	0.18 0.29 0.14	2 4 1	451	7	3	4

Clusters
Located in cluster 76: rno-mir-541, rno-mir-409, rno-mir-412, rno-mir-369, rno-mir-410

		reads	miRBase family seed
seed	------------------------GGUCGAC------------------------------------------------------------------------	265	novel
seed	------------------------------------------------------------UUCACCU------------------------------------	100	novel
seed	----------------------------------------------------------ACUUCAC--------------------------------------	33	novel
seed	-----------------------UGGUCGA-------------------------------------------------------------------------	23	novel
seed	-----------------------------------------------------------CUUCACC-------------------------------------	10	miR-412
seed	---------------------------------------------------------UACUUCA---------------------------------------	8	novel
seed	-------------------------------------------------------------UCACCUG-----------------------------------	7	novel
seed	-------------------------------------------------------UGUACUU-----------------------------------------	1	novel
seed	--------------------------------------------------------GUACUUC----------------------------------------	1	novel
seed	-------------------------GUCGACC-----------------------------------------------------------------------	1	novel
seed	----------------------AUGGUCG--------------------------------------------------------------------------	1	novel
seed	-----------------------------------------------GUUUCUA-------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T5S2
	-----------------------TGGTCGACCAGCTGGAAAGT------------------------------------------------------------	20	52	42	1	-	1	-	1
	-----------------------TGGTCGACCAGCTGGAAAG-------------------------------------------------------------	19	42	24	1	-	-	-	-
	-----------------------------------------------------------CTTCACCTGGTCCACTAGCC------------------------	20	28	19	-	-	-	-	2
	-----------------------TGGTCGACCAGCTGGAAAGTAA----------------------------------------------------------	22	16	29	-	-	-	-	-
	-----------------------TGGTCGACCAGCTGGAAA--------------------------------------------------------------	18	16	13	-	-	-	1	1
	-----------------------------------------------------------CTTCACCTGGTCCACTAGCCG-----------------------	21	17	7	-	-	-	-	-
	-----------------------TGGTCGACCAGCTGGAAAGTAAT---------------------------------------------------------	23	8	9	-	-	-	-	-
	----------------------ATGGTCGACCAGCTGGAAAGT------------------------------------------------------------	21	11	4	-	-	-	-	-
	---------------------------------------------------------TACTTCACCTGGTCCACTAGCC------------------------	22	3	8	1	-	-	-	-
	-----------------------------------------------------------CTTCACCTGGTCCACTAGC-------------------------	19	6	5	-	-	-	-	-
	-----------------------------------------------------------CTTCACCTGGTCCACTAGCCGTC---------------------	23	2	6	-	-	-	-	2
	-----------------------TGGTCGACCAGCTGGAAAGTA-----------------------------------------------------------	21	3	4	1	-	-	-	-
	---------------------------------------------------------TACTTCACCTGGTCCACTAGC-------------------------	21	4	3	-	-	-	-	-
	----------------------------------------------------------ACTTCACCTGGTCCACTAGCC------------------------	21	2	4	-	-	-	-	1
	---------------------------------------------------------TACTTCACCTGGTCCACTAG--------------------------	20	4	2	-	-	-	-	-
	-----------------------------------------------------------CTTCACCTGGTCCACTAG--------------------------	18	4	1	-	-	-	-	-
	---------------------------------------------------------TACTTCACCTGGTCCACTA---------------------------	19	3	2	-	-	-	-	-
	----------------------ATGGTCGACCAGCTGGAAAG-------------------------------------------------------------	20	4	-	-	-	-	-	-
	--------------------------------------------------------GTACTTCACCTGGTCCACTAGCC------------------------	23	1	3	-	-	-	-	-
	------------------------------------------------------------TTCACCTGGTCCACTAGCC------------------------	19	2	1	-	-	-	-	-
	---------------------------------------------------------TACTTCACCTGGTCCACT----------------------------	18	2	1	-	-	-	-	-
	------------------------------------------------------------TTCACCTGGTCCACTAGCCG-----------------------	20	-	3	-	-	-	-	-
	----------------------------------------------------------ACTTCACCTGGTCCACTAG--------------------------	19	2	-	-	-	-	-	-
	----------------------ATGGTCGACCAGCTGGAA---------------------------------------------------------------	18	2	-	-	-	-	-	-
	--------------------------------------------------------GTACTTCACCTGGTCCACT----------------------------	19	2	-	-	-	-	-	-
	--------------------------------------------------------GTACTTCACCTGGTCCACTAGC-------------------------	22	-	1	-	-	-	-	-
	--------------------------------------------------------GTACTTCACCTGGTCCAC-----------------------------	18	1	-	-	-	-	-	-
	----------------------------------------------TGTTTCTAATGTACTTCACCT------------------------------------	21	-	-	-	1	-	-	-
	---------------------GATGGTCGACCAGCTGGAAAGT------------------------------------------------------------	22	1	-	-	-	-	-	-
	------------------------------------------------------------TTCACCTGGTCCACTAGC-------------------------	18	-	1	-	-	-	-	-
	----------------------ATGGTCGACCAGCTGGAAAGTAA----------------------------------------------------------	23	1	-	-	-	-	-	-
	----------------------------------------------------------ACTTCACCTGGTCCACTAGC-------------------------	20	1	-	-	-	-	-	-
	------------------------GGTCGACCAGCTGGAAAGTAA----------------------------------------------------------	21	1	-	-	-	-	-	-
	------------------------------------------------------ATGTACTTCACCTGGTCCACTA---------------------------	22	-	1	-	-	-	-	-
	----------------------ATGGTCGACCAGCTGGAAAGTAAT---------------------------------------------------------	24	-	1	-	-	-	-	-
	-----------------------------------------------------------CTTCACCTGGTCCACTAGCCGT----------------------	22	-	1	-	-	-	-	-
	-------------------------------------------------------TGTACTTCACCTGGTCCACTAGCC------------------------	24	1	-	-	-	-	-	-
rno-miR-412	----------------------------------------------------------ACTTCACCTGGTCCACTAGCCGT----------------------	23	-	-	-	-	-	-	-
rat	---------------GGGACGGATGGTCGACCAGCTGGAAAGTAATTGTTTCTAATGTACTTCACCTGGTCCACTAGCCGTCGGT------------------
human	CCATTCTGGGGTACGGGGATGGATGGTCGACCAGTTGGAAAGTAATTGTTTCTAATGTACTTCACCTGGTCCACTAGCCGTCCGTATCCGCTGCAGCCTGTGG
mouse	-CGCTCTGGGGTAT-GGGACGGATGGTCGACCAGCTGGAAAGTAATTGTTTCTAATGTACTTCACCTGGTCCACTAGCCGTCGGTGCCCGCTGCAGCCTGCG-
	** ********** *******************************************
	>>>>> >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>.	ENSRNOT00000053613 ENSRNOG00000035490 rno-mir-412
rat	..(((((.((((.((((((.(((..((((((((....)))).))))))).)))))).)))).)))))...	1.000 -26.30
human	((((...((.((((((..(((((((((.((((((.(((..((((((((....)))).))))))).)))))).....)))))))))..))).)))..)).))))	0.988 -38.40
mouse	(((.((((((((( ..(((((.((((.((((((.(((..((((((((....)))).))))))).)))))).)))).))))).))))))....)))...)))	0.847 -37.50

rat	chromosome:6:134424656:134424725:1	Same_strand\|Exonic_non-coding\|ENSRNOT00000053613\|ENSRNOG00000035490 ## Same_strand\|Boundary_non-coding\|ENSRNOT00000053613\|ENSRNOG00000035490 ## ENSRNOG00000035490\|miRNA\|rno-mir-412\|rno-mir-412 [Source:miRBase;Acc:MI0003488] ## {MIR: rno-mir-412}
human	chromosome:14:100601532:100601634:1	Same_strand\|Boundary_non-coding\|ENST00000362142\|ENSG00000199012\|miRNA\|hsa-mir-412 [Source:miRBase;Acc:MI0002464] ## {SimpF: oe = 0.96 0 CpG} ## {MIR: hsa-mir-412}
mouse	chromosome:12:110981492:110981591:1	Same_strand\|Boundary_non-coding\|ENSMUST00000083636\|ENSMUSG00000065570\|miRNA\|mmu-mir-412 [Source:miRBase;Acc:MI0001164] ## {MIR: mmu-mir-412}

rno-mir-331

Cloning frequencies
absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-331 5arm	22	14	1	1	4	2	1	2	0	6
rno-mir-331 3arm	7502	6692	648	521	821	672	916	1424	1245	1320
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-331 5arm	0.001	0.001	0.000	0.000	0.000	0.000	0.000	0.000	0	0.000
rno-mir-331 3arm	0.249	0.292	0.035	0.031	0.040	0.051	0.071	0.075	0.082	0.088

sblock10793 (miRBase rno-mir-331) [miRNAknown_cloningHIGH_multiarm_DicerNOK_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
miRBase rno-mir-331	0.001	no	no	0.42/0.68	18/24/0.72	1.1 0.2 0.2 0.0 0.0	1.1 0.2 0.0 0.0 0.4	9 5 21 1 9516	0 0 0 0 0	2 3 8 1 10	0 0 0 0 0	3 20 24 29 14	20 7 2 -12 1	5arm 5arm 5arm 3arm_loop 3arm	1 1 1 1 1	nd nd nd nd nd	0.24 0.11 0.20 0.65 0.10	4 1 2 11 1	21814	10	-1	2

Families
Member of family miR-331 (seed CCCCUGG): rno-mir-331, block2253103_cand

		reads	miRBase family seed
seed	------------------------------------------------------------------CCCCUGG-----------------------------------------	19549	miR-331
seed	-------------------------------------------------------------------CCCUGGG----------------------------------------	2202	novel
seed	-------------------------------UAGGUAU----------------------------------------------------------------------------	29	novel
seed	------------------------------CUAGGUA-----------------------------------------------------------------------------	9	novel
seed	--------------------------------------------------------------------CCUGGGC---------------------------------------	8	novel
seed	--------------------------UGUUCUA---------------------------------------------------------------------------------	4	novel
seed	------------GUCUUGU-----------------------------------------------------------------------------------------------	3	novel
seed	-----------GGUCUUG------------------------------------------------------------------------------------------------	2	novel
seed	----------UGGUCUU-------------------------------------------------------------------------------------------------	2	novel
seed	---------CUGGUCU--------------------------------------------------------------------------------------------------	1	novel
seed	-------------UCUUGUU----------------------------------------------------------------------------------------------	1	novel
seed	---------------------------------------------------------------------CUGGGCC--------------------------------------	1	novel
seed	-----------------------------------------------------AGAUCAA------------------------------------------------------	1	novel
seed	---------------------------GUUCUAG--------------------------------------------------------------------------------	1	novel
seed	--------------------------------AGGUAUG---------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	-----------------------------------------------------------------GCCCCTGGGCCTATCCTAGA-----------------------------	20	3849	3254	323	220	401	322	368	557	668	629
	-----------------------------------------------------------------GCCCCTGGGCCTATCCTAGAAC---------------------------	22	1223	814	69	86	163	115	182	227	142	177
	-----------------------------------------------------------------GCCCCTGGGCCTATCCTAG------------------------------	19	756	1190	90	64	68	73	89	135	129	189
	-----------------------------------------------------------------GCCCCTGGGCCTATCCTA-------------------------------	18	693	675	67	52	61	58	84	121	141	94
	------------------------------------------------------------------CCCCTGGGCCTATCCTAGA-----------------------------	19	338	241	26	29	38	30	71	130	49	56
rno-miR-331	-----------------------------------------------------------------GCCCCTGGGCCTATCCTAGAA----------------------------	21	205	160	26	36	38	32	25	79	48	97
	------------------------------------------------------------------CCCCTGGGCCTATCCTAGAA----------------------------	20	126	117	22	15	18	13	22	60	24	24
	------------------------------------------------------------------CCCCTGGGCCTATCCTAGAAC---------------------------	21	131	66	11	14	13	10	33	45	14	14
	------------------------------------------------------------------CCCCTGGGCCTATCCTAG------------------------------	18	101	111	10	3	12	10	17	23	15	24
	-----------------------------------------------------------------GCCCCTGGGCCTATCCTAGAACC--------------------------	23	54	45	2	1	6	6	15	25	10	11
	------------------------------------------------------------------CCCCTGGGCCTATCCTAGAACC--------------------------	22	15	14	2	1	3	2	7	12	1	5
	------------------------------CTAGGTATGGTCCCAGGGA-----------------------------------------------------------------	19	9	8	-	1	1	-	-	1	-	2
	------------------------------------------------------------------CCCCTGGGCCTATCCTAGAACCA-------------------------	23	5	1	-	-	-	-	1	5	2	-
	-----------------------------------------------------------------GCCCCTGGGCCTATCCTAGAACCA-------------------------	24	3	3	-	-	-	-	-	3	1	-
	-----------------------------TCTAGGTATGGTCCCAGGGA-----------------------------------------------------------------	20	1	4	-	-	-	-	-	-	-	2
	-------------------------------------------------------------------CCCTGGGCCTATCCTAGA-----------------------------	18	2	-	-	-	-	1	-	2	1	-
	-----------GGTCTTGTTTGGGTTTGTTC-----------------------------------------------------------------------------------	20	2	-	-	-	1	-	-	-	-	-
	------------------------------CTAGGTATGGTCCCAGGGATC---------------------------------------------------------------	21	-	1	-	-	1	-	1	-	-	-
	-------------------------TTGTTCTAGGTATGGTCCC----------------------------------------------------------------------	19	2	-	-	-	-	1	-	-	-	-
	------------------------------CTAGGTATGGTCCCAGGG------------------------------------------------------------------	18	-	-	-	-	-	-	-	-	-	2
	------------------------------CTAGGTATGGTCCCAGGGATCCC-------------------------------------------------------------	23	1	1	-	-	-	-	-	-	-	-
	--------------------------TGTTCTAGGTATGGTCCC----------------------------------------------------------------------	18	1	-	-	-	-	-	-	-	-	-
	---------CTGGTCTTGTTTGGGTTTGT-------------------------------------------------------------------------------------	20	1	-	-	-	-	-	-	-	-	-
	-----------------------------TCTAGGTATGGTCCCAGGG------------------------------------------------------------------	19	1	-	-	-	-	-	-	-	-	-
	--------------------------------------------------------------------CCTGGGCCTATCCTAGAAC---------------------------	19	1	-	-	-	-	-	-	-	-	-
	-------------------------------TAGGTATGGTCCCAGGGA-----------------------------------------------------------------	18	-	-	-	-	-	-	-	1	-	-
	---------CTGGTCTTGTTTGGGTTTG--------------------------------------------------------------------------------------	19	1	-	-	-	-	-	-	-	-	-
	--------TCTGGTCTTGTTTGGGTTTG--------------------------------------------------------------------------------------	20	1	-	-	-	-	-	-	-	-	-
	-------------------------TTGTTCTAGGTATGGTCC-----------------------------------------------------------------------	18	-	-	1	-	-	-	-	-	-	-
	-------------------------------------------------------------------CCCTGGGCCTATCCTAGAAC---------------------------	20	-	-	-	-	-	-	1	-	-	-
	-----------------------------TCTAGGTATGGTCCCAGG-------------------------------------------------------------------	18	-	-	-	-	-	1	-	-	-	-
	------------GTCTTGTTTGGGTTTGTTC-----------------------------------------------------------------------------------	19	-	-	-	-	1	-	-	-	-	-
	----------TGGTCTTGTTTGGGTTTGT-------------------------------------------------------------------------------------	19	1	-	-	-	-	-	-	-	-	-
	-------------------------------------------------------------------CCCTGGGCCTATCCTAGAA----------------------------	19	-	1	-	-	-	-	-	-	-	-
	----------------------------------------------------CAGATCAAACCAGGCCCCTG------------------------------------------	20	-	-	-	-	-	-	1	-	-	-
	----------TGGTCTTGTTTGGGTTTGTTC-----------------------------------------------------------------------------------	21	1	-	-	-	-	-	-	-	-	-
rat	-----GAGTCTGGTCTTGTTTGGGTTTGTTCTAGGTATGGTCCCAGGGATCCCAGATCAAACCAGGCCCCTGGGCCTATCCTAGAACCAACCTAAACCCAT-------------
human	CCAAGGAGTTTGGTTTTGTTTGGGTTTGTTCTAGGTATGGTCCCAGGGATCCCAGATCAAACCAGGCCCCTGGGCCTATCCTAGAACCAACCTAAGCTCGCGCATCATTCCTGG
mouse	CCAAGGAGTCTGGTTTTGTTTGGGTTTGTTCTAGGTATGGTCCCAGGGATCCCAGATCAAACCAGGCCCCTGGGCCTATCCTAGAACCAACCTAAACCCGTGCATCATTCCTGG
	** ****************************************************************************** * *
	..... >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> .....	ENSRNOT00000053666 ENSRNOG00000035543 rno-mir-331
rat	.....(((....(((((((((.((((((((.((((.(((((((..(.............)..))))))).)))))))))))).)))))))))))).	1.000 -44.32
human	((.((((((.((((...(((((((((.((((((((.((((.(((((((...((...........)).))))))).)))))))))))).)))))))))..)).))..))))))))	0.998 -52.00
mouse	((.((((((...((...(((((((((.((((((((.((((.(((((((...((...........)).))))))).)))))))))))).)))))))))....))...))))))))	0.998 -51.60

rat	chromosome:7:31089764:31089859:-1	Same_strand\|Exonic_non-coding\|ENSRNOT00000053666\|ENSRNOG00000035543 ## Same_strand\|Boundary_non-coding\|ENSRNOT00000053666\|ENSRNOG00000035543 ## ENSRNOG00000035543\|miRNA\|rno-mir-331\|rno-mir-331 [Source:miRBase;Acc:MI0000608] ## {MIR: rno-mir-331}
human	chromosome:12:94226322:94226435:1	Same_strand\|Boundary_non-coding\|ENST00000362302\|ENSG00000199172\|miRNA\|hsa-mir-331 [Source:miRBase;Acc:MI0000812] ## {MIR: hsa-mir-331}
mouse	chromosome:10:93426500:93426613:-1	Same_strand\|Boundary_non-coding\|ENSMUST00000092214\|ENSMUSG00000036099\|protein_coding\|vezatin, adherens junctions transmembrane protein Gene [Source:MGI (curated);Acc:Vezt-001] ## Same_strand\|Exonic_non-coding\|ENSMUST00000119818\|ENSMUSG00000036099\|protein_coding\|vezatin, adherens junctions transmembrane protein Gene [Source:MGI (curated);Acc:Vezt-001] ## {MIR: mmu-mir-331}

rno-mir-30d

Cloning frequencies
absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-30d 5arm	23415	15623	12622	13255	9228	11467	18626	28805	20168	22940
rno-mir-30d 3arm	19	4	21	2	17	11	3	10	9	12
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-30d 5arm	0.778	0.682	0.684	0.786	0.449	0.869	1.449	1.516	1.330	1.526
rno-mir-30d 3arm	0.001	0.000	0.001	0.000	0.001	0.001	0.000	0.001	0.001	0.001

sblock10933 (miRBase rno-mir-30d) [miRNAknown_cloningHIGH_multiarm_DicerNOK_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
miRBase rno-mir-30d	0.002	no	no	0.37/0.61	18/26/0.71	0.0 0.0	2.3 0.5	148427 77	0 0	10 10	0 0	11 11	6 6	5arm 3arm	1 1	nd nd	0.13 0.06	3 1	176257	10	2	0

Families
Member of family miR-30a/30b/30c/30d/30e/384 (seed GUAAACA): rno-mir-30a, rno-mir-30c, rno-mir-384, rno-mir-30c, rno-mir-30b, rno-mir-30d, rno-mir-30e, block72173_cand, block948481_cand

		reads	miRBase family seed
seed	--------------------------------GUAAACA---------------------------------------------------------------------------------	173649	miR-30a/30b/30c/30d/30e/384
seed	---------------------------------UAAACAU--------------------------------------------------------------------------------	2458	novel
seed	------------------------------------------------------------------------UUUCAGU-----------------------------------------	102	miR-30a/30d/30e*
seed	------------------------------------ACAUCCC-----------------------------------------------------------------------------	11	novel
seed	----------------------------------AAACAUC-------------------------------------------------------------------------------	11	novel
seed	-----------------------------------AACAUCC------------------------------------------------------------------------------	9	novel
seed	-------------------------------------CAUCCCC----------------------------------------------------------------------------	8	novel
seed	-------------------------------------------------------------------------UUCAGUC----------------------------------------	6	novel
seed	-------------------------------UGUAAAC----------------------------------------------------------------------------------	3	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	-------------------------------TGTAAACATCCCCGACTGGAAGC------------------------------------------------------------------	23	3231	2921	2082	2622	879	2070	3917	6146	4268	4585
	-------------------------------TGTAAACATCCCCGACTG-----------------------------------------------------------------------	18	4553	2767	2090	2659	1980	2137	3447	5216	3537	3616
	-------------------------------TGTAAACATCCCCGACTGGAAGCT-----------------------------------------------------------------	24	4323	3121	2961	2676	1501	1830	3444	5001	3758	3219
	-------------------------------TGTAAACATCCCCGACTGGA---------------------------------------------------------------------	20	4083	2298	2013	2024	1518	1967	3076	4673	3038	4263
	-------------------------------TGTAAACATCCCCGACTGGAA--------------------------------------------------------------------	21	3324	2277	1306	1589	783	1816	2412	3841	3028	3571
	-------------------------------TGTAAACATCCCCGACTGG----------------------------------------------------------------------	19	2808	1579	1494	1067	2185	1159	1513	2635	1599	2564
rno-miR-30d	-------------------------------TGTAAACATCCCCGACTGGAAG-------------------------------------------------------------------	22	716	438	484	411	231	318	560	884	694	813
	--------------------------------GTAAACATCCCCGACTGGAAGCT-----------------------------------------------------------------	23	96	65	60	53	43	36	65	107	63	63
	--------------------------------GTAAACATCCCCGACTGGAAGC------------------------------------------------------------------	22	64	54	34	52	16	41	71	112	57	77
	--------------------------------GTAAACATCCCCGACTGGA---------------------------------------------------------------------	19	79	33	27	37	26	29	42	71	36	64
	--------------------------------GTAAACATCCCCGACTGGAA--------------------------------------------------------------------	20	69	31	19	31	18	42	48	43	41	50
	--------------------------------GTAAACATCCCCGACTGG----------------------------------------------------------------------	18	47	25	35	21	37	16	19	36	30	35
	--------------------------------GTAAACATCCCCGACTGGAAG-------------------------------------------------------------------	21	11	9	10	9	8	6	5	10	7	15
	-----------------------------------------------------------------------CTTTCAGTCAGATGTTTGC------------------------------	19	8	1	9	-	8	3	1	5	4	4
	-----------------------------------------------------------------------CTTTCAGTCAGATGTTTG-------------------------------	18	5	1	8	-	6	2	2	5	2	3
	-------------------------------TGTAAACATCCCCGACTGGAAGCTG----------------------------------------------------------------	25	3	2	3	-	2	-	1	14	4	-
	-----------------------------------------------------------------------CTTTCAGTCAGATGTTTGCT-----------------------------	20	4	2	-	1	1	5	-	-	2	2
	-------------------------------TGTAAACATCCCCGACTGGAAGCTGT---------------------------------------------------------------	26	1	-	1	-	-	-	1	2	5	1
	-----------------------------------AACATCCCCGACTGGAAGC------------------------------------------------------------------	19	1	1	-	2	1	-	-	3	1	1
	-----------------------------------------------------------------------CTTTCAGTCAGATGTTTGCTG----------------------------	21	2	-	2	-	1	-	-	-	1	1
	------------------------------------ACATCCCCGACTGGAAGCT-----------------------------------------------------------------	19	1	-	-	-	-	-	2	2	-	-
	---------------------------------TAAACATCCCCGACTGGAAGCT-----------------------------------------------------------------	22	-	1	1	-	-	-	-	1	-	1
	------------------------------------ACATCCCCGACTGGAAGC------------------------------------------------------------------	18	1	-	2	-	-	-	-	-	-	-
	----------------------------------AAACATCCCCGACTGGAAGC------------------------------------------------------------------	20	-	-	-	1	-	-	-	2	-	-
	------------------------------------------------------------------------TTTCAGTCAGATGTTTGCT-----------------------------	19	-	-	-	1	-	-	-	-	-	2
	---------------------------------TAAACATCCCCGACTGGAAGC------------------------------------------------------------------	21	2	-	-	-	-	-	-	-	-	1
	----------------------------------AAACATCCCCGACTGGAAGCT-----------------------------------------------------------------	21	-	-	-	-	-	-	2	1	-	-
	----------------------------------AAACATCCCCGACTGGAAG-------------------------------------------------------------------	19	-	-	-	-	-	-	1	1	-	-
	------------------------------------------------------------------------TTTCAGTCAGATGTTTGC------------------------------	18	-	-	1	-	-	1	-	-	-	-
	---------------------------------TAAACATCCCCGACTGGA---------------------------------------------------------------------	18	-	-	-	-	-	-	-	2	-	-
	------------------------------------------------------------------------TTTCAGTCAGATGTTTGCTGCT--------------------------	22	-	-	-	-	1	-	-	-	-	-
	-----------------------------------------------------------------------CTTTCAGTCAGATGTTTGCTGCT--------------------------	23	-	-	1	-	-	-	-	-	-	-
	------------------------------CTGTAAACATCCCCGACTGGAAGC------------------------------------------------------------------	24	-	-	-	-	-	-	-	-	1	-
	------------------------------CTGTAAACATCCCCGACT------------------------------------------------------------------------	18	-	-	-	1	-	-	-	-	-	-
	---------------------------------TAAACATCCCCGACTGGAA--------------------------------------------------------------------	19	1	-	-	-	-	-	-	-	-	-
	--------------------------------GTAAACATCCCCGACTGGAAGCTG----------------------------------------------------------------	24	-	-	-	-	-	-	-	-	-	1
	---------------------------------TAAACATCCCCGACTGGAAG-------------------------------------------------------------------	20	-	-	-	-	-	-	-	-	1	-
	--------------------------------GTAAACATCCCCGACTGGAAGCTGT---------------------------------------------------------------	25	-	-	-	-	-	-	-	1	-	-
	------------------------------CTGTAAACATCCCCGACTGGAAG-------------------------------------------------------------------	23	-	-	-	-	-	-	-	1	-	-
	-----------------------------------AACATCCCCGACTGGAAG-------------------------------------------------------------------	18	1	-	-	-	-	-	-	-	-	-
	----------------------------------AAACATCCCCGACTGGAA--------------------------------------------------------------------	18	-	1	-	-	-	-	-	-	-	-
rno-miR-30d*	-----------------------------------------------------------------------CTTTCAGTCAGATGTTTGCTGC---------------------------	22	-	-	-	-	-	-	-	-	-	-
rat	--------------------AAGTCTGTGTCTGTAAACATCCCCGACTGGAAGCTGTAAGCCACAGCCAAGCTTTCAGTCAGATGTTTGCTGCTACTGGCTC------------------
human	-------------------------------TGTAAACATCCCCGACTGGAAGCTGTAAGACACAGCTAAGCTTTCAGTCAGATGTTTGCT-----------------------------
mouse	CTTTGTAGCTTGCTGTCAGAAAGTCTGTGTCTGTAAACATCCCCGACTGGAAGCTGTAAGCCACAGCCAAGCTTTCAGTCAGATGTTTGCTGCTACTGGCTCTTCGAATGCATCTTTTGG
	*************************** ** *********************
	..... >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> .....	ENSRNOT00000053734 ENSRNOG00000035611 rno-mir-30d
rat	.((((.(((.(.(((((((((...(((((((((((....((....))..))))))))))).))))))))).).))).)))).	1.000 -34.00
human	.(((((((((...(((((((((((...((......)).))))))))))).))))))))).	1.000 -26.70
mouse	..........(((..((.(((((((.(((...(((((((((...(((((((((((....((....))..))))))))))).)))))))))...))).)))).)))))..)))........	0.943 -39.00

rat	chromosome:7:105819720:105819801:-1	Same_strand\|Exonic_non-coding\|ENSRNOT00000053734\|ENSRNOG00000035611 ## ENSRNOG00000035611\|miRNA\|rno-mir-30d\|rno-mir-30d [Source:miRBase;Acc:MI0000869] ## {MIR: rno-mir-30d}
human	chromosome:8:135886275:135886396:-1	Same_strand\|Boundary_non-coding\|ENST00000362283\|ENSG00000199153\|miRNA\|hsa-mir-30d [Source:miRBase;Acc:MI0000255] ## {MIR: hsa-mir-30d}
mouse	chromosome:15:68172752:68172871:-1	Same_strand\|Boundary_non-coding\|ENSMUST00000083503\|ENSMUSG00000065437\|miRNA\|mmu-mir-30d [Source:miRBase;Acc:MI0000549] ## {MIR: mmu-mir-30d}

rno-mir-125b

Cloning frequencies
absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-125b 5arm	130583	130969	11198	12085	19031	13479	38806	56573	23274	26339
rno-mir-125b 3arm	1467	1144.500	131	138.500	231.500	155.500	430.500	518	277.500	277
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-125b 5arm	4.340	5.716	0.606	0.717	0.927	1.022	3.018	2.977	1.534	1.752
rno-mir-125b 3arm	0.049	0.050	0.007	0.008	0.011	0.012	0.033	0.027	0.018	0.018

sblock11981 (miRBase rno-mir-125b-1) [miRNAknown_cloningHIGH_multiarm_DicerNOK_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
miRBase rno-mir-125b-1	0.001	no	no	0.33/0.64	18/26/0.71	0.0 0.0 0.0	0.7 0.0 0.3	223512 3 91	0 0 0	10 2 9	0 0 0	14 36 13	6 -12 7	5arm 5arm_loop_3arm 3arm	2 2 2	nd nd nd	0.21 0.33 0.25	2 5 2	456500	10	2	0

		reads	miRBase family seed
seed	-------------------------CCCUGAG-----------------------------------------------------------------------------	451678	miR-125a/125b/351
seed	--------------------------CCUGAGA----------------------------------------------------------------------------	4450	novel
seed	-----------------------------------------------------------------CGGGUUA-------------------------------------	137	miR-125b
seed	------------------------UCCCUGA------------------------------------------------------------------------------	88	novel
seed	---------------------------CUGAGAC---------------------------------------------------------------------------	63	novel
seed	----------------------------UGAGACC--------------------------------------------------------------------------	42	novel
seed	----------------------------------------------------------------ACGGGUU--------------------------------------	16	novel
seed	--------------------------------------------------------------CCACGGG----------------------------------------	14	novel
seed	-----------------------------------------------GUUUACC-------------------------------------------------------	3	novel
seed	------------------------------AGACCCU------------------------------------------------------------------------	3	novel
seed	-----------------------------GAGACCC-------------------------------------------------------------------------	3	novel
seed	-----------------------GUCCCUG-------------------------------------------------------------------------------	2	novel
seed	---------------------------------------------------------------CACGGGU---------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-miR-125b-5p	------------------------TCCCTGAGACCCTAACTTGTGA---------------------------------------------------------------	22	62318	60186	5051	5804	9180	6087	20112	26796	11824	12623
	------------------------TCCCTGAGACCCTAACTTG------------------------------------------------------------------	19	26431	27669	3026	2551	4390	3276	6666	11497	4649	4503
	------------------------TCCCTGAGACCCTAACTTGT-----------------------------------------------------------------	20	17445	17976	1013	1139	2028	1472	4207	7092	2411	3257
	------------------------TCCCTGAGACCCTAACTTGTG----------------------------------------------------------------	21	9835	11196	811	1249	1719	1270	3876	5460	2293	3375
	------------------------TCCCTGAGACCCTAACTT-------------------------------------------------------------------	18	10879	10537	854	911	1166	980	2687	4005	1418	1825
	-------------------------CCCTGAGACCCTAACTTGTGA---------------------------------------------------------------	21	672	701	91	63	110	77	318	370	134	95
	------------------------TCCCTGAGACCCTAACTTGTGAT--------------------------------------------------------------	23	518	461	139	142	118	82	227	362	136	144
	-------------------------CCCTGAGACCCTAACTTGT-----------------------------------------------------------------	19	210	202	20	13	19	17	49	106	36	34
	-------------------------CCCTGAGACCCTAACTTG------------------------------------------------------------------	18	215	163	14	13	26	16	50	62	14	21
	-------------------------CCCTGAGACCCTAACTTGTG----------------------------------------------------------------	20	90	141	16	24	19	14	69	66	28	19
	------------------------TCCCTGAGACCCTAACTTGTGATGT------------------------------------------------------------	25	80	69	2	1	4	-	25	28	28	49
	----------------------------------------------------------------ACGGGTTAGGCTCTTGGGA--------------------------	19	28	22	-	-	-	1	2	10	2	-
	----------------------------------------------------------------ACGGGTTAGGCTCTTGGGAG-------------------------	20	20	11	-	1	1	-	2	4	1	1
	--------------------------CCTGAGACCCTAACTTGTGA---------------------------------------------------------------	20	16	10	-	1	1	3	1	5	-	4
	-----------------------GTCCCTGAGACCCTAACTTGTGA---------------------------------------------------------------	23	10	10	3	-	3	1	3	6	2	1
	---------------------------CTGAGACCCTAACTTGTGA---------------------------------------------------------------	19	9	13	-	1	2	2	-	3	2	4
	------------------------TCCCTGAGACCCTAACTTGTGATG-------------------------------------------------------------	24	7	11	-	1	2	-	1	4	4	2
	-------------------------CCCTGAGACCCTAACTTGTGAT--------------------------------------------------------------	22	11	5	1	5	1	-	2	2	1	-
	-----------------------GTCCCTGAGACCCTAACT--------------------------------------------------------------------	18	5	4	-	-	-	-	2	4	-	1
	----------------------------------------------------------------ACGGGTTAGGCTCTTGGG---------------------------	18	8	1	-	-	2	-	1	3	-	-
	----------------------------------------------------------------ACGGGTTAGGCTCTTGGGAGC------------------------	21	7	1	-	1	-	1	2	1	1	-
	---------------------------------------------------------------CACGGGTTAGGCTCTTGGGA--------------------------	20	8	3	-	-	-	-	-	1	-	1
	--------------------------CCTGAGACCCTAACTTGTG----------------------------------------------------------------	19	1	3	2	-	-	-	1	3	1	1
	-----------------------GTCCCTGAGACCCTAACTT-------------------------------------------------------------------	19	4	4	-	-	1	-	1	1	-	-
	-----------------------GTCCCTGAGACCCTAACTTGT-----------------------------------------------------------------	21	1	1	-	-	1	1	-	5	-	1
	--------------------------CCTGAGACCCTAACTTGT-----------------------------------------------------------------	18	3	2	-	-	1	1	-	2	-	1
	-----------------------GTCCCTGAGACCCTAACTTGTG----------------------------------------------------------------	22	3	-	-	-	-	1	2	1	-	-
	------------------------TCCCTGAGACCCTAACTTGTGATGTT-----------------------------------------------------------	26	4	1	-	-	-	-	1	-	-	-
	---------------------------CTGAGACCCTAACTTGTG----------------------------------------------------------------	18	-	2	-	-	2	-	1	-	-	1
	-------------------------------------------------------------TCCACGGGTTAGGCTCTTG-----------------------------	19	2	2	-	-	-	-	-	-	-	1
	-------------------------------------------------------------TCCACGGGTTAGGCTCTT------------------------------	18	2	3	-	-	-	-	-	-	-	-
	-----------------------GTCCCTGAGACCCTAACTTG------------------------------------------------------------------	20	2	2	-	-	-	-	1	-	-	-
	-------------------------CCCTGAGACCCTAACTTGTGATGT------------------------------------------------------------	24	1	1	-	-	-	-	1	2	-	-
	-----------------------------GAGACCCTAACTTGTGAT--------------------------------------------------------------	18	-	1	-	1	-	-	-	1	-	-
	----------------------------------------------TGTTTACCGTTTAAATCC---------------------------------------------	18	-	1	-	-	-	-	-	2	-	-
	----------------------AGTCCCTGAGACCCTAAC---------------------------------------------------------------------	18	1	1	-	-	-	-	-	-	-	-
	----------------------------TGAGACCCTAACTTGTGAT--------------------------------------------------------------	19	-	2	-	-	-	-	-	-	-	-
	-------------------------------------------------------------TCCACGGGTTAGGCTCTTGG----------------------------	20	2	-	-	-	-	-	-	-	-	-
rno-miR-125b-3p	----------------------------------------------------------------ACGGGTTAGGCTCTTGGGAGCT-----------------------	22	-	1	-	-	-	-	-	1	-	-
	-------------------------------------------------------------TCCACGGGTTAGGCTCTTGGGA--------------------------	22	-	-	-	-	-	-	-	1	-	-
	--------------------------------------------------------------CCACGGGTTAGGCTCTTGGGA--------------------------	21	1	-	-	-	-	-	-	-	-	-
	----------------------------TGAGACCCTAACTTGTGA---------------------------------------------------------------	18	-	-	-	-	-	-	-	1	-	-
	---------------------------------------------------------------CACGGGTTAGGCTCTTGGGAGC------------------------	22	1	-	-	-	-	-	-	-	-	-
	---------------------------------------------------------------CACGGGTTAGGCTCTTGGGAG-------------------------	21	1	-	-	-	-	-	-	-	-	-
	-------------------------------------------------------------TCCACGGGTTAGGCTCTTGGGAG-------------------------	23	-	-	-	-	-	-	-	1	-	-
	---------------------------------------------------------------CACGGGTTAGGCTCTTGG----------------------------	18	1	-	-	-	-	-	-	-	-	-
rat	----------TGCGCTCCCCTCAGTCCCTGAGACCCTAACTTGTGATGTTTACCGTTTAAATCCACGGGTTAGGCTCTTGGGAGCTGCGAGTCGTGC------------
human	----CATTGTTGCGCTCCTCTCAGTCCCTGAGACCCTAACTTGTGATGTTTACCGTTTAAATCCACGGGTTAGGCTCTTGGGAGCTGCGAGTCGTGCTTTTGCATCCTG
mouse	GGAATCGTGTTGCGCTCCCCTCAGTCCCTGAGACCCTAACTTGTGATGTTTACCGTTTAAATCCACGGGTTAGGCTCTTGGGAGCTGCGGGTCGTGCCTTTGCATCGCT
	****** ****************************************************************** *****
	+++++ +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ +++++	ENSRNOT00000059997 ENSRNOG00000039200 2610203C20Rik
	..... >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> .....	ENSRNOT00000053673 ENSRNOG00000035550 rno-mir-125b-1
rat	.((((..(.(.(((..((..(((.(((((((((((..(((((.....))))).))))))))))).)))..))..))).).)..))))	1.000 -37.40
human	...(((.((((..(((.(((..((..(((.(((((((((((..(((((.....))))).))))))))))).)))..))..))).)))..))))....))).....	1.000 -44.50
mouse	.....(((((.((((..(((.(((..((..(((.(((((((((((..(((((.....))))).))))))))))).)))..))..))).)))..))))....))).))..	0.996 -46.90

rat	chromosome:8:44570155:44570241:1	Same_strand\|Exonic_non-coding\|ENSRNOT00000053673\|ENSRNOG00000035550 ## Same_strand\|Boundary_non-coding\|ENSRNOT00000053673\|ENSRNOG00000035550 ## Same_strand\|Intronic_coding\|ENSRNOT00000059997\|ENSRNOG00000039200 ## ENSRNOG00000039200\|protein_coding\|2610203C20Rik\|RIKEN cDNA 2610203C20 gene Gene [Source:MGI Symbol;Acc:MGI:1917705] ## ENSRNOG00000035550\|miRNA\|rno-mir-125b-1\|rno-mir-125b-1 [Source:miRBase;Acc:MI0000896] ## {MIR: rno-mir-125b-1}
human	chromosome:11:121475664:121475768:-1	Same_strand\|Boundary_non-coding\|ENST00000385236\|ENSG00000207971\|miRNA\|hsa-mir-125b-1 [Source:miRBase;Acc:MI0000446] ## {MIR: hsa-mir-125b-1}
mouse	chromosome:9:41389999:41390107:1	Same_strand\|Intronic_coding\|ENSMUST00000098868\|ENSMUSG00000074415\|protein_coding\|RIKEN cDNA 2610203C20 gene Gene [Source:MGI Symbol;Acc:MGI:1917705] ## Same_strand\|Boundary_non-coding\|ENSMUST00000083572\|ENSMUSG00000065506\|miRNA\|mmu-mir-125b-1 [Source:miRBase;Acc:MI0000725] ## {MIR: mmu-mir-125b-1}

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candidate miRBase miRNAs:

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miR-Intess™