miR-Intess: classification

confident miRBase miRNAs

miRNAknown_cloningHIGH_multiarm_DicerOK_randfoldOK (58 loci)

sblock5754 (miRBase rno-mir-24-2) [miRNAknown_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-24-2	0.001	no	no	0.45/0.79	18/25/0.76	2.3 0.0 0.0 3.5	1.0 0.0 0.3 0.5	10 6815 674058 2	0 0 0 0	5 10 10 2	0 0 0 0	1 24 26 1	25 5 6 28	5arm 5arm 3arm 3arm	1 1 2 2	nd nd nd nd	0.29 0.19 0.18 0.42	4 2 2 5	1313631	10	1	2

Clusters
Located in cluster 39: rno-mir-24, rno-mir-27a, rno-mir-23a

Families
Member of family miR-24 (seed UGCCUAC): rno-mir-24, rno-mir-24

		reads	miRBase family seed
seed	-------------------------------------------------------------------------------GGCUCAG-----------------------------------------------------------	1226335	miR-24
seed	--------------------------------------------------------------------------------GCUCAGU----------------------------------------------------------	66865	novel
seed	----------------------------------------UGCCUAC--------------------------------------------------------------------------------------------------	13439	miR-24
seed	---------------------------------------------------------------------------------CUCAGUU---------------------------------------------------------	5993	novel
seed	------------------------------------------------------------------------------UGGCUCA------------------------------------------------------------	504	novel
seed	-----------------------------------------GCCUACU-------------------------------------------------------------------------------------------------	187	novel
seed	---------------------------------------GUGCCUA---------------------------------------------------------------------------------------------------	166	novel
seed	----------------------------------------------------------------------------------UCAGUUC--------------------------------------------------------	74	novel
seed	-----------------------------------------------------------------------------------CAGUUCA-------------------------------------------------------	50	novel
seed	------------------------------------------CCUACUG------------------------------------------------------------------------------------------------	4	novel
seed	--------------------UCCCUGG----------------------------------------------------------------------------------------------------------------------	4	novel
seed	---------------------CCCUGGG---------------------------------------------------------------------------------------------------------------------	2	novel
seed	-----------------CUCUCCC-------------------------------------------------------------------------------------------------------------------------	2	novel
seed	------------------------------------------------------------------------------------AGUUCAG------------------------------------------------------	2	novel
seed	-----------------------------------------------------------------------------------------------------AGUCCAG-------------------------------------	1	novel
seed	------------------------------------------------------------------------------------------------------------CCCCCAU------------------------------	1	novel
seed	-------------------CUCCCUG-----------------------------------------------------------------------------------------------------------------------	1	novel
seed	------------------UCUCCCU------------------------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-miR-24	------------------------------------------------------------------------------TGGCTCAGTTCAGCAGGAACAG---------------------------------------------	22	93384	70918	36774	28985	56700	34074	95472	148917	86415	63460
	------------------------------------------------------------------------------TGGCTCAGTTCAGCAGGA-------------------------------------------------	18	24076	15934	14937	13087	20820	14513	28434	58792	19616	13100
	------------------------------------------------------------------------------TGGCTCAGTTCAGCAGGAACA----------------------------------------------	21	15358	9926	5399	4108	8662	5547	15238	21717	12692	10395
	------------------------------------------------------------------------------TGGCTCAGTTCAGCAGGAAC-----------------------------------------------	20	14988	9638	5953	5675	9002	4449	14625	19310	10785	7546
	------------------------------------------------------------------------------TGGCTCAGTTCAGCAGGAA------------------------------------------------	19	8841	5884	3857	3650	5500	2907	9311	15870	7128	5000
	-------------------------------------------------------------------------------GGCTCAGTTCAGCAGGAACAG---------------------------------------------	21	3296	2611	2539	1743	4142	1969	8157	11483	6083	3069
	-------------------------------------------------------------------------------GGCTCAGTTCAGCAGGAAC-----------------------------------------------	19	708	680	597	450	1102	413	2044	2860	1073	503
	---------------------------------------GTGCCTACTGAGCTGA-AACAG------------------------------------------------------------------------------------	21	523	485	320	345	941	707	1215	2114	895	943
	------------------------------------------------------------------------------TGGCTCAGTTCAGCAGGAACAGG--------------------------------------------	23	728	499	469	362	605	258	1127	1366	808	291
	-------------------------------------------------------------------------------GGCTCAGTTCAGCAGGAACA----------------------------------------------	20	386	306	284	220	473	208	930	1408	641	452
	-------------------------------------------------------------------------------GGCTCAGTTCAGCAGGAA------------------------------------------------	18	347	288	233	187	468	147	839	1362	432	218
	--------------------------------------------------------------------------------GCTCAGTTCAGCAGGAACAG---------------------------------------------	20	434	293	322	276	290	145	568	747	512	305
rno-miR-24-2*	---------------------------------------GTGCCTACTGAGCTGA-AACAGT-----------------------------------------------------------------------------------	22	242	189	66	68	284	282	337	513	286	179
	------------------------------------------------------------------------------TGGCTCAGTTCAGCAGGAACAGGA-------------------------------------------	24	204	129	81	73	121	34	224	308	255	119
	-------------------------------------------------------------------------------GGCTCAGTTCAGCAGGAACAGG--------------------------------------------	22	80	66	56	35	129	34	175	287	168	32
	---------------------------------------GTGCCTACTGAGCTGA-AACA-------------------------------------------------------------------------------------	20	76	59	24	36	137	83	133	245	122	137
	---------------------------------------GTGCCTACTGAGCTGA-AAC--------------------------------------------------------------------------------------	19	69	55	29	67	128	77	157	276	101	83
	------------------------------------------------------------------------------TGGCTCAGTTCAGCAGGAACAGGAG------------------------------------------	25	107	32	53	66	68	26	152	275	113	13
	--------------------------------------------------------------------------------GCTCAGTTCAGCAGGAAC-----------------------------------------------	18	73	61	45	38	55	30	118	119	60	53
	--------------------------------------------------------------------------------GCTCAGTTCAGCAGGAACA----------------------------------------------	19	76	52	51	32	48	21	141	113	63	45
	--------------------------------------------------------------------------------GCTCAGTTCAGCAGGAACAGG--------------------------------------------	21	91	60	46	21	30	17	88	84	91	23
	-------------------------------------------------------------------------------GGCTCAGTTCAGCAGGAACAGGA-------------------------------------------	23	33	15	13	18	89	29	38	67	137	10
	---------------------------------------GTGCCTACTGAGCTGA-AA---------------------------------------------------------------------------------------	18	26	25	4	9	33	34	26	72	22	31
	--------------------------------------------------------------------------------GCTCAGTTCAGCAGGAACAGGA-------------------------------------------	22	35	28	25	13	8	-	41	31	36	23
	-----------------------------------------------------------------------------CTGGCTCAGTTCAGCAGGAACAG---------------------------------------------	23	22	12	7	1	9	16	15	33	17	23
	-----------------------------------------------------------------------------CTGGCTCAGTTCAGCAGGAACA----------------------------------------------	22	15	13	5	6	19	12	11	10	14	11
	---------------------------------------GTGCCTACTGAGCTGA-AACAGT--T--------------------------------------------------------------------------------	23	9	6	-	4	17	22	9	23	11	13
	--------------------------------------TGTGCCTACTGAGCTGA-AACAG------------------------------------------------------------------------------------	22	9	8	-	-	13	11	6	10	11	18
	-----------------------------------------------------------------------------CTGGCTCAGTTCAGCAGGAAC-----------------------------------------------	21	12	2	1	4	5	12	10	9	11	5
	-----------------------------------------------------------------------------CTGGCTCAGTTCAGCAGGA-------------------------------------------------	19	7	3	1	7	4	6	5	10	8	12
	---------------------------------------------------------------------------------CTCAGTTCAGCAGGAACAG---------------------------------------------	19	2	2	3	3	4	4	9	18	13	4
	-----------------------------------------------------------------------------CTGGCTCAGTTCAGCAGG--------------------------------------------------	18	5	6	2	1	7	5	10	6	11	6
	----------------------------------------TGCCTACTGAGCTGA-AACAGT-----------------------------------------------------------------------------------	21	5	6	-	4	11	6	5	9	3	5
	----------------------------------------TGCCTACTGAGCTGA-AACAG------------------------------------------------------------------------------------	20	-	6	1	1	4	7	4	14	8	6
	----------------------------------------------------------------------------------TCAGTTCAGCAGGAACAG---------------------------------------------	18	5	5	1	4	3	4	10	14	-	4
	--------------------------------------TGTGCCTACTGAGCTGA-AACA-------------------------------------------------------------------------------------	21	1	2	1	-	4	6	10	9	-	5
	-----------------------------------------------------------------------------CTGGCTCAGTTCAGCAGGAA------------------------------------------------	20	-	2	2	1	6	4	6	10	2	4
	----------------------------------------TGCCTACTGAGCTGA-AACA-------------------------------------------------------------------------------------	19	2	3	-	-	9	4	3	3	2	6
	----------------------------------------TGCCTACTGAGCTGA-AAC--------------------------------------------------------------------------------------	18	3	-	1	3	7	1	3	7	1	1
	----------------------------------------TGCCTACTGAGCTGA-AACAGT--T--------------------------------------------------------------------------------	22	2	-	-	-	1	6	2	2	-	9
	--------------------------------------TGTGCCTACTGAGCTGA-A----------------------------------------------------------------------------------------	18	-	-	1	1	3	1	2	4	-	3
	--------------------------------------TGTGCCTACTGAGCTGA-AAC--------------------------------------------------------------------------------------	20	5	-	-	-	-	1	4	1	2	1
	--------------------------------------------------------------------------------GCTCAGTTCAGCAGGAACAGGAG------------------------------------------	23	1	-	-	-	1	-	2	4	2	3
	---------------------------------------------------------------------------------CTCAGTTCAGCAGGAACA----------------------------------------------	18	1	2	-	1	1	1	2	2	1	-
	--------------------------------------TGTGCCTACTGAGCTGA-AACAGT-----------------------------------------------------------------------------------	23	-	-	-	-	2	2	-	1	2	2
	---------------------------------------GTGCCTACTGAGCTGA-AACAGT--TG-------------------------------------------------------------------------------	24	-	-	-	-	-	-	4	2	1	1
	---------------------------------------GTGCCTACTGAGCTGA-AACAGT--TGA------------------------------------------------------------------------------	25	2	-	-	-	1	-	-	1	2	1
	--------------------------------------TGTGCCTACTGAGCTGA-AA---------------------------------------------------------------------------------------	19	-	-	-	-	-	-	2	2	-	-
	--------------------------------------------------------------------------------GCTCAGTTCAGCAGGAACAGGAGTC----------------------------------------	25	1	2	-	-	-	-	-	-	-	-
	-----------------------------------------------------------------------------CTGGCTCAGTTCAGCAGGAACAGG--------------------------------------------	24	-	1	-	-	1	1	-	-	-	-
	-------------------CTCCCTGGGCTCCGCCTCCT----------------------------------------------------------------------------------------------------------	20	-	-	-	-	-	-	-	1	-	2
	-------------------------------------------------------------------------------GGCTCAGTTCAGCAGGAACAGGAG------------------------------------------	24	-	-	-	-	-	-	3	-	-	-
	-----------------------------------------------------------------------------------CAGTTCAGCAGGAACAGG--------------------------------------------	18	-	-	-	1	1	-	-	-	-	-
	-----------------------------------------GCCTACTGAGCTGA-AACA-------------------------------------------------------------------------------------	18	-	-	-	-	-	-	-	-	2	-
	-----------------------------------------GCCTACTGAGCTGA-AACAG------------------------------------------------------------------------------------	19	-	-	-	-	-	-	1	-	-	1
	--------------------TCCCTGGGCTCCGCCTCCT----------------------------------------------------------------------------------------------------------	19	-	-	-	-	-	-	-	-	1	1
	----------------CCTCTCCCTGGGCTCCGCCTCCTG---------------------------------------------------------------------------------------------------------	24	-	-	2	-	-	-	-	-	-	-
	----------------------------------------TGCCTACTGAGCTGA-AACAGT--TGA------------------------------------------------------------------------------	24	-	-	-	-	1	-	-	-	-	-
	-----------------CTCTCCCTGGGCTCCGCCTCCT----------------------------------------------------------------------------------------------------------	22	-	-	-	-	-	-	-	-	-	1
	---------------------------------------------------------------------------------CTCAGTTCAGCAGGAACAGGAG------------------------------------------	22	-	-	-	1	-	-	-	-	-	-
	------------------TCTCCCTGGGCTCCGCCTCC-----------------------------------------------------------------------------------------------------------	20	-	-	-	-	-	-	1	-	-	-
	-----------------------------------------------------------------------------------------------------------GCCCCCATAGGAGCTGGC--------------------	18	1	-	-	-	-	-	-	-	-	-
	----------------------------------------------------------------------------------------------------GAGTCCAGCCCCCATAGGAGCTGG---------------------	24	-	-	-	-	-	-	-	-	1	-
	-------------------CTCCCTGGGCTCCGCCTCC-----------------------------------------------------------------------------------------------------------	19	-	-	-	-	-	-	-	-	-	1
rat	---------------GCCTCTCCCTGGGCTCCGCCTCCTGTGCCTACTGAGCTGA-AACAGT--TGATTCCAGTGCACTGGCTCAGTTCAGCAGGAACAGGAGTCCAGCCCCCATAGGAGCTGGCA-------------------
human	-------------------------------------CGGTGCCTACTGAGCTGATATCAGTTCTCATTTTA-CACACTGGCTCAGTTCAGCAGGAACAG---------------------------------------------
mouse	GGCTGGCAGGGCTCTGCCTCTCTCCGGGCTCCGCCTCCCGTGCCTACTGAGCTGA-AACAGT--TGATTCCAGTGCACTGGCTCAGTTCAGCAGGAACAGGAGTCCAGCCCCC-TAGGAGCTGGCAACCCTGCAGAATGTCTGCC
	* **************** * **** * *** * *************************
	..... >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>> >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> .....	ENSRNOT00000053624 ENSRNOG00000035501 rno-mir-24-2
rat	(((.((((..(((((....(((((((.(((.((((((((( ..(((( ..((....))..))))..))))))))).))).)))))))...))))).....))))..))).	1.000 -53.50
human	..((.(((.(((((((((..(((((.......... ...))))).))))))))).))).))..	1.000 -20.62
mouse	(((..((((((...((((...(((((((((....((((.((.(((.((((((((( ..(((( ..((....))..))))..))))))))).))).)).))))...))))).. ..))))..)))).)))))).....)))....	0.848 -63.40

rat	chromosome:19:25638430:25638537:-1	Same_strand\|Exonic_non-coding\|ENSRNOT00000053624\|ENSRNOG00000035501 ## ENSRNOG00000035501\|miRNA\|rno-mir-24-2\|rno-mir-24-2 [Source:miRBase;Acc:MI0000855] ## {MIR: rno-mir-24-2}
human	chromosome:9:96888087:96888234:1	Same_strand\|Intronic_non-coding\|ENST00000395357\|ENSG00000148120\|protein_coding\|Aminopeptidase O (AP-O)(EC 3.4.11.-) [Source:UniProtKB/Swiss-Prot;Acc:Q8N6M6] ## Same_strand\|Boundary_non-coding\|ENST00000395356\|ENSG00000148120\|protein_coding\|Aminopeptidase O (AP-O)(EC 3.4.11.-) [Source:UniProtKB/Swiss-Prot;Acc:Q8N6M6] ## {MIR: hsa-mir-24-1}
mouse	chromosome:8:86732699:86732839:1	Same_strand\|Boundary_non-coding\|ENSMUST00000083607\|ENSMUSG00000065541\|miRNA\|mmu-mir-24-2 [Source:miRBase;Acc:MI0000572] ## {MIR: mmu-mir-24-2}

sblock6415 (miRBase rno-mir-124-2) [miRNAknown_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-124-2	0.001	no	no	0.45/0.67	18/25/0.78	0.0 0.0	0.3 0.6	6425 116739	0 0	10 10	0 0	23 27	1 3	5arm 3arm	3 3	nd nd	0.14 0.21	2 2	164796	10	2	1

Families
Member of family miR-124 (seed AAGGCAC): rno-mir-124, rno-mir-124, rno-mir-124

		reads	miRBase family seed
seed	-------------------------------------------------------------AAGGCAC----------------------------------------	149030	miR-124
seed	------------------------GUGUUCA-----------------------------------------------------------------------------	8441	miR-124*
seed	--------------------------------------------------------------AGGCACG---------------------------------------	6646	novel
seed	------------------------------------------------------------UAAGGCA-----------------------------------------	543	novel
seed	---------------------------------------------------------------GGCACGC--------------------------------------	57	novel
seed	----------------------------------------------------------------GCACGCG-------------------------------------	36	novel
seed	-------------------------UGUUCAC----------------------------------------------------------------------------	15	novel
seed	--------------------------GUUCACA---------------------------------------------------------------------------	10	novel
seed	-----------------------CGUGUUC------------------------------------------------------------------------------	8	novel
seed	-----------------------------------------------------------------CACGCGG------------------------------------	6	novel
seed	---------------------------UUCACAG--------------------------------------------------------------------------	3	novel
seed	-----------------------------CACAGCG------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	------------------------------------------------------------TAAGGCACGCGGTGAATGCCA---------------------------	21	17954	41775	24	32	5	17	88	17	53	17
rno-miR-124	------------------------------------------------------------TAAGGCACGCGGTGAATGCC----------------------------	20	23561	20688	22	19	7	9	64	6	27	13
	------------------------------------------------------------TAAGGCACGCGGTGAATGC-----------------------------	19	12761	8575	9	2	5	10	23	5	21	8
	------------------------------------------------------------TAAGGCACGCGGTGAATGCCAA--------------------------	22	2363	9890	4	4	4	6	7	2	11	4
	------------------------------------------------------------TAAGGCACGCGGTGAATG------------------------------	18	6505	4315	6	7	3	4	10	3	4	2
	-----------------------CGTGTTCACAGCGGACCTTGA----------------------------------------------------------------	21	2741	1560	6	1	1	7	9	6	8	4
	-------------------------------------------------------------AAGGCACGCGGTGAATGCCA---------------------------	20	1573	1935	-	-	1	-	4	-	4	-
	-------------------------------------------------------------AAGGCACGCGGTGAATGCC----------------------------	19	1221	936	-	1	-	1	-	3	-	-
rno-miR-124*	-----------------------CGTGTTCACAGCGGACCTTGAT---------------------------------------------------------------	22	1270	854	1	1	-	1	1	-	1	3
	-----------------------CGTGTTCACAGCGGACCT-------------------------------------------------------------------	18	609	383	-	1	-	-	2	-	1	2
	-------------------------------------------------------------AAGGCACGCGGTGAATGCCAA--------------------------	21	217	541	-	-	-	1	-	-	2	2
	-----------------------CGTGTTCACAGCGGACCTTG-----------------------------------------------------------------	20	320	170	2	-	1	-	-	1	2	-
	-----------------------CGTGTTCACAGCGGACCTT------------------------------------------------------------------	19	240	137	1	-	-	2	1	-	-	-
	-----------------------------------------------------------TTAAGGCACGCGGTGAATGCCA---------------------------	22	36	172	1	-	-	-	-	-	-	1
	-------------------------------------------------------------AAGGCACGCGGTGAATGC-----------------------------	18	123	72	-	-	-	-	-	-	1	-
	-----------------------------------------------------------TTAAGGCACGCGGTGAATG------------------------------	19	69	55	-	-	-	-	-	-	-	-
	-----------------------CGTGTTCACAGCGGACCTTGATT--------------------------------------------------------------	23	56	33	-	-	-	1	-	1	-	-
	-----------------------------------------------------------TTAAGGCACGCGGTGAAT-------------------------------	18	28	53	-	-	-	-	-	-	-	-
	-----------------------------------------------------------TTAAGGCACGCGGTGAATGC-----------------------------	20	22	49	-	-	-	-	-	-	-	-
	-----------------------------------------------------------TTAAGGCACGCGGTGAATGCC----------------------------	21	23	23	-	-	-	-	-	-	-	-
	------------------------------------------------------------TAAGGCACGCGGTGAATGCCAAGA------------------------	24	3	38	-	-	-	-	-	-	-	-
	--------------------------------------------------------------AGGCACGCGGTGAATGCCA---------------------------	19	17	16	-	-	-	-	-	-	-	-
	---------------------------------------------------------------GGCACGCGGTGAATGCCA---------------------------	18	13	9	-	-	-	-	-	-	1	-
	------------------------------------------------------------TAAGGCACGCGGTGAATGCCAAG-------------------------	23	5	10	1	-	-	-	-	-	-	-
	--------------------------------------------------------------AGGCACGCGGTGAATGCC----------------------------	18	10	4	-	-	-	-	-	-	-	-
	---------------------------------------------------------------GGCACGCGGTGAATGCCAA--------------------------	19	10	2	-	-	-	-	-	-	-	-
	-----------------------------------------------------------TTAAGGCACGCGGTGAATGCCAA--------------------------	23	-	11	-	-	-	-	-	-	-	-
	--------------------------------------------------------------AGGCACGCGGTGAATGCCAA--------------------------	20	7	3	-	-	-	-	-	-	-	-
	------------------------GTGTTCACAGCGGACCTTGA----------------------------------------------------------------	20	6	1	-	-	-	-	-	-	-	-
	----------------------------------------------------------------GCACGCGGTGAATGCCAA--------------------------	18	5	1	-	-	-	-	-	-	-	-
	-------------------------------------------------------------AAGGCACGCGGTGAATGCCAAGA------------------------	23	1	4	-	-	-	-	-	-	-	-
	-------------------------TGTTCACAGCGGACCTTGA----------------------------------------------------------------	19	3	1	-	-	-	-	-	-	-	-
	----------------------CCGTGTTCACAGCGGACCTTGA----------------------------------------------------------------	22	1	3	-	-	-	-	-	-	-	-
	------------------------GTGTTCACAGCGGACCTTGAT---------------------------------------------------------------	21	-	3	-	-	-	-	-	-	-	-
	-------------------------------------------------------------AAGGCACGCGGTGAATGCCAAG-------------------------	22	-	3	-	-	-	-	-	-	-	-
	----------------------CCGTGTTCACAGCGGACC--------------------------------------------------------------------	18	3	-	-	-	-	-	-	-	-	-
	-------------------------TGTTCACAGCGGACCTTG-----------------------------------------------------------------	18	-	3	-	-	-	-	-	-	-	-
	------------------------GTGTTCACAGCGGACCTT------------------------------------------------------------------	18	2	-	-	-	-	-	-	-	-	-
	------------------------------------------------------------TAAGGCACGCGGTGAATGCCAAGAG-----------------------	25	2	-	-	-	-	-	-	-	-	-
	--------------------------GTTCACAGCGGACCTTGA----------------------------------------------------------------	18	2	-	-	-	-	-	-	-	-	-
	------------------------GTGTTCACAGCGGACCTTGATT--------------------------------------------------------------	22	1	1	-	-	-	-	-	-	-	-
	-------------------------TGTTCACAGCGGACCTTGAT---------------------------------------------------------------	20	1	-	-	-	-	-	-	-	-	-
	-------------------------TGTTCACAGCGGACCTTGATTT-------------------------------------------------------------	22	1	-	-	-	-	-	-	-	-	-
	------------------------GTGTTCACAGCGGACCTTG-----------------------------------------------------------------	19	1	-	-	-	-	-	-	-	-	-
	----------------------CCGTGTTCACAGCGGACCTTG-----------------------------------------------------------------	21	-	1	-	-	-	-	-	-	-	-
	--------------------------GTTCACAGCGGACCTTGATT--------------------------------------------------------------	20	1	-	-	-	-	-	-	-	-	-
	-------------------------TGTTCACAGCGGACCTTGATT--------------------------------------------------------------	21	1	-	-	-	-	-	-	-	-	-
	----------------------------TCACAGCGGACCTTGATT--------------------------------------------------------------	18	1	-	-	-	-	-	-	-	-	-
	---------------------------------------------------------------GGCACGCGGTGAATGCCAAG-------------------------	20	-	1	-	-	-	-	-	-	-	-
rat	TCAAGATCAGAGACTCTGCTCTCCGTGTTCACAGCGGACCTTGATTTAATGTCATACAATTAAGGCACGCGGTGAATGCCAAGAGCGGAGCCTACGGCTGCACTTGAA
human	----------------------CCGTGTTCACAGCGGACCTTGATTTAATGTCATACAATTAAGGCACGCGGTGAATGCCA---------------------------
mouse	----------------------CCGTGTTCACAGCGGACCTTGATTTAATGTCATACAATTAAGGCACGCGGTGAATGCCA---------------------------
	***********************************************************
	....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.....	ENSRNOT00000053622 ENSRNOG00000035499 rno-mir-124-2
rat	(((((..(((((.(((((((((..((((((((.(((..((((((((...........))))))))..))).))))))))..))))))))).))....)))..))))).	0.980 -45.40
human	..((((((((.(((..((((((((...........))))))))..))).))))))))..	1.000 -22.60
mouse	..((((((((.(((..((((((((...........))))))))..))).))))))))..	1.000 -22.60

rat	chromosome:2:102699467:102699574:1	Same_strand\|Exonic_non-coding\|ENSRNOT00000053622\|ENSRNOG00000035499 ## ENSRNOG00000035499\|miRNA\|rno-mir-124-2\|rno-mir-124-2 [Source:miRBase;Acc:MI0000894] ## {MIR: rno-mir-124-2}
human	chromosome:8:65454241:65454388:1	Same_strand\|Boundary_non-coding\|ENST00000385081\|ENSG00000207816\|miRNA\|hsa-mir-124-2 [Source:miRBase;Acc:MI0000444] ## {MIR: hsa-mir-124-2}
mouse	chromosome:3:17695643:17695790:1	Same_strand\|Boundary_non-coding\|ENSMUST00000083624\|ENSMUSG00000065558\|miRNA\|mmu-mir-124-2 [Source:miRBase;Acc:MI0000717] ## {MIR: mmu-mir-124-2}

sblock7455 (miRBase rno-mir-219-2) [miRNAknown_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-219-2	0.001	no	no	0.36/0.68	18/24/0.82	0.0 0.0 0.0	2.5 0.6 0.0	977 150 11021	0 0 0	10 3 10	0 0 0	18 41 13	7 -14 8	5arm 5arm_loop_3arm 3arm	2 2 2	nd nd nd	0.14 0.52 0.14	2 5 2	19427	10	2	2

Families
Member of family miR-219 (seed GAUUGUC): rno-mir-219, rno-mir-219

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------GAAUUGU-----------------------------------------------	17598	miR-219
seed	----------------------------------GAUUGUC------------------------------------------------------------------------------------------	1104	miR-219
seed	----------------------------------------------------------------------------AGAAUUG------------------------------------------------	498	novel
seed	---------------------------------------------------------ACGAGUC-------------------------------------------------------------------	163	novel
seed	------------------------------------------------------------------------------AAUUGUG----------------------------------------------	35	novel
seed	--------------------------------------GUCCAAA--------------------------------------------------------------------------------------	11	novel
seed	-----------------------------------AUUGUCC-----------------------------------------------------------------------------------------	9	novel
seed	-------------------------------------------------------------------------------AUUGUGG---------------------------------------------	2	novel
seed	--------------------------------------------------------------------------------UUGUGGC--------------------------------------------	2	novel
seed	----------------------------------------------------------CGAGUCU------------------------------------------------------------------	2	novel
seed	------------------------------------UUGUCCA----------------------------------------------------------------------------------------	1	novel
seed	---------------------------------------UCCAAAC-------------------------------------------------------------------------------------	1	novel
seed	---------------------------------------------------------------------------------UGUGGCU-------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-miR-219-2-3p	----------------------------------------------------------------------------AGAATTGTGGCTGGACATCTGT---------------------------------	22	6064	4957	4	4	1	2	3	3	15	13
	----------------------------------------------------------------------------AGAATTGTGGCTGGACATCTG----------------------------------	21	1212	1030	-	-	1	-	2	-	10	1
	----------------------------------------------------------------------------AGAATTGTGGCTGGACATC------------------------------------	19	1080	1007	1	1	-	-	-	-	7	4
	----------------------------------------------------------------------------AGAATTGTGGCTGGACATCT-----------------------------------	20	659	646	1	-	-	-	-	1	1	-
	----------------------------------------------------------------------------AGAATTGTGGCTGGACAT-------------------------------------	18	448	361	-	-	-	-	1	-	2	-
	---------------------------------TGATTGTCCAAACGCAAT--------------------------------------------------------------------------------	18	179	128	3	4	7	6	1	3	3	-
	---------------------------------TGATTGTCCAAACGCAATTCTTG---------------------------------------------------------------------------	23	122	93	-	-	1	-	-	-	2	2
	---------------------------------TGATTGTCCAAACGCAATTC------------------------------------------------------------------------------	20	85	70	-	2	1	6	-	1	1	5
rno-miR-219-5p	---------------------------------TGATTGTCCAAACGCAATTCT-----------------------------------------------------------------------------	21	87	73	1	3	-	1	1	-	1	-
	---------------------------------------------------------------------------GAGAATTGTGGCTGGACATCT-----------------------------------	21	90	63	-	-	-	-	-	-	-	-
	---------------------------------TGATTGTCCAAACGCAATTCTT----------------------------------------------------------------------------	22	84	56	-	-	-	7	-	-	-	2
	---------------------------------------------------------------------------GAGAATTGTGGCTGGACA--------------------------------------	18	64	72	-	-	-	-	-	-	-	1
	---------------------------------------------------------------------------GAGAATTGTGGCTGGACATCTGT---------------------------------	23	39	36	-	-	-	-	-	-	-	-
	---------------------------------------------------------------------------GAGAATTGTGGCTGGACATCTG----------------------------------	22	39	27	-	-	-	-	-	-	-	-
	--------------------------------------------------------TACGAGTCTGCGGCCAACCG-------------------------------------------------------	20	33	25	-	-	-	-	-	-	-	-
	---------------------------------------------------------------------------GAGAATTGTGGCTGGACATC------------------------------------	20	33	25	-	-	-	-	-	-	-	-
	----------------------------------------------------------------------------AGAATTGTGGCTGGACATCTGTG--------------------------------	23	33	22	-	-	-	-	-	-	-	1
	--------------------------------------------------------TACGAGTCTGCGGCCAACC--------------------------------------------------------	19	26	22	-	-	-	-	-	-	1	-
	--------------------------------------------------------TACGAGTCTGCGGCCAACCGA------------------------------------------------------	21	27	17	-	-	-	-	-	-	-	-
	---------------------------------TGATTGTCCAAACGCAATTCTTGT--------------------------------------------------------------------------	24	19	20	-	-	-	-	-	-	-	-
	-----------------------------------------------------------------------------GAATTGTGGCTGGACATCTGT---------------------------------	21	10	14	-	-	-	-	-	1	-	-
	---------------------------------TGATTGTCCAAACGCAATT-------------------------------------------------------------------------------	19	6	15	-	1	-	1	-	1	-	-
	---------------------------------------------------------------------------GAGAATTGTGGCTGGACAT-------------------------------------	19	6	2	-	-	-	-	-	-	-	-
	-------------------------------------TGTCCAAACGCAATTCTTG---------------------------------------------------------------------------	19	-	7	-	-	-	-	-	-	-	-
	-----------------------------------------------------------------------------GAATTGTGGCTGGACATC------------------------------------	18	1	5	-	-	-	-	-	-	-	-
	--------------------------------------------------------TACGAGTCTGCGGCCAAC---------------------------------------------------------	18	4	1	-	-	-	-	-	-	-	-
	--------------------------------------------------------TACGAGTCTGCGGCCAACCGAG-----------------------------------------------------	22	-	4	-	-	-	-	-	-	-	-
	--------------------------------------------------------TACGAGTCTGCGGCCAACCGAGA----------------------------------------------------	23	-	3	-	-	-	-	-	-	-	-
	-----------------------------------------------------------------------------GAATTGTGGCTGGACATCTG----------------------------------	20	2	1	-	-	-	-	-	-	-	-
	-------------------------------------TGTCCAAACGCAATTCTT----------------------------------------------------------------------------	18	2	1	-	-	-	-	-	-	-	-
	----------------------------------GATTGTCCAAACGCAATTCTTG---------------------------------------------------------------------------	22	2	1	-	-	-	-	-	-	-	-
	-------------------------------------------------------------------------------ATTGTGGCTGGACATCTGT---------------------------------	19	1	1	-	-	-	-	-	-	-	-
	----------------------------------GATTGTCCAAACGCAATT-------------------------------------------------------------------------------	18	1	1	-	-	-	-	-	-	-	-
	----------------------------------GATTGTCCAAACGCAATTCT-----------------------------------------------------------------------------	20	1	1	-	-	-	-	-	-	-	-
	----------------------------------GATTGTCCAAACGCAATTCTT----------------------------------------------------------------------------	21	-	1	-	-	-	1	-	-	-	-
	------------------------------------------------------------------------------AATTGTGGCTGGACATCTG----------------------------------	19	1	-	-	-	-	-	-	-	-	-
	-------------------------------------TGTCCAAACGCAATTCTTGT--------------------------------------------------------------------------	20	1	-	-	-	-	-	-	-	-	-
	--------------------------------------GTCCAAACGCAATTCTTG---------------------------------------------------------------------------	18	1	-	-	-	-	-	-	-	-	-
	--------------------------------------------------------------------------------TTGTGGCTGGACATCTGT---------------------------------	18	-	1	-	-	-	-	-	-	-	-
	-----------------------------------ATTGTCCAAACGCAATTC------------------------------------------------------------------------------	18	1	-	-	-	-	-	-	-	-	-
	---------------------------------------------------------ACGAGTCTGCGGCCAACCG-------------------------------------------------------	19	-	1	-	-	-	-	-	-	-	-
	---------------------------------------------------------ACGAGTCTGCGGCCAACC--------------------------------------------------------	18	-	1	-	-	-	-	-	-	-	-
	-----------------------------------------------------------------------------GAATTGTGGCTGGACATCT-----------------------------------	19	-	1	-	-	-	-	-	-	-	-
	---------------------------------------------------------------------------GAGAATTGTGGCTGGACATCTGTG--------------------------------	24	-	1	-	-	-	-	-	-	-	-
	------------------------------------------------------------------------------AATTGTGGCTGGACATCTGT---------------------------------	20	1	-	-	-	-	-	-	-	-	-
rat	---------------ACTCAGGGGCTTCACCACTGATTGTCCAAACGCAATTCTTGTACGAGTCTGCGGCCAACCGAGAATTGTGGCTGGACATCTGTGGTTGAGCTCCGG--------------------
human	---------CCCTGAACTCAGGGGCTTCGCCACTGATTGTCCAAACGCAATTCTTGTACGAGTCTGCGGCCAACCGAGAATTGTGGCTGGACATCTGTGGCTGAGCTCCGGG-------------------
mouse	GGACCGGGGCCCTGAACTCAGGGGCTTCGCCACTGATTGTCCAAACGCAATTCTTGTACGAGTCTGCGGCCAACCGAGAATTGTGGCTGGACATCTGTGGTTGAGCTCCGGGCTCTACAGAGACGAGGTCC
	*********** ******************************************************************* ********
	----- ------------------------------------------------------------------------------------------------ -----	ENSRNOT00000060969 ENSRNOG00000026604 Ceecam1
	..... >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> .....	ENSRNOT00000053575 ENSRNOG00000035452 rno-mir-219-2
rat	.....(((((((.(((((.(((.(((((..(((((((((((...(.((.....)))...)))))))))))..)))))))).))))).)))))))..	1.000 -47.30
human	.......(((.(((((((.(((((.((.((((((..(((((((((((.....((.....))....)))))))))))..)))))))).))))).))))))))))	0.883 -49.50
mouse	((((((((((((........(((((((.(((((.((.((((((..(((((((((((.....((.....))....)))))))))))..)))))))).))))).))))))))))))))..........)))))	0.898 -62.10

rat	chromosome:3:8833905:8834000:-1	Opposite_strand\|Intronic_non-coding\|ENSRNOT00000060969\|ENSRNOG00000026604 ## Same_strand\|Boundary_non-coding\|ENSRNOT00000053575\|ENSRNOG00000035452 ## Same_strand\|Exonic_non-coding\|ENSRNOT00000053575\|ENSRNOG00000035452 ## Opposite_strand\|Boundary_non-coding\|ENSRNOT00000035930\|ENSRNOG00000026604 ## ENSRNOG00000035452\|miRNA\|rno-mir-219-2\|rno-mir-219-2 [Source:miRBase;Acc:MI0000960] ## ENSRNOG00000026604\|protein_coding\|Ceecam1\|Glycosyltransferase 25 family member 3 (Cerebral endothelial cell adhesion molecule 1). [Source:UniProtKB/Swiss-Prot;Acc:Q5U309] ## {SimpF: oe = 0.79 -1 CpG} ## {MIR: rno-mir-219-2}
human	chromosome:9:130194718:130194820:-1	Same_strand\|Boundary_non-coding\|ENST00000385220\|ENSG00000207955\|miRNA\|hsa-mir-219-2 [Source:miRBase;Acc:MI0000740] ## {SimpF: oe = 0.85 0 CpG,rank = 4 -1 FirstEF,rank = 1 -1 FirstEF} ## {MIR: hsa-mir-219-2}
mouse	chromosome:2:29701132:29701262:-1	Same_strand\|Boundary_non-coding\|ENSMUST00000083551\|ENSMUSG00000065485\|miRNA\|mmu-mir-219-2 [Source:miRBase;Acc:MI0000741] ## {SimpF: oe = 0.79 -1 CpG} ## {MIR: mmu-mir-219-2}

rno-mir-674

Cloning frequencies
absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-674 5arm	466.600	440.600	144.400	142.400	174.800	130.800	101.100	64	118.600	195.100
rno-mir-674 3arm	1649.667	1736.667	488.333	647.333	494.667	422	403.667	699	329	451.667
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-674 5arm	0.016	0.019	0.008	0.008	0.009	0.010	0.008	0.003	0.008	0.013
rno-mir-674 3arm	0.055	0.076	0.026	0.038	0.024	0.032	0.031	0.037	0.022	0.030

sblock8113 (miRBase rno-mir-674) [miRNAknown_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-674	0.001	no	no	0.48/0.61	18/24/0.84	0.0 0.0	0.6 0.6	1035 3648	0 0	10 10	0 0	10 10	5 5	5arm 3arm	1 1	nd nd	0.14 0.14	2 2	9667	10	1	2

		reads	miRBase family seed
seed	---------------------------------------------------------------ACAGCUC------------------------------------	7451	miR-674
seed	----------------------------CACUGAG-----------------------------------------------------------------------	1989	miR-674
seed	----------------------------------------------------------------CAGCUCC-----------------------------------	96	novel
seed	---------------------------GCACUGA------------------------------------------------------------------------	90	novel
seed	---------------------------------------------------------------------CCCAUCU------------------------------	17	novel
seed	----------------------GCCUUGC-----------------------------------------------------------------------------	11	novel
seed	-------------------------------------------------------------------CUCCCAU--------------------------------	5	novel
seed	-----------------------------------------------------------------AGCUCCC----------------------------------	4	novel
seed	-----------------------------ACUGAGA----------------------------------------------------------------------	2	novel
seed	------------------------------CUGAGAU---------------------------------------------------------------------	1	novel
seed	--------------------------------------------------------------CACAGCU-------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-miR-674-3p	--------------------------------------------------------------CACAGCTCCCATCTCAGAACAA----------------------	22	687	764	226	301	220	158	173	304	139	175
	--------------------------------------------------------------CACAGCTCCCATCTCAGAACA-----------------------	21	438	498	129	165	124	124	98	169	87	141
	--------------------------------------------------------------CACAGCTCCCATCTCAGAAC------------------------	20	342	314	95	119	106	93	98	168	68	92
	---------------------------GCACTGAGATGGGAGTGGTGT----------------------------------------------------------	21	155	149	48	49	67	41	33	14	50	81
	---------------------------GCACTGAGATGGGAGTGGT------------------------------------------------------------	19	125	100	35	32	40	33	23	30	23	28
	--------------------------------------------------------------CACAGCTCCCATCTCAGAA-------------------------	19	110	96	25	40	27	26	22	38	23	32
	---------------------------GCACTGAGATGGGAGTGGTG-----------------------------------------------------------	20	95	116	20	27	34	32	9	12	21	43
	--------------------------------------------------------------CACAGCTCCCATCTCAGA--------------------------	18	98	80	16	34	35	27	23	30	12	23
	---------------------------GCACTGAGATGGGAGTGGTGTAA--------------------------------------------------------	23	34	28	22	11	21	8	13	1	11	17
	---------------------------GCACTGAGATGGGAGTGG-------------------------------------------------------------	18	28	28	17	12	14	9	3	15	8	8
rno-miR-674-5p	---------------------------GCACTGAGATGGGAGTGGTGTA---------------------------------------------------------	22	26	18	12	12	2	7	12	-	7	14
	---------------------------------------------------------------ACAGCTCCCATCTCAGAACAA----------------------	21	21	10	3	1	2	3	-	4	4	1
	--------------------------TGCACTGAGATGGGAGTGG-------------------------------------------------------------	19	8	7	1	1	2	2	2	1	1	-
	---------------------------------------------------------------ACAGCTCCCATCTCAGAACA-----------------------	20	2	11	1	3	1	2	2	-	-	1
	--------------------------TGCACTGAGATGGGAGTG--------------------------------------------------------------	18	5	7	-	5	-	1	1	1	1	-
	---------------------------------------------------------------ACAGCTCCCATCTCAGAAC------------------------	19	6	8	1	2	-	2	-	2	-	-
	--------------------------------------------------------------CACAGCTCCCATCTCAGAACAAG---------------------	23	3	4	-	2	1	2	1	3	1	1
	--------------------------TGCACTGAGATGGGAGTGGTG-----------------------------------------------------------	21	2	1	2	-	1	1	4	-	1	3
	--------------------------TGCACTGAGATGGGAGTGGT------------------------------------------------------------	20	2	4	1	1	2	2	1	1	-	1
	--------------------------TGCACTGAGATGGGAGTGGTGT----------------------------------------------------------	22	3	2	-	2	-	-	-	-	-	5
	--------------------------------------------------------------------TCCCATCTCAGAACAAGGCTC-----------------	21	1	2	1	2	-	-	-	-	2	-
	---------------------------GCACTGAGATGGGAGTGGTGTAAG-------------------------------------------------------	24	2	2	-	-	1	-	1	-	-	-
	--------------------------------------------------------------------TCCCATCTCAGAACAAGG--------------------	18	1	3	1	-	-	1	-	-	-	-
	--------------------------------------------------------------------TCCCATCTCAGAACAAGGC-------------------	19	-	-	1	-	1	-	-	1	-	-
	------------------------------------------------------------------GCTCCCATCTCAGAACAA----------------------	18	1	-	-	-	1	1	-	-	-	-
	---------------------AGCCTTGCACTGAGATGG-------------------------------------------------------------------	18	-	-	-	-	1	1	1	-	-	-
	----------------------------------------------------------------CAGCTCCCATCTCAGAACA-----------------------	19	3	-	-	-	-	-	-	-	-	-
	---------------------AGCCTTGCACTGAGATGGG------------------------------------------------------------------	19	1	-	-	-	1	-	-	-	-	1
	---------------------AGCCTTGCACTGAGATGGGAGT---------------------------------------------------------------	22	1	-	-	-	-	1	-	-	-	-
	------------------------------------------------------------------GCTCCCATCTCAGAACAAG---------------------	19	1	-	-	-	-	-	-	-	1	-
	--------------------------TGCACTGAGATGGGAGTGGTGTAA--------------------------------------------------------	24	1	-	-	-	-	-	-	-	1	-
	---------------------AGCCTTGCACTGAGATGGGAG----------------------------------------------------------------	21	1	1	-	-	-	-	-	-	-	-
	--------------------------------------------------------------CACAGCTCCCATCTCAGAACAAGG--------------------	24	-	-	-	-	-	-	1	-	-	-
	---------------------------------------------------------------ACAGCTCCCATCTCAGAA-------------------------	18	-	-	-	-	-	-	-	-	-	1
	----------------------------------------------------------------CAGCTCCCATCTCAGAACAAG---------------------	21	-	-	-	-	-	1	-	-	-	-
	---------------------AGCCTTGCACTGAGATGGGA-----------------------------------------------------------------	20	-	-	-	-	-	-	-	1	-	-
	---------------------------------------------------------------ACAGCTCCCATCTCAGAACAAGG--------------------	23	1	-	-	-	-	-	-	-	-	-
	-----------------------------ACTGAGATGGGAGTGGTGTA---------------------------------------------------------	20	-	-	-	-	-	-	-	-	1	-
	----------------------------CACTGAGATGGGAGTGGTG-----------------------------------------------------------	19	-	-	-	-	-	-	1	-	-	-
	----------------------------CACTGAGATGGGAGTGGT------------------------------------------------------------	18	-	-	-	-	-	-	-	-	-	1
	-------------------------------------------------------------GCACAGCTCCCATCTCAGAACA-----------------------	22	-	-	-	-	-	-	1	-	-	-
	---------------------------------------------------------------ACAGCTCCCATCTCAGAACAAG---------------------	22	-	-	-	1	-	-	-	-	-	-
rat	-----------------CCTGAGCCTTGCACTGAGATGGGAGTGGTGTAAGGCTCAGGTATGCACAGCTCCCATCTCAGAACAAGGCTCGGGTG------------
human	--------------------------TGCA-------GTGAGTGTGGAAAGGCCTA--TAGGCACAGCTCCCATCTCAT-TCAACACCAGAGA-------------
mouse	GTTGGCCTAGTCATCACCCTGAGCCTTGCACTGAGATGGGAGTGGTGTAAGGCTCAGGTATGCACAGCTCCCATCTCAGAACAAGGCTCGGGTGTGCTCAGCTCCC
	**** * ***** * ***** * ************* * * * *
	..... >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> .....	ENSRNOT00000062182 ENSRNOG00000040429 rno-mir-674
rat	(((((((((((..(((((((((((((.(((((..((....)).))))).)))))))))))))..)))))))))))..	1.000 -52.70
human	((.( (((((((.(((...(((.. ..))).....))))).))))) )))..........	0.994 -15.20
mouse	...(((..((.((.(((((.((((((((..(((((((((((((.(((((..((....)).))))).)))))))))))))..)))))))))))))))))..)))...	0.998 -60.70

rat	chromosome:3:103253457:103253533:1	Same_strand\|Boundary_non-coding\|ENSRNOT00000062182\|ENSRNOG00000040429 ## Same_strand\|Exonic_non-coding\|ENSRNOT00000062182\|ENSRNOG00000040429 ## ENSRNOG00000040429\|miRNA\|rno-mir-674\|rno-mir-674 [Source:miRBase;Acc:MI0006159] ## {Repeats: trf 42 70 0 class=trf,trf 80 82 0 class=trf} ## {MIR: rno-mir-674}
human	chromosome:3:44586927:44586983:1	Same_strand\|Exonic_coding\|ENST00000273320\|ENSG00000196345\|protein_coding\|Zinc finger protein 167 (Zinc finger protein 64)(Zinc finger protein 448)(ZFP)(Zinc finger protein with KRAB and SCAN domains 7) [Source:UniProtKB/Swiss-Prot;Acc:Q9P0L1] ## Same_strand\|Intronic_coding\|ENST00000341840\|ENSG00000196345\|protein_coding\|Zinc finger protein 167 (Zinc finger protein 64)(Zinc finger protein 448)(ZFP)(Zinc finger protein with KRAB and SCAN domains 7) [Source:UniProtKB/Swiss-Prot;Acc:Q9P0L1] ## {Repeats: trf 0 class=trf,trf 0 class=trf}
mouse	chromosome:2:117010860:117010965:1	Same_strand\|Boundary_non-coding\|ENSMUST00000102421\|ENSMUSG00000076376\|miRNA\|mmu-mir-674 [Source:miRBase;Acc:MI0004611] ## {MIR: mmu-mir-674}

sblock8319 (miRBase rno-mir-124-3) [miRNAknown_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-124-3	0.001	no	no	0.45/0.67	18/25/0.78	0.0 0.0	0.3 0.6	6425 116739	0 0	10 10	0 0	14 14	1 3	5arm 3arm	3 3	nd nd	0.14 0.16	2 2	164789	10	2	1

Families
Member of family miR-124 (seed AAGGCAC): rno-mir-124, rno-mir-124, rno-mir-124

		reads	miRBase family seed
seed	------------------------------------------------------------AAGGCAC--------------------------------	149030	miR-124
seed	----------------------GUGUUCA----------------------------------------------------------------------	8441	miR-124*
seed	-------------------------------------------------------------AGGCACG-------------------------------	6646	novel
seed	-----------------------------------------------------------UAAGGCA---------------------------------	543	novel
seed	--------------------------------------------------------------GGCACGC------------------------------	57	novel
seed	---------------------------------------------------------------GCACGCG-----------------------------	36	novel
seed	-----------------------UGUUCAC---------------------------------------------------------------------	15	novel
seed	------------------------GUUCACA--------------------------------------------------------------------	10	novel
seed	----------------------------------------------------------------CACGCGG----------------------------	6	novel
seed	-------------------------UUCACAG-------------------------------------------------------------------	3	novel
seed	--------------------GCGUGUU------------------------------------------------------------------------	1	novel
seed	---------------------------CACAGCG-----------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	-----------------------------------------------------------TAAGGCACGCGGTGAATGCCA-------------------	21	17954	41775	24	32	5	17	88	17	53	17
rno-miR-124	-----------------------------------------------------------TAAGGCACGCGGTGAATGCC--------------------	20	23561	20688	22	19	7	9	64	6	27	13
	-----------------------------------------------------------TAAGGCACGCGGTGAATGC---------------------	19	12761	8575	9	2	5	10	23	5	21	8
	-----------------------------------------------------------TAAGGCACGCGGTGAATGCCAA------------------	22	2363	9890	4	4	4	6	7	2	11	4
	-----------------------------------------------------------TAAGGCACGCGGTGAATG----------------------	18	6505	4315	6	7	3	4	10	3	4	2
	---------------------CGTGTTCACAGCGGACCTTGA---------------------------------------------------------	21	2741	1560	6	1	1	7	9	6	8	4
	------------------------------------------------------------AAGGCACGCGGTGAATGCCA-------------------	20	1573	1935	-	-	1	-	4	-	4	-
	------------------------------------------------------------AAGGCACGCGGTGAATGCC--------------------	19	1221	936	-	1	-	1	-	3	-	-
rno-miR-124*	---------------------CGTGTTCACAGCGGACCTTGAT--------------------------------------------------------	22	1270	854	1	1	-	1	1	-	1	3
	---------------------CGTGTTCACAGCGGACCT------------------------------------------------------------	18	609	383	-	1	-	-	2	-	1	2
	------------------------------------------------------------AAGGCACGCGGTGAATGCCAA------------------	21	217	541	-	-	-	1	-	-	2	2
	---------------------CGTGTTCACAGCGGACCTTG----------------------------------------------------------	20	320	170	2	-	1	-	-	1	2	-
	---------------------CGTGTTCACAGCGGACCTT-----------------------------------------------------------	19	240	137	1	-	-	2	1	-	-	-
	----------------------------------------------------------TTAAGGCACGCGGTGAATGCCA-------------------	22	36	172	1	-	-	-	-	-	-	1
	------------------------------------------------------------AAGGCACGCGGTGAATGC---------------------	18	123	72	-	-	-	-	-	-	1	-
	----------------------------------------------------------TTAAGGCACGCGGTGAATG----------------------	19	69	55	-	-	-	-	-	-	-	-
	---------------------CGTGTTCACAGCGGACCTTGATT-------------------------------------------------------	23	56	33	-	-	-	1	-	1	-	-
	----------------------------------------------------------TTAAGGCACGCGGTGAAT-----------------------	18	28	53	-	-	-	-	-	-	-	-
	----------------------------------------------------------TTAAGGCACGCGGTGAATGC---------------------	20	22	49	-	-	-	-	-	-	-	-
	----------------------------------------------------------TTAAGGCACGCGGTGAATGCC--------------------	21	23	23	-	-	-	-	-	-	-	-
	-----------------------------------------------------------TAAGGCACGCGGTGAATGCCAAGA----------------	24	3	38	-	-	-	-	-	-	-	-
	-------------------------------------------------------------AGGCACGCGGTGAATGCCA-------------------	19	17	16	-	-	-	-	-	-	-	-
	--------------------------------------------------------------GGCACGCGGTGAATGCCA-------------------	18	13	9	-	-	-	-	-	-	1	-
	-----------------------------------------------------------TAAGGCACGCGGTGAATGCCAAG-----------------	23	5	10	1	-	-	-	-	-	-	-
	-------------------------------------------------------------AGGCACGCGGTGAATGCC--------------------	18	10	4	-	-	-	-	-	-	-	-
	--------------------------------------------------------------GGCACGCGGTGAATGCCAA------------------	19	10	2	-	-	-	-	-	-	-	-
	----------------------------------------------------------TTAAGGCACGCGGTGAATGCCAA------------------	23	-	11	-	-	-	-	-	-	-	-
	-------------------------------------------------------------AGGCACGCGGTGAATGCCAA------------------	20	7	3	-	-	-	-	-	-	-	-
	----------------------GTGTTCACAGCGGACCTTGA---------------------------------------------------------	20	6	1	-	-	-	-	-	-	-	-
	---------------------------------------------------------------GCACGCGGTGAATGCCAA------------------	18	5	1	-	-	-	-	-	-	-	-
	------------------------------------------------------------AAGGCACGCGGTGAATGCCAAGA----------------	23	1	4	-	-	-	-	-	-	-	-
	-----------------------TGTTCACAGCGGACCTTGA---------------------------------------------------------	19	3	1	-	-	-	-	-	-	-	-
	-----------------------TGTTCACAGCGGACCTTG----------------------------------------------------------	18	-	3	-	-	-	-	-	-	-	-
	----------------------GTGTTCACAGCGGACCTTGAT--------------------------------------------------------	21	-	3	-	-	-	-	-	-	-	-
	------------------------------------------------------------AAGGCACGCGGTGAATGCCAAG-----------------	22	-	3	-	-	-	-	-	-	-	-
	----------------------GTGTTCACAGCGGACCTT-----------------------------------------------------------	18	2	-	-	-	-	-	-	-	-	-
	-----------------------------------------------------------TAAGGCACGCGGTGAATGCCAAGAG---------------	25	2	-	-	-	-	-	-	-	-	-
	------------------------GTTCACAGCGGACCTTGA---------------------------------------------------------	18	2	-	-	-	-	-	-	-	-	-
	----------------------GTGTTCACAGCGGACCTTGATT-------------------------------------------------------	22	1	1	-	-	-	-	-	-	-	-
	-----------------------TGTTCACAGCGGACCTTGATT-------------------------------------------------------	21	1	-	-	-	-	-	-	-	-	-
	--------------------------TCACAGCGGACCTTGATT-------------------------------------------------------	18	1	-	-	-	-	-	-	-	-	-
	-------------------TGCGTGTTCACAGCGGACC-------------------------------------------------------------	19	1	-	-	-	-	-	-	-	-	-
	--------------------------------------------------------------GGCACGCGGTGAATGCCAAG-----------------	20	-	1	-	-	-	-	-	-	-	-
	------------------------GTTCACAGCGGACCTTGATT-------------------------------------------------------	20	1	-	-	-	-	-	-	-	-	-
	----------------------GTGTTCACAGCGGACCTTG----------------------------------------------------------	19	1	-	-	-	-	-	-	-	-	-
	-----------------------TGTTCACAGCGGACCTTGATTT------------------------------------------------------	22	1	-	-	-	-	-	-	-	-	-
	-----------------------TGTTCACAGCGGACCTTGAT--------------------------------------------------------	20	1	-	-	-	-	-	-	-	-	-
rat	-------TGAGGGCCCCTCTGCGTGTTCACAGCGGACCTTGATTTAATGTCTATACAATTAAGGCACGCGGTGAATGCCAAGAGAGGCGCCTCC-----
human	--------GAGGGCCCCTCTGCGTGTTCACAGCGGACCTTGATTTAATGTCTATACAATTAAGGCACGCGGTGAATGCCAAGAGAGGCGCCTCCGCCGC
mouse	GCAGCCCTGAGGGCCCCTCTGCGTGTTCACAGCGGACCTTGATTTAATGTCTATACAATTAAGGCACGCGGTGAATGCCAAGAGAGGCGCCTCCGCCGC
	**************************************************************************************
	..... >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> .....	ENSRNOT00000053716 ENSRNOG00000035593 rno-mir-124-3
rat	.(((((((.(((((.((((((((.(((..((((((((............))))))))..))).))))))))).)))).))).)))).	1.000 -40.30
human	(((((((.(((((.((((((((.(((..((((((((............))))))))..))).)))))))))).))).))).))))......	1.000 -40.30
mouse	((.((...(((((((.(((((.((((((((.(((..((((((((............))))))))..))).)))))))))).))).))).)))).)).))	0.999 -43.20

rat	chromosome:3:170004571:170004657:1	Same_strand\|Boundary_non-coding\|ENSRNOT00000053716\|ENSRNOG00000035593 ## Same_strand\|Exonic_non-coding\|ENSRNOT00000053716\|ENSRNOG00000035593 ## ENSRNOG00000035593\|miRNA\|rno-mir-124-3\|rno-mir-124-3 [Source:miRBase;Acc:MI0000892] ## {SimpF: oe = 0.90 1 CpG} ## {MIR: rno-mir-124-3}
human	chromosome:20:61280298:61280388:1	Same_strand\|Boundary_non-coding\|ENST00000384866\|ENSG00000207598\|miRNA\|hsa-mir-124-3 [Source:miRBase;Acc:MI0000445] ## {SimpF: oe = 0.82 0 CpG,rank = 5 1 FirstEF,rank = 9 1 FirstEF} ## {MIR: hsa-mir-124-3}
mouse	chromosome:2:180628729:180628827:1	Same_strand\|Boundary_non-coding\|ENSMUST00000083520\|ENSMUSG00000065454\|miRNA\|mmu-mir-124-3 [Source:miRBase;Acc:MI0000150] ## {SimpF: oe = 0.90 1 CpG} ## {MIR: mmu-mir-124-3}

rno-mir-873

Cloning frequencies
absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-873 5arm	454.500	424.500	2	0	2	3	1	0	1	0
rno-mir-873 3arm	85	69	0	0	0	2	0	1	0	0
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-873 5arm	0.015	0.019	0.000	0	0.000	0.000	0.000	0	0.000	0
rno-mir-873 3arm	0.003	0.003	0	0	0	0.000	0	0.000	0	0

sblock9305 (miRBase rno-mir-873) [miRNAknown_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-873	0.001	no	no	0.47/0.60	18/23/0.77	0.1 0.0	0.7 1.4	596 131	0 0	7 4	0 0	9 10	2 5	5arm 3arm	1 1	nd nd	0.10 0.14	1 1	1050	8	3	1

		reads	miRBase family seed
seed	-----------CAGGAAC-----------------------------------------------------------	616	miR-873
seed	----------GCAGGAA------------------------------------------------------------	277	novel
seed	-----------------------------------------------AGACUGA-----------------------	143	novel
seed	----------------------------------------------GAGACUG------------------------	11	novel
seed	------------------------------------------------GACUGAC----------------------	2	novel
seed	---------------------------------------------GGAGACU-------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T3S1	T3S2	T4S1	T4S2	T5S1
rno-miR-873	----------GCAGGAACTTGTGAGTCTCCT----------------------------------------------	21	125	112	-	-	3	-	-	-
	----------GCAGGAACTTGTGAGTCTCC-----------------------------------------------	20	77	69	2	-	-	-	-	-
	----------GCAGGAACTTGTGAGTCTCCTA---------------------------------------------	22	59	69	-	-	-	-	-	-
	----------GCAGGAACTTGTGAGTCTC------------------------------------------------	19	47	29	-	-	-	-	-	-
	---------TGCAGGAACTTGTGAGTCTC------------------------------------------------	20	31	38	-	2	-	1	-	1
	---------TGCAGGAACTTGTGAGTC--------------------------------------------------	18	34	36	-	-	-	-	-	-
	---------TGCAGGAACTTGTGAGTCTCCT----------------------------------------------	22	34	33	-	-	-	-	-	-
	----------------------------------------------GAGACTGACAAGTTCCCGGGA----------	21	32	17	-	-	1	-	-	-
	---------TGCAGGAACTTGTGAGTCTCC-----------------------------------------------	21	21	25	-	-	-	-	-	-
	----------------------------------------------GAGACTGACAAGTTCCCGG------------	19	19	24	-	-	1	-	-	-
	----------------------------------------------GAGACTGACAAGTTCCCG-------------	18	17	12	-	-	-	-	1	-
	----------------------------------------------GAGACTGACAAGTTCCCGGG-----------	20	10	6	-	-	-	-	-	-
	----------GCAGGAACTTGTGAGTCTCCTAT--------------------------------------------	23	11	3	-	-	-	-	-	-
	---------TGCAGGAACTTGTGAGTCTCCTA---------------------------------------------	23	5	7	-	-	-	-	-	-
	----------GCAGGAACTTGTGAGTCT-------------------------------------------------	18	7	3	-	-	-	-	-	-
	---------TGCAGGAACTTGTGAGTCT-------------------------------------------------	19	7	2	-	-	-	-	-	-
	---------------------------------------------GGAGACTGACAAGTTCCCGGGA----------	22	3	3	-	-	-	-	-	-
	----------------------------------------------GAGACTGACAAGTTCCCGGGAA---------	22	1	2	-	-	-	-	-	-
	---------------------------------------------GGAGACTGACAAGTTCCC--------------	18	-	2	-	-	-	-	-	-
	---------------------------------------------GGAGACTGACAAGTTCCCG-------------	19	2	-	-	-	-	-	-	-
	-----------------------------------------------AGACTGACAAGTTCCCGGG-----------	19	1	-	-	-	-	-	-	-
	--------------------------------------------AGGAGACTGACAAGTTCCC--------------	19	-	1	-	-	-	-	-	-
	---------------------------------------------GGAGACTGACAAGTTCCCGG------------	20	-	1	-	-	-	-	-	-
	-----------------------------------------------AGACTGACAAGTTCCCGG------------	18	-	1	-	-	-	-	-	-
rat	GTGTGCATTTGCAGGAACTTGTGAGTCTCCTATTGAAAATGGACAGGAGACTGACAAGTTCCCGGGAACACCCACAA
human	---------TGCAGGAACTTGTGAGTCTCCTATTGAAAATGAACAGGAGACTGATGAGTTCCCGGG-----------
mouse	---------TGCAGGAACTTGTGAGTCTCCTATTGAAAATAGACAGGAGACTGACAAGTTCCCGGG-----------
	***************************** ******** ********
	.....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.....	ENSRNOT00000063058 ENSRNOG00000041305 rno-mir-873
rat	(((.(..(((.(.(((((((((.((((((((.((.......)).)))))))).))))))))).).)))..).)))..	1.000 -33.80
human	....(((((((((.((((((((.((.......)).)))))))).)))))))))....	1.000 -25.30
mouse	....(((((((((.((((((((.((.......)).)))))))).)))))))))....	1.000 -28.60

rat	chromosome:5:53454915:53454991:-1	Same_strand\|Exonic_non-coding\|ENSRNOT00000063058\|ENSRNOG00000041305 ## ENSRNOG00000041305\|miRNA\|rno-mir-873\|rno-mir-873 [Source:miRBase;Acc:MI0006166] ## {MIR: rno-mir-873}
human	chromosome:9:28878857:28878973:-1	Same_strand\|Boundary_non-coding\|ENST00000401120\|ENSG00000215939\|miRNA\|hsa-mir-873 [Source:miRBase;Acc:MI0005564] ## {MIR: hsa-mir-873}
mouse	chromosome:4:36615523:36615639:-1	Same_strand\|Boundary_non-coding\|ENSMUST00000098151\|ENSMUSG00000045083\|protein_coding\|leucine rich repeat and Ig domain containing 2 Gene [Source:MGI (curated);Acc:Lingo2-001] ## Same_strand\|Intronic_non-coding\|ENSMUST00000108122\|ENSMUSG00000045083\|protein_coding\|leucine rich repeat and Ig domain containing 2 Gene [Source:MGI (curated);Acc:Lingo2-001] ## {MIR: mmu-mir-873}

sblock9515 (miRBase rno-mir-30c-1) [miRNAknown_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-30c-1	0.003	no	no	0.37/0.55	18/26/0.77	0.0 0.0	2.0 1.2	312676 82	0 0	10 10	0 0	16 12	3 8	5arm 3arm	3 3	nd nd	0.17 0.16	3 1	468440	10	2	2

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--------------------------------------------------------------------------------	460413	miR-30a/30b/30c/30d/30e/384
seed	----------------------------UAAACAU-------------------------------------------------------------------------------	7676	novel
seed	------------------------------------------------------------------UGGGAGA-----------------------------------------	131	miR-30c
seed	------------------------------AACAUCC-----------------------------------------------------------------------------	75	novel
seed	-------------------------------ACAUCCU----------------------------------------------------------------------------	44	novel
seed	-----------------------------AAACAUC------------------------------------------------------------------------------	37	novel
seed	--------------------------------CAUCCUA---------------------------------------------------------------------------	31	novel
seed	--------------------------UGUAAAC---------------------------------------------------------------------------------	14	novel
seed	---------------------------------AUCCUAC--------------------------------------------------------------------------	11	novel
seed	-------------------------------------------------------------------GGGAGAG----------------------------------------	8	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	--------------------------TGTAAACATCCTACACTCTCAGCT----------------------------------------------------------------	24	14814	9320	3551	4305	7421	6808	10342	14940	14839	20361
rno-miR-30c	--------------------------TGTAAACATCCTACACTCTCAGC-----------------------------------------------------------------	23	7600	4736	2262	3015	6708	5379	9512	11951	12977	19296
	--------------------------TGTAAACATCCTACACTC----------------------------------------------------------------------	18	7644	4497	2338	3184	5204	4612	5941	8468	7466	13770
	--------------------------TGTAAACATCCTACACTCTCAG------------------------------------------------------------------	22	7120	4463	2689	4071	5162	3929	6588	8659	7987	11737
	--------------------------TGTAAACATCCTACACTCTCA-------------------------------------------------------------------	21	7562	4554	1754	2719	4957	4136	6270	8389	7768	12381
	--------------------------TGTAAACATCCTACACTCT---------------------------------------------------------------------	19	5180	3580	1175	1686	3617	3206	4708	6544	5567	8973
	--------------------------TGTAAACATCCTACACTCTC--------------------------------------------------------------------	20	5275	2985	1031	1360	3262	2700	3994	5665	5173	8461
	---------------------------GTAAACATCCTACACTCTCAGCT----------------------------------------------------------------	23	289	182	82	110	164	169	224	280	308	402
	---------------------------GTAAACATCCTACACTCTCAGC-----------------------------------------------------------------	22	124	88	43	73	132	128	171	231	273	433
	---------------------------GTAAACATCCTACACTCTCA-------------------------------------------------------------------	20	132	88	47	67	91	82	118	133	167	225
	---------------------------GTAAACATCCTACACTCTCAG------------------------------------------------------------------	21	127	57	64	58	90	74	119	119	115	195
	---------------------------GTAAACATCCTACACTCT---------------------------------------------------------------------	18	88	69	21	30	75	79	72	112	113	169
	---------------------------GTAAACATCCTACACTCTC--------------------------------------------------------------------	19	92	66	21	34	75	35	82	93	106	167
	--------------------------TGTAAACATCCTACACTCTCAGCTGT--------------------------------------------------------------	26	4	8	-	1	2	4	10	14	22	26
rno-miR-30c-1*	-----------------------------------------------------------------CTGGGAGAGGGTTGTTTACTCC---------------------------	22	3	4	1	2	3	7	5	6	4	12
	-----------------------------------------------------------------CTGGGAGAGGGTTGTTTAC------------------------------	19	4	3	2	3	2	9	-	5	6	4
	-----------------------------------------------------------------CTGGGAGAGGGTTGTTTACTC----------------------------	21	7	3	2	1	1	2	1	9	3	3
	------------------------------AACATCCTACACTCTCAGC-----------------------------------------------------------------	19	3	1	-	9	-	1	4	7	1	2
	--------------------------TGTAAACATCCTACACTCTCAGCTG---------------------------------------------------------------	25	4	4	1	1	-	1	2	4	4	3
	-----------------------------AAACATCCTACACTCTCAGCT----------------------------------------------------------------	21	4	4	1	2	2	-	4	1	4	1
	-----------------------------AAACATCCTACACTCTCAGC-----------------------------------------------------------------	20	-	2	-	2	2	1	2	7	1	3
	-------------------------------ACATCCTACACTCTCAGCT----------------------------------------------------------------	19	3	1	-	-	3	1	1	5	4	-
	-----------------------------AAACATCCTACACTCTCA-------------------------------------------------------------------	18	1	4	-	2	-	3	3	2	1	2
	----------------------------TAAACATCCTACACTCTCA-------------------------------------------------------------------	19	-	1	-	-	2	2	2	2	3	5
	-------------------------------ACATCCTACACTCTCAGC-----------------------------------------------------------------	18	2	1	-	-	3	-	2	4	1	-
	-----------------------------AAACATCCTACACTCTCAG------------------------------------------------------------------	19	3	1	1	1	1	2	-	2	1	1
	------------------------------AACATCCTACACTCTCAGCT----------------------------------------------------------------	20	3	1	-	-	-	-	2	4	2	1
	-----------------------------------------------------------------CTGGGAGAGGGTTGTTTA-------------------------------	18	2	1	-	2	3	-	1	2	-	1
	--------------------------------CATCCTACACTCTCAGCT----------------------------------------------------------------	18	2	-	-	-	-	-	-	2	2	3
	----------------------------TAAACATCCTACACTCTCAGCT----------------------------------------------------------------	22	1	-	-	-	-	2	-	4	-	1
	-------------------------GTGTAAACATCCTACACTC----------------------------------------------------------------------	19	-	-	1	-	4	-	-	-	-	2
	----------------------------TAAACATCCTACACTCTCAGC-----------------------------------------------------------------	21	-	2	-	1	-	-	-	2	2	-
	-------------------------GTGTAAACATCCTACACTCTCAGCT----------------------------------------------------------------	25	-	3	-	-	-	-	2	-	-	-
	----------------------------TAAACATCCTACACTCTC--------------------------------------------------------------------	18	-	-	-	-	-	-	1	1	1	1
	------------------------------------------------------------------TGGGAGAGGGTTGTTTACTCC---------------------------	21	-	-	-	-	-	-	1	1	-	1
	------------------------------AACATCCTACACTCTCAG------------------------------------------------------------------	18	-	1	-	-	-	-	1	-	-	1
	------------------------------------------------------------------TGGGAGAGGGTTGTTTAC------------------------------	18	-	-	-	-	-	-	-	1	1	1
	--------------------------------CATCCTACACTCTCAGCTG---------------------------------------------------------------	19	-	-	-	-	-	-	-	-	-	2
	-----------------------------------------------------------------CTGGGAGAGGGTTGTTTACT-----------------------------	20	-	-	-	-	-	-	-	-	-	2
	---------------------------GTAAACATCCTACACTCTCAGCTGT--------------------------------------------------------------	25	-	-	-	-	1	-	-	-	-	1
	----------------------------TAAACATCCTACACTCTCAG------------------------------------------------------------------	20	1	-	-	-	-	-	-	-	-	-
	-------------------------GTGTAAACATCCTACACTCTCAG------------------------------------------------------------------	23	-	-	-	-	-	-	-	-	-	1
	---------------------------GTAAACATCCTACACTCTCAGCTG---------------------------------------------------------------	24	-	-	-	-	-	-	-	1	-	-
	-----------------------------AAACATCCTACACTCTCAGCTG---------------------------------------------------------------	22	-	-	-	-	-	1	-	-	-	-
	-------------------------GTGTAAACATCCTACACTCT---------------------------------------------------------------------	20	-	-	1	-	-	-	-	-	-	-
	------------------------------------------------------------------TGGGAGAGGGTTGTTTACTC----------------------------	20	-	-	-	-	-	-	-	-	1	-
	------------------------------------------------------------------TGGGAGAGGGTTGTTTACT-----------------------------	19	-	-	-	1	-	-	-	-	-	-
rat	----------ACCATGTTGTAGTGTGTGTAAACATCCTACACTCTCAGCTGTGAGCTCAAGGTGGCTGGGAGAGGGTTGTTTACTCCTTCTGCCATGGA---------------
human	--------------------------TGTAAACATCCTACACTCTCAGCTGTGAGCTCAAGGTGGCTGGGAGAGGGTTGTTTACT-----------------------------
mouse	CTGGGCTGTAACCATGTTGTAGTGTGTGTAAACATCCTACACTCTCAGCTGTGAGCTCAAGGTGGCTGGGAGAGGGTTGTTTACTCCTTCTGCCATGGAAAACGTCAGCTGAAG
	***********************************************************
	+++++ +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ +++++	ENSRNOT00000056651 ENSRNOG00000010735 Nfyc
	+++++ +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ +++++	ENSRNOT00000014457 ENSRNOG00000010735 Nfyc
	+++++ +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ +++++	ENSRNOT00000056650 ENSRNOG00000010735 Nfyc
	..... >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> .....	ENSRNOT00000053690 ENSRNOG00000035567 rno-mir-30c-1
rat	.(((((..((((...(.(((((((.(((...(((((((((.((....))....))))))))).))).))))))).)...))))))))).	1.000 -35.40
human	.(((((((.(((...(((((((((.((....))....))))))))).))).))))))).	1.000 -24.60
mouse	...(((((...(((((..((((.....(((((((.(((...(((((((((.((....))....))))))))).))).))))))).....))))))))).......)))))....	0.952 -40.20

rat	chromosome:5:141362120:141362208:-1	Same_strand\|Boundary_non-coding\|ENSRNOT00000053690\|ENSRNOG00000035567 ## Same_strand\|Intronic_coding\|ENSRNOT00000014457\|ENSRNOG00000010735 ## Same_strand\|Exonic_non-coding\|ENSRNOT00000053690\|ENSRNOG00000035567 ## ENSRNOG00000010735\|protein_coding\|Nfyc\|Nuclear transcription factor Y subunit gamma (Nuclear transcription factor Y subunit C) (NF-YC) (CAAT-box DNA-binding protein subunit C) (CCAAT-binding transcription factor subunit C) (CBF-C). [Source:UniProtKB/Swiss-Prot;Acc:Q62725] ## ENSRNOG00000035567\|miRNA\|rno-mir-30c-1\|rno-mir-30c-1 [Source:miRBase;Acc:MI0000866] ## {MIR: rno-mir-30c-1}
human	chromosome:1:40995523:40995651:1	Same_strand\|Intronic_coding\|ENST00000308733\|ENSG00000066136\|protein_coding\|Nuclear transcription factor Y subunit gamma (Nuclear transcription factor Y subunit C)(NF-YC)(CAAT-box DNA-binding protein subunit C)(Transactivator HSM-1/2) [Source:UniProtKB/Swiss-Prot;Acc:Q13952] ## Same_strand\|Boundary_non-coding\|ENST00000385227\|ENSG00000207962\|miRNA\|hsa-mir-30c-1 [Source:miRBase;Acc:MI0000736] ## {MIR: hsa-mir-30c-1}
mouse	chromosome:4:120442124:120442237:-1	Same_strand\|Intronic_coding\|ENSMUST00000043429\|ENSMUSG00000032897\|protein_coding\|nuclear transcription factor-Y gamma Gene [Source:MGI (curated);Acc:Nfyc-002] ## Same_strand\|Intronic_non-coding\|ENSMUST00000094813\|ENSMUSG00000032897\|protein_coding\|nuclear transcription factor-Y gamma Gene [Source:MGI (curated);Acc:Nfyc-002] ## Same_strand\|Boundary_non-coding\|ENSMUST00000083556\|ENSMUSG00000065490\|miRNA\|mmu-mir-30c-1 [Source:miRBase;Acc:MI0000547] ## {MIR: mmu-mir-30c-1}

rno-mir-34a

Cloning frequencies
absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-34a 5arm	12820	9250	419	2220	4981	4011	1240	5733	1039	879
rno-mir-34a 3arm	393	252	6	33	74	51	42	103	29	15
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-34a 5arm	0.426	0.404	0.023	0.132	0.243	0.304	0.096	0.302	0.069	0.058
rno-mir-34a 3arm	0.013	0.011	0.000	0.002	0.004	0.004	0.003	0.005	0.002	0.001

sblock9885 (miRBase rno-mir-34a) [miRNAknown_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-34a	0.001	no	no	0.37/0.56	18/25/0.77	0.0 0.3 0.0	0.0 1.1 1.0	17535 7 423	0 0 0	10 6 10	0 0 0	19 41 17	7 -15 11	5arm 5arm_loop_3arm 3arm	1 1 1	nd nd nd	0.05 0.52 0.11	1 5 1	43590	10	2	2

Families
Member of family miR-34a/34c/449a (seed GGCAGUG): rno-mir-34c, rno-mir-34a, rno-mir-449a, block2096720_cand

		reads	miRBase family seed
seed	-------------------------------------GGCAGUG-----------------------------------------------------------------------------------------------	42098	miR-34a/34c/449a
seed	---------------------------------------------------------------------------------AUCAGCA---------------------------------------------------	763	novel
seed	--------------------------------------GCAGUGU----------------------------------------------------------------------------------------------	380	novel
seed	--------------------------------------------------------------------------------AAUCAGC----------------------------------------------------	208	novel
seed	-----------------------------------UUGGCAG-------------------------------------------------------------------------------------------------	74	novel
seed	------------------------------------UGGCAGU------------------------------------------------------------------------------------------------	31	novel
seed	----------------------------------------------------------------------------------UCAGCAA--------------------------------------------------	17	novel
seed	-----------------------------------------------------------------------------------CAGCAAG-------------------------------------------------	9	novel
seed	------------------------------------------------------------UGAGUAU------------------------------------------------------------------------	5	novel
seed	-----------------------------------------------------------GUGAGUA-------------------------------------------------------------------------	2	novel
seed	------------------------------------------------------------------------------GCAAUCA------------------------------------------------------	1	novel
seed	---------------------------------------CAGUGUC---------------------------------------------------------------------------------------------	1	novel
seed	-----------------------------------------GUGUCUU-------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-miR-34a	------------------------------------TGGCAGTGTCTTAGCTGGTTGT---------------------------------------------------------------------------------	22	6742	5028	255	1165	2561	1728	396	3204	544	289
	------------------------------------TGGCAGTGTCTTAGCTGGTTGTT--------------------------------------------------------------------------------	23	1613	1160	42	301	571	531	275	713	145	122
	------------------------------------TGGCAGTGTCTTAGCTGGT------------------------------------------------------------------------------------	19	1535	985	29	221	615	520	195	582	106	168
	------------------------------------TGGCAGTGTCTTAGCTGG-------------------------------------------------------------------------------------	18	1326	994	46	271	547	566	206	598	103	139
	------------------------------------TGGCAGTGTCTTAGCTGGTTG----------------------------------------------------------------------------------	21	840	527	23	130	315	300	91	319	84	78
	------------------------------------TGGCAGTGTCTTAGCTGGTT-----------------------------------------------------------------------------------	20	557	435	21	97	311	299	58	239	37	72
	--------------------------------------------------------------------------------AATCAGCAAGTATACTGCCCTA-------------------------------------	22	171	113	2	11	25	7	13	39	16	7
	--------------------------------------------------------------------------------AATCAGCAAGTATACTGCC----------------------------------------	19	86	53	-	2	18	14	4	21	2	4
	-------------------------------------GGCAGTGTCTTAGCTGGTTGT---------------------------------------------------------------------------------	21	67	37	3	6	17	17	5	26	5	1
	------------------------------------TGGCAGTGTCTTAGCTGGTTGTTG-------------------------------------------------------------------------------	24	43	22	-	8	8	7	6	10	7	2
	-------------------------------------------------------------------------------CAATCAGCAAGTATACTGCCCT--------------------------------------	22	29	18	1	7	6	6	8	19	5	2
	--------------------------------------------------------------------------------AATCAGCAAGTATACTGCCCT--------------------------------------	21	23	19	3	2	14	7	2	6	2	1
	-------------------------------------GGCAGTGTCTTAGCTGGTTGTT--------------------------------------------------------------------------------	22	30	14	-	6	4	12	-	10	-	2
	--------------------------------------------------------------------------------AATCAGCAAGTATACTGCCC---------------------------------------	20	36	16	-	1	1	3	6	4	-	-
	-------------------------------------------------------------------------------CAATCAGCAAGTATACTGCCCTA-------------------------------------	23	14	18	-	2	2	3	3	4	2	-
	-------------------------------------GGCAGTGTCTTAGCTGGTTG----------------------------------------------------------------------------------	20	10	9	-	2	4	5	2	11	-	-
	-------------------------------------GGCAGTGTCTTAGCTGGTT-----------------------------------------------------------------------------------	19	12	7	-	1	7	4	3	3	1	2
	-------------------------------------GGCAGTGTCTTAGCTGGT------------------------------------------------------------------------------------	18	11	5	-	4	8	4	-	2	1	-
	-------------------------------------------------------------------------------CAATCAGCAAGTATACTGCCC---------------------------------------	21	17	5	-	3	2	2	1	2	2	-
	-----------------------------------TTGGCAGTGTCTTAGCTGGTTGT---------------------------------------------------------------------------------	23	1	4	-	-	5	-	-	2	2	2
	----------------------------------TTTGGCAGTGTCTTAGCTGGTTGT---------------------------------------------------------------------------------	24	3	2	-	2	2	3	-	3	1	-
	------------------------------------TGGCAGTGTCTTAGCTGGTTGTTGT------------------------------------------------------------------------------	25	4	4	-	-	2	3	1	1	-	-
	-------------------------------------------------------------------------------CAATCAGCAAGTATACTGC-----------------------------------------	19	2	4	-	2	2	2	1	-	-	1
	----------------------------------TTTGGCAGTGTCTTAGCT---------------------------------------------------------------------------------------	18	2	4	-	-	2	2	-	2	1	-
	----------------------------------TTTGGCAGTGTCTTAGCTG--------------------------------------------------------------------------------------	19	3	3	-	1	1	1	-	3	-	-
	----------------------------------TTTGGCAGTGTCTTAGCTGG-------------------------------------------------------------------------------------	20	2	2	-	1	-	2	-	2	1	-
	---------------------------------------------------------------------------------ATCAGCAAGTATACTGCCCTA-------------------------------------	21	1	1	-	1	1	1	2	1	-	-
	----------------------------------TTTGGCAGTGTCTTAGCTGGTTG----------------------------------------------------------------------------------	23	3	1	-	-	1	3	-	-	-	-
	----------------------------------TTTGGCAGTGTCTTAGCTGGT------------------------------------------------------------------------------------	21	-	1	-	2	-	1	1	-	1	-
	----------------------------------TTTGGCAGTGTCTTAGCTGGTT-----------------------------------------------------------------------------------	22	5	-	-	-	-	-	-	1	-	-
	-----------------------------------TTGGCAGTGTCTTAGCTG--------------------------------------------------------------------------------------	18	2	-	-	1	-	1	-	2	-	-
	---------------------------------------------------------------------------------ATCAGCAAGTATACTGCCCT--------------------------------------	20	2	1	-	-	1	-	2	-	-	-
	--------------------------------------------------------------------------------AATCAGCAAGTATACTGC-----------------------------------------	18	3	-	-	1	-	1	-	1	-	-
	-----------------------------------TTGGCAGTGTCTTAGCTGG-------------------------------------------------------------------------------------	19	3	2	-	-	-	-	-	-	-	-
	-------------------------------------------------------------------------------CAATCAGCAAGTATACTG------------------------------------------	18	1	1	-	1	-	2	-	-	-	-
	----------------------------------------------------------------------------------TCAGCAAGTATACTGCCCTA-------------------------------------	20	2	-	-	-	-	1	-	2	-	-
	-------------------------------------------------------------------------------CAATCAGCAAGTATACTGCC----------------------------------------	20	2	2	-	-	-	-	-	1	-	-
	----------------------------------------------------------------------------------TCAGCAAGTATACTGCCCTAGA-----------------------------------	22	1	-	-	-	-	2	-	-	-	-
	----------------------------------TTTGGCAGTGTCTTAGCTGGTTGTT--------------------------------------------------------------------------------	25	1	1	-	-	-	-	-	-	-	1
	--------------------------------------------------------------------------------AATCAGCAAGTATACTGCCCTAG------------------------------------	23	2	-	-	-	-	-	-	-	-	-
	---------------------------------------------------------------------------------ATCAGCAAGTATACTGCCCTAG------------------------------------	22	-	1	-	-	-	-	-	1	-	-
	-----------------------------------------------------------GTGAGTATTAGCTAAGGAAGC-----------------------------------------------------------	21	-	-	-	1	-	-	1	-	-	-
	-----------------------------------TTGGCAGTGTCTTAGCTGGTTG----------------------------------------------------------------------------------	22	1	1	-	-	-	-	-	-	-	-
	-----------------------------------------------------------GTGAGTATTAGCTAAGGAA-------------------------------------------------------------	19	2	-	-	-	-	-	-	-	-	-
	-------------------------------------------------------------------------------CAATCAGCAAGTATACTGCCCTAG------------------------------------	24	-	-	-	-	-	-	-	1	-	-
	-----------------------------------------------------------------------------AGCAATCAGCAAGTATACTG------------------------------------------	20	-	-	-	-	-	-	-	1	-	-
	----------------------------------------------------------------------------------TCAGCAAGTATACTGCCCT--------------------------------------	19	1	-	-	-	-	-	-	-	-	-
	---------------------------------------------------------------------------------ATCAGCAAGTATACTGCCC---------------------------------------	19	-	-	-	-	1	-	-	-	-	-
	-----------------------------------------------------------GTGAGTATTAGCTAAGGAAG------------------------------------------------------------	20	-	-	-	-	-	-	-	-	-	1
	--------------------------------------------------------------------------------AATCAGCAAGTATACTGCCCTAGA-----------------------------------	24	-	-	-	-	1	-	-	-	-	-
	--------------------------------------GCAGTGTCTTAGCTGGTTG----------------------------------------------------------------------------------	19	-	-	-	-	-	1	-	-	-	-
	----------------------------------------------------------TGTGAGTATTAGCTAAGGA--------------------------------------------------------------	19	-	1	-	-	-	-	-	-	-	-
	-----------------------------------TTGGCAGTGTCTTAGCTGGTTGTT--------------------------------------------------------------------------------	24	1	-	-	-	-	-	-	-	-	-
	-----------------------------------TTGGCAGTGTCTTAGCTGGTT-----------------------------------------------------------------------------------	21	-	1	-	-	-	-	-	-	-	-
	----------------------------------------------------------TGTGAGTATTAGCTAAGGAAGC-----------------------------------------------------------	22	-	-	-	-	-	1	-	-	-	-
	----------------------------------------AGTGTCTTAGCTGGTTGT---------------------------------------------------------------------------------	18	1	-	-	-	-	-	-	-	-	-
rat	-----------------CCGGCTGTGAGTAATTCTTTGGCAGTGTCTTAGCTGGTTGTTGTGAGTATTAGCTAAGGAAGCAATCAGCAAGTATACTGCCCTAGAAGTGCTGCACGTTGT--------------------
human	------------------CAGCTGTGAGTGTTTCTTTGGCAGTGTCTTAGCTGGTTGTTGTGAGCAATAG-TAAGGAAGCAATCAGCAAGTATACTGCCCTAGAAGTGCTGCACGTTGTGGGG----------------
mouse	GCCTCAGCCTGGGCTGGCCAGCTGTGAGTAATTCTTTGGCAGTGTCTTAGCTGGTTGTTGTGAGTATTAGCTAAGGAAGCAATCAGCAAGTATACTGCCCTAGAAGTGCTGCACATTGTTGGGCCGAGAAGGAAAAGGT
	* ******* ******************************* * * *************************************** **
	..... >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> .....	ENSRNOT00000053746 ENSRNOG00000035623 rno-mir-34a
rat	.((((.(((((((.((((..(((((((((((.((((((((((...(((....))).....))))))))))))).))))))))..)))).)))).))))))).	1.000 -43.90
human	((((.(((((..(((((..(((((((((((.((((((((((....((....) ).....))))))))))))).))))))))..)))))..)).))))))).....	1.000 -44.90
mouse	((((...(((...(((((((((((((((((.((((..(((((((((((.((((((((((...(((....))).....))))))))))))).))))))))..)))).)))).))))..))))).)).)).)))...))))	0.985 -60.60

rat	chromosome:5:167187897:167187998:1	Same_strand\|Exonic_non-coding\|ENSRNOT00000053746\|ENSRNOG00000035623 ## ENSRNOG00000035623\|miRNA\|rno-mir-34a\|rno-mir-34a [Source:miRBase;Acc:MI0000877] ## {MIR: rno-mir-34a}
human	chromosome:1:9134317:9134420:-1	Same_strand\|Exonic_non-coding\|ENST00000385130\|ENSG00000207865\|miRNA\|hsa-mir-34a [Source:miRBase;Acc:MI0000268] ## {MIR: hsa-mir-34a}
mouse	chromosome:4:149442546:149442684:1	Same_strand\|Boundary_non-coding\|ENSMUST00000083559\|ENSMUSG00000065493\|miRNA\|mmu-mir-34a [Source:miRBase;Acc:MI0000584] ## {MIR: mmu-mir-34a}

miRNAknown_cloningHIGH_randfoldOK (4 loci)

rno-mir-215

Cloning frequencies
absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-215 5arm	7	5	7	10	15	15	20	13	53	20
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-215 5arm	0.000	0.000	0.000	0.001	0.001	0.001	0.002	0.001	0.003	0.001

block328359 (miRBase rno-mir-215) [miRNAknown_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
miRBase rno-mir-215	0.005	no	no	0.33/0.39	18/22/0.81	0.0	0.2	65	0	10	0	13	5	5arm	1	nd	0.18	2	165	10	na	na

Clusters
Located in cluster 21: rno-mir-194, rno-mir-215

Families
Member of family miR-192/215 (seed UGACCUA): rno-mir-215, rno-mir-192, rno-mir-192, block1351931_cand

		reads	miRBase family seed
seed	--------------UGACCUA-----------------------------------------------------------------------------	163	miR-192/215
seed	---------------GACCUAU----------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-miR-215	-------------ATGACCTATGATTTGACAGAC----------------------------------------------------------------	21	1	1	1	3	7	9	9	4	24	10
	-------------ATGACCTATGATTTGACAGACA---------------------------------------------------------------	22	4	-	4	4	4	5	6	3	13	4
	-------------ATGACCTATGATTTGACAG------------------------------------------------------------------	19	-	2	1	1	-	-	4	3	5	2
	-------------ATGACCTATGATTTGACAGA-----------------------------------------------------------------	20	2	1	1	-	2	-	-	3	7	1
	-------------ATGACCTATGATTTGACA-------------------------------------------------------------------	18	-	1	-	1	2	-	1	-	4	3
	--------------TGACCTATGATTTGACAG------------------------------------------------------------------	18	-	-	-	1	-	-	-	-	-	-
	--------------TGACCTATGATTTGACAGA-----------------------------------------------------------------	19	-	-	-	-	-	1	-	-	-	-
rat	GGTGTACAGGACAATGACCTATGATTTGACAGACAGTGTGGCTGCGTGTGTCTGTCA-TTCTGTAGGCCAATATTCTGTATGTCTCTCCTCCTTACAA
human	-------------ATGACCTATGAATTGACAGACAATATAGCTGAGTTTGTCTGTCATTTCTTTAGGCCAA---------------------------
mouse	-------------ATGACCTATGATTTGACAGACCGTGCAGCTGTGTATGTCTGTCA-TTCTGTAGGCCAA---------------------------
	********* ******* * ** ******* ******
	-------------------------------------------------------------- ---------------------------------------------	ENSRNOT00000057395 ENSRNOG00000002368 Iars2
	-------------------------------------------------------------- ---------------------------------------------	ENSRNOT00000057394 ENSRNOG00000002368 Iars2
	-------------------------------------------------------------- ---------------------------------------------	ENSRNOT00000057393 ENSRNOG00000002368 Iars2
	-------------------------------------------------------------- ---------------------------------------------	ENSRNOT00000003222 ENSRNOG00000002368 Iars2
	-------------------------------------------------------------- ---------------------------------------------	ENSRNOT00000057392 ENSRNOG00000002368 Iars2
	.....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.....	ENSRNOT00000054364 ENSRNOG00000036241 rno-mir-215
rat	((..(((((((.(.((.(((((((..((((((((.(..((....))..))))))))) .)).))))).)).).)))))))..))..............	1.000 -31.40
human	.((.((((.(((.((((((((((...........)))))))))).)))..)))).)).	1.000 -22.10
mouse	.((.(((((((..(((((((.((((((....))))))))))))) .)).))))).)).	1.000 -22.40

rat	chromosome:13:101312688:101312784:1	Opposite_strand\|Intronic_coding\|ENSRNOT00000003222\|ENSRNOG00000002368 ## Same_strand\|Exonic_non-coding\|ENSRNOT00000054364\|ENSRNOG00000036241 ## ENSRNOG00000036241\|miRNA\|rno-mir-215\|rno-mir-215 [Source:miRBase;Acc:MI0003482] ## ENSRNOG00000002368\|protein_coding\|Iars2\|isoleucine-tRNA synthetase 2, mitochondrial Gene [Source:MGI (curated);Acc:Iars2-001] ## {MIR: rno-mir-215}
human	chromosome:1:218357798:218357934:-1	Opposite_strand\|Intronic_coding\|ENST00000302637\|ENSG00000067704\|protein_coding\|Isoleucyl-tRNA synthetase, mitochondrial Precursor (EC 6.1.1.5)(Isoleucine--tRNA ligase)(IleRS) [Source:UniProtKB/Swiss-Prot;Acc:Q9NSE4] ## Same_strand\|Boundary_non-coding\|ENST00000384858\|ENSG00000207590\|miRNA\|hsa-mir-215 [Source:miRBase;Acc:MI0000291] ## {MIR: hsa-mir-215}
mouse	chromosome:1:187137456:187137592:1	Opposite_strand\|Intronic_coding\|ENSMUST00000027921\|ENSMUSG00000026618\|protein_coding\|isoleucine-tRNA synthetase 2, mitochondrial Gene [Source:MGI (curated);Acc:Iars2-001] ## Same_strand\|Boundary_non-coding\|ENSMUST00000083628\|ENSMUSG00000065562\|miRNA\|mmu-mir-215 [Source:miRBase;Acc:MI0000974] ## {MIR: mmu-mir-215}

rno-mir-346

Cloning frequencies
absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-346 5arm	1102	859	3	0	3	0	16	62	7	3
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-346 5arm	0.037	0.037	0.000	0	0.000	0	0.001	0.003	0.000	0.000

block559933 (miRBase rno-mir-346) [miRNAknown_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
miRBase rno-mir-346	0.001	no	no	0.58/0.68	18/26/0.85	0.0	0.8	1192	0	8	0	15	1	5arm	1	nd	0.20	2	2055	8	na	na

Families
Member of family miR-346 (seed GUCUGCC): rno-mir-346, block1063478_cand

		reads	miRBase family seed
seed	------------------------------------GUCUGCC---------------------------------------------------------------------------------------------	1902	miR-346
seed	-----------------------------------UGUCUGC----------------------------------------------------------------------------------------------	91	novel
seed	----------------------------------CUGUCUG-----------------------------------------------------------------------------------------------	46	novel
seed	-------------------------------------UCUGCCU--------------------------------------------------------------------------------------------	16	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T3S1	T4S1	T4S2	T5S1	T5S2
	-----------------------------------TGTCTGCCTGAGTGCCTGCCTCTC-----------------------------------------------------------------------------	24	431	332	1	2	10	20	2	-
rno-miR-346	-----------------------------------TGTCTGCCTGAGTGCCTGCCTCT------------------------------------------------------------------------------	23	144	121	-	-	-	17	4	-
	-----------------------------------TGTCTGCCTGAGTGCCTGCCTC-------------------------------------------------------------------------------	22	149	107	1	-	1	8	-	1
	-----------------------------------TGTCTGCCTGAGTGCCTGCC---------------------------------------------------------------------------------	20	136	96	-	-	3	6	1	2
	-----------------------------------TGTCTGCCTGAGTGCCTGC----------------------------------------------------------------------------------	19	77	62	-	-	-	6	-	-
	-----------------------------------TGTCTGCCTGAGTGCCTGCCT--------------------------------------------------------------------------------	21	45	31	-	1	-	3	-	-
	-----------------------------------TGTCTGCCTGAGTGCCTG-----------------------------------------------------------------------------------	18	33	34	1	-	2	2	-	-
	----------------------------------CTGTCTGCCTGAGTGCCTGCCTCTC-----------------------------------------------------------------------------	25	12	11	-	-	-	-	-	-
	----------------------------------CTGTCTGCCTGAGTGCCTG-----------------------------------------------------------------------------------	19	7	14	-	-	-	-	-	-
	----------------------------------CTGTCTGCCTGAGTGCCT------------------------------------------------------------------------------------	18	11	7	-	-	-	-	-	-
	----------------------------------CTGTCTGCCTGAGTGCCTGCCTC-------------------------------------------------------------------------------	23	7	6	-	-	-	-	-	-
	-----------------------------------TGTCTGCCTGAGTGCCTGCCTCTCT----------------------------------------------------------------------------	25	7	3	-	-	-	-	-	-
	---------------------------------TCTGTCTGCCTGAGTGCCT------------------------------------------------------------------------------------	19	6	4	-	-	-	-	-	-
	---------------------------------TCTGTCTGCCTGAGTGCC-------------------------------------------------------------------------------------	18	5	4	-	-	-	-	-	-
	----------------------------------CTGTCTGCCTGAGTGCCTGCC---------------------------------------------------------------------------------	21	6	3	-	-	-	-	-	-
	---------------------------------TCTGTCTGCCTGAGTGCCTGCC---------------------------------------------------------------------------------	22	2	6	-	-	-	-	-	-
	---------------------------------TCTGTCTGCCTGAGTGCCTGCCTC-------------------------------------------------------------------------------	24	4	3	-	-	-	-	-	-
	------------------------------------GTCTGCCTGAGTGCCTGCCTCTC-----------------------------------------------------------------------------	23	5	2	-	-	-	-	-	-
	---------------------------------TCTGTCTGCCTGAGTGCCTG-----------------------------------------------------------------------------------	20	6	1	-	-	-	-	-	-
	------------------------------------GTCTGCCTGAGTGCCTGCCTC-------------------------------------------------------------------------------	21	2	3	-	-	-	-	-	-
	----------------------------------CTGTCTGCCTGAGTGCCTGCCTCT------------------------------------------------------------------------------	24	2	2	-	-	-	-	-	-
	---------------------------------TCTGTCTGCCTGAGTGCCTGC----------------------------------------------------------------------------------	21	1	1	-	-	-	-	-	-
	---------------------------------TCTGTCTGCCTGAGTGCCTGCCTCTC-----------------------------------------------------------------------------	26	1	1	-	-	-	-	-	-
	----------------------------------CTGTCTGCCTGAGTGCCTGCCT--------------------------------------------------------------------------------	22	1	1	-	-	-	-	-	-
	------------------------------------GTCTGCCTGAGTGCCTGCC---------------------------------------------------------------------------------	19	-	2	-	-	-	-	-	-
	------------------------------------GTCTGCCTGAGTGCCTGC----------------------------------------------------------------------------------	18	1	1	-	-	-	-	-	-
	----------------------------------CTGTCTGCCTGAGTGCCTGC----------------------------------------------------------------------------------	20	-	1	-	-	-	-	-	-
	---------------------------------TCTGTCTGCCTGAGTGCCTGCCT--------------------------------------------------------------------------------	23	1	-	-	-	-	-	-	-
rat	--------------------TCTGTGTTGGGCATCTGTCTGCCTGAGTGCCTGCCTCTCTGTTGCTCTGAAGGAGGCAGGGGCTGGGCCTGCAGCTGCCTGGGCAGAGCTGCTCCTTC------------------
human	AGACGAGCGTGTGGGAGGTCTCTGTGTTGGGCGTCTGTCTGCCCGCATGCCTGCCTCTCTGTTGCTCTGAAGGAGGCAGGGGCTGGGCCTGCAGCTGCCTGGGCAGAGCGGCTCCTGCATGGGACATGGCTCTTCT
mouse	-----------------------------------TGTCTGCCCGAGTGCCTGCCTCTCTGTTGCTCTGAAGGAGGCAGGGGCTGGGCCTGCA-------------------------------------------
	******** * **********************************************
	+++++ ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ +++++	ENSRNOT00000060766 ENSRNOG00000039629 Grid1
	..... >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> .....	ENSRNOT00000053687 ENSRNOG00000035564 rno-mir-346
rat	(((((.(..((((.((((..((((.(((.((((((((.((..........)))))))))).)))))))..)))).))))..))))))...........	1.000 -49.00
human	(((.(((((((..((((..((((((.(((((((.((((..((((((...((((((((.((..........)))))))))).)).))))..)))).)))))))))))))...))))..)))........)))).)))	0.984 -66.70
mouse	.((..((((.(((.((((((((.((..........)))))))))).)))))))..)).	1.000 -31.50

rat	chromosome:16:10553485:10553582:1	Same_strand\|Exonic_non-coding\|ENSRNOT00000053687\|ENSRNOG00000035564 ## Same_strand\|Intronic_coding\|ENSRNOT00000060766\|ENSRNOG00000039629 ## ENSRNOG00000039629\|protein_coding\|Grid1\|glutamate receptor, ionotropic, delta 1 (Grid1), mRNA [Source:RefSeq_dna;Acc:NM_024378] ## ENSRNOG00000035564\|miRNA\|rno-mir-346\|rno-mir-346 [Source:miRBase;Acc:MI0000633] ## {MIR: rno-mir-346}
human	chromosome:10:88014406:88014541:-1	Same_strand\|Boundary_non-coding\|ENST00000372087\|ENSG00000182771\|protein_coding\|Glutamate receptor delta-1 subunit Precursor (GluR delta-1) [Source:UniProtKB/Swiss-Prot;Acc:Q9ULK0] ## Same_strand\|Intronic_coding\|ENST00000404212\|ENSG00000182771\|protein_coding\|Glutamate receptor delta-1 subunit Precursor (GluR delta-1) [Source:UniProtKB/Swiss-Prot;Acc:Q9ULK0] ## {MIR: hsa-mir-346}
mouse	chromosome:14:35707775:35707912:1	Same_strand\|Intronic_coding\|ENSMUST00000043349\|ENSMUSG00000041078\|protein_coding\|glutamate receptor, ionotropic, delta 1 Gene [Source:MGI Symbol;Acc:MGI:95812] ## Same_strand\|Boundary_non-coding\|ENSMUST00000083547\|ENSMUSG00000065481\|miRNA\|mmu-mir-346 [Source:miRBase;Acc:MI0000634] ## {MIR: mmu-mir-346}

Back to summary page

confident miRBase miRNAs:

Page 1

Page 6

Page 7

miR-Intess™

sblock5754 (miRBase rno-mir-24-2) [miRNAknown_cloningHIGH_multiarm_DicerOK_randfoldOK]

sblock6415 (miRBase rno-mir-124-2) [miRNAknown_cloningHIGH_multiarm_DicerOK_randfoldOK]

sblock7455 (miRBase rno-mir-219-2) [miRNAknown_cloningHIGH_multiarm_DicerOK_randfoldOK]

rno-mir-674

sblock8113 (miRBase rno-mir-674) [miRNAknown_cloningHIGH_multiarm_DicerOK_randfoldOK]

sblock8319 (miRBase rno-mir-124-3) [miRNAknown_cloningHIGH_multiarm_DicerOK_randfoldOK]

rno-mir-873

sblock9305 (miRBase rno-mir-873) [miRNAknown_cloningHIGH_multiarm_DicerOK_randfoldOK]

sblock9515 (miRBase rno-mir-30c-1) [miRNAknown_cloningHIGH_multiarm_DicerOK_randfoldOK]

rno-mir-34a

sblock9885 (miRBase rno-mir-34a) [miRNAknown_cloningHIGH_multiarm_DicerOK_randfoldOK]

rno-mir-215

block328359 (miRBase rno-mir-215) [miRNAknown_cloningHIGH_randfoldOK]

rno-mir-346

block559933 (miRBase rno-mir-346) [miRNAknown_cloningHIGH_randfoldOK]