logoSmall RNA from different tissues of two rat strains.

miR-Intess™


Summary
Preprocessing
Mapping
Composition

miR classification
miR expression
Downloads
Table
Thresholds
Families
Clusters

Alignments

other miRBase miRNAs

miRNAknown_lenNOK_cloningHIGH_multiarm_randfoldOK (2 loci)

miRNAknown_lenNOK_cloningOK_multiarm_DicerNOK_randfoldOK (2 loci)

rno-mir-184

Cloning frequencies
absoluteT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-184 5arm0001000000
rno-mir-184 3arm4101652510
normalizedT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-184 5arm0000.000000000
rno-mir-184 3arm0.0000.00000.0000.0000.0000.0000.0000.0000
rno-mir-184 relative cloning frequencies

sblock11867 (miRBase rno-mir-184) [miRNAknown_lenNOK_cloningOK_multiarm_DicerNOK_randfoldOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
miRBase rno-mir-1840.001nono0.39/0.5318/22/0.300.0
0.1
0.0
1.0
1
25
0
0
1
8
0
0
5
9
10
6
5arm
3arm
1
1
nd
nd
0.11
0.10
2
2
268-50
sblock11867 hairpin
  readsmiRBase family seed
seed     ---------------------------------------------------------GGACGGA----------------------------------------     22miR-184
seed     ----------------------------------------------------------GACGGAG---------------------------------------     2novel
seed     ---------------CCCUUAU----------------------------------------------------------------------------------     1novel
seed     --------------------------------------------------------UGGACGG-----------------------------------------     1novel
  lencloning frequencies
   T1S1T1S2T2S2T3S1T3S2T4S1T4S2T5S1
      --------------------------------------------------------TGGACGGAGAACTGATAAG-----------------------------     1911-13-3-
      --------------------------------------------------------TGGACGGAGAACTGATAA------------------------------     182--2-2--
      --------------------------------------------------------TGGACGGAGAACTGATAAGG----------------------------     20---2---1
rno-miR-184     --------------------------------------------------------TGGACGGAGAACTGATAAGGGT--------------------------     22--111---
      ---------------------------------------------------------GGACGGAGAACTGATAAGG----------------------------     19----1-1-
      -------------------------------------------------------TTGGACGGAGAACTGATA-------------------------------     18------1-
      --------------------------------------------------------TGGACGGAGAACTGATAAGGG---------------------------     211-------
      --------------TCCCTTATCAGTTTTCCA------------------------------------------------------------------------     18--1-----
rat     ---------CACTTTCCCTTATCAGTTTTCCAG-CCAGCTTTGTGACTGTAAATGTTGGACGGAGAACTGATAAGGGTAAGTGACTG-----------------      
human     CCGGCCAGTCACGTCCCCTTATCACTTTTCCAGCCCAGCTTTGTGACTGTAAGTGTTGGACGGAGAACTGATAAGGGTAGGTGATTGACACTCACAGCCTCCGG      
mouse     --------------TTCCTTATCACTTTTCCAG-CCAGCTTTGTGACTCTAAGTGTTGGACGGAGAACTGATAAGGGT--------------------------      
                      ******** ******** ************** *** *************************                                
 -----         ------------------------ -----------------------------------------------------                 -----ENSRNOT00000036149 ENSRNOG00000014025 RGRF1_RAT
 .....         >>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>                 .....ENSRNOT00000053645 ENSRNOG00000035522 rno-mir-184
rat              (((((.((((((((((((((((.. (((((((((......)))).)))))..)))))))))))))))).)))))....                      1.000 -40.70
human     ..((((((((((...(((((((((.((((((...(((((((((......)))).)))))..)))))).)))))))))...))))))).........))).....     0.802 -37.50
mouse                   .(((((((((.((((((.. (((((((((......)))).)))))..)))))).))))))))).                               1.000 -25.50

ratchromosome:8:94692573:94692649:-1Opposite_strand|Boundary_non-coding|ENSRNOT00000018794|ENSRNOG00000014025 ## Opposite_strand|Intronic_non-coding|ENSRNOT00000036149|ENSRNOG00000014025 ## Same_strand|Exonic_non-coding|ENSRNOT00000053645|ENSRNOG00000035522 ## ENSRNOG00000035522|miRNA|rno-mir-184|rno-mir-184 [Source:miRBase;Acc:MI0000929] ## ENSRNOG00000014025|protein_coding|RGRF1_RAT|Ras-specific guanine nucleotide-releasing factor 1 (Ras-GRF1) (Guanine nucleotide-releasing protein) (GNRP) (P140 Ras-GRF). [Source:UniProtKB/Swiss-Prot;Acc:P28818] ## {MIR: rno-mir-184}
humanchromosome:15:77289181:77289284:1Same_strand|Boundary_non-coding|ENST00000384962|ENSG00000207695|miRNA|hsa-mir-184 [Source:miRBase;Acc:MI0000481] ## {MIR: hsa-mir-184}
mousechromosome:9:89697072:89697188:-1Same_strand|Boundary_non-coding|ENSMUST00000083662|ENSMUSG00000065596|miRNA|mmu-mir-184 [Source:miRBase;Acc:MI0000226] ## {MIR: mmu-mir-184}


rno-mir-290

Cloning frequencies
absoluteT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-290 5arm1538000022
rno-mir-290 3arm0002000121
normalizedT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-290 5arm0.0000.0000.0000.00000000.0000.000
rno-mir-290 3arm0000.0000000.0000.0000.000
rno-mir-290 relative cloning frequencies

sblock507 (miRBase rno-mir-290) [miRNAknown_lenNOK_cloningOK_multiarm_DicerNOK_randfoldOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
miRBase rno-mir-2900.001nono0.43/0.5318/23/0.500.0
0.2
1.7
0.0
11
6
0
0
6
4
0
0
12
16
1
2
5arm
3arm
1
1
nd
nd
0.13
0.11
1
1
2771-2
Clusters
Located in cluster 2: hsa-mir-372, mmu-mir-294, mmu-mir-293, mmu-mir-291b, rno-mir-292, rno-mir-291a, rno-mir-290
Families
Member of family miR-290 (seed UCAAACU): rno-mir-290, block468503_cand, block513493_cand
sblock507 hairpin
  readsmiRBase family seed
seed     -------------------------CUCAAAC--------------------------------------------------------------------------------     21miR-292
seed     -------------------------------------------------------------AGUGCCG--------------------------------------------     5miR-292
seed     ------------------------------------------------------------AAGUGCC---------------------------------------------     1novel
seed     --------------------------UCAAACU-------------------------------------------------------------------------------     0miR-290
  lencloning frequencies
   T1S1T1S2T2S1T2S2T4S2T5S1T5S2
      ------------------------TCTCAAACTATGGGGGCAC---------------------------------------------------------------------     19-1-4-1-
      ------------------------------------------------------------AAGTGCCGCCAGGTTTTA----------------------------------     18---1121
      ------------------------TCTCAAACTATGGGGGCACT--------------------------------------------------------------------     20-11---2
      ------------------------TCTCAAACTATGGGGGCACTT-------------------------------------------------------------------     211-11---
      ------------------------TCTCAAACTATGGGGGCACTTTT-----------------------------------------------------------------     23--12---
      ------------------------TCTCAAACTATGGGGGCACTTT------------------------------------------------------------------     22-3-----
      ------------------------TCTCAAACTATGGGGGCA----------------------------------------------------------------------     18---1-1-
      -----------------------------------------------------------AAAGTGCCGCCAGGTTTTA----------------------------------     19---1---
rno-miR-290     -------------------------CTCAAACTATGGGGGCACTTTTT----------------------------------------------------------------     23-------
rat     ------------TCATCTTGCGGTTCTCAAACTATGGGGGCACTTTTT-TTTTCTTTAAAAAGTGCCGCCAGGTTTTAGGGCCTGCCGGTTGAG------------------      
human     ------------------------ACTCAAACTGTGGGGGCACTTTCTGCTCTCTGGTGAAAGTGCCGCCATCTTTTGAGT-------------------------------      
mouse     GTCTGGACCGCCTCATCTTGCGGTACTCAAACTATGGGGGCACTTTTTTTTTTCTTTAAAAAGTGCCGCCTAGTTTTAAGCCCCGCCGGTTGAGAAAACGGCTATCTGGCAC      
                               ******** ************ *  * ***    ***********   ****  *                                      
 .....            >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>                  .....ENSRNOT00000053668 ENSRNOG00000035545 rno-mir-290
rat                 (((.((.((((((((.(((((.(((.(((((((((( ........)))))))))).)))))))).)))))).)).)).))).                       1.000 -36.90
human                             (((((((..((((.(((((((((.(((....)))))))))))).))))..)))))))                                    1.000 -30.30
mouse     ((((((.(((.((((.((.((((..((.((((((.((.((((((((((.........)))))))))).))))))))..))..)))).)).))))....))))))...)))..     0.964 -42.70

ratchromosome:1:64274926:64275006:-1Same_strand|Exonic_non-coding|ENSRNOT00000053668|ENSRNOG00000035545 ## ENSRNOG00000035545|miRNA|rno-mir-290|rno-mir-290 [Source:miRBase;Acc:MI0000964] ## {Repeats: dust 64274971 64274975 0 class=dust} ## {MIR: rno-mir-290}
humanchromosome:19:58982714:58982834:1Same_strand|Boundary_non-coding|ENST00000362161|ENSG00000199031|miRNA|hsa-mir-371 [Source:miRBase;Acc:MI0000779] ## {MIR: hsa-mir-371}
mousechromosome:7:3218616:3218727:1Same_strand|Boundary_non-coding|ENSMUST00000104627|ENSMUSG00000077815|miRNA|mmu-mir-290 [Source:miRBase;Acc:MI0000388] ## {Repeats: dust 0 class=dust} ## {MIR: mmu-mir-290}


miRNAknown (1 loci)

rno-mir-207

Cloning frequencies
absoluteT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-207 3arm5102000100
normalizedT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-207 3arm0.0000.00000.0000000.00000
rno-mir-207 relative cloning frequencies

sblock9700 (miRBase rno-mir-207) [miRNAknown]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
miRBase rno-mir-2070.070nono0.47/0.6819/24/0.900.0
0.0
0.0
0.0
4
1
0
0
4
1
0
0
11
0
9
23
3arm
3arm
1
1
nd
nd
0.18
0.50
2
7
94nana
sblock9700 hairpin
  readsmiRBase family seed
seed     ----------------------------------------------------UUCUCCU-------------------------     7novel
seed     --------------------------------------------------GCUUCUC---------------------------     1novel
seed     ------------------------------------------------------------------CUCCCUU-----------     1novel
seed     ---------------------------------------------------CUUCUCC--------------------------     0miR-207
  lencloning frequencies
   T1S1T1S2T2S2T4S2
      ---------------------------------------------------CTTCTCCTGGCTCTCCTCCCTT-----------     224--1
      -------------------------------------------------CGCTTCTCCTGGCTCTCCTCCC-------------     221---
      ---------------------------------------------------CTTCTCCTGGCTCTCCTCCC-------------     20-1--
      -----------------------------------------------------------------CCTCCCTTTCTTTGTTGAG     19--1-
      ---------------------------------------------------CTTCTCCTGGCTCTCCTCCCTTTC---------     24--1-
rno-miR-207     --------------------------------------------------GCTTCTCCTGGCTCTCCTCCCTT-----------     23----
rat     AGGCAGGGGTGAGGGGCTGCGGGAGGAGCGGGGCGGAGGCTGCGGCTTGCGCTTCTCCTGGCTCTCCTCCCTTTCTTTGTTGAG      
mouse     ------------------GCGGGAGGAGCCGGGCGGAGGCTGCGGCTTGCGCTTCTCCTGGCTCTCCTCCCTC-----------      
                        *********** ******************************************                  
 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ENSRNOT00000060735 ENSRNOG00000039613
 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ENSRNOT00000060734 ENSRNOG00000039613
 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ENSRNOT00000010061 ENSRNOG00000007029 Dnaja1
 .....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>...........ENSRNOT00000053719 ENSRNOG00000035596 rno-mir-207
rat     (((.(((((.(..((((..(((((((((((((((.(......).)))).)))))))))))))))..).))))).))).......     1.000 -39.60
mouse                       ..(((((((((((((.((((((.((.....))))))))))))))..)))))))..                1.000 -34.30

ratchromosome:5:58101186:58101269:1Same_strand|Boundary_non-coding|ENSRNOT00000053719|ENSRNOG00000035596 ## Same_strand|Intronic_coding|ENSRNOT00000060734|ENSRNOG00000039613 ## Same_strand|Intronic_non-coding|ENSRNOT00000010061|ENSRNOG00000007029 ## Same_strand|Exonic_non-coding|ENSRNOT00000053719|ENSRNOG00000035596 ## ENSRNOG00000007029|protein_coding|Dnaja1|DnaJ homolog subfamily A member 1 (DnaJ-like protein 1). [Source:UniProtKB/Swiss-Prot;Acc:P63036] ## ENSRNOG00000039613|protein_coding|| ## ENSRNOG00000035596|miRNA|rno-mir-207|rno-mir-207 [Source:miRBase;Acc:MI0003479] ## {SimpF: -1 Eponine} ## {MIR: rno-mir-207}
mousechromosome:4:40669931:40670054:1Same_strand|Intronic_non-coding|ENSMUST00000030118|ENSMUSG00000028410|protein_coding|DnaJ (Hsp40) homolog, subfamily A, member 1 Gene [Source:MGI (curated);Acc:Dnaja1-001] ## Same_strand|Boundary_non-coding|ENSMUST00000083518|ENSMUSG00000065452|miRNA|mmu-mir-207 [Source:miRBase;Acc:MI0000250] ## {Repeats: dust 0 class=dust} ## {SimpF: oe = 0.83 1 CpG} ## {MIR: mmu-mir-207}


miRNAknown_cloningHIGH_multiarm_DicerNOK (1 loci)

rno-mir-301b

Cloning frequencies
absoluteT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-301b 5arm0000270000
rno-mir-301b 3arm222506113992018616
normalizedT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-301b 5arm00000.0000.0010000
rno-mir-301b 3arm0.0010.00100.0000.0060.0080.0020.0010.0000.001
rno-mir-301b relative cloning frequencies

sblock3192 (miRBase rno-mir-301b) [miRNAknown_cloningHIGH_multiarm_DicerNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
miRBase rno-mir-301b0.032nono0.35/0.5218/24/0.700.0
0.0
0.4
1.6
7
160
0
0
2
9
0
0
9
10
7
1
5arm
3arm
1
1
44
9
0.45
0.29
8
3
3349-61
Clusters
Located in cluster 17: rno-mir-301b, rno-mir-130b
Families
Member of family miR-130a/130b/301a/301b (seed AGUGCAA): rno-mir-301a, rno-mir-130a, rno-mir-301b, rno-mir-130b, sblock2545_novel
sblock3192 hairpin
  readsmiRBase family seed
seed     -----------------------------------------------------------------AGUGCAA-------------------------------------------     296miR-130a/130b/301a/301b
seed     ------------------------------------------------------------------GUGCAAU------------------------------------------     29novel
seed     ------------------------------CUCUGAC------------------------------------------------------------------------------     9novel
  lencloning frequencies
   T1S1T1S2T2S2T3S1T3S2T4S1T4S2T5S1T5S2
      ----------------------------------------------------------------CAGTGCAATGGTATTGTCAAAG-----------------------------     2264322213332
      ----------------------------------------------------------------CAGTGCAATGGTATTGTCA--------------------------------     19661211755-3
rno-miR-301b     ----------------------------------------------------------------CAGTGCAATGGTATTGTCAAAGC----------------------------     2314-311562-1
      ----------------------------------------------------------------CAGTGCAATGGTATTGTCAAAGCA---------------------------     2453-71021-3
      ----------------------------------------------------------------CAGTGCAATGGTATTGTCAAA------------------------------     21-1-12111-11
      ----------------------------------------------------------------CAGTGCAATGGTATTGTC---------------------------------     1822-9823-1
      ----------------------------------------------------------------CAGTGCAATGGTATTGTCAA-------------------------------     20111551114
      -----------------------------------------------------------------AGTGCAATGGTATTGTCAAAGC----------------------------     22-3-24-1--
      -----------------------------------------------------------------AGTGCAATGGTATTGTCAAAGCA---------------------------     23---14--1-
      -----------------------------------------------------------------AGTGCAATGGTATTGTCA--------------------------------     1811-31----
      -----------------------------GCTCTGACTAGGTTGCACTAC-----------------------------------------------------------------     21---14----
      -----------------------------------------------------------------AGTGCAATGGTATTGTCAA-------------------------------     19--1-3----
      -----------------------------GCTCTGACTAGGTTGCACTACT----------------------------------------------------------------     22---13----
      -----------------------------------------------------------------AGTGCAATGGTATTGTCAAA------------------------------     20------2-1
rat     --------------------GCTGCGGGTGCTCTGACTAGGTTGCACTACTGTGCTGTGGAAAGCAGTGCAATGGTATTGTCAAAGCATCTGGGACCA-----------------      
mouse     GGGCGATGGATTTCCTGCTGGCTGCGGGTGCTCTGACTAGGTTGCACTACTGTGCTGTGAGAAGCAGTGCAATGGTATTGTCAAAGCATCTGGGACCAGCCTCGAAGACCACCTC      
                          ***************************************  *************************************                       
 >>>>>                    >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++                 +++++ENSRNOT00000046664 ENSRNOG00000026918 RGD1308065_predicted
 .....                    >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>                 .....ENSRNOT00000062155 ENSRNOG00000040402 rno-mir-301b
rat                         ....((((((((.((((........((((.((..((((.....))))..)).))))...)))).))))))))......                      1.000 -27.90
mouse     (((...(((.((((..(((((((.((((((((.((((........((((.((..((((.....))))..)).))))...)))).)))))))))).)))))...)))).)))))).     0.918 -43.90

ratchromosome:11:85885248:85885325:1Same_strand|Exonic_non-coding|ENSRNOT00000062155|ENSRNOG00000040402 ## Same_strand|Boundary_non-coding|ENSRNOT00000046664|ENSRNOG00000026918 ## ENSRNOG00000026918|protein_coding|RGD1308065_predicted| ## ENSRNOG00000040402|miRNA|rno-mir-301b|rno-mir-301b [Source:miRBase;Acc:MI0006137] ## {MIR: rno-mir-301b}
mousechromosome:16:17124485:17124599:-1Same_strand|Intronic_non-coding|ENSMUST00000115714|ENSMUSG00000049916|protein_coding|RIKEN cDNA 2610318N02 gene Gene [Source:MGI Symbol;Acc:MGI:1917708] ## Same_strand|Boundary_non-coding|ENSMUST00000102333|ENSMUSG00000076288|miRNA|mmu-mir-301b [Source:miRBase;Acc:MI0004122] ## {MIR: mmu-mir-301b}


miRNAknown_cloningHIGH_multiarm_DicerNOK_5varHIGH_randfoldOK (1 loci)

rno-mir-341

Cloning frequencies
absoluteT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-341 5arm1100000000
rno-mir-341 3arm3280.5002279.50096.5002326.500126.500227.500
normalizedT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-341 5arm0.0000.00000000000
rno-mir-341 3arm0.1090.0990.0000.0000.0010.0020.0010.0000.0000.002
rno-mir-341 relative cloning frequencies

sblock10446 (miRBase rno-mir-341) [miRNAknown_cloningHIGH_multiarm_DicerNOK_5varHIGH_randfoldOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
miRBase rno-mir-3410.001nono0.60/0.7418/26/0.700.0
0.0
0.0
1.1
0.0
0.0
1.0
2.0
1
1
2
4308
0
0
0
0
1
1
1
10
0
0
0
0
22
37
30
14
1
-12
-5
5
5arm
5arm_loop_3arm
3arm_loop
3arm
1
1
2
2
nd
nd
nd
nd
0.26
0.38
0.35
0.15
2
5
4
2
59841053
sblock10446 hairpin
  readsmiRBase family seed
seed     ---------------------------------------------------------CGGUCGA--------------------------------     3418miR-341
seed     -------------------------------------------------------------CGAUCGG----------------------------     2172novel
seed     ------------------------------------------------------------UCGAUCG-----------------------------     232novel
seed     --------------------------------------------------------UCGGUCG---------------------------------     126novel
seed     --------------------------------------------------------------GAUCGGU---------------------------     14novel
seed     ----------------------------------------------------------GGUCGAU-------------------------------     10novel
seed     -----------------------------------------------------CGGUCGG------------------------------------     7novel
seed     -----------------------------------------------GUCAGUC------------------------------------------     2novel
seed     -------------------------------------------------------GUCGGUC----------------------------------     1novel
seed     -----------------------GUCGGCC------------------------------------------------------------------     1novel
seed     --------------------------------------GGUCUGU---------------------------------------------------     1novel
  lencloning frequencies
   T1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-miR-341     --------------------------------------------------------TCGGTCGATCGGTCGGTCGGT-------------------     217045133-5123--6
      ------------------------------------------------------------TCGATCGGTCGGTCGGTCAGTC--------------     225082993-33---1
      --------------------------------------------------------TCGGTCGATCGGTCGGTCGG--------------------     20415355123221-2
      --------------------------------------------------------TCGGTCGATCGGTCGGTCG---------------------     19352253-23-53-6
      ------------------------------------------------------------TCGATCGGTCGGTCGGTCAG----------------     20370193--31--23
      --------------------------------------------------------TCGGTCGATCGGTCGGTC----------------------     18277262-125-3-7
      ------------------------------------------------------------TCGATCGGTCGGTCGGTCA-----------------     191961051-21---1
      ------------------------------------------------------------TCGATCGGTCGGTCGGTCAGT---------------     211611021-21----
      ------------------------------------------------------------TCGATCGGTCGGTCGGTC------------------     1811394-1---1--
      --------------------------------------------------------TCGGTCGATCGGTCGGTCGGTC------------------     2211067-1-22--3
      -----------------------------------------------------------GTCGATCGGTCGGTCGGTCAGTC--------------     235356--1-----
      -------------------------------------------------------GTCGGTCGATCGGTCGGTC----------------------     192226--------
      -----------------------------------------------------------GTCGATCGGTCGGTCGGTCAG----------------     212912-------2
      -------------------------------------------------------GTCGGTCGATCGGTCGGTCGGT-------------------     222112--------
      -----------------------------------------------------------GTCGATCGGTCGGTCGGTCA-----------------     201613--------
      --------------------------------------------------------TCGGTCGATCGGTCGGTCGGTCA-----------------     23146--------
      -----------------------------------------------------------GTCGATCGGTCGGTCGGT-------------------     18711--------
      -----------------------------------------------------------GTCGATCGGTCGGTCGGTCAGT---------------     2298--------
      -----------------------------------------------------------GTCGATCGGTCGGTCGGTC------------------     1987--------
      -------------------------------------------------------GTCGGTCGATCGGTCGGTCGG--------------------     21114--------
      -------------------------------------------------------GTCGGTCGATCGGTCGGTCG---------------------     2076---1----
      -------------------------------------------------------GTCGGTCGATCGGTCGGT-----------------------     1866--------
      -------------------------------------------------------------CGATCGGTCGGTCGGTCAGTC--------------     2152--------
      ---------------------------------------------------------CGGTCGATCGGTCGGTCGG--------------------     1931--------
      -------------------------------------------------------GTCGGTCGATCGGTCGGTCGGTC------------------     2313--------
      ---------------------------------------------------------CGGTCGATCGGTCGGTCG---------------------     183---------
      -------------------------------------------------------------CGATCGGTCGGTCGGTCAG----------------     1921--------
      ----------------------------------------------------TCGGTCGGTCGATCGGTCGG------------------------     203---------
      ---------------------------------------------------------CGGTCGATCGGTCGGTCGGT-------------------     202----1----
      ----------------------------------------------------TCGGTCGGTCGATCGGTCG-------------------------     19-2--------
      -------------------------------------------------------------CGATCGGTCGGTCGGTCA-----------------     1811--------
      --------------------------------------------------------TCGGTCGATCGGTCGGTCGGTCAGTC--------------     2611--------
      -------------------------------------------------------------CGATCGGTCGGTCGGTCAGT---------------     2011--------
      --------------------------------------------------------TCGGTCGATCGGTCGGTCGGTCAG----------------     241---------
      ----------------------------------------------AGTCAGTCGGTCGGTCGA--------------------------------     18-1--------
      ----------------------------------------------------TCGGTCGGTCGATCGGTCGGTC----------------------     22-1--------
      ----------------------------------------------AGTCAGTCGGTCGGTCGATC------------------------------     20-1--------
      -------------------------------------CGGTCTGTCAGTCAGTCGGTC--------------------------------------     211---------
      ------------------------------------------------------GGTCGGTCGATCGGTCGG------------------------     181---------
      ----------------------GGTCGGCCGATCGCTCGGTCTGT---------------------------------------------------     23-1--------
      ----------------------------------------------------TCGGTCGGTCGATCGGTC--------------------------     18-1--------
      ------------------------------------------------------------TCGATCGGTCGGTCGGTCAGTCG-------------     23-1--------
rat     aaaatgatgatgtcagttggccggtcggccgatcgctcggtctgtcagtcagtcggTCGGTCGATCGGTCGGTCGGTCAGTCggcttcctgtcttc      
      ************************************************************************************************      
 .....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.....ENSRNOT00000054390 ENSRNOG00000036267 rno-mir-341
rat     .....(((((.(((..(((((((..((((((((((..(((.(((.(.....).))))))..))))))))))..)))))))..))).))..)))...     1.000 -47.10

ratchromosome:6:134203518:134203613:1Same_strand|Exonic_non-coding|ENSRNOT00000054390|ENSRNOG00000036267 ## ENSRNOG00000036267|miRNA|rno-mir-341|rno-mir-341 [Source:miRBase;Acc:MI0000624] ## {Repeats: dust 134203555 134203601 0 class=dust,trf 2 48 0 class=trf,trf 40 63 0 class=trf,trf 38 61 0 class=trf,dust 134203593 134203601 0 class=dust,(CGGT)n 13 36 1 class=Simple_repeat,trf 1 46 0 class=trf,(CGGT)n 3 75 1 class=Simple_repeat,(CGGT)n 28 74 1 class=Simple_repeat} ## {MIR: rno-mir-341}


miRNAknown_cloningHIGH_multiarm_DicerNOK_Multihit_randfoldOK (1 loci)

rno-mir-466b

Cloning frequencies
absoluteT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-466b 5arm7.0806.402100.39456.10136.62647.8783.06917.6763.40013.933
rno-mir-466b 3arm0.1420.1230.7590.8360.4600.1640.0040.0151.0580.087
normalizedT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-466b 5arm0.0000.0000.0050.0030.0020.0040.0000.0010.0000.001
rno-mir-466b 3arm0.0000.0000.0000.0000.0000.0000.0000.0000.0000.000
rno-mir-466b relative cloning frequencies

sblock5208 (miRBase rno-mir-466b-2) [miRNAknown_cloningHIGH_multiarm_DicerNOK_Multihit_randfoldOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
miRBase rno-mir-466b-20.001nono0.27/0.4518/25/0.820.0
0.0
0.0
0.0
0.5
0.0
141
122
1
0
0
0
10
8
1
0
0
0
11
12
0
5
5
20
5arm
3arm
3arm
2
307
307
nd
nd
nd
0.09
0.05
0.29
2
1
4
5931001
Families
Member of family miR-466b (seed AUGUGUG): mmu-mir-466b, rno-mir-466b, rno-mir-466b, rno-mir-466b-2, rno-mir-466b-1
sblock5208 hairpin
  readsmiRBase family seed
seed     ------------UGUGUGU---------------------------------------------------------------     287novel
seed     --------------------------------------------------UAUACAU-------------------------     168novel
seed     ----------UAUGUGU-----------------------------------------------------------------     57novel
seed     -------------------GUGUAUG--------------------------------------------------------     30novel
seed     -------------------------------------------------AUAUACA--------------------------     16novel
seed     ---------------------------------------------------AUACAUA------------------------     15novel
seed     -----------------------------------------------------ACAUACA----------------------     6novel
seed     -----------AUGUGUG----------------------------------------------------------------     6miR-466b
seed     -----------------GUGUGUA----------------------------------------------------------     2novel
seed     --------------------UGUAUGU-------------------------------------------------------     2miR-297
seed     --------------UGUGUGU-------------------------------------------------------------     1novel
seed     ------------------UGUGUAU---------------------------------------------------------     1novel
seed     -----------------------------------------------------------------ACACAUA----------     1novel
seed     ------------------------------------------------CAUAUAC---------------------------     1novel
  lencloning frequencies
   T1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
      -----------ATGTGTGTGTGTATGTCCATGT-------------------------------------------------     2254563620291915
      -------------------------------------------------ATATACATACACACATACACA------------     214336201010---1
      -------------------------------------------------ATATACATACACACATACAC-------------     2051293763---1
      -----------ATGTGTGTGTGTATGTCCA----------------------------------------------------     191-126125-511
      -----------ATGTGTGTGTGTATGTCCATG--------------------------------------------------     211-108222313
      -----------ATGTGTGTGTGTATGTCCATGTGT-----------------------------------------------     24-19237-112
      ------------------TGTGTATGTCCATGTGTGT---------------------------------------------     19--7103--3--
      ---------ATATGTGTGTGTGTATGTC------------------------------------------------------     1911514611--
      ---------ATATGTGTGTGTGTATGTCCAT---------------------------------------------------     22-2631-----
      ---------ATATGTGTGTGTGTATGTCCA----------------------------------------------------     21--3131---3
      --------------------------------------------------TATACATACACACATACAC-------------     191-4213----
      ---------ATATGTGTGTGTGTATGTCCATGT-------------------------------------------------     24--1413-1--
      -----------ATGTGTGTGTGTATGTCCATGTG------------------------------------------------     23--5-13----
      -----------ATGTGTGTGTGTATGTCCAT---------------------------------------------------     201-3-31---1
      ------------------------------------------------CATATACATACACACATACAC-------------     211222-1-1--
      ----------TATGTGTGTGTGTATGTCCATGT-------------------------------------------------     23--4------1
      ------------------------------------------------CATATACATACACACATACACA------------     22--311-----
      ---------ATATGTGTGTGTGTATGTCC-----------------------------------------------------     20----11-1-1
      --------------------------------------------------TATACATACACACATACACA------------     20--211-----
      ------------------TGTGTATGTCCATGTGTGTA--------------------------------------------     20--21------
      ----------------------------------------------------TACATACACACATACACAT-----------     191-11------
      ----------------------------------------------------TACATACACACATACACATATAC-------     23--3-------
      ------------------------------------------------CATATACATACACACATAC---------------     19---1-1----
      -------------------------------------------------ATATACATACACACATACACAT-----------     2211--------
      ------------------TGTGTATGTCCATGTGTG----------------------------------------------     18--1--1----
      -----------ATGTGTGTGTGTATGTCCATGTGTG----------------------------------------------     25--2-------
      -------------------GTGTATGTCCATGTGTGTA--------------------------------------------     19----1----1
      -------------GTGTGTGTGTATGTCCATGT-------------------------------------------------     20---1------
      ----------------TGTGTGTATGTCCATGTGTGT---------------------------------------------     211---------
rno-miR-466b     ----------TATGTGTGTGTGTATGTCCATG--------------------------------------------------     22-------1--
      ----------------TGTGTGTATGTCCATGTGTGTA--------------------------------------------     22---1------
      ------------------TGTGTATGTCCATGTGTGTATAT-----------------------------------------     23--1-------
      ------------------TGTGTATGTCCATGTGTGTAT-------------------------------------------     21----1-----
      -----------------------------------------------ACATATACATACACACATACAC-------------     22----1-----
      -----------------GTGTGTATGTCCATGTGTGTA--------------------------------------------     21--1-------
      ----------------------------------------------------------------TACACATATACGCAAGCA     18--------1-
rat     catgtgtgtatATGTGTGTGTGTATGTCCATGTgtgtatatgattatacATATACATACACACATACACAtatacgcaagca      
      **********************************************************************************      
 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ENSRNOT00000042430 ENSRNOG00000029235 Sfmbt2
 .....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.....ENSRNOT00000063096 ENSRNOG00000041343 rno-mir-466b-2
rat     ..(((((((((.(((((((((((((((..(((((((((......)))))))))))))))))))))))).)))))))))....     1.000 -41.60

ratchromosome:17:79288534:79288615:-1Same_strand|Boundary_non-coding|ENSRNOT00000051529|ENSRNOG00000029235 ## Same_strand|Intronic_coding|ENSRNOT00000042430|ENSRNOG00000029235 ## Same_strand|Exonic_non-coding|ENSRNOT00000063096|ENSRNOG00000041343 ## ENSRNOG00000041343|miRNA|rno-mir-466b-2|rno-mir-466b-2 [Source:miRBase;Acc:MI0006113] ## ENSRNOG00000029235|protein_coding|Sfmbt2|Scm-like with four mbt domains 2 Gene [Source:MGI (curated);Acc:Sfmbt2-001] ## {Repeats: dust 79288579 79288607 0 class=dust,trf 1 29 0 class=trf,dust 79288534 79288552 0 class=dust,(CA)n 2 34 -1 class=Simple_repeat,trf 1 31 0 class=trf,dust 79288541 79288569 0 class=dust,(TG)n 2 46 -1 class=Simple_repeat,(TG)n 19 46 -1 class=Simple_repeat,(CA)n 1 50 -1 class=Simple_repeat,(TG)n 12 30 -1 class=Simple_repeat} ## {MIR: rno-mir-466b-2}


miRNAknown_cloningHIGH_multiarm_DicerNOK_randfoldOK_bulgeHIGH (1 loci)

rno-mir-342

Cloning frequencies
absoluteT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-342 5arm14892972121139123926
rno-mir-342 3arm107096639225790151509899992159128252641
normalizedT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-342 5arm0.0050.0040.0000.0000.0100.0090.0010.0010.0030.002
rno-mir-342 3arm0.3560.2900.0120.0470.7380.7500.0770.0840.1860.176
rno-mir-342 relative cloning frequencies

sblock10429 (miRBase rno-mir-342) [miRNAknown_cloningHIGH_multiarm_DicerNOK_randfoldOK_bulgeHIGH]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
miRBase rno-mir-3420.001nono0.42/0.5818/26/0.700.2
0.0
0.0
1.5
0.0
1.5
295
3
26452
0
0
0
10
2
10
0
0
0
18
43
15
10
-12
6
5arm
5arm_loop_3arm
3arm
1
1
1
nd
nd
nd
0.33
0.47
0.25
5
4
4
521281001
sblock10429 hairpin
  readsmiRBase family seed
seed     ---------------------------------------------------------------------------------CUCACAC--------------------------------------------------     45281miR-342
seed     -----------------------------------------------------------------------------------CACACAG------------------------------------------------     5566novel
seed     ----------------------------------------------------------------------------------UCACACA-------------------------------------------------     569miR-377
seed     ---------------------------------------GGGGUGC--------------------------------------------------------------------------------------------     427miR-342
seed     ----------------------------------------GGGUGCU-------------------------------------------------------------------------------------------     231novel
seed     ------------------------------------------------------------------------------------ACACAGA-----------------------------------------------     34novel
seed     --------------------------------------------GCUAUCU---------------------------------------------------------------------------------------     6novel
seed     ---------------------------------------------------------------------------------------CAGAAAU--------------------------------------------     4novel
seed     ----------------------------------------------------------------AUGGUCA-------------------------------------------------------------------     3novel
seed     --------------------------------------------------------------------------------UCUCACA---------------------------------------------------     3novel
seed     -------------------------------------------------------------------------------------CACAGAA----------------------------------------------     3novel
seed     ----------------------------------------------------------------------------------------AGAAAUC-------------------------------------------     1novel
  lencloning frequencies
   T1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
      --------------------------------------------------------------------------------TCTCACACAGAAATCGCACCC-------------------------------------     21290519293422940522731278438746720
      --------------------------------------------------------------------------------TCTCACACAGAAATCGCACCCGTC----------------------------------     24229013232415935972363293396764570
      --------------------------------------------------------------------------------TCTCACACAGAAATCGCAC---------------------------------------     19173810385411221621362121205388376
      --------------------------------------------------------------------------------TCTCACACAGAAATCGCACCCG------------------------------------     226783772266113197162125199218
      --------------------------------------------------------------------------------TCTCACACAGAAATCGCA----------------------------------------     18712435266111237725782181191
      --------------------------------------------------------------------------------TCTCACACAGAAATCGCACC--------------------------------------     207554992950104160467106178196
      ----------------------------------------------------------------------------------TCACACAGAAATCGCACCC-------------------------------------     1962440715557554163490156153
      ----------------------------------------------------------------------------------TCACACAGAAATCGCACCCGTCAC--------------------------------     2417395-71938814333631
      ----------------------------------------------------------------------------------TCACACAGAAATCGCACC--------------------------------------     181446697217987181935
      ----------------------------------------------------------------------------------TCACACAGAAATCGCACCCG------------------------------------     2013183113200998122438
      ----------------------------------------------------------------------------------TCACACAGAAATCGCACCCGTC----------------------------------     22133101441631046233128
      --------------------------------------------------------------------------------TCTCACACAGAAATCGCACCCGTCAC--------------------------------     262011251101055412202710
rno-miR-342-3p     --------------------------------------------------------------------------------TCTCACACAGAAATCGCACCCGT-----------------------------------     235133137952761317
      ---------------------------------------------------------------------------------CTCACACAGAAATCGCACCC-------------------------------------     204325-155307101312
      ----------------------------------------------------------------------------------TCACACAGAAATCGCACCCGTCA---------------------------------     231616-371273899
      ----------------------------------------------------------------------------------TCACACAGAAATCGCACCCGT-----------------------------------     212616-1593512513
      ---------------------------------------------------------------------------------CTCACACAGAAATCGCACCCGTC----------------------------------     23311011423421188
      --------------------------------------AGGGGTGCTATCTGTGATT---------------------------------------------------------------------------------     1928222-45241676
rno-miR-342-5p     --------------------------------------AGGGGTGCTATCTGTGATTGAG------------------------------------------------------------------------------     223111--29242174
      ---------------------------------------------------------------------------------CTCACACAGAAATCGCACC--------------------------------------     19161121262132106
      ---------------------------------------GGGGTGCTATCTGTGATTGAG------------------------------------------------------------------------------     21165-22310-271
      --------------------------------------AGGGGTGCTATCTGTGATTGA-------------------------------------------------------------------------------     21219--149-113
      ---------------------------------------------------------------------------------CTCACACAGAAATCGCACCCG------------------------------------     21891114127132
      ---------------------------------------------------------------------------------CTCACACAGAAATCGCAC---------------------------------------     18812-21610-2--
      --------------------------------------AGGGGTGCTATCTGTGAT----------------------------------------------------------------------------------     181362-1061-44
      ----------------------------------------------------------------------------------TCACACAGAAATCGCACCCGTCACC-------------------------------     2597-2105--102
      --------------------------------------------------------------------------------TCTCACACAGAAATCGCACCCGTCA---------------------------------     255911186111-
      ---------------------------------------GGGGTGCTATCTGTGATT---------------------------------------------------------------------------------     1847--187--21
      ---------------------------------------GGGGTGCTATCTGTGATTGA-------------------------------------------------------------------------------     206921115----
      ---------------------------------------GGGGTGCTATCTGTGATTGAGGGAC--------------------------------------------------------------------------     2515-1883-12
      --------------------------------------AGGGGTGCTATCTGTGATTGAGG-----------------------------------------------------------------------------     2310211101---1
      ---------------------------------------GGGGTGCTATCTGTGATTGAGG-----------------------------------------------------------------------------     2283-184--1-
      --------------------------------------AGGGGTGCTATCTGTGATTG--------------------------------------------------------------------------------     20441-731131
      ---------------------------------------GGGGTGCTATCTGTGATTG--------------------------------------------------------------------------------     1934--122--11
      -----------------------------------------------------------------------------------CACACAGAAATCGCACCC-------------------------------------     1836--332-11
      --------------------------------------AGGGGTGCTATCTGTGATTGAGGGAC--------------------------------------------------------------------------     2632--52-11-
      ---------------------------------------------------------------------------------CTCACACAGAAATCGCACCCGTCAC--------------------------------     2531-122--1-
      ---------------------------------------GGGGTGCTATCTGTGATTGAGGG----------------------------------------------------------------------------     23-2-1411-1-
      -----------------------------------------------------------------------------------CACACAGAAATCGCACCCGTC----------------------------------     213---3---2-
      --------------------------------------AGGGGTGCTATCTGTGATTGAGGG----------------------------------------------------------------------------     24--1-32---2
      ---------------------------------------------------------------------------------CTCACACAGAAATCGCACCCGT-----------------------------------     22-1--4----2
      ---------------------------------------GGGGTGCTATCTGTGATTGAGGGA---------------------------------------------------------------------------     24-1--13----
      -----------------------------------------------------------------------------------CACACAGAAATCGCACCCGTCAC--------------------------------     23-2--1-----
      -------------------------------------------TGCTATCTGTGATTGAGGGACA-------------------------------------------------------------------------     22----11--1-
      --------------------------------------------------------------------------------------ACAGAAATCGCACCCGTC----------------------------------     18----2----1
      -------------------------------------------------------------------------------GTCTCACACAGAAATCGCACCCGTC----------------------------------     25-2--1-----
      -----------------------------------------------------------------------------------CACACAGAAATCGCACCCG------------------------------------     19----2----1
      ---------------------------------------------------------------CATGGTCAATGGAATTGTC--------------------------------------------------------     19----21----
      -------------------------------------------TGCTATCTGTGATTGAGGGAC--------------------------------------------------------------------------     21----1---1-
      ------------------------------------------------------------------------------------ACACAGAAATCGCACCCG------------------------------------     18----2-----
      -----------------------------------------------------------------------------------CACACAGAAATCGCACCCGT-----------------------------------     20-1--------
      ------------------------------------------------------------------------------------ACACAGAAATCGCACCCGTC----------------------------------     201---------
      ---------------------------------------------------------------------------------------CAGAAATCGCACCCGTCA---------------------------------     181---------
      -------------------------------------------TGCTATCTGTGATTGAGGG----------------------------------------------------------------------------     19--------1-
      ---------------------------------------------------------------------------------CTCACACAGAAATCGCACCCGTCACC-------------------------------     26----1-----
      --------------------------------------------------------------------------------------ACAGAAATCGCACCCGTCA---------------------------------     191---------
      ---------------------------------------------------------------------------------CTCACACAGAAATCGCACCCGTCA---------------------------------     24---------1
rat     --------------------GAAAATGGGCTCAAGGTGAGGGGTGCTATCTGTGATTGAGGGACATGGTCAATGGAATTGTCTCACACAGAAATCGCACCCGTCACCTTGGCCTGCTGA-------------------      
human     CCGCTTGCTGGCCAACCTGTGAAACTGGGCTCAAGGTGAGGGGTGCTATCTGTGATTGAGGGACATGGTTAATGGAATTGTCTCACACAGAAATCGCACCCGTCACCTTGGCCTACTTATCACCACCCCAAACAGAGG      
mouse     --------------------------GGGCTCAAGGTGAGGGGTGCTATCTGTGATTGAGGGACATGGTCAATGGAATTGTCTCACACAGAAATCGCACCCGTCACCTTGGCCTGCTG--------------------      
                                ******************************************* ******************************************** **                           
 +++++                    +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++                   +++++ENSRNOT00000032757 ENSRNOG00000014476 Evl
 +++++                    +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++                   +++++ENSRNOT00000019583 ENSRNOG00000014476 Evl
 .....                    >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>                   .....ENSRNOT00000053735 ENSRNOG00000035612 rno-mir-342
rat                         ......((((.((((((((.((((((..((((((.....((((((...((....))..)))))).))))))....)))))).)))))))))))).....                        1.000 -48.90
human     ((.((...(((.......((((((.(((((.((((((((.((((((..((((((.....((((((...((....))..)))))).))))))....)))))).))))))))))))).)).))))....)))...)).))     0.819 -54.00
mouse                               ((((.((((((((.((((((..((((((.....((((((...((....))..)))))).))))))....)))))).))))))))))))....                         1.000 -48.70

ratchromosome:6:132990797:132990895:1Same_strand|Exonic_non-coding|ENSRNOT00000053735|ENSRNOG00000035612 ## Same_strand|Intronic_coding|ENSRNOT00000019583|ENSRNOG00000014476 ## Same_strand|Boundary_non-coding|ENSRNOT00000053735|ENSRNOG00000035612 ## ENSRNOG00000035612|miRNA|rno-mir-342|rno-mir-342 [Source:miRBase;Acc:MI0000626] ## ENSRNOG00000014476|protein_coding|Evl|Ena/VASP-like protein (Ena/vasodilator-stimulated phosphoprotein- like). [Source:UniProtKB/Swiss-Prot;Acc:O08719] ## {MIR: rno-mir-342}
humanchromosome:14:99645725:99645862:1Same_strand|Intronic_coding|ENST00000355449|ENSG00000196405|protein_coding|Ena/VASP-like protein (Ena/vasodilator-stimulated phosphoprotein-like) [Source:UniProtKB/Swiss-Prot;Acc:Q9UI08] ## Same_strand|Boundary_non-coding|ENST00000362212|ENSG00000199082|miRNA|hsa-mir-342 [Source:miRBase;Acc:MI0000805] ## {MIR: hsa-mir-342}
mousechromosome:12:109896836:109896927:1Same_strand|Intronic_coding|ENSMUST00000109854|ENSMUSG00000021262|protein_coding|Ena-vasodilator stimulated phosphoprotein Gene [Source:MGI Symbol;Acc:MGI:1194884] ## Same_strand|Exonic_non-coding|ENSMUST00000083502|ENSMUSG00000065436|miRNA|mmu-mir-342 [Source:miRBase;Acc:MI0000627] ## {MIR: mmu-mir-342}


miRNAknown_cloningHIGH_multiarm_DicerNOK_shortStem (1 loci)

rno-mir-497

Cloning frequencies
absoluteT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-497 5arm448819955871417287915421133174022431752.500
rno-mir-497 3arm200115201432351015814312255
normalizedT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-497 5arm0.1490.0870.0320.0840.1400.1170.0880.0920.1480.117
rno-mir-497 3arm0.0070.0050.0010.0080.0110.0080.0050.0080.0080.004
rno-mir-497 relative cloning frequencies

sblock2680 (miRBase rno-mir-497) [miRNAknown_cloningHIGH_multiarm_DicerNOK_shortStem]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
miRBase rno-mir-4970.015nono0.45/0.7418/24/0.840.0
0.0
0.2
0.0
0.0
0.6
10258
1
626
0
0
0
10
1
10
0
0
0
1
23
6
5
-15
6
5arm
5arm_loop_3arm
3arm
1
1
1
nd
nd
nd
0.14
0.47
0.11
1
6
1
2097010-12
Clusters
Located in cluster 12: rno-mir-497, rno-mir-195
Families
Member of family miR-15b/16/195/322/497 (seed AGCAGCA): rno-mir-322, rno-mir-195, rno-mir-15b, rno-mir-497, rno-mir-16, block864194_cand, block931792_cand, block2069771_cand
sblock2680 hairpin
  readsmiRBase family seed
seed     --------------------AGCAGCA---------------------------------------------------------------------------     19537miR-15b/16/195/322/497
seed     -----------------------------------------------------------CAAACCA------------------------------------     731novel
seed     ----------------------------------------------------------CCAAACC-------------------------------------     250novel
seed     ---------------------GCAGCAC--------------------------------------------------------------------------     220novel
seed     ------------------------------------------------------------AAACCAC-----------------------------------     211novel
seed     -------------------CAGCAGC----------------------------------------------------------------------------     13novel
seed     ----------------------CAGCACA-------------------------------------------------------------------------     7novel
seed     ------------------------------------------GGCACUG-----------------------------------------------------     1novel
  lencloning frequencies
   T1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
      -------------------CAGCAGCACACTGTGGTTTGT--------------------------------------------------------------     2130601389354907199996979656816001241
      -------------------CAGCAGCACACTGTGGTTTG---------------------------------------------------------------     20593252137204339226150831378196
      -------------------CAGCAGCACACTGTGGTT-----------------------------------------------------------------     1850119459184339223106201152181
      -------------------CAGCAGCACACTGTGGTTT----------------------------------------------------------------     1917175205210365331174940
rno-miR-497     -------------------CAGCAGCACACTGTGGTTTGTA-------------------------------------------------------------     221015295954432293372
      ----------------------------------------------------------CCAAACCACACTGTGGTGTTAG----------------------     223522748602915475022
      ----------------------------------------------------------CCAAACCACACTGTGGTGTTAGA---------------------     232320-28561510221115
      ---------------------------------------------------------TCCAAACCACACTGTGGTGTTAG----------------------     232517112301261442
      ----------------------------------------------------------CCAAACCACACTGTGGTGT-------------------------     199112122114911184
      --------------------AGCAGCACACTGTGGTTTGT--------------------------------------------------------------     20341524114132156
      -----------------------------------------------------------CAAACCACACTGTGGTGTTAGA---------------------     2215151816642173
      -----------------------------------------------------------CAAACCACACTGTGGTGTT------------------------     19496-454228-
      ---------------------------------------------------------TCCAAACCACACTGTGGTGT-------------------------     2011725171161053
      --------------------AGCAGCACACTGTGGTTTG---------------------------------------------------------------     1911321136510310
      ----------------------------------------------------------CCAAACCACACTGTGGTG--------------------------     1844111132267-
      -------------------CAGCAGCACACTGTGGTTTGTAC------------------------------------------------------------     233522522-61
      ---------------------------------------------------------TCCAAACCACACTGTGGTG--------------------------     1962136-1321
      --------------------AGCAGCACACTGTGGTTT----------------------------------------------------------------     1853--72-221
      -----------------------------------------------------------CAAACCACACTGTGGTGT-------------------------     1894-4-1121-
      --------------------AGCAGCACACTGTGGTTTGTAC------------------------------------------------------------     225411411-11
      ----------------------------------------------------------CCAAACCACACTGTGGTGTTA-----------------------     2121-2141232
      ----------------------------------------------------------CCAAACCACACTGTGGTGTT------------------------     20614-3---21
      -----------------------------------------------------------CAAACCACACTGTGGTGTTAG----------------------     2143-212----
      ---------------------------------------------------------TCCAAACCACACTGTGGTGTTAGA---------------------     24-21121--2-
      --------------------AGCAGCACACTGTGGTTTGTA-------------------------------------------------------------     212--11-2--3
      ------------------CCAGCAGCACACTGTGGTTTGT--------------------------------------------------------------     2222----1-2-
      ---------------------GCAGCACACTGTGGTTTGT--------------------------------------------------------------     19---22-1-2-
      ---------------------------------------------------------TCCAAACCACACTGTGGTGTT------------------------     211---1--3-1
      ---------------------------------------------------------TCCAAACCACACTGTGGTGTTA-----------------------     221--1--1-21
      ---------------------------------------------------------TCCAAACCACACTGTGGT---------------------------     18---13-----
      ------------------CCAGCAGCACACTGTGGT------------------------------------------------------------------     18----2----1
      ------------------CCAGCAGCACACTGTGGTT-----------------------------------------------------------------     19-1----1---
      -----------------------------------------CGGCACTGTGGCCACGTCC------------------------------------------     19--1-------
      ------------------CCAGCAGCACACTGTGGTTTG---------------------------------------------------------------     21-----1----
      -------------------CAGCAGCACACTGTGGTTTGTACG-----------------------------------------------------------     24----1-----
      -----------------------------------------------------------CAAACCACACTGTGGTGTTA-----------------------     20---1------
rat     ------------------CCAGCAGCACACTGTGGTTTGTACGGCACTGTGGCCACGTCCAAACCACACTGTGGTGTTAGAGCGAGG---------------      
human     --CGGTCCTGCTCCCGCCCCAGCAGCACACTGTGGTTTGTACGGCACTGTGGCCACGTCCAAACCACACTGTGGTGTTAGAGCGAGGGTGGGGGAGGCACCG      
mouse     CCCAGTCCTGCCCCCGCCCCAGCAGCACACTGTGGTTTGTACGGCACTGTGGCCACGTCCAAACCACACTGTGGTGTTAGAGCGAGGGTATGGG--------      
                        *********************************************************************                     
 .....                  >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>               .....ENSRNOT00000054383 ENSRNOG00000036260 rno-mir-497
rat                       ..((((.((((.(((((((((.(((((......)))..)).))))))))).)))).)))).........                    1.000 -28.20
human       (((((((.(((((((((.((((.((((.(((((((((.(((((......)))..)).))))))))).)))).)))).......)))))))))))).))))     0.995 -52.90
mouse     ((((....(((((.(((...((((.((((.(((((((((.(((((......)))..)).))))))))).)))).))))...))).)))))))))             1.000 -44.70

ratchromosome:10:57073846:57073914:1Same_strand|Exonic_non-coding|ENSRNOT00000054383|ENSRNOG00000036260 ## ENSRNOG00000036260|miRNA|rno-mir-497|rno-mir-497 [Source:miRBase;Acc:MI0003724] ## {MIR: rno-mir-497}
humanchromosome:17:6861960:6862059:-1Same_strand|Exonic_non-coding|ENST00000385056|ENSG00000207791|miRNA|hsa-mir-497 [Source:miRBase;Acc:MI0003138] ## {MIR: hsa-mir-497}
mousechromosome:11:70048213:70048306:1Same_strand|Boundary_non-coding|ENSMUST00000093601|ENSMUSG00000070109|miRNA|mmu-mir-497 [Source:miRBase;Acc:MI0004636] ## {MIR: mmu-mir-497}


miRNAknown_cloningHIGH_multiarm_DicerNOK_shortStem_mirtron (1 loci)

rno-mir-877

Cloning frequencies
absoluteT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-877 5arm11700032221
rno-mir-877 3arm282.355210.32713.41713.50065.7457336.76940.22133.91754.512
normalizedT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-877 5arm0.0000.0000000.0000.0000.0000.0000.000
rno-mir-877 3arm0.0090.0090.0010.0010.0030.0060.0030.0020.0020.004
rno-mir-877 relative cloning frequencies

sblock7071 (miRBase rno-mir-877) [miRNAknown_cloningHIGH_multiarm_DicerNOK_shortStem_mirtron]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
miRBase rno-mir-8770.039nono0.56/0.7218/25/0.860.9
0.7
2.8
0.4
13
428
0
0
7
10
0
0
0
2
6
14
5arm
3arm
1
1
1
0
0.21
0.24
2
3
98510-11
sblock7071 hairpin
  readsmiRBase family seed
seed     -------------------------------------------------------------------GUCCUCU-----------------     684novel
seed     ---------------------------------------------------------------------CCUCUUC---------------     258novel
seed     ----UAGAGGA--------------------------------------------------------------------------------     21miR-877
seed     --------------------------------------------------------------------UCCUCUU----------------     12novel
seed     --------GGAGAUG----------------------------------------------------------------------------     5novel
seed     ----------------------------------------------------------------------CUCUUCU--------------     3novel
seed     ---------GAGAUGG---------------------------------------------------------------------------     1novel
seed     -----AGAGGAG-------------------------------------------------------------------------------     1novel
  lencloning frequencies
   T1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
      ------------------------------------------------------------------TGTCCTCTTCTCCCTCCTCCCA---     221059052254919171627
      --------------------------------------------------------------------TCCTCTTCTCCCTCCTCCCAG--     219359241163884
      ------------------------------------------------------------------TGTCCTCTTCTCCCTCCTCCC----     2132212112847415
      ------------------------------------------------------------------TGTCCTCTTCTCCCTCCTCCCAG--     23262244979746
      ------------------------------------------------------------------TGTCCTCTTCTCCCTCCTC------     19172111584--4
      ------------------------------------------------------------------TGTCCTCTTCTCCCTCCTCC-----     201010-1522-11
      ------------------------------------------------------------------TGTCCTCTTCTCCCTCCT-------     181171-3-1111
      --------------------------------------------------------------------TCCTCTTCTCCCTCCTCCCA---     20126--11--1-
      --------------------------------------------------------------------TCCTCTTCTCCCTCCTCCC----     1954--5-21-2
      --------------------------------------------------------------------TCCTCTTCTCCCTCCTCC-----     1853--1-11--
      -------------------------------------------------------------------GTCCTCTTCTCCCTCCTCCCA---     2161--2---1-
      --------------------------------------------------------------------TCCTCTTCTCCCTCCTCCCAGGT     2334--------
      ---GTAGAGGAGATGGCGCAG----------------------------------------------------------------------     1814--------
      ---GTAGAGGAGATGGCGCAGGGGAC-----------------------------------------------------------------     2321-----11-
      ---GTAGAGGAGATGGCGCAGGGG-------------------------------------------------------------------     214---------
      -------AGGAGATGGCGCAGGGGAC-----------------------------------------------------------------     193----1----
      ---------------------------------------------------------------------CCTCTTCTCCCTCCTCCCAG--     2012--------
      ------------------------------------------------------------------TGTCCTCTTCTCCCTCCTCCCAGGT     25---21-----
      ------------------------------------------------------------------TGTCCTCTTCTCCCTCCTCCCAGG-     241---1----1
      ---GTAGAGGAGATGGCGCAGG---------------------------------------------------------------------     19-1----1--1
      --------------------------------------------------------------------TCCTCTTCTCCCTCCTCCCAGG-     22----1--1--
rno-miR-877     ---GTAGAGGAGATGGCGCAGGG--------------------------------------------------------------------     2011--------
      -------------------------------------------------------------------GTCCTCTTCTCCCTCCTCCCAG--     221---------
      --------GGAGATGGCGCAGGGGAC-----------------------------------------------------------------     18-----1----
      ----TAGAGGAGATGGCGCAGGGGACAC---------------------------------------------------------------     24--------1-
      -------------------------------------------------------------------GTCCTCTTCTCCCTCCTCC-----     19-1--------
      ---GTAGAGGAGATGGCGCAGGGGACAC---------------------------------------------------------------     25------1---
      ---GTAGAGGAGATGGCGCAGGGGA------------------------------------------------------------------     22-----1----
      -------AGGAGATGGCGCAGGGGACAC---------------------------------------------------------------     21-------1--
rat     ---GTAGAGGAGATGGCGCAGGGGACACAAGGTAGGCCTTGCGGGTCTGTGGG-CCCTTGGACATGTGTCCTCTTCTCCCTCCTCCCAGGT      
human     AAGGTAGAGGAGATGGCGCAGGGGACACGGGCAAAGACTTGGGGGTTCCTGGGACCCTCAGACGTGTGTCCTCTTCTCCCTCCTCCCAG--      
         *************************  *  * * **** ****   **** ****  *** *************************        
 >>>>>   ++++++++++++++++++++++++++++++++++++++++++++++++++ +++++++++++++++++++++++++++++++++++>>>>>>>ENSRNOT00000001049 ENSRNOG00000000799 Abcf1
 .....   >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.......ENSRNOT00000062976 ENSRNOG00000041223 rno-mir-877
rat        ...((((((..((.(.((((((((((.((....))....(((((....)) ))).......)))))))))).).))))))))......     1.000 -38.10
human     ..((..((((((..((...((((((((((.........(((((((((.....)))))))))...))))))))))...))))))))))..       0.717 -37.20

ratchromosome:20:2958184:2958270:1Same_strand|Exonic_non-coding|ENSRNOT00000062976|ENSRNOG00000041223 ## Same_strand|Boundary_coding|ENSRNOT00000001049|ENSRNOG00000000799 ## Same_strand|Boundary_non-coding|ENSRNOT00000062976|ENSRNOG00000041223 ## ENSRNOG00000000799|protein_coding|Abcf1|ATP-binding cassette sub-family F member 1 (ATP-binding cassette 50). [Source:UniProtKB/Swiss-Prot;Acc:Q6MG08] ## ENSRNOG00000041223|miRNA|rno-mir-877|rno-mir-877 [Source:miRBase;Acc:MI0006119] ## {MIR: rno-mir-877}
humanchromosome:6:30660069:30660195:1Same_strand|Boundary_coding|ENST00000326195|ENSG00000204574|protein_coding|ATP-binding cassette sub-family F member 1 (ATP-binding cassette 50)(TNF-alpha-stimulated ABC protein) [Source:UniProtKB/Swiss-Prot;Acc:Q8NE71] ## Same_strand|Intronic_coding|ENST00000396515|ENSG00000204574|protein_coding|ATP-binding cassette sub-family F member 1 (ATP-binding cassette 50)(TNF-alpha-stimulated ABC protein) [Source:UniProtKB/Swiss-Prot;Acc:Q8NE71] ## Same_strand|Boundary_non-coding|ENST00000401282|ENSG00000216101|miRNA|hsa-mir-877 [Source:miRBase;Acc:MI0005561] ## {MIR: hsa-mir-877}


miRNAknown_lenNOK_cloningHIGH (1 loci)

rno-mir-212

Cloning frequencies
absoluteT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-212 3arm371024341375141525279
normalizedT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-212 3arm0.1230.1060.0010.0000.0000.0010.0010.0010.0020.001
rno-mir-212 relative cloning frequencies

sblock2702 (miRBase rno-mir-212) [miRNAknown_lenNOK_cloningHIGH]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
miRBase rno-mir-2120.016nono0.48/0.6118/25/0.250.0
0.0
2.5
0.0
1066
3958
0
0
9
10
0
0
31
22
-51
7
loop
3arm
1
1
nd
nd
0.17
0.17
2
2
764110nana
Clusters
Located in cluster 13: rno-mir-212, rno-mir-132
Families
Member of family miR-132/212 (seed AACAGUC): rno-mir-132, rno-mir-212
sblock2702 hairpin
  readsmiRBase family seed
seed     ------------------------------------------------------------------------AACAGUC------------------------------------     5785miR-132/212
seed     --------------------------------CCUUGGC----------------------------------------------------------------------------     1353novel
seed     -----------------------------------------------------------------------UAACAGU-------------------------------------     434novel
seed     -------------------------------------------------------------------------ACAGUCU-----------------------------------     40novel
seed     ---------------------------------CUUGGCU---------------------------------------------------------------------------     29novel
  lencloning frequencies
   T1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
      -----------------------------------------------------------------------TAACAGTCTCCAGTCACG--------------------------     18234916099537718176
      -----------------------------------------------------------------------TAACAGTCTCCAGTCACGG-------------------------     192912641114-11-
rno-miR-212     -----------------------------------------------------------------------TAACAGTCTCCAGTCACGGCCA----------------------     222741161--1524-
      -------------------------------ACCTTGGCTCTAGACTGC------------------------------------------------------------------     1828793-1--132-
      -------------------------------ACCTTGGCTCTAGACTGCT-----------------------------------------------------------------     1921580--41--2-
      -----------------------------------------------------------------------TAACAGTCTCCAGTCACGGCCACC--------------------     24178981-1--1-2
      -----------------------------------------------------------------------TAACAGTCTCCAGTCACGGCC-----------------------     2115593---11-31
      -------------------------------ACCTTGGCTCTAGACTGCTTACT-------------------------------------------------------------     2320122-13---32
      ----------------------------------------------------------------------GTAACAGTCTCCAGTCAC---------------------------     1811286------1-
      -------------------------------ACCTTGGCTCTAGACTGCTTACTG------------------------------------------------------------     241815-----1-1
      ----------------------------------------------------------------------GTAACAGTCTCCAGTCACG--------------------------     19113691---1---
      -----------------------------------------------------------------------TAACAGTCTCCAGTCACGGCCAC---------------------     2311037-1-111--
      -----------------------------------------------------------------------TAACAGTCTCCAGTCACGGC------------------------     207328-----1--
      -------------------------------ACCTTGGCTCTAGACTGCTTAC--------------------------------------------------------------     228911--------
      -------------------------------ACCTTGGCTCTAGACTGCTT----------------------------------------------------------------     206710---3----
      -------------------------------ACCTTGGCTCTAGACTGCTTA---------------------------------------------------------------     214220------2-
      ----------------------------------------------------------------------GTAACAGTCTCCAGTCACGG-------------------------     20133--------
      ----------------------------------------------------------------------GTAACAGTCTCCAGTCACGGCCA----------------------     2372--------
      ------------------------------------------------------------------------AACAGTCTCCAGTCACGGC------------------------     1954--------
      ----------------------------------------------------------------------GTAACAGTCTCCAGTCACGGCC-----------------------     2227--------
      ------------------------------------------------------------------------AACAGTCTCCAGTCACGG-------------------------     1853--------
      ----------------------------------------------------------------------GTAACAGTCTCCAGTCACGGCCACC--------------------     2562--------
      ------------------------------------------------------------------------AACAGTCTCCAGTCACGGCC-----------------------     2034--------
      ------------------------------------------------------------------------AACAGTCTCCAGTCACGGCCA----------------------     2161--------
      --------------------------------CCTTGGCTCTAGACTGCTT----------------------------------------------------------------     1943--------
      --------------------------------CCTTGGCTCTAGACTGCT-----------------------------------------------------------------     1824--------
      ------------------------------------------------------------------------AACAGTCTCCAGTCACGGCCAC---------------------     2223------1-
      --------------------------------CCTTGGCTCTAGACTGCTTACTGC-----------------------------------------------------------     244--------1
      ----------------------------------------------------------------------GTAACAGTCTCCAGTCACGGC------------------------     2132--------
      ----------------------------------------------------------------------GTAACAGTCTCCAGTCACGGCCAC---------------------     2421-----1--
      --------------------------------CCTTGGCTCTAGACTGCTTACT-------------------------------------------------------------     2231--------
      ------------------------------------------------------------------------AACAGTCTCCAGTCACGGCCACC--------------------     2312--------
      --------------------------------CCTTGGCTCTAGACTGCTTACTG------------------------------------------------------------     233---------
      --------------------------------CCTTGGCTCTAGACTGCTTA---------------------------------------------------------------     2021--------
      --------------------------------CCTTGGCTCTAGACTGCTTAC--------------------------------------------------------------     21-1--------
rat     CGGGATATCCCCGCCCGGGCAGCGCGCCGGCACCTTGGCTCTAGACTGCTTACTGCCCGGGCCGCCCTCAGTAACAGTCTCCAGTCACGGCCACCGACGCCTGGCCCCGCC----      
human     ---------------------------------CTTGGCTCTAGACTGCTTACTGCCCGGGCCGCCCTCAGTAACAGTCTCCAGTCACG--------------------------      
mouse     ----------------GGGCAGCGCGCCGGCACCTTGGCTCTAGACTGCTTACTGCCCGGGCCGCCTTCAGTAACAGTCTCCAGTCACGGCCACCGACGCCTGGCCCCGCCCCAG      
                                       ********************************* **********************                                
 --------------------------------------------------------------------------------------------------------------------    -----ENSRNOT00000004150 ENSRNOG00000003111 NP_001102506.1
 .....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>    .....ENSRNOT00000053599 ENSRNOG00000035476 rno-mir-212
rat     ((((.....))))...((((((.(((.(((..((.(((((..((((((.((((((...(((...))).))))))))))))..))))).))...))).))))).))))....         1.000 -49.10
human                                      ..(((((..((((((.((((((...(((...))).))))))))))))..)))))..                               1.000 -22.00
mouse                     ((((((.(((.(((..((.(((((..((((((.((((((...((....))..))))))))))))..))))).))...))).)))))).)))........     0.982 -42.10

ratchromosome:10:62480434:62480544:1Opposite_strand|Intronic_non-coding|ENSRNOT00000004150|ENSRNOG00000003111 ## Same_strand|Exonic_non-coding|ENSRNOT00000053599|ENSRNOG00000035476 ## ENSRNOG00000003111|protein_coding|NP_001102506.1|similar to candidate tumor suppressor OVCA2 (predicted) (RGD1564623_predicted), mRNA [Source:RefSeq_dna;Acc:NM_001109036] ## ENSRNOG00000035476|miRNA|rno-mir-212|rno-mir-212 [Source:miRBase;Acc:MI0000952] ## {SimpF: oe = 0.85 1 CpG} ## {MIR: rno-mir-212}
humanchromosome:17:1900295:1900445:-1Same_strand|Boundary_non-coding|ENST00000385218|ENSG00000207953|miRNA|hsa-mir-212 [Source:miRBase;Acc:MI0000288] ## {Repeats: dust 0 class=dust,trf 0 class=trf} ## {SimpF: oe = 0.76 0 CpG,rank = 1 -1 FirstEF, 1 Eponine, -1 Eponine} ## {MIR: hsa-mir-212}
mousechromosome:11:74986890:74986988:1Same_strand|Boundary_non-coding|ENSMUST00000083656|ENSMUSG00000065590|miRNA|mmu-mir-212 [Source:miRBase;Acc:MI0000696] ## {SimpF: oe = 0.69 1 CpG} ## {MIR: mmu-mir-212}


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