other hairpins
novel_Multihit_shortStem_bulgeHIGH (33 loci)
block1053845 [novel_Multihit_shortStem_bulgeHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.136 | no | no | 0.55/0.55 | 20/20/1.00 | 0.0 | 0.0 | 3 | 0 | 1 | 0 | 0 | 36 | 5arm | 13 | nd | 0.30 | 4 | 3 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------------------------------------------------------GGCAUCU--------------------------------------- | 1 | novel |
| seed | -GGCAUCU------------------------------------------------------------------------------------------------------------- | 1 | novel |
| seed | ------------------------------------GGCAUCU-------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T3S1 | |||
| -----------------------------------AGGCATCTGTCTGTGAGCAC-------------------------------------------------------------- | 20 | 1 | |
| AGGCATCTGTCTGTGAGCAC------------------------------------------------------------------------------------------------- | 20 | 1 | |
| ----------------------------------------------------------------------AGGCATCTGTCTGTGAGCAC--------------------------- | 20 | 1 | |
| rat | AGGCATCTGTCTGTGAGCACatcttctcatgtgtgAGGCATCTGTCTGTGAGCACaccttctcatgtgtgAGGCATCTGTCTGTGAGCACaccttctcatgtgtgaggcatctgtct | ||
| ********************************************************************************************************************* | |||
| rat | (((((..(((((....((((((.......(((((.(((((..(((((....(((((........))))).)))))..)))))....))))).......)))))).)))))..))))) | 0.780 -35.14 |
| rat | chromosome:1:261804943:261805059:1 | intergenic ## {Repeats: trf 157 177 0 class=trf} |
block62358 [novel_Multihit_shortStem_bulgeHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.253 | no | no | 0.55/0.55 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 1 | 13 | 5arm | 34 | nd | 0.30 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --CUGGCCA---------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T2S2 | |||
| -ACTGGCCACTGTCAGAACCA---------------------------------------------------- | 20 | 1 | |
| rat | aACTGGCCACTGTCAGAACCAtctgcagtcaggttcagaacatgataaagggtgtgacattggacttccgtta | ||
| ************************************************************************* | |||
| rat | (((.(((((.(((((....(((((...((((.((.....)).))))...)))))))))).))).))...))). | 0.680 -17.20 |
| rat | chromosome:10:17907598:17907670:1 | intergenic |
block1737325 [novel_Multihit_shortStem_bulgeHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.369 | no | no | 0.46/0.46 | 24/24/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 4 | 3 | 3arm | 19 | nd | 0.25 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------------------------------------AACAACC-------------------- | 1 | novel |
| len | cloning frequencies | ||
| T4S2 | |||
| ----------------------------------------------------CAACAACCTGCTTGGGAAGTTTGA---- | 24 | 1 | |
| rat | agccaggtgtactcatccaggtgtatgaaggtgaaaggtccatgaccaaggaCAACAACCTGCTTGGGAAGTTTGAgctc | ||
| ******************************************************************************** | |||
| rat | ((((((....(((..(((((((......((((.....((((........))))....))))))))))).)))))).))). | 0.810 -20.10 |
| rat | chromosome:5:55386128:55386207:-1 | intergenic |
novel_lenNOK_multiarm_5varHIGH_loopOverlap_nonpairedHIGH (33 loci)
block143641 [novel_lenNOK_multiarm_5varHIGH_loopOverlap_nonpairedHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.516 | no | no | 0.60/0.68 | 18/21/0.25 | 1.8 0.7 | 1.2 1.3 | 5 3 | 0 0 | 3 2 | 0 0 | 12 24 | 3 -6 | 5arm 5arm_loop_3arm | 8 8 | nd nd | 0.40 0.42 | 2 4 | 8 | 3 | na | na |
| reads | miRBase family seed | ||||
| seed | -------------------ACGCGGA---------------------------------------------------- | 3 | novel | ||
| seed | -------------------------AGCCAGC---------------------------------------------- | 2 | novel | ||
| seed | ---------------------------CCAGCUC-------------------------------------------- | 1 | novel | ||
| seed | ----------------UGAACGC------------------------------------------------------- | 1 | novel | ||
| seed | -------------CAUUGAA---------------------------------------------------------- | 1 | novel | ||
| len | cloning frequencies | ||||
| T1S1 | T2S1 | T3S2 | |||
| ------------------AACGCGGAGCCAGCTCTC------------------------------------------ | 18 | - | 1 | 2 | |
| ------------------------GAGCCAGCTCTCGGGGATCTC--------------------------------- | 21 | 1 | - | - | |
| ------------TCATTGAACGCGGAGCCAGC---------------------------------------------- | 20 | 1 | - | - | |
| ------------------------GAGCCAGCTCTCGGGGATC----------------------------------- | 19 | 1 | - | - | |
| --------------------------GCCAGCTCTCGGGGATCTC--------------------------------- | 19 | - | - | 1 | |
| ---------------TTGAACGCGGAGCCAGCTC-------------------------------------------- | 19 | 1 | - | - | |
| rat | atagaaaacagcTCATTGAACGCGGAGCCAGCTCTCGGGGATCTCtgtgtggtctcgtcatcagcacagctgggccta | ||||
| ****************************************************************************** | |||||
| rat | ........(((((..((((..(((..(((.((...((((....)))).)))))..)))..))))...)))))...... | 0.890 -20.60 | |||
| rat | chromosome:11:5434446:5434523:1 | intergenic |
block279290 [novel_lenNOK_multiarm_5varHIGH_loopOverlap_nonpairedHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.494 | no | no | 0.60/0.74 | 18/20/0.29 | 0.0 1.8 | 0.0 2.2 | 1 6 | 0 0 | 1 4 | 0 0 | 27 32 | 0 -12 | 5arm 5arm_loop_3arm | 1 2 | nd nd | 0.37 0.40 | 3 4 | 7 | 4 | na | na |
| reads | miRBase family seed | |||||
| seed | -------------------------------------CAGGCAG--------------------------------------------------- | 2 | novel | |||
| seed | ---------------------------------------GGCAGUG------------------------------------------------- | 2 | miR-34a/34c/449a | |||
| seed | ---------------------------------GCGCCAG------------------------------------------------------- | 1 | novel | |||
| seed | ----------------------------------CGCCAGG------------------------------------------------------ | 1 | novel | |||
| seed | ----------------------------CACCAGC------------------------------------------------------------ | 1 | novel | |||
| len | cloning frequencies | |||||
| T1S1 | T1S2 | T3S2 | T5S2 | |||
| --------------------------------------AGGCAGTGGGAGCATGAAGC------------------------------------- | 20 | - | - | - | 2 | |
| ------------------------------------CCAGGCAGTGGGAGCATG----------------------------------------- | 18 | - | - | 2 | - | |
| ---------------------------------GCGCCAGGCAGTGGGAGCA------------------------------------------- | 19 | 1 | - | - | - | |
| ---------------------------ACACCAGCGCCAGGCAGTG------------------------------------------------- | 19 | 1 | - | - | - | |
| --------------------------------AGCGCCAGGCAGTGGGAGC-------------------------------------------- | 19 | - | 1 | - | - | |
| rat | tgctgcagtcttccccggtaaagtgagACACCAGCGCCAGGCAGTGGGAGCATGAAGCccagacccgcggttttcgtagacaggaaactgaagca | |||||
| *********************************************************************************************** | ||||||
| ........................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000004927 ENSRNOG00000003629 NP_001099450.1 | |||||
| rat | .(((.((((.((((...((....(((((.(((.(((...(((.(((....)))...)))......)))))))))))...)).)))))))).))). | 0.830 -27.80 | ||||
| rat | chromosome:13:96917090:96917184:-1 | Same_strand|Boundary_non-coding|ENSRNOT00000004927|ENSRNOG00000003629 ## ENSRNOG00000003629|protein_coding|NP_001099450.1|nuclear VCP-like [Source:RefSeq_peptide;Acc:NP_001099450] |
block475078 [novel_lenNOK_multiarm_5varHIGH_loopOverlap_nonpairedHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.581 | no | no | 0.42/0.58 | 18/23/0.14 | 0.0 1.6 | 0.0 1.4 | 2 5 | 0 0 | 1 4 | 0 0 | 32 14 | -15 -4 | 5arm_loop_3arm 3arm | 6 6 | nd nd | 0.53 0.32 | 4 3 | 7 | 5 | na | na |
| reads | miRBase family seed | ||||||
| seed | -----------------------------------------AGAAACG---------------------------- | 2 | novel | ||||
| seed | ---------------------------------UUCAACA------------------------------------ | 2 | novel | ||||
| seed | ------------------------------------------GAAACGG--------------------------- | 1 | novel | ||||
| seed | --------------------------------------------AACGGCA------------------------- | 1 | novel | ||||
| seed | -------------------------------------ACAGAGA-------------------------------- | 1 | novel | ||||
| len | cloning frequencies | ||||||
| T1S1 | T2S1 | T2S2 | T3S2 | T5S1 | |||
| ----------------------------------------GAGAAACGGCAGGAAGAC------------------ | 18 | - | - | - | - | 2 | |
| --------------------------------ATTCAACAGAGAAACGGCA------------------------- | 19 | - | 2 | - | - | - | |
| -----------------------------------------AGAAACGGCAGGAAGACCC---------------- | 19 | - | - | 1 | - | - | |
| -------------------------------------------AAACGGCAGGAAGACCCTT-------------- | 19 | 1 | - | - | - | - | |
| ------------------------------------AACAGAGAAACGGCAGGAAGACC----------------- | 23 | - | - | - | 1 | - | |
| rat | ctgctggcactgagggttatatccatctaagaATTCAACAGAGAAACGGCAGGAAGACCCTTacaactgtccaagg | ||||||
| **************************************************************************** | |||||||
| -------------------------------------------------------------------------------------- | ENSRNOT00000008989 ENSRNOG00000006649 Thrb | ||||||
| -------------------------------------------------------------------------------------- | ENSRNOT00000061402 ENSRNOG00000006649 Thrb | ||||||
| rat | ((...((((.((((((((...(((..((.....(((....)))....))..))).))))))))....))))..)). | 0.840 -13.90 | |||||
| rat | chromosome:15:9332821:9332896:1 | Opposite_strand|Intronic_coding|ENSRNOT00000061402|ENSRNOG00000006649 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000008752|ENSRNOG00000006649 ## ENSRNOG00000006649|protein_coding|Thrb|Thyroid hormone receptor beta-2 (Nuclear receptor subfamily 1 group A member 2). [Source:UniProtKB/Swiss-Prot;Acc:P37826] |
block513197 [novel_lenNOK_multiarm_5varHIGH_loopOverlap_nonpairedHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.267 | no | no | 0.68/0.74 | 18/24/0.43 | 2.4 1.5 | 4.2 0.5 | 5 2 | 0 0 | 4 2 | 0 0 | 41 52 | -7 -14 | 5arm_loop_3arm 5arm_loop_3arm | 1 1 | nd nd | 0.32 0.39 | 3 6 | 7 | 5 | na | na |
| reads | miRBase family seed | ||||||
| seed | ------------------------------------------GGCCCGA------------------------------------------------------------------ | 3 | novel | ||||
| seed | ------------------------------------------------AGCGCUG------------------------------------------------------------ | 2 | novel | ||||
| seed | --------------------------------------------------------CCGACUG---------------------------------------------------- | 1 | novel | ||||
| seed | -----------------------------------------------------UGACCGA------------------------------------------------------- | 1 | novel | ||||
| len | cloning frequencies | ||||||
| T1S1 | T2S1 | T3S1 | T3S2 | T5S2 | |||
| -----------------------------------------------GAGCGCTGACCGACTGAGC------------------------------------------------- | 19 | 1 | - | - | - | 1 | |
| -----------------------------------------AGGCCCGAGCGCTGACCGA------------------------------------------------------- | 19 | - | - | - | 1 | - | |
| -----------------------------------------AGGCCCGAGCGCTGACCGACTGAG-------------------------------------------------- | 24 | - | - | - | 1 | - | |
| -------------------------------------------------------ACCGACTGAGCGGACGGC------------------------------------------ | 18 | - | - | 1 | - | - | |
| ----------------------------------------------------CTGACCGACTGAGCGGACGG------------------------------------------- | 20 | - | - | - | - | 1 | |
| -----------------------------------------AGGCCCGAGCGCTGACCGACTGA--------------------------------------------------- | 23 | - | 1 | - | - | - | |
| rat | gcccagcgctgttttccgccgccgggcgccagccgcggccgAGGCCCGAGCGCTGACCGACTGAGCGGACGGCgggcgcttcgctgcgggctgttggccgcgcgggctgctgggc | ||||||
| ******************************************************************************************************************* | |||||||
| ................................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000014182 ENSRNOG00000010352 Dnajc3 | ||||||
| rat | (((((((((.........(((((((.((.(((((((((.((((((((...(((((.(((......))).))))))).)))))))))))).))).)).))).)))))).))))))) | 0.880 -68.10 | |||||
| rat | chromosome:15:103881480:103881594:1 | Same_strand|Boundary_non-coding|ENSRNOT00000014182|ENSRNOG00000010352 ## ENSRNOG00000010352|protein_coding|Dnajc3|DnaJ homolog subfamily C member 3 (Interferon-induced, double-stranded RNA-activated protein kinase inhibitor) (Protein kinase inhibitor p58) (Protein kinase inhibitor of 58 kDa). [Source:UniProtKB/Swiss-Prot;Acc:Q9R0T3] ## {SimpF: -1 Eponine} |
block638090 [novel_lenNOK_multiarm_5varHIGH_loopOverlap_nonpairedHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.093 | no | no | 0.47/0.89 | 19/22/0.40 | 1.3 0.0 0.0 | 1.7 0.0 0.0 | 3 1 1 | 0 0 0 | 2 1 1 | 0 0 0 | 53 33 28 | -19 -1 7 | 5arm_loop_3arm 3arm 3arm | 1 1 1 | nd nd nd | 0.47 0.36 0.37 | 8 3 3 | 5 | 4 | na | na |
| reads | miRBase family seed | |||||
| seed | --------------------------------------------------------GCGGAGG------------------------------------------------------- | 2 | novel | |||
| seed | ------------------------------------------------------------------------UGGUUAG--------------------------------------- | 1 | novel | |||
| seed | ------------------------------------------------------CGGCGGA--------------------------------------------------------- | 1 | novel | |||
| seed | ----------------------------------------------------------------CGGGUGG----------------------------------------------- | 1 | novel | |||
| len | cloning frequencies | |||||
| T1S1 | T2S1 | T5S1 | T5S2 | |||
| -----------------------------------------------------CCGGCGGAGGGCGGGTGGG---------------------------------------------- | 19 | - | - | - | 1 | |
| ---------------------------------------------------------------GCGGGTGGGTGGTTAGTGTCTG--------------------------------- | 22 | - | 1 | - | - | |
| -------------------------------------------------------GGCGGAGGGCGGGTGGGTGG------------------------------------------- | 20 | - | - | 1 | - | |
| -------------------------------------------------------GGCGGAGGGCGGGTGGGTG-------------------------------------------- | 19 | - | - | 1 | - | |
| -----------------------------------------------------------------------GTGGTTAGTGTCTGATCTC---------------------------- | 19 | 1 | - | - | - | |
| rat | gaggggggcggggagagtaaagaggaagaggaggaggtgcagtcccacaatacCCGGCGGAGGGCGGGTGGGTGGTTAGTGTCTGATCTCtgcggcgcttcggtccccgtcggactca | |||||
| ********************************************************************************************************************** | ||||||
| ..................................................................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000041685 ENSRNOG00000031325 Abi1 | |||||
| ..................................................................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000057572 ENSRNOG00000031325 Abi1 | |||||
| rat | (((...((((((((.......((((....(((((((..((....((((..((((((........)))))).))))...))..))..)))))......))))..))))))))...))). | 0.910 -44.10 | ||||
| rat | chromosome:17:96648739:96648856:-1 | intergenic |
block890907 [novel_lenNOK_multiarm_5varHIGH_loopOverlap_nonpairedHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.577 | no | no | 0.56/0.72 | 18/21/0.25 | 0.0 1.3 | 0.0 2.3 | 1 3 | 0 0 | 1 2 | 0 0 | 30 34 | -2 -10 | 5arm_loop 5arm_loop_3arm | 1 2 | nd nd | 0.50 0.56 | 3 5 | 4 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | -----------------------------------CCGACUG------------------------------------------------------ | 2 | novel | |
| seed | ---------------------------------------CUGGAGG-------------------------------------------------- | 1 | novel | |
| seed | -------------------------------GGAGCCG---------------------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T3S2 | T5S2 | |||
| ----------------------------------GCCGACTGGAGGAGCAAC-------------------------------------------- | 18 | 1 | - | |
| ------------------------------CGGAGCCGACTGGAGGAG------------------------------------------------ | 18 | 1 | - | |
| ----------------------------------GCCGACTGGAGGAGCAACCGA----------------------------------------- | 21 | - | 1 | |
| --------------------------------------ACTGGAGGAGCAACCGAA---------------------------------------- | 18 | 1 | - | |
| rat | tctcagctagctgcagggagaggtagagcgCGGAGCCGACTGGAGGAGCAACCGAAgaacagaagcgctgcgtgagttttctgcgggatccgggaa | |||
| ************************************************************************************************ | ||||
| rat | ((((......((((((..((.......((((((.((...(((..((.....))......)))..)).))))))...))..)))))).....)))). | 0.990 -28.60 | ||
| rat | chromosome:1:154817086:154817181:-1 | intergenic ## {SimpF: oe = 0.86 -1 CpG} |
block1061064 [novel_lenNOK_multiarm_5varHIGH_loopOverlap_nonpairedHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.746 | no | no | 0.47/0.54 | 18/24/0.40 | 0.0 5.3 | 0.0 2.3 | 2 3 | 0 0 | 2 2 | 0 0 | 15 18 | -8 -20 | 5arm_loop_3arm 3arm_loop | 1 1 | nd nd | 0.58 0.44 | 8 3 | 5 | 3 | na | na |
| reads | miRBase family seed | ||||
| seed | -------------------------------ACCGGAC------------------------------- | 2 | novel | ||
| seed | ----------------AGUUUGU---------------------------------------------- | 2 | novel | ||
| seed | -----------------------CCCAACC--------------------------------------- | 1 | novel | ||
| len | cloning frequencies | ||||
| T2S2 | T4S2 | T5S1 | |||
| ---------------TAGTTTGTCCCAACCTACC----------------------------------- | 19 | 1 | - | 1 | |
| ------------------------------TACCGGACCAGTTTCTAGCAA------------------ | 21 | - | - | 1 | |
| ----------------------TCCCAACCTACCGGACCAGTTTCT----------------------- | 24 | - | 1 | - | |
| ------------------------------TACCGGACCAGTTTCTAG--------------------- | 18 | - | - | 1 | |
| rat | gactttgcaagggtgTAGTTTGTCCCAACCTACCGGACCAGTTTCTAGCAAttgcttctttttcctgtc | ||||
| ********************************************************************* | |||||
| rat | ......((((..((.(((.(((..((........))..)))...)))))..)))).............. | 0.670 -10.40 | |||
| rat | chromosome:20:5526536:5526604:-1 | intergenic |
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