other hairpins
novel_lenNOK_Multihit_5varHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH (34 loci)
block842832 [novel_lenNOK_Multihit_5varHIGH_loopOverlap_nonpairedHIGH_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 | 0.849 | no | no | 0.42/0.56 | 18/24/0.33 | 0.0 1.4 | 0.0 0.2 | 1 5 | 0 0 | 1 2 | 0 0 | 4 10 | 0 -13 | 5arm 5arm_loop | 51 51 | nd nd | 0.39 0.75 | 4 13 | 6 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | -----------------GGACCUU------------------------------ | 3 | novel | |
| seed | -----UCCAGUG------------------------------------------ | 1 | novel | |
| seed | ----------------AGGACCU------------------------------- | 1 | novel | |
| seed | -----------GUCAUAG------------------------------------ | 1 | novel | |
| len | cloning frequencies | |||
| T1S1 | T5S1 | |||
| ----------------AGGACCTTCTCACTAACAG------------------- | 19 | - | 3 | |
| ---------------TAGGACCTTCTCACTAACAG------------------- | 20 | 1 | - | |
| ----CTCCAGTGTCATAGGACC-------------------------------- | 18 | - | 1 | |
| ----------TGTCATAGGACCTTCTCACTAACA-------------------- | 24 | - | 1 | |
| rat | ggacCTCCAGTGTCATAGGACCTTCTCACTAACAGcggctgcattgtcaggacc | |||
| ****************************************************** | ||||
| rat | ((.(((.((((((....((.((..............))))))))))..))).)) | 0.750 -8.84 | ||
| rat | chromosome:1:48997939:48997992:-1 | intergenic |
block844122 [novel_lenNOK_Multihit_5varHIGH_loopOverlap_nonpairedHIGH_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 | 0.025 | no | no | 0.44/0.50 | 19/25/0.60 | 3.8 | 4.6 | 5 | 0 | 3 | 0 | 5 | -22 | 3arm_loop | 21 | nd | 0.40 | 6 | 5 | 3 | na | na |
| reads | miRBase family seed | ||||
| seed | --------------ACUAUAC---------------------- | 2 | novel | ||
| seed | -------------------ACCGUGC----------------- | 1 | novel | ||
| seed | ------------GUACUAU------------------------ | 1 | novel | ||
| seed | ----------GUGUACU-------------------------- | 1 | novel | ||
| len | cloning frequencies | ||||
| T1S1 | T1S2 | T5S1 | |||
| -------------TACTATACCGTGCTCATGG----------- | 19 | - | 1 | - | |
| -----------TGTACTATACCGTGCTCATG------------ | 20 | - | - | 1 | |
| -------------TACTATACCGTGCTCATGGCATTAG----- | 25 | - | - | 1 | |
| ---------TGTGTACTATACCGTGCTCA-------------- | 20 | 1 | - | - | |
| ------------------TACCGTGCTCATGGCATTAG----- | 20 | - | - | 1 | |
| rat | tgagttcccTGTGTACTATACCGTGCTCATGGCATTAGctcac | ||||
| ******************************************* | |||||
| ----------------------------------------------------- | ENSRNOT00000049496 ENSRNOG00000031160 LOC685793 | ||||
| ----------------------------------------------------- | ENSRNOT00000042408 ENSRNOG00000031160 LOC685793 | ||||
| ----------------------------------------------------- | ENSRNOT00000050327 ENSRNOG00000031160 LOC685793 | ||||
| ----------------------------------------------------- | ENSRNOT00000040838 ENSRNOG00000031160 LOC685793 | ||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000059958 ENSRNOG00000030545 LOC685793 | ||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000049483 ENSRNOG00000030545 LOC685793 | ||||
| rat | ((((((((.((.((((......)))).)).))....)))))). | 1.000 -11.90 | |||
| rat | chromosome:1:50129399:50129441:-1 | Same_strand|Intronic_non-coding|ENSRNOT00000049483|ENSRNOG00000030545 ## Same_strand|Intronic_coding|ENSRNOT00000059958|ENSRNOG00000030545 ## Same_strand|Boundary_non-coding|ENSRNOT00000039913|ENSRNOG00000030545 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000041575|ENSRNOG00000031160 ## Opposite_strand|Intronic_non-coding|ENSRNOT00000042408|ENSRNOG00000031160 ## ENSRNOG00000030545|protein_coding|LOC685793| ## ENSRNOG00000031160|protein_coding|LOC685793| |
block691468 [novel_lenNOK_Multihit_5varHIGH_loopOverlap_nonpairedHIGH_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 | 0.451 | no | no | 0.45/0.52 | 22/25/0.67 | 2.0 | 0.0 | 6 | 0 | 1 | 0 | 23 | -6 | 3arm_loop | 48 | nd | 0.55 | 4 | 6 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ------------------------------------------------CUGGCUU------------------------------------- | 2 | novel |
| seed | -----------------------------------------------------------------------CUGGCUU-------------- | 2 | novel |
| seed | ---------------------------------------------CCUCUGG---------------------------------------- | 2 | novel |
| len | cloning frequencies | ||
| T3S1 | |||
| ----------------------------------------------------------------------TCTGGCTTATGTTGTGTTACCC | 22 | 2 | |
| -----------------------------------------------TCTGGCTTATGTTGTGTTACCC----------------------- | 22 | 2 | |
| --------------------------------------------CCCTCTGGCTTATGTTGTGTTACCC----------------------- | 25 | 2 | |
| rat | ggtacaataatcccttgccaccctaccacccatccccctgttacCCCTCTGGCTTATGTTGTGTTACCCcTCTGGCTTATGTTGTGTTACCC | ||
| ******************************************************************************************** | |||
| rat | ((((..(((((.....((((...((.(((.(((...((............))...)))..))).))......))))....)))))..)))). | 0.910 -11.90 |
| rat | chromosome:18:20109644:20109735:-1 | intergenic ## {Repeats: trf 2399 2424 0 class=trf} |
block1533863 [novel_lenNOK_Multihit_5varHIGH_loopOverlap_nonpairedHIGH_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 | 0.776 | no | no | 0.56/0.68 | 19/25/0.50 | 2.2 | 1.3 | 6 | 0 | 3 | 0 | 8 | -10 | 5arm_loop_3arm | 54 | nd | 0.48 | 5 | 6 | 3 | na | na |
| reads | miRBase family seed | ||||
| seed | -------------UGACAUG--------------------------------------- | 3 | novel | ||
| seed | --------------------CCGCCUG-------------------------------- | 1 | novel | ||
| seed | ---------GAUCUGA------------------------------------------- | 1 | novel | ||
| seed | -----------UCUGACA----------------------------------------- | 1 | novel | ||
| len | cloning frequencies | ||||
| T2S2 | T4S1 | T5S1 | |||
| ------------CTGACATGCCGCCTGGAGAAACC------------------------ | 23 | 2 | - | - | |
| -------------------GCCGCCTGGAGAAACCTGC--------------------- | 19 | - | - | 1 | |
| ------------CTGACATGCCGCCTGGAGAAACCTG---------------------- | 25 | 1 | - | - | |
| ----------ATCTGACATGCCGCCTGGAGAAACC------------------------ | 25 | - | 1 | - | |
| --------GGATCTGACATGCCGCCTGGAGAA--------------------------- | 24 | 1 | - | - | |
| rat | ttcactgtGGATCTGACATGCCGCCTGGAGAAACCTGCcatgtatgatgacatcaagaa | ||||
| *********************************************************** | |||||
| rat | .((...(((.(((..(((((..((..((.....)).)))))))..)))..)))...)). | 0.970 -9.30 | |||
| rat | chromosome:4:32950556:32950614:-1 | intergenic |
block2188805 [novel_lenNOK_Multihit_5varHIGH_loopOverlap_nonpairedHIGH_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 | 0.055 | no | no | 0.35/0.47 | 19/25/0.33 | 2.5 0.0 | 0.0 0.0 | 2 1 | 0 0 | 1 1 | 0 0 | 0 12 | -4 -10 | 5arm_loop 5arm_loop | 10 11 | nd nd | 0.36 0.63 | 5 11 | 3 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ------GAAACUC------------------------------------------------- | 1 | novel |
| seed | -------------CAUGAUU------------------------------------------ | 1 | novel |
| seed | -GACAUGA------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| TGACATGAAACTCCATGATTCAAAG------------------------------------- | 25 | 1 | |
| ------------CCATGATTCAAAGCCTGTC------------------------------- | 19 | 1 | |
| -----TGAAACTCCATGATTCAAAG------------------------------------- | 20 | 1 | |
| rat | TGACATGAAACTCCATGATTCAAAGCCTGTCcataatgttagaatctggagaagtcacagtc | ||
| ************************************************************** | |||
| rat | .(((.(((..(((((.(((((....................))))))))))...)))..))) | 1.000 -13.55 |
| rat | chromosome:7:17179034:17179095:1 | intergenic |
block2189908 [novel_lenNOK_Multihit_5varHIGH_loopOverlap_nonpairedHIGH_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 | 0.055 | no | no | 0.35/0.47 | 19/25/0.33 | 2.5 0.0 | 0.0 0.0 | 2 1 | 0 0 | 1 1 | 0 0 | 0 12 | -4 -10 | 5arm_loop 5arm_loop | 10 11 | nd nd | 0.36 0.63 | 5 11 | 3 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ------GAAACUC------------------------------------------------- | 1 | novel |
| seed | -------------CAUGAUU------------------------------------------ | 1 | novel |
| seed | -GACAUGA------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| TGACATGAAACTCCATGATTCAAAG------------------------------------- | 25 | 1 | |
| ------------CCATGATTCAAAGCCTGTC------------------------------- | 19 | 1 | |
| -----TGAAACTCCATGATTCAAAG------------------------------------- | 20 | 1 | |
| rat | TGACATGAAACTCCATGATTCAAAGCCTGTCcataatgttagaatctggagaagtcacagtc | ||
| ************************************************************** | |||
| rat | .(((.(((..(((((.(((((....................))))))))))...)))..))) | 1.000 -13.55 |
| rat | chromosome:7:18369682:18369743:1 | intergenic |
block2190489 [novel_lenNOK_Multihit_5varHIGH_loopOverlap_nonpairedHIGH_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 | 0.055 | no | no | 0.35/0.47 | 19/25/0.33 | 2.5 0.0 | 0.0 0.0 | 2 1 | 0 0 | 1 1 | 0 0 | 0 12 | -4 -10 | 5arm_loop 5arm_loop | 10 11 | nd nd | 0.36 0.63 | 5 11 | 3 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ------GAAACUC------------------------------------------------- | 1 | novel |
| seed | -------------CAUGAUU------------------------------------------ | 1 | novel |
| seed | -GACAUGA------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| TGACATGAAACTCCATGATTCAAAG------------------------------------- | 25 | 1 | |
| ------------CCATGATTCAAAGCCTGTC------------------------------- | 19 | 1 | |
| -----TGAAACTCCATGATTCAAAG------------------------------------- | 20 | 1 | |
| rat | TGACATGAAACTCCATGATTCAAAGCCTGTCcataatgttagaatctggagaagtcacagtc | ||
| ************************************************************** | |||
| rat | .(((.(((..(((((.(((((....................))))))))))...)))..))) | 1.000 -13.55 |
| rat | chromosome:7:18840697:18840758:1 | intergenic |
block522340 [novel_lenNOK_Multihit_5varHIGH_loopOverlap_nonpairedHIGH_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 | 0.111 | no | no | 0.40/0.44 | 18/20/0.50 | 1.5 | 0.5 | 2 | 0 | 2 | 0 | 13 | -5 | 5arm_loop | 18 | nd | 0.35 | 5 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | -----------------ACAGAAU-------------------------------------------- | 1 | novel | |
| seed | --------------GUCACAG----------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T1S1 | T2S2 | |||
| ----------------CACAGAATTTTGAGACCC---------------------------------- | 18 | 1 | - | |
| -------------TGTCACAGAATTTTGAGACC----------------------------------- | 20 | - | 1 | |
| rat | ttgaccaaaaattTGTCACAGAATTTTGAGACCCattaaaacaaattcagtgagaaaaaatttatcaa | |||
| ******************************************************************** | ||||
| rat | .(((.......(((.((((.(((((((((......)))))....)))).)))).))).......))). | 0.990 -8.14 | ||
| rat | chromosome:16:13908867:13908934:-1 | intergenic |
novel_lenNOK_cloningOK_5varHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH (34 loci)
block77955 [novel_lenNOK_cloningOK_5varHIGH_loopOverlap_nonpairedHIGH_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 | 0.040 | no | no | 0.43/0.50 | 18/22/0.64 | 1.1 | 1.5 | 11 | 0 | 7 | 0 | 24 | -21 | 3arm_loop | 1 | nd | 0.47 | 5 | 11 | 7 | na | na |
| reads | miRBase family seed | ||||||||
| seed | -------------------------------------GAGUUGG--------------------------------------- | 9 | novel | ||||||
| seed | ------------------------------------AGAGUUG---------------------------------------- | 1 | novel | ||||||
| seed | ---------------------------------------GUUGGUU------------------------------------- | 1 | novel | ||||||
| len | cloning frequencies | ||||||||
| T1S1 | T1S2 | T3S1 | T4S1 | T4S2 | T5S1 | T5S2 | |||
| ------------------------------------AGAGTTGGTTGGGTTGTT----------------------------- | 18 | 1 | - | 1 | - | - | - | 1 | |
| ------------------------------------AGAGTTGGTTGGGTTGTTGGAA------------------------- | 22 | - | - | 1 | - | - | 1 | - | |
| ------------------------------------AGAGTTGGTTGGGTTGTTGGA-------------------------- | 21 | 1 | 1 | - | - | - | - | - | |
| -----------------------------------CAGAGTTGGTTGGGTTGTTGGA-------------------------- | 22 | - | - | 1 | - | - | - | - | |
| --------------------------------------AGTTGGTTGGGTTGTTGGAAA------------------------ | 21 | - | - | - | 1 | - | - | - | |
| ------------------------------------AGAGTTGGTTGGGTTGTTG---------------------------- | 19 | - | 1 | - | - | - | - | - | |
| ------------------------------------AGAGTTGGTTGGGTTGTTGG--------------------------- | 20 | - | - | - | - | 1 | - | - | |
| rat | tatctgggcctcaggccttggccgttggacagggcCAGAGTTGGTTGGGTTGTTGGAAAgggaggctttgtgaggctgtggtg | ||||||||
| *********************************************************************************** | |||||||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000057136 ENSRNOG00000007387 Per1 | ||||||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000009674 ENSRNOG00000007387 Per1 | ||||||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000057135 ENSRNOG00000007387 Per1 | ||||||||
| rat | ((((..(((((((((((((..(((...(((..((((......))))..)))..))).....))))))...)))))))..)))) | 0.970 -29.50 | |||||||
| rat | chromosome:10:55864572:55864654:1 | Same_strand|Intronic_coding|ENSRNOT00000009674|ENSRNOG00000007387 ## ENSRNOG00000007387|protein_coding|Per1|Period circadian protein homolog 1 (Circadian clock protein PERIOD 1) (rPER1). [Source:UniProtKB/Swiss-Prot;Acc:Q8CHI5] |
block203696 [novel_lenNOK_cloningOK_5varHIGH_loopOverlap_nonpairedHIGH_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 | 0.048 | no | no | 0.43/0.58 | 18/23/0.45 | 0.0 1.5 | 0.0 1.7 | 7 11 | 0 0 | 2 2 | 0 0 | 20 26 | 13 -2 | 5arm 5arm_loop | 1 2 | nd nd | 0.37 0.35 | 4 6 | 20 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | ---------------------CCGCAGA------------------------------------------------------------------------ | 9 | novel | |
| seed | -------------------------------AACAGAU-------------------------------------------------------------- | 4 | novel | |
| seed | ------------------------------UAACAGA--------------------------------------------------------------- | 4 | novel | |
| seed | ---------------------------ACUUAAC------------------------------------------------------------------ | 2 | novel | |
| seed | ------------------------------------AUGCAAG--------------------------------------------------------- | 1 | miR-300 | |
| len | cloning frequencies | |||
| T1S1 | T5S1 | |||
| --------------------TCCGCAGACTTAACAGATG------------------------------------------------------------- | 19 | 1 | 7 | |
| -----------------------------TTAACAGATGCAAGGACGTGAC------------------------------------------------- | 22 | 3 | - | |
| --------------------------GACTTAACAGATGCAAGGAC------------------------------------------------------ | 20 | - | 2 | |
| ------------------------------TAACAGATGCAAGGACGTGAC------------------------------------------------- | 21 | - | 2 | |
| -----------------------------TTAACAGATGCAAGGACGTGA-------------------------------------------------- | 21 | - | 1 | |
| -----------------------------------GATGCAAGGACGTGACTGG---------------------------------------------- | 19 | - | 1 | |
| --------------------TCCGCAGACTTAACAGAT-------------------------------------------------------------- | 18 | - | 1 | |
| ------------------------------TAACAGATGCAAGGACGT---------------------------------------------------- | 18 | 1 | - | |
| ------------------------------TAACAGATGCAAGGACGTGACTG----------------------------------------------- | 23 | - | 1 | |
| rat | gccctgggcaggaaagaccaTCCGCAGACTTAACAGATGCAAGGACGTGACtggcgagttgtgtccctgttgagctggaaactcctgctctgctcactgc | |||
| **************************************************************************************************** | ||||
| rat | ((...((((((((.......(((..((.((((((((......(((((..(((....)))..))))))))))))))))))...)))))))).))....... | 0.720 -36.20 | ||
| rat | chromosome:12:44281879:44281978:-1 | intergenic |
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