other hairpins
novel_cloningOK_multiarm_nonpairedHIGH (3 loci)
novel_cloningOK_multiarm_shortStem_randfoldOK_bulgeHIGH (3 loci)
sblock109 [novel_cloningOK_multiarm_shortStem_randfoldOK_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 | 0.004 | no | no | 0.36/0.48 | 18/23/0.78 | 0.0 0.0 0.0 | 0.8 0.0 0.5 | 11 1 2 | 0 0 0 | 3 1 1 | 0 0 0 | 0 41 26 | 23 -17 -3 | 5arm 5arm_loop_3arm 3arm_loop | 6 6 6 | nd nd nd | 0.20 0.50 0.35 | 4 6 3 | 18 | 3 | na | na |
| reads | miRBase family seed | ||||
| seed | -CAUCAUU--------------------------------------------------------------------------------------- | 15 | novel | ||
| seed | --------------------------------------------------ACAAGCA-------------------------------------- | 2 | novel | ||
| seed | ------------------------------------------GCUUCUU---------------------------------------------- | 1 | novel | ||
| len | cloning frequencies | ||||
| T1S2 | T4S1 | T5S1 | |||
| TCATCATTGTTTCTGCCTTG--------------------------------------------------------------------------- | 20 | 1 | - | 8 | |
| TCATCATTGTTTCTGCCTTGGCC------------------------------------------------------------------------ | 23 | - | - | 3 | |
| TCATCATTGTTTCTGCCTT---------------------------------------------------------------------------- | 19 | - | 1 | 1 | |
| TCATCATTGTTTCTGCCT----------------------------------------------------------------------------- | 18 | - | 1 | - | |
| -------------------------------------------------TACAAGCAGTTTGATGGCC--------------------------- | 19 | - | - | 1 | |
| -------------------------------------------------TACAAGCAGTTTGATGGCCA-------------------------- | 20 | - | - | 1 | |
| -----------------------------------------TGCTTCTTTACAAGCAGTTTGA-------------------------------- | 22 | - | - | 1 | |
| rat | TCATCATTGTTTCTGCCTTGGCCatgtgtggcctacaccaatgcttctttacaagcagtttgatggccatgggactgctagggaggcgatgatgt | ||||
| *********************************************************************************************** | |||||
| rat | .((((((((((....(((((((.....((((((..((....(((((......)))))...))..))))))......))))))).)))))))))). | 0.730 -35.40 | |||
| rat | chromosome:1:48276113:48276207:-1 | intergenic |
sblock1329 [novel_cloningOK_multiarm_shortStem_randfoldOK_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 | 0.004 | no | no | 0.35/0.48 | 18/23/0.79 | 0.0 0.0 0.0 0.0 | 0.8 0.0 0.0 0.5 | 11 1 1 2 | 0 0 0 0 | 3 1 1 1 | 0 0 0 0 | 0 33 41 26 | 23 -7 -17 -3 | 5arm 5arm_loop_3arm 5arm_loop_3arm 3arm_loop | 6 6 6 6 | nd nd nd nd | 0.20 0.55 0.50 0.35 | 4 6 6 3 | 19 | 3 | na | na |
| reads | miRBase family seed | ||||
| seed | -CAUCAUU--------------------------------------------------------------------------------------- | 15 | novel | ||
| seed | --------------------------------------------------ACAAGCA-------------------------------------- | 2 | novel | ||
| seed | ------------------------------------------GCUUCUU---------------------------------------------- | 1 | novel | ||
| seed | ----------------------------------ACACCAA------------------------------------------------------ | 1 | novel | ||
| len | cloning frequencies | ||||
| T1S2 | T4S1 | T5S1 | |||
| TCATCATTGTTTCTGCCTTG--------------------------------------------------------------------------- | 20 | 1 | - | 8 | |
| TCATCATTGTTTCTGCCTTGGCC------------------------------------------------------------------------ | 23 | - | - | 3 | |
| TCATCATTGTTTCTGCCTT---------------------------------------------------------------------------- | 19 | - | 1 | 1 | |
| TCATCATTGTTTCTGCCT----------------------------------------------------------------------------- | 18 | - | 1 | - | |
| ---------------------------------TACACCAATGCTTCTTTACA------------------------------------------ | 20 | 1 | - | - | |
| -------------------------------------------------TACAAGCAGTTTGATGGCC--------------------------- | 19 | - | - | 1 | |
| -------------------------------------------------TACAAGCAGTTTGATGGCCA-------------------------- | 20 | - | - | 1 | |
| -----------------------------------------TGCTTCTTTACAAGCAGTTTGA-------------------------------- | 22 | - | - | 1 | |
| rat | TCATCATTGTTTCTGCCTTGGCCatgtgtggcctacaccaatgcttctttacaagcagtttgatggccatgggactgctagggaggcgatgatgt | ||||
| *********************************************************************************************** | |||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000043702 ENSRNOG00000034080 RGD1563490_predicted | ||||
| rat | .((((((((((....(((((((.....((((((..((....(((((......)))))...))..))))))......))))))).)))))))))). | 0.730 -35.40 | |||
| rat | chromosome:1:47866634:47866728:1 | Same_strand|Intronic_non-coding|ENSRNOT00000043702|ENSRNOG00000034080 ## ENSRNOG00000034080|protein_coding|RGD1563490_predicted| |
sblock1331 [novel_cloningOK_multiarm_shortStem_randfoldOK_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 | 0.004 | no | no | 0.35/0.48 | 18/23/0.79 | 0.0 0.0 0.0 0.0 | 0.8 0.0 0.0 0.5 | 11 1 1 2 | 0 0 0 0 | 3 1 1 1 | 0 0 0 0 | 0 33 41 26 | 23 -7 -17 -3 | 5arm 5arm_loop_3arm 5arm_loop_3arm 3arm_loop | 6 6 6 6 | nd nd nd nd | 0.20 0.55 0.50 0.35 | 4 6 6 3 | 19 | 3 | na | na |
| reads | miRBase family seed | ||||
| seed | -CAUCAUU--------------------------------------------------------------------------------------- | 15 | novel | ||
| seed | --------------------------------------------------ACAAGCA-------------------------------------- | 2 | novel | ||
| seed | ------------------------------------------GCUUCUU---------------------------------------------- | 1 | novel | ||
| seed | ----------------------------------ACACCAA------------------------------------------------------ | 1 | novel | ||
| len | cloning frequencies | ||||
| T1S2 | T4S1 | T5S1 | |||
| TCATCATTGTTTCTGCCTTG--------------------------------------------------------------------------- | 20 | 1 | - | 8 | |
| TCATCATTGTTTCTGCCTTGGCC------------------------------------------------------------------------ | 23 | - | - | 3 | |
| TCATCATTGTTTCTGCCTT---------------------------------------------------------------------------- | 19 | - | 1 | 1 | |
| TCATCATTGTTTCTGCCT----------------------------------------------------------------------------- | 18 | - | 1 | - | |
| ---------------------------------TACACCAATGCTTCTTTACA------------------------------------------ | 20 | 1 | - | - | |
| -------------------------------------------------TACAAGCAGTTTGATGGCC--------------------------- | 19 | - | - | 1 | |
| -------------------------------------------------TACAAGCAGTTTGATGGCCA-------------------------- | 20 | - | - | 1 | |
| -----------------------------------------TGCTTCTTTACAAGCAGTTTGA-------------------------------- | 22 | - | - | 1 | |
| rat | TCATCATTGTTTCTGCCTTGGCCatgtgtggcctacaccaatgcttctttacaagcagtttgatggccatgggactgctagggaggcgatgatgt | ||||
| *********************************************************************************************** | |||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000043702 ENSRNOG00000034080 RGD1563490_predicted | ||||
| rat | .((((((((((....(((((((.....((((((..((....(((((......)))))...))..))))))......))))))).)))))))))). | 0.730 -35.40 | |||
| rat | chromosome:1:47868170:47868264:1 | Same_strand|Intronic_non-coding|ENSRNOT00000043702|ENSRNOG00000034080 ## ENSRNOG00000034080|protein_coding|RGD1563490_predicted| |
novel_gcHIGH_bulgeHIGH (3 loci)
block905977 [novel_gcHIGH_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 | 0.255 | no | no | 0.95/0.95 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 26 | 17 | 5arm | 1 | nd | 0.30 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------CGCGCGC------------------------------------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T1S1 | |||
| --------------------------GCGCGCGCCCGGCGGCGTGG------------------------------------------------------------------------ | 20 | 1 | |
| rat | gaacactacaagtcccgacaggctccGCGCGCGCCCGGCGGCGTGGcgggcaaaggaatcgggcgtcttcctagttccagggtgttggctcgcggccgcgcgcggggcgctgggttcc | ||
| ********************************************************************************************************************** | |||
| rat | ((((..............((((((((((((((....(((.(((.(((.((((..(((((..((......))..)))))....)))).)))))).)))))))))))))).))).)))). | 0.570 -58.46 |
| rat | chromosome:1:190187020:190187137:-1 | intergenic |
block1881084 [novel_gcHIGH_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 | 0.545 | no | no | 0.95/0.95 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 18 | 4 | 5arm | 1 | nd | 0.30 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------------------GGGCGGG------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T2S1 | |||
| ------------------GGGGCGGGGTCCGGGCGGGG------------------------------------------ | 20 | 1 | |
| rat | gggcgggttgggggcccgGGGGCGGGGTCCGGGCGGGGcgggccggctcacttcctcggaggcttagggccgcgcgccca | ||
| ******************************************************************************** | |||
| .......................................................................................>>> | ENSRNOT00000010007 ENSRNOG00000007541 NP_001101449.1 | ||
| rat | (((((.((....(((((..((((....((((((.((((.(((....))).)))))))))).)))).))))))).))))). | 0.560 -44.40 |
| rat | chromosome:5:144026268:144026347:1 | intergenic ## {Repeats: dust 144026255 144026275 0 class=dust,GC_rich 1 55 1 class=Low_complexity,GC_rich 26 46 1 class=Low_complexity,trf 1 17 0 class=trf} ## {SimpF: -1 Eponine} |
block910156 [novel_gcHIGH_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 | 0.428 | no | no | 0.95/0.95 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 21 | 18 | 3arm | 1 | nd | 0.30 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------------------------------------------------GUCCGCG--------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T3S2 | |||
| --------------------------------------------------------------------------CGTCCGCGCCCGGCGCCCGC--------------------- | 20 | 1 | |
| rat | cggcggcctcgagttgacggacgggcgcggggcggagcggggcggggcgagcgcgggcccggccaagtccccgcCGTCCGCGCCCGGCGCCCGCagcccgagccgcacccgccgc | ||
| ******************************************************************************************************************* | |||
| ..........................................................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000022363 ENSRNOG00000016611 LOC367858 | ||
| rat | ((((((.((((.((((.(((.((((((((((((((.((..(((.((((........)))).)))..))..)))))..)))))))))....))))))).))))......)))))). | 1.000 -73.70 |
| rat | chromosome:1:201388954:201389068:-1 | Same_strand|Boundary_non-coding|ENSRNOT00000022363|ENSRNOG00000016611 ## ENSRNOG00000016611|protein_coding|LOC367858|GTPase HRas precursor (Transforming protein p21) (p21ras) (H-Ras-1) (c-H-ras). [Source:UniProtKB/Swiss-Prot;Acc:P20171] ## {Repeats: GC_rich 96 116 -1 class=Low_complexity,GC_rich 1 121 -1 class=Low_complexity,dust 201388975 201388995 0 class=dust} ## {SimpF: 1 Eponine,oe = 0.86 1 CpG} |
novel_gcHIGH_loopOverlap (3 loci)
block177770 [novel_gcHIGH_loopOverlap]
| 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 | 0.345 | no | no | 0.95/0.95 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 31 | -2 | 5arm_loop | 1 | nd | 0.30 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --------------------------------GCCCGGG------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T2S2 | |||
| -------------------------------GGCCCGGGGGGCGGGGGCAG------------------------------------------------------------- | 20 | 1 | |
| rat | gccggggtggccctagccgggacaaaggcttGGCCCGGGGGGCGGGGGCAGcgatggctccggccgccgagggcgcgggcgaactacaagtcccagcagctcccgcagcggc | ||
| **************************************************************************************************************** | |||
| ..........................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000001289 ENSRNOG00000000974 NP_001101798.1 | ||
| rat | ((((..((((..((.((.(((((..(((((((((((.((.(((.(((((.......))))).))).))..)))).)))))...))....))))).))))...))))..)))) | 0.990 -58.80 |
| rat | chromosome:12:2662658:2662769:-1 | intergenic |
block471904 [novel_gcHIGH_loopOverlap]
| 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 | 0.292 | no | no | 0.95/0.95 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 20 | -1 | 3arm | 1 | nd | 0.25 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --------------------------------------------------------GGAGGGC-------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T1S2 | |||
| -------------------------------------------------------GGGAGGGCCGGGGGGGGGGG-------------------- | 20 | 1 | |
| rat | cccatgacgtaatgcgtcacaccacactttcaaacaggcttgccaagtggggggtGGGAGGGCCGGGGGGGGGGGacacaaatatgttagcggga | ||
| *********************************************************************************************** | |||
| --------------------------------------------------------------------------------------------------------- | ENSRNOT00000016709 ENSRNOG00000012325 Adk | ||
| rat | (((.(((((((.((.(((...((...(((((.....((((..((............))..)))).))))).)).))).))..)))))))..))). | 0.410 -30.30 |
| rat | chromosome:15:3227944:3228038:1 | Opposite_strand|Intronic_coding|ENSRNOT00000016709|ENSRNOG00000012325 ## ENSRNOG00000012325|protein_coding|Adk|Adenosine kinase (EC 2.7.1.20) (AK) (Adenosine 5'-phosphotransferase). [Source:UniProtKB/Swiss-Prot;Acc:Q64640] ## {Repeats: dust 3227992 3228012 0 class=dust} |
block1094476 [novel_gcHIGH_loopOverlap]
| 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 | 0.773 | no | no | 0.95/0.95 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 39 | -1 | 3arm | 1 | 36 | 0.15 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ------------------------------------------------------------GGGGUGC--------------------------------------------------- | 1 | miR-342 |
| len | cloning frequencies | ||
| T3S1 | |||
| -----------------------------------------------------------CGGGGTGCGGGGGGGCGGGG--------------------------------------- | 20 | 1 | |
| rat | gggacggcgctggtagggagtcaggtgggtgtctaaagctttgcttctgtttcctttctCGGGGTGCGGGGGGGCGGGGttgactcttcttgtgcatatgtatccttgtgcgtgctca | ||
| ********************************************************************************************************************** | |||
| >>>>>>>>>>>>>>>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000000580 ENSRNOG00000000488 Hmga1 | ||
| rat | (((...((((...((((((..((((.(((.(((...((((((((((((((.((((.....)))).)))))..))))))))))))))).))))..........)))))).)))).))). | 0.450 -36.40 |
| rat | chromosome:20:5769163:5769280:1 | Same_strand|Intronic_coding|ENSRNOT00000000580|ENSRNOG00000000488 ## ENSRNOG00000000488|protein_coding|Hmga1|High mobility group protein HMG-I/HMG-Y (HMG-I(Y)) (High mobility group AT-hook protein 1) (High mobility group protein A1). [Source:UniProtKB/Swiss-Prot;Acc:Q8K585] ## {Repeats: dust 5769222 5769241 0 class=dust} |
novel_gcHIGH_loopOverlap_nonpairedHIGH (3 loci)
block864877 [novel_gcHIGH_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 | 0.645 | no | no | 0.95/0.95 | 21/21/1.00 | 0.0 | 0.0 | 2 | 0 | 1 | 0 | 5 | -4 | 3arm_loop | 1 | nd | 0.38 | 3 | 2 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------------------------GGGUCGG------------------ | 2 | novel |
| len | cloning frequencies | ||
| T2S1 | |||
| ------------------------GGGGTCGGGGGGGGGGGGCCC----- | 21 | 2 | |
| rat | cagctgtccacatcagtcctggtgGGGGTCGGGGGGGGGGGGCCCagctg | ||
| ************************************************** | |||
| rat | (((((((((...((..((((((......))))))..)).))))..))))) | 0.920 -18.50 |
| rat | chromosome:1:89175613:89175662:-1 | intergenic ## {Repeats: dust 89175621 89175639 0 class=dust} |
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