other hairpins
novel_lenNOK_multiarm_DicerNOK_Multihit_loopOverlap_randfoldOK (8 loci)
sblock9813 [novel_lenNOK_multiarm_DicerNOK_Multihit_loopOverlap_randfoldOK]
| 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 | 0.010 | no | no | 0.50/0.57 | 19/22/0.67 | 0.0 0.0 0.0 | 0.0 0.0 0.0 | 1 1 1 | 0 0 0 | 1 1 1 | 0 0 0 | 11 46 2 | 17 -21 26 | 5arm 5arm_loop_3arm 3arm | 23 35 35 | nd nd nd | 0.16 0.59 0.24 | 2 7 3 | 3 | 3 | 6 | 6 |
| reads | miRBase family seed | ||||
| seed | -----------------------------------------------ACCUUCC------------------------------------------------- | 1 | novel | ||
| seed | ------------AAACAGU------------------------------------------------------------------------------------ | 1 | novel | ||
| seed | ---------------------------------------------------------------------------------UGUGAUG--------------- | 1 | novel | ||
| len | cloning frequencies | ||||
| T1S2 | T2S1 | T4S1 | |||
| ----------------------------------------------AACCTTCCTGCAAAGGCCATTG----------------------------------- | 22 | - | 1 | - | |
| -----------GAAACAGTGGCATGGTTCG------------------------------------------------------------------------- | 19 | - | - | 1 | |
| --------------------------------------------------------------------------------GTGTGATGCTGTACCCATCCC-- | 21 | 1 | - | - | |
| rat | tcgggctcatgGAAACAGTGGCATGGTTCGtgccaaattccgaagcAACCTTCCTGCAAAGGCCATTGgacacagaatccGTGTGATGCTGTACCCATCCCgg | ||||
| ******************************************************************************************************* | |||||
| ----------------------------------------------------------------------------------------------------------------- | ENSRNOT00000016992 ENSRNOG00000012397 Zmym4 | ||||
| rat | .((((...((((..(((((.((((((((((((((((...((...(((.......)))...))...)))).))).))).))))))...)))))..)))))))). | 0.970 -37.20 | |||
| rat | chromosome:5:146315421:146315523:1 | Opposite_strand|Intronic_coding|ENSRNOT00000016992|ENSRNOG00000012397 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000056419|ENSRNOG00000012397 ## ENSRNOG00000012397|protein_coding|Zmym4|zinc finger, MYM-type 4 Gene [Source:MGI (curated);Acc:Zmym4-001] |
sblock4976 [novel_lenNOK_multiarm_DicerNOK_Multihit_loopOverlap_randfoldOK]
| 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 | 0.001 | no | no | 0.50/0.57 | 18/21/0.67 | 0.0 0.0 | 0.0 0.0 | 2 1 | 0 0 | 1 1 | 0 0 | 28 43 | 8 -5 | 5arm 3arm_loop | 14 18 | nd nd | 0.19 0.39 | 1 4 | 3 | 2 | 14 | 0 |
| reads | miRBase family seed | |||
| seed | -----------------------------CCUGUGG------------------------------------------------------------------------------------ | 1 | novel | |
| seed | ---------------------------------------------------------------------------------------------CCUGUGG-------------------- | 1 | novel | |
| seed | ------------------------------------------------------------ACCUGUG----------------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T2S1 | T4S2 | |||
| ----------------------------GCCTGTGGTGTGTGTGTCACA----------------------------------------------------------------------- | 21 | - | 1 | |
| -----------------------------------------------------------TACCTGTGGTGTGTGTGT------------------------------------------- | 18 | 1 | - | |
| --------------------------------------------------------------------------------------------GCCTGTGGTGTGTGTGTCACA------- | 21 | - | 1 | |
| rat | ctgtggtgtgtatcacagacttcactggGCCTGTGGTGTGTGTGTCACAgacttcactgTACCTGTGGTGTGTGTGTcacagacttcactggGCCTGTGGTGTGTGTGTCACAgacttca | |||
| ************************************************************************************************************************ | ||||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000025914 ENSRNOG00000028871 RGD1561537_predicted | |||
| rat | .((.(((.(((..((((.((.((((.((((((((((.((.((((.((((.((.((((.......)))).)).)))).)))).)).)))).)))))))))).)).))))..))).))).)) | 1.000 -55.80 | ||
| rat | chromosome:17:6770053:6770172:-1 | Same_strand|Intronic_coding|ENSRNOT00000025914|ENSRNOG00000028871 ## ENSRNOG00000028871|protein_coding|RGD1561537_predicted| ## {Repeats: dust 6770124 6770141 0 class=dust,trf 845 866 0 class=trf,trf 885 906 0 class=trf,trf 781 802 0 class=trf,trf 881 899 0 class=trf,dust 6770061 6770081 0 class=dust,dust 6770096 6770114 0 class=dust,trf 909 930 0 class=trf,trf 857 875 0 class=trf,trf 757 778 0 class=trf,dust 6769996 6770017 0 class=dust,trf 821 842 0 class=trf} |
novel_lenNOK_multiarm_DicerNOK_Multihit_randfoldOK (8 loci)
sblock1135 [novel_lenNOK_multiarm_DicerNOK_Multihit_randfoldOK]
| 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 | 0.001 | no | no | 0.45/0.50 | 18/22/0.50 | 0.0 0.0 0.0 | 0.0 0.0 0.0 | 1 1 2 | 0 0 0 | 1 1 1 | 0 0 0 | 22 31 28 | 16 9 7 | 5arm 5arm 3arm | 8 11 13 | nd nd nd | 0.27 0.30 0.39 | 2 2 4 | 4 | 3 | -3 | -8 |
| reads | miRBase family seed | ||||
| seed | ------------------------------------------------------------------------GUUCAAG-------------------------------------- | 2 | novel | ||
| seed | --------------------------------AUGGUGA------------------------------------------------------------------------------ | 1 | novel | ||
| seed | -----------------------CUGGUUG--------------------------------------------------------------------------------------- | 1 | novel | ||
| len | cloning frequencies | ||||
| T3S1 | T3S2 | T5S2 | |||
| -----------------------------------------------------------------------GGTTCAAGGGATGGAAAG---------------------------- | 18 | - | - | 2 | |
| -------------------------------AATGGTGACAACATGCTGGA------------------------------------------------------------------ | 20 | 1 | - | - | |
| ----------------------TCTGGTTGGAATGGTGACAACA------------------------------------------------------------------------- | 22 | - | 1 | - | |
| rat | cacagtagcatttgtgccagctTCTGGTTGGAATGGTGACAACATGCTGGAgccaagggctaatgtaccttGGTTCAAGGGATGGAAAGtcacctccaaagatggcagtgccagtgg | ||||
| ********************************************************************************************************************* | |||||
| ------------------------------------------------------------------------------------------------------------------------------- | ENSRNOT00000041441 ENSRNOG00000011058 Utrn | ||||
| ------------------------------------------------------------------------------------------------------------------------------- | ENSRNOT00000016273 ENSRNOG00000011058 Utrn | ||||
| rat | (((....((((...(((((...(((..(((((..((((((..(((.((.(((((((((((....)).)))))))))..)).)))....)))))))))))))))))))))))..))). | 0.970 -46.00 | |||
| rat | chromosome:1:7574418:7574534:1 | Opposite_strand|Boundary_non-coding|ENSRNOT00000015208|ENSRNOG00000011058 ## Opposite_strand|Intronic_coding|ENSRNOT00000016273|ENSRNOG00000011058 ## Opposite_strand|Intronic_non-coding|ENSRNOT00000041441|ENSRNOG00000011058 ## ENSRNOG00000011058|protein_coding|Utrn|utrophin [Source:RefSeq_peptide;Acc:NP_037202] |
sblock12311 [novel_lenNOK_multiarm_DicerNOK_Multihit_randfoldOK]
| 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 | 0.006 | no | no | 0.42/0.50 | 18/24/0.50 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 28 29 | 7 3 | 5arm 3arm | 2 15 | nd nd | 0.29 0.17 | 3 2 | 2 | 2 | -4 | -8 |
| reads | miRBase family seed | |||
| seed | --------------------------------------------------------------------------UACCUCC--------------------------------------- | 1 | novel | |
| seed | -----------------------------GUGCAAU------------------------------------------------------------------------------------ | 1 | novel | |
| len | cloning frequencies | |||
| T2S1 | T5S1 | |||
| ----------------------------TGTGCAATTCTATCTTCTAGGGAG-------------------------------------------------------------------- | 24 | - | 1 | |
| -------------------------------------------------------------------------CTACCTCCCAGAAGATGA----------------------------- | 18 | 1 | - | |
| rat | atgagtctgccgtctaccaccttaacacTGTGCAATTCTATCTTCTAGGGAGcagggacaaatctgcacggtcCTACCTCCCAGAAGATGAggcgaggcgttgcggttagcatgactcgt | |||
| ************************************************************************************************************************ | ||||
| rat | ((((((((((........(((.((((.((.(((...((.(((((((.(((((..(((((...........)))))..)))))))))))))).))).)).)))).)))..))).))))))) | 0.970 -44.20 | ||
| rat | chromosome:9:105217750:105217869:-1 | intergenic |
sblock1396 [novel_lenNOK_multiarm_DicerNOK_Multihit_randfoldOK]
| 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 | 0.009 | no | no | 0.40/0.58 | 19/25/0.40 | 1.0 0.0 | 1.0 0.0 | 4 1 | 0 0 | 2 1 | 0 0 | 22 40 | 4 -2 | 5arm 3arm_loop | 19 19 | nd nd | 0.26 0.45 | 3 4 | 5 | 3 | -15 | -16 |
| reads | miRBase family seed | ||||
| seed | -------------------------ACCCUCU------------------------------------------------------------------------------------- | 2 | novel | ||
| seed | -----------------------AGACCCU--------------------------------------------------------------------------------------- | 2 | novel | ||
| seed | ----------------------------------------------------------ACUGGCA---------------------------------------------------- | 1 | novel | ||
| len | cloning frequencies | ||||
| T1S1 | T3S2 | T5S1 | |||
| ------------------------GACCCTCTCAGCAGCTAGA-------------------------------------------------------------------------- | 19 | - | - | 2 | |
| ----------------------TAGACCCTCTCAGCAGCTAGAATTT---------------------------------------------------------------------- | 25 | - | 1 | - | |
| ---------------------------------------------------------TACTGGCACAAAAATTCCAC---------------------------------------- | 20 | 1 | - | - | |
| ----------------------TAGACCCTCTCAGCAGCTAGA-------------------------------------------------------------------------- | 21 | - | - | 1 | |
| rat | ggaccaacaaggttgcaggacaTAGACCCTCTCAGCAGCTAGAATTTgcaggacttcTACTGGCACAAAAATTCCACagttgctggagctccactgtcactgcaaatgcactgtctc | ||||
| ********************************************************************************************************************* | |||||
| rat | ((((........((((((((((......(((.((((((((.((((((((((........))).))....)))))...)))))))))))......)))).)))))).......)))). | 0.970 -35.56 | |||
| rat | chromosome:1:51025060:51025176:1 | intergenic |
sblock243 [novel_lenNOK_multiarm_DicerNOK_Multihit_randfoldOK]
| 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 | 0.001 | no | no | 0.60/0.67 | 18/20/0.20 | 0.0 0.0 | 0.0 0.0 | 4 1 | 0 0 | 3 1 | 0 0 | 13 0 | 25 38 | 5arm 3arm | 36 38 | nd nd | 0.11 0.47 | 2 4 | 5 | 4 | 15 | 13 |
| reads | miRBase family seed | |||||
| seed | --------------GCUCAGG------------------------------------------------------------------------------------------------ | 4 | novel | |||
| seed | --------------------------------------------------------------------------------------------------CCUCUAG------------ | 1 | novel | |||
| len | cloning frequencies | |||||
| T1S2 | T3S1 | T4S1 | T4S2 | |||
| -------------GGCTCAGGGACTCAGGAC-------------------------------------------------------------------------------------- | 18 | 1 | - | 1 | 2 | |
| -------------------------------------------------------------------------------------------------GCCTCTAGAGATGAGCCCAG | 20 | - | 1 | - | - | |
| rat | gcagagcacctcaGGCTCAGGGACTCAGGACtgacacccatagaatactgtagaggaaccctttgtgattcaagggctcatctgcctgggtccctgaGCCTCTAGAGATGAGCCCAG | |||||
| ********************************************************************************************************************* | ||||||
| rat | ((....((.((((((((((((((((((((..(((..(((...((((....((((((...))))))..))))..))).)))....)))))))))))))))))...))).)).)).... | 0.740 -50.50 | ||||
| rat | chromosome:1:50031737:50031853:-1 | intergenic |
sblock6073 [novel_lenNOK_multiarm_DicerNOK_Multihit_randfoldOK]
| 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 | 0.001 | no | no | 0.32/0.32 | 19/22/0.67 | 0.0 0.0 | 0.0 0.0 | 1 2 | 0 0 | 1 1 | 0 0 | 13 12 | 8 7 | 5arm 3arm | 1 12 | nd nd | 0.16 0.23 | 1 3 | 3 | 2 | -1 | 0 |
| reads | miRBase family seed | |||
| seed | ----------------------------------------------------GAACACA-------------------------- | 2 | novel | |
| seed | --------------AGAGUAA---------------------------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T1S2 | T5S1 | |||
| ---------------------------------------------------TGAACACAGAGACAGTTATTTT------------ | 22 | - | 2 | |
| -------------AAGAGTAACTTTTGGGTAT----------------------------------------------------- | 19 | 1 | - | |
| rat | aaagttgtcttaaAAGAGTAACTTTTGGGTATagtagtttttgtaaaagacTGAACACAGAGACAGTTATTTTaagacaagttta | |||
| ************************************************************************************* | ||||
| rat | (((.((((((((...((((((((((((.((.((((..(((....)))..)))).)).))))...)))))))))))))))).))). | 1.000 -21.60 | ||
| rat | chromosome:2:105718065:105718149:-1 | intergenic |
sblock7383 [novel_lenNOK_multiarm_DicerNOK_Multihit_randfoldOK]
| 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 | 0.001 | no | no | 0.50/0.55 | 18/20/0.50 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 39 31 | 0 5 | 5arm 3arm | 64 64 | nd nd | 0.44 0.30 | 6 3 | 2 | 2 | 4 | 11 |
| reads | miRBase family seed | |||
| seed | --------------------------------------------------------------------UCCUAUC------------------------------------------- | 1 | novel | |
| seed | ----------------------------------------GAUAUUC----------------------------------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T2S2 | T5S2 | |||
| -------------------------------------------------------------------CTCCTATCCAGAAGACACCC------------------------------- | 20 | - | 1 | |
| ---------------------------------------GGATATTCTCTGAGTCCC------------------------------------------------------------- | 18 | 1 | - | |
| rat | tgggctgcctctctctcaagaagaatatgaggctctgctGGATATTCTCTGAGTCCCagcctggaagCTCCTATCCAGAAGACACCCgcaatcaacacttgagaatatagacagccca | |||
| ********************************************************************************************************************** | ||||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000044322 ENSRNOG00000028669 RGD1565550_predicted | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000043675 ENSRNOG00000029234 RGD1560135_predicted | |||
| rat | .((((((.((...(((((((.......((.((.(((.(((((((......((((.((.....))..)))).))))))).)))...)).)).......)))))))....)).)))))). | 0.770 -37.74 | ||
| rat | chromosome:20:38257977:38258094:1 | Same_strand|Intronic_non-coding|ENSRNOT00000043675|ENSRNOG00000029234 ## ENSRNOG00000028669|protein_coding|RGD1565550_predicted| ## ENSRNOG00000029234|protein_coding|RGD1560135_predicted| |
sblock7476 [novel_lenNOK_multiarm_DicerNOK_Multihit_randfoldOK]
| 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 | 0.005 | no | no | 0.36/0.40 | 20/25/0.50 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 13 0 | 13 42 | 5arm 3arm | 36 36 | nd nd | 0.15 0.62 | 3 8 | 2 | 2 | 0 | -19 |
| reads | miRBase family seed | |||
| seed | --------------GACACCA-------------------------------------------------------------------------------------------------- | 1 | novel | |
| seed | -----------------------------------------------------------------------------------------------AACUUAU----------------- | 1 | novel | |
| len | cloning frequencies | |||
| T3S1 | T4S1 | |||
| -------------TGACACCATGTTGTATTTCC-------------------------------------------------------------------------------------- | 20 | 1 | - | |
| ----------------------------------------------------------------------------------------------GAACTTATTTTTAACTGGGACACAG | 25 | - | 1 | |
| rat | acagtagagtactTGACACCATGTTGTATTTCCtcggcttgaagaatagcttttcttaaatgctggggagattttacagtcatgactcaagtcaGAACTTATTTTTAACTGGGACACAG | |||
| *********************************************************************************************************************** | ||||
| rat | .(((((((((((((((...(((((((((((((((((((...(((((......)))))....))))))))))...))))).))))..))))))........)))))..))))........ | 0.460 -33.80 | ||
| rat | chromosome:3:16325328:16325446:-1 | intergenic |
sblock4975 [novel_lenNOK_multiarm_DicerNOK_Multihit_randfoldOK]
| 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 | 0.001 | no | no | 0.50/0.57 | 18/21/0.50 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 28 11 | 8 27 | 5arm 3arm | 14 18 | nd nd | 0.33 0.28 | 3 1 | 2 | 2 | 19 | 16 |
| reads | miRBase family seed | |||
| seed | -----------------------------CCUGUGG------------------------------------------------------------------------------------ | 1 | novel | |
| seed | --------------------------------------------------------------------------------------------ACCUGUG--------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T2S1 | T4S2 | |||
| -------------------------------------------------------------------------------------------TACCTGTGGTGTGTGTGT----------- | 18 | 1 | - | |
| ----------------------------GCCTGTGGTGTGTGTGTCACA----------------------------------------------------------------------- | 21 | - | 1 | |
| rat | gtggtgtgtgtgtcacagacttcactggGCCTGTGGTGTGTGTGTCACAgacttcactgtacctgtgatgtgtgtgtcacagacttcactgTACCTGTGGTGTGTGTGTcacagacttca | |||
| ************************************************************************************************************************ | ||||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000025914 ENSRNOG00000028871 RGD1561537_predicted | |||
| rat | .(((.((.((((.((((.((.((((.((....((((.((.((((.((((.((.((((.......)))).)).)))).)))).)).))))....)).)))).)).)))).)))).)).))) | 1.000 -53.10 | ||
| rat | chromosome:17:6769767:6769886:-1 | Same_strand|Intronic_coding|ENSRNOT00000025914|ENSRNOG00000028871 ## ENSRNOG00000028871|protein_coding|RGD1561537_predicted| ## {Repeats: dust 6769742 6769763 0 class=dust,trf 503 524 0 class=trf,trf 563 581 0 class=trf,trf 717 738 0 class=trf,dust 6769778 6769796 0 class=dust,trf 749 770 0 class=trf,trf 655 676 0 class=trf,trf 539 557 0 class=trf,dust 6769932 6769953 0 class=dust,trf 471 492 0 class=trf,dust 6769870 6769887 0 class=dust,trf 623 644 0 class=trf,dust 6769964 6769985 0 class=dust,trf 527 548 0 class=trf,trf 631 652 0 class=trf,trf 599 620 0 class=trf,trf 495 516 0 class=trf,trf 725 746 0 class=trf,trf 693 714 0 class=trf,dust 6769710 6769731 0 class=dust,dust 6769838 6769859 0 class=dust} |
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