confident miRBase miRNAs
miRNAknown_cloningHIGH_multiarm_DicerOK_randfoldOK (30 loci)
cel-mir-48
| absolute | CE1 |
| cel-mir-48 5arm | 186 |
| cel-mir-48 3arm | 11 |
| normalized | CE1 |
| cel-mir-48 5arm | 0.130 |
| cel-mir-48 3arm | 0.008 |
sblock58 (miRBase cel-mir-48) [miRNAknown_cloningHIGH_multiarm_DicerOK_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 |
| miRBase cel-mir-48 | 0.002 | no | no | 0.50/0.62 | 19/23/0.99 | 0.0 0.0 | 0.0 0.0 | 176 11 | 0 0 | 1 1 | 0 0 | 15 24 | 5 6 | 5arm 3arm | 1 1 | nd nd | 0.23 0.24 | 2 2 | 197 | 1 | 1 | 1 |
| Member of family miR-241/48/let-7/84 (seed GAGGUAG): cel-mir-795, cel-mir-48, cel-mir-241, cel-let-7, cel-mir-84 |
| reads | miRBase family seed | ||
| seed | ------------------------------GAGGUAG------------------------------------------------------------------------------------------- | 179 | miR-241/48/let-7/84 |
| seed | --------------------------------------------------------------------------------CAUCCAC----------------------------------------- | 11 | novel |
| seed | ----------------------------------UAGGCUC--------------------------------------------------------------------------------------- | 5 | novel |
| seed | -------------------------------AGGUAGG------------------------------------------------------------------------------------------ | 1 | novel |
| seed | ---------------------------------GUAGGCU---------------------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| CE1 | |||
| -----------------------------TGAGGTAGGCTCAGTAGATGCG----------------------------------------------------------------------------- | 22 | 176 | |
| -------------------------------------------------------------------------------ACATCCACCAGCCTAGCTCGC---------------------------- | 21 | 11 | |
| ---------------------------------GTAGGCTCAGTAGATGCGAA--------------------------------------------------------------------------- | 20 | 5 | |
| cel-miR-48 | -----------------------------TGAGGTAGGCTCAGTAGATGCGA---------------------------------------------------------------------------- | 23 | 2 |
| --------------------------------GGTAGGCTCAGTAGATGCG----------------------------------------------------------------------------- | 19 | 1 | |
| -----------------------------TGAGGTAGGCTCAGTAGATGC------------------------------------------------------------------------------ | 21 | 1 | |
| ------------------------------GAGGTAGGCTCAGTAGATGCGA---------------------------------------------------------------------------- | 22 | 1 | |
| celegans | --------------AAACTCCCGGGAACTTGAGGTAGGCTCAGTAGATGCGAATTGAA------------CGGTATCTCACATCCACCAGCCTAGCTCGCATTCCCAGAGTTTACGGTATTGTT---- | ||
| cbriggsae | CAAAGTAAGTTTAGAACCATTCGGGATGTTGAGGTAGGCTCAGTAGATGCGAGGAGA--------TCCACCATTC-CTCACATCGTCTGTCCTAACTCGCCTTCCCTTGTGCTTCAATATTTCTTTTG | ||
| cjaponica | -----------------------GGAAAGTGAGGTAGGCTTTGTAGATGTGATTGGAGTGGTGCCACAGGCGGT--CTCACATCCACTCGCCTACCTCGCCTTTCC---------------------- | ||
| cbrenneri | -----------------------------TGAGGTAGGCTCAGTAGATGCGAACGTAAATGAGCCCACATCGGCCTTTCACATCCACTTGCCTTCCTCG----------------------------- | ||
| cremanei | -----------------CATACCGGATGTTGAGGTAGGCTCAGTAGATGCGATCAGAGTTGTGCCTCAGGCGTTC-CTCACATCTTCTTGCCTAACTCGCCTTCCTTTATG----------------- | ||
| *********** ******* ** * * ******* * *** **** | |||
| celegans | ((((((..(((((..((((.((((((..((.((((.((..((.. ...))..)).)))).)).)))))).))))..))))).))))))........... | 1.000 -34.50 | |
| cbriggsae | (((((.((((...(((.(((..((((...((((.((((..(((..((((.((((((. .......))) ))).))))..))).)))).))))...))))..))).)))...)))).))))) | 1.000 -39.00 | |
| cjaponica | ((((((((((((((((...((.((((((((((..(((....)))...))). .))))))).))..))))))))))).))))) | 0.986 -39.00 | |
| cbrenneri | .((((.((((..(((.((((.(((.((..(((......)))..))..))).)))).))).)))).)))). | 0.950 -24.30 | |
| cremanei | ((((..(((...((((.(((((..((.(((((......(((..(((((...))))).. ))).))))).)).))))).))))...)))..)))) | 0.977 -27.70 |
| celegans | chromosome:V:14364390:14364487:-1 | intergenic ## {MIR: cel-mir-48} |
| cbriggsae | chromosome:chrV:12275573:12275691:1 | Opposite_strand|Intronic_coding|NM_074155 ## Same_strand|Intronic_coding|NM_001113262 ## {MIR: cbr-mir-48} |
| cjaponica | chromosome:chrUn:25917622:25917702:-1 | Same_strand|Intronic_coding|NM_001004193 |
| cbrenneri | chromosome:chrUn:94386028:94386165:-1 | intergenic |
| cremanei | chromosome:chrUn:140422769:140422861:1 | Opposite_strand|Intronic_coding|NM_182407 |
cel-mir-55
| absolute | CE1 |
| cel-mir-55 5arm | 31 |
| cel-mir-55 3arm | 1868 |
| normalized | CE1 |
| cel-mir-55 5arm | 0.022 |
| cel-mir-55 3arm | 1.305 |
sblock63 (miRBase cel-mir-55) [miRNAknown_cloningHIGH_multiarm_DicerOK_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 |
| miRBase cel-mir-55 | 0.001 | no | no | 0.39/0.53 | 18/24/0.96 | 0.0 0.0 | 0.9 0.6 | 30 1763 | 0 0 | 1 1 | 0 0 | 22 15 | 2 4 | 5arm 3arm | 1 1 | nd nd | 0.10 0.13 | 1 1 | 1899 | 1 | 1 | 2 |
| Located in cluster 7: cel-mir-56, cel-mir-55, cel-mir-54 |
| Member of family miR-51/52/55 (seed ACCCGUA): cel-mir-53, cel-mir-51, cel-mir-55, cel-mir-54, cel-mir-56, cel-mir-52 |
| reads | miRBase family seed | ||
| seed | -----------------------------------------------------------------------------------------ACCCGUA------------------------------------------------------ | 1807 | miR-51/52/55 |
| seed | ------------------------------------------------------------------------------------------CCCGUAU----------------------------------------------------- | 34 | novel |
| seed | -----------------------------------------------GGCAGAA------------------------------------------------------------------------------------------------ | 31 | novel |
| seed | ---------------------------------------------------------------------------------------------GUAUAAG-------------------------------------------------- | 23 | novel |
| seed | -------------------------------------------------------------------------------------------CCGUAUA---------------------------------------------------- | 2 | novel |
| seed | ----------------------------------------------------------------------------------------UACCCGU------------------------------------------------------- | 1 | novel |
| seed | --------------------------------------------------------------------------------------------CGUAUAA--------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| CE1 | |||
| cel-miR-55 | ----------------------------------------------------------------------------------------TACCCGTATAAGTTTCTGCTGAG--------------------------------------- | 23 | 1238 |
| ----------------------------------------------------------------------------------------TACCCGTATAAGTTTCTGCTG----------------------------------------- | 21 | 525 | |
| ----------------------------------------------------------------------------------------TACCCGTATAAGTTTCTGC------------------------------------------- | 19 | 30 | |
| -----------------------------------------------------------------------------------------ACCCGTATAAGTTTCTGCTGAG--------------------------------------- | 22 | 24 | |
| --------------------------------------------------------------------------------------------CGTATAAGTTTCTGCTGAG--------------------------------------- | 19 | 20 | |
| ----------------------------------------------CGGCAGAAACCTATCGGTT------------------------------------------------------------------------------------- | 19 | 16 | |
| ----------------------------------------------CGGCAGAAACCTATCGGTTAT----------------------------------------------------------------------------------- | 21 | 14 | |
| ----------------------------------------------------------------------------------------TACCCGTATAAGTTTCTGCTGA---------------------------------------- | 22 | 6 | |
| -----------------------------------------------------------------------------------------ACCCGTATAAGTTTCTGCTG----------------------------------------- | 20 | 5 | |
| ----------------------------------------------------------------------------------------TACCCGTATAAGTTTCTG-------------------------------------------- | 18 | 4 | |
| --------------------------------------------------------------------------------------------CGTATAAGTTTCTGCTGA---------------------------------------- | 18 | 3 | |
| -----------------------------------------------------------------------------------------ACCCGTATAAGTTTCTGC------------------------------------------- | 18 | 3 | |
| -----------------------------------------------------------------------------------------ACCCGTATAAGTTTCTGCTGA---------------------------------------- | 21 | 2 | |
| ----------------------------------------------------------------------------------------TACCCGTATAAGTTTCTGCTGAGC-------------------------------------- | 24 | 2 | |
| ----------------------------------------------------------------------------------------TACCCGTATAAGTTTCTGCT------------------------------------------ | 20 | 2 | |
| ------------------------------------------------------------------------------------------CCCGTATAAGTTTCTGCTGAG--------------------------------------- | 21 | 1 | |
| ----------------------------------------------CGGCAGAAACCTATCGGTTATA---------------------------------------------------------------------------------- | 22 | 1 | |
| ---------------------------------------------------------------------------------------ATACCCGTATAAGTTTCTGCTG----------------------------------------- | 22 | 1 | |
| -------------------------------------------------------------------------------------------CCGTATAAGTTTCTGCTG----------------------------------------- | 18 | 1 | |
| ------------------------------------------------------------------------------------------CCCGTATAAGTTTCTGCTG----------------------------------------- | 19 | 1 | |
| celegans | -------------------AGATTTGGAACTTAA-----TGGGACTCGGCAGAAACCTATCGGTTATACTT----TTTGGATATGCTATACCCGTATAAGTTTCTGCTGAGCCCCT----TATTCCTGTT-------------------- | ||
| cbriggsae | ----------GTCCGCGCCAAAATTGAATCGTCACAAAGGGGGACTCGGCGGAAAATATGGTGGTATACTA-CACAGTGAATA-GATATACCCGTATATTTTTCTGCCGAGCCCCTCCACGACATCAATAAGGCCGAC------------ | ||
| cjaponica | ------------------TAGGGTCAG-------------GGGACTCGGCTGAAGCTTATCGTGTTTATCTGCATTTTGTATA-GATATACCCGTATAAGTTTCCGCTGAGCCCCC----TTTGACTCTA-------------------- | ||
| cbrenneri | TAGTATTCCAAGAATTGCCAGGTTTGG-TAGTCGC----TGGGACTAGGCGGAAGTATAGAGGGTATACTT---CATCAAGTA-ACTATACCCGTATATATTTCTGCTTAGCCCCT----GACACCATCTTGGCCTTTCTTGCTATCTA- | ||
| cremanei | ---GATTGTGAAAGAGTCCAGACTCGGAAAGTCGCA---TGGGACTCGGCAGAAGCACTTGGGGTATACTT---CACAGAGTA-ACTATACCCGTATTTGTTTCTGCTGAGCCCCT----GACACCAGTTCGGTACTTCTTATCATGATC | ||
| * * ****** *** *** * ** ** *********** **** ** ****** * | |||
| celegans | ......((((..((( .(((.((((((((((((.((((((.(((((.. .........).)))).))).))).))))))))))))))).) )))))).... | 1.000 -35.30 | |
| cbriggsae | ...((.(((...(((((.((((......(((((.((((((((((((((((..((((((((( .........)) ).))))))..)))))))).)))))))))))))..))))..)))))..))))).. | 0.992 -48.40 | |
| cjaponica | ((((((((( (((.((((((.(((((((((((.((.(((((((.....))..) )))).)).)).))))))))).)))))).)))) )..))))))) | 1.000 -45.20 | |
| cbrenneri | (((.((..((((((..((((((..((( (.((((. .(((.(((((((((((((((..(((((((((( ....))))) ....)))))...)))))))))))))))))).) ))))))).))))))..))))))..))))) | 1.000 -61.30 | |
| cremanei | (((..(((((((((((..(((.((...((((.. .(((.(((((((((((((..(((((((((((( ....))))) ....))))).))..)))))))))))))))).) ))).)))))..)).))).))).)))..))) | 0.999 -56.80 |
| celegans | chromosome:X:13144748:13144845:-1 | intergenic ## {SimpF: WRM0612dE03 -1 fosmid,WRM0611bA10 -1 fosmid,WRM061aC12 -1 fosmid,WRM0634cE07 -1 fosmid,WRM0610aG08 -1 fosmid,WRM0628bB11 -1 fosmid,oe = 1.31 0 CpG,WRM066dC07 -1 fosmid,WRM063aF02 -1 fosmid,WRM061aD10 -1 fosmid} ## {MIR: cel-mir-55} |
| cbriggsae | chromosome:chrX:16836962:16837087:-1 | Opposite_strand|Intronic_coding|NM_026450 ## Same_strand|Intronic_coding|NM_064155 ## {MIR: cbr-mir-55} |
| cjaponica | chromosome:chrUn:66592796:66592889:-1 | Same_strand|Intronic_coding|NM_001027065 |
| cbrenneri | chromosome:chrUn:8943944:8944079:1 | intergenic |
| cremanei | chromosome:chrUn:90882888:90883023:1 | intergenic |
cel-mir-54
| absolute | CE1 |
| cel-mir-54 5arm | 14 |
| cel-mir-54 3arm | 439 |
| normalized | CE1 |
| cel-mir-54 5arm | 0.010 |
| cel-mir-54 3arm | 0.307 |
sblock64 (miRBase cel-mir-54) [miRNAknown_cloningHIGH_multiarm_DicerOK_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 |
| miRBase cel-mir-54 | 0.004 | no | no | 0.33/0.50 | 18/25/0.95 | 0.0 0.0 | 0.7 0.8 | 11 417 | 0 0 | 1 1 | 0 0 | 18 15 | 8 9 | 5arm 3arm | 1 1 | nd nd | 0.19 0.29 | 2 2 | 453 | 1 | 1 | 2 |
| Located in cluster 7: cel-mir-56, cel-mir-55, cel-mir-54 |
| Member of family miR-51/52/55 (seed ACCCGUA): cel-mir-53, cel-mir-51, cel-mir-55, cel-mir-54, cel-mir-56, cel-mir-52 |
| reads | miRBase family seed | ||
| seed | --------------------------------------------------------------------------------ACCCGUA-------------------------------------------------- | 431 | miR-51/52/55 |
| seed | --------------------------------------GGAUAUG-------------------------------------------------------------------------------------------- | 14 | novel |
| seed | ------------------------------------------------------------------------------------GUAAUCU---------------------------------------------- | 4 | novel |
| seed | ---------------------------------------------------------------------------------CCCGUAA------------------------------------------------- | 3 | novel |
| seed | ----------------------------------------------------------------------------------CCGUAAU------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| CE1 | |||
| -------------------------------------------------------------------------------TACCCGTAATCTTCATAATCCG------------------------------------ | 22 | 260 | |
| cel-miR-54 | -------------------------------------------------------------------------------TACCCGTAATCTTCATAATCCGAG---------------------------------- | 24 | 157 |
| -------------------------------------------------------------------------------TACCCGTAATCTTCATAA---------------------------------------- | 18 | 12 | |
| -------------------------------------AGGATATGAGACGACGAGA--------------------------------------------------------------------------------- | 19 | 7 | |
| -------------------------------------AGGATATGAGACGACGAGAAC------------------------------------------------------------------------------- | 21 | 4 | |
| --------------------------------------------------------------------------------ACCCGTAATCTTCATAATCCG------------------------------------ | 21 | 3 | |
| -----------------------------------------------------------------------------------CGTAATCTTCATAATCCGAG---------------------------------- | 20 | 2 | |
| -------------------------------------AGGATATGAGACGACGAG---------------------------------------------------------------------------------- | 18 | 2 | |
| -----------------------------------------------------------------------------------CGTAATCTTCATAATCCG------------------------------------ | 18 | 2 | |
| -------------------------------------AGGATATGAGACGACGAGAACATT---------------------------------------------------------------------------- | 24 | 1 | |
| -------------------------------------------------------------------------------TACCCGTAATCTTCATAATCCGAGT--------------------------------- | 25 | 1 | |
| ---------------------------------------------------------------------------------CCCGTAATCTTCATAATCCG------------------------------------ | 20 | 1 | |
| -------------------------------------------------------------------------------TACCCGTAATCTTCATAATCC------------------------------------- | 21 | 1 | |
| celegans | -------------------GTGAGTCGCGCTCTGACTAGGATATGAGACGACGAGAACATTGCTTTTTTAAAAGACTTGTACCCGTAATCTTCATAATCCGAGTCAGGGCTAGCTGAC------------------- | ||
| cbriggsae | ------------------------------------TGGGATATGAGCAAACGTGTACACGATACTTATTC----CCTGTACCCGTATTC-TCAT-ATCTGA----------------------------------- | ||
| cjaponica | TGGGATCTACTGGCGGGCACCGCGACATTCCCTGACTAGGATATGAGATTACGTGTACAGTGC---CACGCCATACGTGTACCCGTAATCTTCATAATCCGAGCCAGGGCGTCGTCGAAATTGGTACCTGTCTCCCA | ||
| cbrenneri | AAGGAAGTTGAG-------TGTAGGCGAGCCCTGACTGGGATATGAGAGGACGAGTACATTGAATTCAACCATTACTTGTACCCGTAATCTTCATAATCCGAGCCAGGGGGAGCCGTGGGTACACTCCTTCCTT--- | ||
| * ********* *** * *** * ********** ** **** *** ** | |||
| celegans | ((.(((...(((((((((.((((((((((..(((.(.(((...((((....))))...))).).)))..)).)))).)))).)))))))))..))).)) | 1.000 -35.30 | |
| cbriggsae | ..(((((((((...(((.(((((.((.......)) ..))))).)))...) )))) )))).. | 1.000 -18.70 | |
| cjaponica | .((((......((((((.((((((((((.(((((.((.(((((((((((((((.((((((((. .......))).))))).)))))))).)))).))).)).))))).)).))))....)))).)))))))))). | 1.000 -57.10 | |
| cbrenneri | (((((((..((( (((((((...(((((.((.((((((((((..(((.(((((...(((......)))...))))).)))..))).)))).))).)).)))))...))).....)))))))))))))) | 1.000 -52.80 |
| celegans | chromosome:X:13144917:13145015:-1 | intergenic ## {SimpF: WRM0612dE03 -1 fosmid,WRM0611bA10 -1 fosmid,WRM061aC12 -1 fosmid,WRM0634cE07 -1 fosmid,WRM0610aG08 -1 fosmid,WRM0628bB11 -1 fosmid,oe = 1.31 0 CpG,WRM066dC07 -1 fosmid,WRM063aF02 -1 fosmid,WRM061aD10 -1 fosmid} ## {MIR: cel-mir-54} |
| cbriggsae | chromosome:chrX:16837252:16837390:-1 | Opposite_strand|Intronic_coding|NM_026450 ## Same_strand|Intronic_coding|NM_064155 |
| cjaponica | chromosome:chrUn:66592906:66593039:-1 | Same_strand|Intronic_coding|NM_001027065 |
| cbrenneri | chromosome:chrUn:8943816:8943942:1 | intergenic |
cel-let-7
| absolute | CE1 |
| cel-let-7 5arm | 1580 |
| cel-let-7 3arm | 3 |
| normalized | CE1 |
| cel-let-7 5arm | 1.104 |
| cel-let-7 3arm | 0.002 |
sblock66 (miRBase cel-let-7) [miRNAknown_cloningHIGH_multiarm_DicerOK_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 |
| miRBase cel-let-7 | 0.001 | no | no | 0.30/0.40 | 18/23/0.96 | 0.0 0.0 | 0.0 1.3 | 1336 3 | 0 0 | 1 1 | 0 0 | 16 18 | 3 8 | 5arm 3arm | 1 1 | nd nd | 0.05 0.05 | 1 1 | 1583 | 1 | 2 | 2 |
| Member of family miR-241/48/let-7/84 (seed GAGGUAG): cel-mir-795, cel-mir-48, cel-mir-241, cel-let-7, cel-mir-84 |
| reads | miRBase family seed | ||
| seed | --------------------------------------GAGGUAG---------------------------------------------------------------------------------------------------------- | 1541 | miR-241/48/let-7/84 |
| seed | ---------------------------------------AGGUAGU--------------------------------------------------------------------------------------------------------- | 20 | novel |
| seed | ------------------------------------------UAGUAGG------------------------------------------------------------------------------------------------------ | 19 | novel |
| seed | --------------------------------------------------------------------------------------------UAUGCAA---------------------------------------------------- | 3 | novel |
| len | cloning frequencies | ||
| CE1 | |||
| cel-let-7 | -------------------------------------TGAGGTAGTAGGTTGTATAGTT-------------------------------------------------------------------------------------------- | 22 | 1336 |
| -------------------------------------TGAGGTAGTAGGTTGTATAGTTT------------------------------------------------------------------------------------------- | 23 | 77 | |
| -------------------------------------TGAGGTAGTAGGTTGTATAGT--------------------------------------------------------------------------------------------- | 21 | 72 | |
| -------------------------------------TGAGGTAGTAGGTTGTAT------------------------------------------------------------------------------------------------ | 18 | 48 | |
| -----------------------------------------GTAGTAGGTTGTATAGTT-------------------------------------------------------------------------------------------- | 18 | 19 | |
| --------------------------------------GAGGTAGTAGGTTGTATAGTT-------------------------------------------------------------------------------------------- | 21 | 18 | |
| -------------------------------------TGAGGTAGTAGGTTGTATAG---------------------------------------------------------------------------------------------- | 20 | 5 | |
| -------------------------------------TGAGGTAGTAGGTTGTATA----------------------------------------------------------------------------------------------- | 19 | 3 | |
| -------------------------------------------------------------------------------------------CTATGCAATTT-TCTACCTTACC------------------------------------- | 22 | 1 | |
| --------------------------------------GAGGTAGTAGGTTGTATAGT--------------------------------------------------------------------------------------------- | 20 | 1 | |
| --------------------------------------GAGGTAGTAGGTTGTATAGTTT------------------------------------------------------------------------------------------- | 22 | 1 | |
| -------------------------------------------------------------------------------------------CTATGCAATTT-TCTACCTTA--------------------------------------- | 20 | 1 | |
| -------------------------------------------------------------------------------------------CTATGCAATTT-TCTACCTT---------------------------------------- | 19 | 1 | |
| celegans | ---------------------TACACTGTGGATCCGGTGAGGTAGTAGGTTGTATAGTTTGGAATATTACC----------ACCGGTG-AACTATGCAATTT-TCTACCTTACCGGAGACAGAACTCTTCGA------------------- | ||
| cbriggsae | GGGATTGCAGGATGATGGCTCTACACTG-GGGTACGGTGAGGTAGTAGGTTGTATAGTTTAGAATATTACT----------CTCGGTG-AACTATGCAAGTT-TCTACCTCACCGAATACCAGGTTCTC--AACTGCATCGTGTCAATTAC | ||
| ppacificus | -------------------------------------TGAGGTAGTAGGTTGTATAGTTCGGAATAATACCAACTGTATCAATTGGTGAAACTGTACAACCTGTCTAGCTTG--------------------------------------- | ||
| cbrenneri | -------------------------------------TGAGGTAGTAGGTTGTATAGTTTAGAATCATATC-----------CCGGTG-AACTATGCAAGCT-TCTACCTCA--------------------------------------- | ||
| cremanei | ---GGCAGATGGCGGCCGGTCAACACTGTGCGTCTGGTGAGGTAGTAGGTTGTATAGTTTAGAATCTTACC-----------TTGGTG-AACTATGCAAGTT-TCTACCTCACCAGATACAGAATCTTCTCAGCTGCATCGTCTTGCT--- | ||
| ********************** **** ** **** **** * *** * **** ** | |||
| celegans | ....((((...(((((((((((((.((((((((((((((((......... .))...) ))))))))))))) .))))))))))))).)))).......... | 1.000 -42.90 | |
| cbriggsae | ..(((((((.((((........((.((( (.((.(((((((((((.((.((((((((((((((.......) ))....) )))))))))).)) .))))))))))).)).)))))).... .....)))).)).))))).. | 0.988 -53.43 | |
| ppacificus | .(((.(((((((((((((((((........((((((.((...)).)))))).)))))))))))))).))).))). | 0.918 -27.00 | |
| cbrenneri | .(((((((.((.((((((((((((.......... ....)) )))))))))).)) .))))))). | 1.000 -26.84 | |
| cremanei | (((((((((((((.((......((((..((((((((((((((.((.(((((((((((...(((..... ..)))) )))))))))).)) .)))))))))))))))))).......)).)))))..))))).))) | 0.965 -56.92 |
| celegans | chromosome:X:14744094:14744192:-1 | intergenic ## {SimpF: WRM068bD07 -1 fosmid,WRM0628cG07 -1 fosmid,WRM0611aA11 -1 fosmid,WRM0625cH04 -1 fosmid,WRM0641dA03 -1 fosmid,WRM061dD08 -1 fosmid} ## {MIR: cel-let-7} |
| cbriggsae | chromosome:chrX:18407608:18407743:1 | Same_strand|Intronic_coding|NM_078046 ## Opposite_strand|Intronic_coding|NM_078045 ## {MIR: cbr-let-7} |
| ppacificus | chromosome:chrUn:94902673:94902811:1 | intergenic |
| cbrenneri | chromosome:chrUn:8202022:8202160:1 | Same_strand|Intronic_coding|NM_001003448 |
| cremanei | chromosome:chrUn:79515412:79515543:-1 | Opposite_strand|Intronic_coding|NM_003428 |
cel-mir-84
| absolute | CE1 |
| cel-mir-84 5arm | 112 |
| cel-mir-84 3arm | 10 |
| normalized | CE1 |
| cel-mir-84 5arm | 0.078 |
| cel-mir-84 3arm | 0.007 |
sblock69 (miRBase cel-mir-84) [miRNAknown_cloningHIGH_multiarm_DicerOK_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 |
| miRBase cel-mir-84 | 0.001 | no | no | 0.22/0.43 | 18/23/0.99 | 0.0 0.4 | 0.6 0.8 | 103 10 | 0 0 | 1 1 | 0 0 | 8 5 | 2 3 | 5arm 3arm | 1 1 | nd nd | 0.17 0.10 | 1 1 | 122 | 1 | 1 | 3 |
| Member of family miR-241/48/let-7/84 (seed GAGGUAG): cel-mir-795, cel-mir-48, cel-mir-241, cel-let-7, cel-mir-84 |
| reads | miRBase family seed | ||
| seed | -------------------------------GAGGUAG---------------------------------------------------------------------------------- | 110 | miR-241/48/let-7/84 |
| seed | ----------------------------------------------------------------------------ACAAUGU------------------------------------- | 8 | novel |
| seed | ------------------------------------------------------------------------------AAUGUUU----------------------------------- | 2 | novel |
| seed | --------------------------------AGGUAGU--------------------------------------------------------------------------------- | 1 | novel |
| seed | -----------------------------------UAGUAUG------------------------------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| CE1 | |||
| ------------------------------TGAGGTAGTATGT-AATATTGT-------------------------------------------------------------------- | 21 | 71 | |
| ------------------------------TGAGGTAGTATGT-AATATTGTAG------------------------------------------------------------------ | 23 | 32 | |
| ------------------------------TGAGGTAGTATGT-AATATTG--------------------------------------------------------------------- | 20 | 7 | |
| ---------------------------------------------------------------------------CACAATGTTTCAACTAACTCGG----------------------- | 22 | 3 | |
| ---------------------------------------------------------------------------CACAATGTTTCAACTAACTCGGC---------------------- | 23 | 3 | |
| ---------------------------------------------------------------------------CACAATGTTTCAACTAACTCG------------------------ | 21 | 2 | |
| -----------------------------------------------------------------------------CAATGTTTCAACTAACTCGGC---------------------- | 21 | 1 | |
| -------------------------------GAGGTAGTATGT-AATATTGTA------------------------------------------------------------------- | 21 | 1 | |
| -----------------------------------------------------------------------------CAATGTTTCAACTAACTCGGCT--------------------- | 22 | 1 | |
| ----------------------------------GTAGTATGT-AATATTGTA------------------------------------------------------------------- | 18 | 1 | |
| cel-miR-84 | ------------------------------TGAGGTAGTATGT-AATATTGTA------------------------------------------------------------------- | 22 | - |
| celegans | ----------------GTGG------CATCTGAGGTAGTATGT-AATATTGTAGACTG-TCTA-----TAATGTCCACAATGTTTCAACTAACTCGGCTGTTCT---------------- | ||
| cbriggsae | ---GTACTGTCTGAAAATAA------CATCTGAGGTAGTTTGC-AATGCTGTCGACGTAACTG-----AAAAGTCAACATCATTCCAACTTCCTCGGCTGTTCAAAAGGCTAGAC----- | ||
| cjaponica | -TCGAATGGTCTGAGAA---------CATCTGAGGTAGTATTT-AATGTTGTTGACGGCTCGGATTGCAAAAGTCCACAACATTTCTAGTACCTCAAATGTTCAAGACGGCCATTGA--- | ||
| cbrenneri | --AAGATTGTCTCAAAGTAA------CATCTGAGGTAGTTTGGAAATGCTGTCGACGC-ATTG-----TGATGTCAACAACATTTCAACTAACTCGGCTGTTTCATGAGATTCTT----- | ||
| ppacificus | ----------CTTCCCGTCGATCCCTCAGTTGAGGTAGTTAAGAATAAGTGATGACCA-TCAG-----AAGTATTCACG-TATTCTCCCTGCCTCCACTGTGTCGGTGGGAGG------- | ||
| cremanei | ACGAAACAGTCTAACAGAAG------CATCTGAGGTAGTTTGT-AATGCTGTCGACGC-ACTG-----TAATGTCTACATCATTTCAACTGCCTCGGCTGTTTTTAGACTTTTGTTTTGT | ||
| ** ********* * ** *** * ** ** * *** *** | |||
| celegans | ..(( ((.(((((.((((.((. ((((((((.(((.. .... ....))).)))))))).)))))).))))).)))).. | 1.000 -23.00 | |
| cbriggsae | ...((((((......(( ((.((((((.((.(((. ((((.(((.(((....... ....))).))).)))).))))).)))))).))))....)))).)).. | 1.000 -27.40 | |
| cjaponica | ...(((((((...((( (((.(((((((.((... ((((((((.(((.((.......))....))).))))))))..)).))))))).)))))).....))))))).. | 1.000 -41.20 | |
| cbrenneri | ((((..((((((....(( ((.(((((.((((...((((((.(((.((((( (... )).)))).))).)))))).)))).))))).))))...)))))))))) | 1.000 -32.50 | |
| ppacificus | ((((((..((((....((((.(((((((...((((((.((((..((.. .... ..))..)))). ))))))..))))))).)))).))))..)))))) | 0.999 -41.30 | |
| cremanei | (((((((((((((...(((( ((.(((((((((.(((. ((((.(((.((((. .... ...)))).))).)))).)))))))))))).))))))))))))...))))))) | 1.000 -40.80 |
| celegans | chromosome:X:16022323:16022397:-1 | intergenic ## {SimpF: WRM0616bB09 -1 fosmid,WRM0619bA05 -1 fosmid,WRM0637bC08 -1 fosmid} ## {MIR: cel-mir-84} |
| cbriggsae | chromosome:chrX:762819:762918:-1 | Opposite_strand|Intronic_coding|NM_001095669 ## Same_strand|Intronic_coding|NM_001122840 ## {MIR: cbr-mir-84} |
| cjaponica | chromosome:chrUn:45390501:45390606:-1 | intergenic |
| cbrenneri | chromosome:chrUn:19113985:19114085:1 | Same_strand|Intronic_coding|NM_001030940 ## Opposite_strand|Intronic_coding|NM_007735 |
| ppacificus | chromosome:chrUn:104927866:104927961:1 | Same_strand|Intronic_coding|NM_016621 ## Opposite_strand|Intronic_coding|NM_004099 |
| cremanei | chromosome:chrUn:128707146:128707252:1 | Same_strand|Intronic_coding|NM_212504 |
cel-mir-75
| absolute | CE1 |
| cel-mir-75 5arm | 1 |
| cel-mir-75 3arm | 32 |
| normalized | CE1 |
| cel-mir-75 5arm | 0.001 |
| cel-mir-75 3arm | 0.022 |
sblock72 (miRBase cel-mir-75) [miRNAknown_cloningHIGH_multiarm_DicerOK_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 |
| miRBase cel-mir-75 | 0.001 | no | no | 0.43/0.48 | 21/22/1.00 | 0.0 0.0 | 0.0 0.0 | 1 32 | 0 0 | 1 1 | 0 0 | 22 16 | 4 6 | 5arm 3arm | 1 1 | nd nd | 0.14 0.19 | 2 2 | 33 | 1 | 1 | 1 |
| Member of family miR-75/79 (seed UAAAGCU): cel-mir-75, cel-mir-79 |
| reads | miRBase family seed | ||
| seed | ----------------------------------------------------------------------------------UAAAGCU------------------------------------------------- | 32 | miR-75/79 |
| seed | --------------------------------------AGUCGGU--------------------------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| CE1 | |||
| ---------------------------------------------------------------------------------TTAAAGCTACCAACCGGCTTC------------------------------------ | 21 | 32 | |
| -------------------------------------CAGTCGGTTGCAAGCTTAAAT-------------------------------------------------------------------------------- | 21 | 1 | |
| cel-miR-75 | ---------------------------------------------------------------------------------TTAAAGCTACCAACCGGCTTCA----------------------------------- | 22 | - |
| celegans | ---------------TTCTTGTTGCTTTGAAGAATTGCAGTCGGTTGCAAGCTTAAATACAAATCCGAA------TTGTTATTAAAGCTACCAACCGGCTTCAAGTCTGAAAGAGCAG-------------------- | ||
| cbriggsae | ------------------------------------GCAGTCGGTTGCAAGCTTCAATACAGAC---AATGGTTCTTGATATTAAAGCTACCAACCGCCTTC------------------------------------ | ||
| cjaponica | ------------------------------------GCAGTCGGTTGCAAGCTTAAATACAGAC---AA------TAGTTATTAAAGCTACCAACCGGCTCC------------------------------------ | ||
| cbrenneri | GCTCTGCTATTTTTGTTAATCCTGCCTCGACGAGTTGAGGTCGGTTGCAAGCTTCAATACATTTATGAA-----ATTGATATTAAAGCTACCAACCGGCTTCAAATCGAAAAGTGCGTGTTTGTTCAAAGAAGTGAGT | ||
| cremanei | ------CTTATTTTTGACCACATGCATTGATGAGTTGAAGTCGGTTATAAGCTTAAATACAGAA---CATACCCGTTGTTATTAAAGCTACCAACCGACTTCAGATCATACTTTGCATACTTTTACAAAGGTAAG--- | ||
| * ******* ****** ****** * * * ****************** ** * | |||
| celegans | .......((((((..(((.(((.(((((((((..(((((.(((((((....... ))).)))).)))))..))))))))).))).)))...)))))). | 1.000 -33.60 | |
| cbriggsae | ..((.((((((..(((((.((((((((( ....)))..)).)))).)))))..)))))).)).. | 1.000 -16.10 | |
| cjaponica | ..(((((((((..(((((.(((((.... .. ..)).))).)))))..))))))))).. | 1.000 -18.80 | |
| cbrenneri | ((((.(((.((((((.(((...(((((...(((.(((((((((((((..(((((.((((((.((....) ).)).)))).)))))..))))))))))))).)))...)).)))...)))..))))))))))))) | 0.999 -41.30 | |
| cremanei | ((((((((((.....(((((...((((.((((((((((((...(((((.((((...(( (......)))..)))).)))))...)))))))))))).))))....))))).......)))))))))) | 0.998 -40.30 |
| celegans | chromosome:X:2372448:2372544:1 | intergenic ## {SimpF: WRM0640dB08 1 fosmid,WRM0614bE04 1 fosmid,WRM0611cC07 1 fosmid,WRM0624bG04 1 fosmid,WRM0639bG12 1 fosmid,WRM067cD10 1 fosmid,WRM0612dD05 1 fosmid,WRM0620aG05 1 fosmid,WRM064dH03 1 fosmid,WRM0617aH11 1 fosmid} ## {MIR: cel-mir-75} |
| cbriggsae | chromosome:chrX:4486694:4486830:-1 | Opposite_strand|Intronic_coding|NM_001087279 ## Same_strand|Intronic_coding|NM_001109816 ## {MIR: cbr-mir-75} |
| cjaponica | chromosome:chrUn:6839235:6839371:1 | intergenic |
| cbrenneri | chromosome:chrUn:1025855:1025987:-1 | intergenic |
| cremanei | chromosome:chrUn:103833694:103833819:-1 | intergenic |
cel-mir-230
| absolute | CE1 |
| cel-mir-230 5arm | 4 |
| cel-mir-230 3arm | 182 |
| normalized | CE1 |
| cel-mir-230 5arm | 0.003 |
| cel-mir-230 3arm | 0.127 |
sblock73 (miRBase cel-mir-230) [miRNAknown_cloningHIGH_multiarm_DicerOK_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 |
| miRBase cel-mir-230 | 0.001 | no | no | 0.36/0.53 | 18/23/0.89 | 0.2 0.0 | 1.0 0.9 | 4 161 | 0 0 | 1 1 | 0 0 | 16 16 | 4 6 | 5arm 3arm | 1 1 | nd nd | 0.05 0.09 | 1 1 | 186 | 1 | 2 | 1 |
| reads | miRBase family seed | ||
| seed | ----------------------------------------------------------------------------UAUUAGU-------------------------------------------- | 167 | miR-230 |
| seed | -----------------------------------------------------------------------------AUUAGUU------------------------------------------- | 13 | novel |
| seed | --------------------------------CUUGGUC---------------------------------------------------------------------------------------- | 3 | novel |
| seed | --------------------------------------------------------------------------------AGUUGUG---------------------------------------- | 2 | novel |
| seed | ---------------------------------UUGGUCG--------------------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| CE1 | |||
| ---------------------------------------------------------------------------GTATTAGTTGTGCGACCAGGAG------------------------------ | 22 | 90 | |
| ---------------------------------------------------------------------------GTATTAGTTGTGCGACCAGG-------------------------------- | 20 | 71 | |
| ----------------------------------------------------------------------------TATTAGTTGTGCGACCAGG-------------------------------- | 19 | 12 | |
| ---------------------------------------------------------------------------GTATTAGTTGTGCGACCA---------------------------------- | 18 | 5 | |
| -------------------------------ACTTGGTCGGCGATTTAATATT-------------------------------------------------------------------------- | 22 | 2 | |
| -------------------------------------------------------------------------------TAGTTGTGCGACCAGGAGA----------------------------- | 19 | 2 | |
| --------------------------------CTTGGTCGGCGATTTAATATTA------------------------------------------------------------------------- | 22 | 1 | |
| -------------------------------ACTTGGTCGGCGATTTAAT----------------------------------------------------------------------------- | 19 | 1 | |
| ----------------------------------------------------------------------------TATTAGTTGTGCGACCAGGAG------------------------------ | 21 | 1 | |
| cel-miR-230 | ---------------------------------------------------------------------------GTATTAGTTGTGCGACCAGGAGA----------------------------- | 23 | 1 |
| celegans | ----------TTGATGTAA-----TGCCGTCACTTGGTCGGCGATTTAATATTATCAGAACATAGGAAATTGTTAGTATTAGTTGTGCGACCAGGAGACGGTATTCGCATATT-------------- | ||
| cbriggsae | AGTTTCTCATATAATAAAATGCCTTACCGATACTTGGTCGACAATTTAATAGTATCT--GATTAATTGATGGATAGTATTAGTTGTGCGACCAGGAAATGGTATGAGCATTTCAATTTGAAGAAATT | ||
| cjaponica | ----------ACAATCAAG-----TACCGTCACTTGGTCGACGGCTCAATATTATCA-CACTTTGTTAATTGTTAGTATTAGTTGTGCGACCAGGAGACGGTA------------------------ | ||
| cbrenneri | ------------AATGTGG-----TACCGATACCTGGTCAACAGCATAATATTATCA--AATATTGAGAGTGATAGTATTAGTTGTGTGACCAGGAGACGGT---TAAACATT-------------- | ||
| cremanei | TCTTTCCCGCAAGATGTTG-----TACCGATACTTGGTCGACAATCTAATATTATCG--GTTCTGCCAGAAGATAGTATTAGTTGTGCGACCAGGAGACGGTATTTA-ACATC-------------- | ||
| ** * *** ** ***** * **** **** * ************** ******** * *** | |||
| celegans | ...(((((( (((((((.((((((((((((((.(((((((.(((...........))).))))))))))))).)))))))).))))))))).))))... | 1.000 -37.90 | |
| cbriggsae | (((((((((.......((((((..(((((...((((((((((((.((((((.((((( .(((....)))))))).)))))))))).))))))))...)))))...)))))).....))).)))))) | 0.998 -39.20 | |
| cjaponica | ......... (((((((.((((((((((((((.(((((((..( ((.((....)).)))))))))))))))).)))))))).))))))) | 0.994 -34.50 | |
| cbrenneri | (((((.. .((((...(((((((((((((.((((((((((( ...........)))))))))))))))).))))))))...)))) ...))))) | 1.000 -37.60 | |
| cremanei | ............((((((( (((((...((((((((((((.(((((((((((( (.....))....))))))))))))))).))))))))...))))))..) ))))) | 0.994 -40.80 |
| celegans | chromosome:X:5803852:5803949:1 | intergenic ## {SimpF: WRM064cC12 1 fosmid,WRM0626cF01 1 fosmid,WRM0618aE12 1 fosmid,WRM067cH03 1 fosmid,WRM063cG10 1 fosmid,WRM065bC09 1 fosmid,WRM0633bF12 1 fosmid,WRM0637bH01 1 fosmid,WRM0627bH09 1 fosmid,WRM068aC04 1 fosmid,WRM0640cA03 1 fosmid,WRM0634dA04 1 fosmid} ## {MIR: cel-mir-230} |
| cbriggsae | chromosome:chrX:10968443:10968567:1 | Opposite_strand|Intronic_coding|NM_027552 ## Same_strand|Intronic_coding|NM_011438 ## {MIR: cbr-mir-230} |
| cjaponica | chromosome:chrUn:38524806:38524892:-1 | intergenic |
| cbrenneri | chromosome:chrUn:4060010:4060100:1 | intergenic |
| cremanei | chromosome:chrUn:2006531:2006635:-1 | intergenic |
cel-mir-237
| absolute | CE1 |
| cel-mir-237 5arm | 679 |
| cel-mir-237 3arm | 1 |
| normalized | CE1 |
| cel-mir-237 5arm | 0.474 |
| cel-mir-237 3arm | 0.001 |
sblock76 (miRBase cel-mir-237) [miRNAknown_cloningHIGH_multiarm_DicerOK_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 |
| miRBase cel-mir-237 | 0.001 | no | no | 0.42/0.50 | 18/24/0.99 | 0.0 0.0 | 0.0 0.0 | 490 1 | 0 0 | 1 1 | 0 0 | 15 25 | 4 6 | 5arm 3arm | 1 1 | nd nd | 0.22 0.18 | 2 2 | 680 | 1 | 2 | 2 |
| Member of family lin-4 (seed CCCUGAG): cel-lin-4, cel-mir-237 |
| reads | miRBase family seed | ||
| seed | ------------------------CCCUGAG--------------------------------------------------------------------------------------- | 664 | lin-4 |
| seed | -------------------------CCUGAGA-------------------------------------------------------------------------------------- | 9 | novel |
| seed | ----------------------------GAGAAUU----------------------------------------------------------------------------------- | 6 | novel |
| seed | -------------------------------------------------------------UGUCGAG-------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| CE1 | |||
| cel-miR-237 | -----------------------TCCCTGAGAATTCTCGAACAGCT------------------------------------------------------------------------ | 23 | 490 |
| -----------------------TCCCTGAGAATTCTCGAACAGC------------------------------------------------------------------------- | 22 | 86 | |
| -----------------------TCCCTGAGAATTCTCGAACAGCTT----------------------------------------------------------------------- | 24 | 84 | |
| ------------------------CCCTGAGAATTCTCGAACAGCT------------------------------------------------------------------------ | 22 | 8 | |
| ---------------------------TGAGAATTCTCGAACAGCT------------------------------------------------------------------------ | 19 | 4 | |
| ---------------------------TGAGAATTCTCGAACAGC------------------------------------------------------------------------- | 18 | 2 | |
| -----------------------TCCCTGAGAATTCTCGAA----------------------------------------------------------------------------- | 18 | 2 | |
| -----------------------TCCCTGAGAATTCTCGAAC---------------------------------------------------------------------------- | 19 | 1 | |
| ------------------------CCCTGAGAATTCTCGAACAGCTT----------------------------------------------------------------------- | 23 | 1 | |
| -----------------------TCCCTGAGAATTCTCGAACAG-------------------------------------------------------------------------- | 21 | 1 | |
| ------------------------------------------------------------CTGTCGAGTTTTGTCAAGGACC------------------------------------ | 22 | 1 | |
| celegans | --------TTCTACATTGCGTGGTCCCTGAGAATTCTCGAACAGCTTCAAAGTGTTCAAGCTGTCGAGTTTTGTCAAGGACCAAACAATAGAAGATCACTTGGGAAC----------- | ||
| cbriggsae | GTCTTGAAAACCATGTTTGGTGGTCCCTGAGAATGCTCCGACATCTTCGAAGTAGCGTAGCTGTCGAGCACCATTGGGGAC----CAGCGGATTTTTGGTTATAATTTTTTTCAAGTC | ||
| cjaponica | -----------------------TCCCTGAGAATT-TCAGAC-----CGAAATA---------TTGATTTTTA----------------AAAATATCGGTTTGAATTTTTCGCTGG-- | ||
| *********** ** ** * ** * * ** * * ** * | |||
| celegans | (((((..(((..((((((.(((.((..(((((.((((((.((....)).)))))))))))..)).))).))))))..)))))))).............. | 1.000 -35.80 | |
| cbriggsae | ..(((((((((((.(((((.((((((((((...((((.(((((.((.((......)).)).)))))))))...)))))))) )).)))))...))))).........)))))).. | 0.995 -45.60 | |
| cjaponica | .((.((((((.( (((((( (((.((. ((........ )).)).)))))))))).))))))..)) | 1.000 -17.80 |
| celegans | chromosome:X:8154027:8154125:1 | intergenic ## {SimpF: WRM0617cF01 1 fosmid,WRM062bG07 1 fosmid,WRM0626dE12 1 fosmid,WRM0623aD07 1 fosmid,WRM0625aE09 1 fosmid,WRM0630bD06 1 fosmid,WRM064dB06 1 fosmid,WRM0640aE02 1 fosmid,WRM0618bC06 1 fosmid,WRM0627aE06 1 fosmid,WRM068aD07 1 fosmid} ## {MIR: cel-mir-237} |
| cbriggsae | chromosome:chrX:16201672:16201785:1 | intergenic |
| cjaponica | chromosome:chrUn:67487592:67487730:1 | Same_strand|Intronic_coding|NM_059827 |
cel-mir-79
| absolute | CE1 |
| cel-mir-79 5arm | 178 |
| cel-mir-79 3arm | 1424 |
| normalized | CE1 |
| cel-mir-79 5arm | 0.124 |
| cel-mir-79 3arm | 0.995 |
sblock8 (miRBase cel-mir-79) [miRNAknown_cloningHIGH_multiarm_DicerOK_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 |
| miRBase cel-mir-79 | 0.001 | no | no | 0.32/0.44 | 18/25/0.95 | 0.0 0.0 0.0 | 0.0 0.0 0.0 | 120 2 1271 | 0 0 0 | 1 1 1 | 0 0 0 | 18 41 15 | 6 -14 9 | 5arm 5arm_loop_3arm 3arm | 1 1 1 | nd nd nd | 0.18 0.53 0.18 | 2 5 2 | 1602 | 1 | 1 | 2 |
| Member of family miR-75/79 (seed UAAAGCU): cel-mir-75, cel-mir-79 |
| reads | miRBase family seed | ||
| seed | --------------------------------------------------------------------------------UAAAGCU--------------------------------------------- | 1395 | miR-75/79 |
| seed | ----------------------------------UUUGGUG------------------------------------------------------------------------------------------- | 157 | novel |
| seed | ------------------------------------------------------------------------------------GCUAGGU----------------------------------------- | 14 | novel |
| seed | ---------------------------------------------------------------------------------AAAGCUA-------------------------------------------- | 13 | novel |
| seed | -----------------------------------UUGGUGA------------------------------------------------------------------------------------------ | 10 | novel |
| seed | ---------------------------------CUUUGGU-------------------------------------------------------------------------------------------- | 9 | miR-244 |
| seed | -----------------------------------------------------------------------------------AGCUAGG------------------------------------------ | 2 | novel |
| seed | ---------------------------------------------------------UGGCUAC-------------------------------------------------------------------- | 2 | novel |
| len | cloning frequencies | ||
| CE1 | |||
| cel-miR-79 | -------------------------------------------------------------------------------ATAAAGCTAGGTTACCAAAGCT------------------------------- | 22 | 1271 |
| ---------------------------------CTTTGGTGATTCAGCTTCAATG----------------------------------------------------------------------------- | 22 | 120 | |
| -------------------------------------------------------------------------------ATAAAGCTAGGTTACCAAAGC-------------------------------- | 21 | 99 | |
| ---------------------------------CTTTGGTGATTCAGCTTCA-------------------------------------------------------------------------------- | 19 | 24 | |
| -------------------------------------------------------------------------------ATAAAGCTAGGTTACCAA----------------------------------- | 18 | 15 | |
| -----------------------------------------------------------------------------------AGCTAGGTTACCAAAGCT------------------------------- | 18 | 14 | |
| --------------------------------------------------------------------------------TAAAGCTAGGTTACCAAAGCT------------------------------- | 21 | 13 | |
| ---------------------------------CTTTGGTGATTCAGCTTC--------------------------------------------------------------------------------- | 18 | 9 | |
| -------------------------------------------------------------------------------ATAAAGCTAGGTTACCAAAG--------------------------------- | 20 | 7 | |
| --------------------------------TCTTTGGTGATTCAGCTTCAATG----------------------------------------------------------------------------- | 23 | 7 | |
| ----------------------------------TTTGGTGATTCAGCTTCA-------------------------------------------------------------------------------- | 18 | 5 | |
| ----------------------------------TTTGGTGATTCAGCTTCAATGA---------------------------------------------------------------------------- | 22 | 3 | |
| ---------------------------------CTTTGGTGATTCAGCTTCAATGATT-------------------------------------------------------------------------- | 25 | 3 | |
| --------------------------------------------------------TTGGCTACA----GGTTTCTTTC----------------------------------------------------- | 19 | 2 | |
| ----------------------------------------------------------------------------------AAGCTAGGTTACCAAAGCT------------------------------- | 19 | 2 | |
| -------------------------------------------------------------------------------ATAAAGCTAGGTTACCAAAGCTC------------------------------ | 23 | 2 | |
| --------------------------------TCTTTGGTGATTCAGCTTCA-------------------------------------------------------------------------------- | 20 | 2 | |
| ----------------------------------TTTGGTGATTCAGCTTCAATG----------------------------------------------------------------------------- | 21 | 2 | |
| -------------------------------------------------------------------------------ATAAAGCTAGGTTACCAAA---------------------------------- | 19 | 1 | |
| ---------------------------------CTTTGGTGATTCAGCTTCAAT------------------------------------------------------------------------------ | 21 | 1 | |
| celegans | TAGTAGACATTCT---------------CCGATCTTTGGTGATTCAGCTTCAATGATTGGCTACA----GGTTTCTTTCATAAAGCTAGGTTACCAAAGCTCGGCGTCTTG--------------ATCTA-- | ||
| cbriggsae | ----GAACATTCT---------------CCGATCTTTGGTGATTCAGCTTAAATGATAGAAT-TCAGACGT----CTTCATAAAGCTAGGTTACCAAAGCTCGGCGTTCCA--------------GTTC--- | ||
| ppacificus | -----------------------------CG--CTTTGGTTATCTTGCTTT-CTGACTAAATGTCCAAGG------TTCATAAAGCTAGGTTACCAAAGCT------------------------------- | ||
| cjaponica | --GGTAACGTTTTGCGATGAGTGAGCTGCCGACCTTTGGTGATTAAGCTTAAATGATCGGCC-------GTGTTGTTTCATAAAGCTAGGTTACCAAAGCTCGGCGGTCGAAACCATACATATTTGTTTACC | ||
| cbrenneri | --AGATATGGTT----------------CCGAACTTTGGTGATTCAGTTTTAATGATTGACGATTCAACGTTTT-CTTCATAAAGCTAGGTTACCAAAGCTCGGCGCTTCA-------------TGTCT--- | ||
| cremanei | --------GTTT----------------CCGATCTTTGGTGATTCAGCTTAAATGATAGACT-CAATATGTTAGACTTCATAAAGCTAGGTTACCAAAGCTCGGCGGCCGA--------------ATCTATC | ||
| ** ******* ** * ** *** * ************************* | |||
| celegans | ...((((((..(. ((((.((((((((((..(((((..((((..(((.... .)))....)))).)))))..)))))))))).)))).)...)) .)))) | 1.000 -33.30 | |
| cbriggsae | ((((..... ((((.((((((((((..(((((..((((.(((.. .......) )))))).)))))..)))))))))).)))).)))).. .... | 0.985 -30.20 | |
| ppacificus | .( (((((((.((((.((((( .(((((..........)) ).)).))))).)))).)))))))). | 1.000 -23.10 | |
| cjaponica | (((((((.......(((.((..((((((((.((((((((((..(((((..((((.((((. ..))))..)))).)))))..)))))))))).))))))))....))))).......)))).))) | 0.920 -44.14 | |
| cbrenneri | (((((((((. ((((.((((((((((..((((((.((((..((((......)))).. ..))))))))))..)))))))))).)))).))..)) ))))) | 1.000 -39.10 | |
| cremanei | ((.. ((((.((((((((((..(((((..((((..(((. ......))).....)))).)))))..)))))))))).))))..))... ....... | 0.913 -30.80 |
| celegans | chromosome:I:9332937:9333033:1 | intergenic ## {SimpF: WRM0622dD07 1 fosmid,WRM0632aG06 1 fosmid,WRM064dG06 1 fosmid,WRM0625cA09 1 fosmid} ## {MIR: cel-mir-79} |
| cbriggsae | chromosome:chrI:1376275:1376365:1 | Same_strand|Intronic_coding|NM_001011629 ## Opposite_strand|Intronic_coding|NM_067080 ## {MIR: cbr-mir-79} |
| ppacificus | chromosome:chrUn:79886581:79886717:1 | intergenic |
| cjaponica | chromosome:chrUn:79311330:79311452:-1 | Opposite_strand|Intronic_coding|NM_001027065 |
| cbrenneri | chromosome:chrUn:27772761:27772857:-1 | intergenic |
| cremanei | chromosome:chrUn:105203826:105203918:1 | intergenic |
cel-mir-47
| absolute | CE1 |
| cel-mir-47 5arm | 121 |
| cel-mir-47 3arm | 168 |
| normalized | CE1 |
| cel-mir-47 5arm | 0.085 |
| cel-mir-47 3arm | 0.117 |
sblock80 (miRBase cel-mir-47) [miRNAknown_cloningHIGH_multiarm_DicerOK_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 |
| miRBase cel-mir-47 | 0.001 | no | no | 0.39/0.61 | 18/22/0.98 | 0.0 0.0 | 0.0 0.0 | 107 162 | 0 0 | 1 1 | 0 0 | 18 16 | 5 9 | 5arm 3arm | 1 1 | nd nd | 0.18 0.14 | 2 3 | 289 | 1 | 2 | 1 |
| Member of family miR-46/47 (seed GUCAUGG): cel-mir-46, cel-mir-47 |
| reads | miRBase family seed | ||
| seed | ---------------------------------------------------------------------------------------GUCAUGG------------------------------------------------------ | 166 | miR-46/47 |
| seed | ---------------------------------------AGAGAGC------------------------------------------------------------------------------------------------------ | 120 | novel |
| seed | -------------------------------------------------------------------------------------------UGGAGGC-------------------------------------------------- | 1 | novel |
| seed | ----------------------------------------------------------------------------------------UCAUGGA----------------------------------------------------- | 1 | novel |
| seed | ----------------------------------------GAGAGCA----------------------------------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| CE1 | |||
| --------------------------------------------------------------------------------------TGTCATGGAGGCGCTCTCTTC----------------------------------------- | 21 | 162 | |
| --------------------------------------AAGAGAGCAGTCTATTGACAGT---------------------------------------------------------------------------------------- | 22 | 107 | |
| --------------------------------------AAGAGAGCAGTCTATTGACAG----------------------------------------------------------------------------------------- | 21 | 9 | |
| --------------------------------------AAGAGAGCAGTCTATTGAC------------------------------------------------------------------------------------------- | 19 | 3 | |
| cel-miR-47 | --------------------------------------------------------------------------------------TGTCATGGAGGCGCTCTCTTCA---------------------------------------- | 22 | 2 |
| --------------------------------------------------------------------------------------TGTCATGGAGGCGCTCTCTT------------------------------------------ | 20 | 1 | |
| ---------------------------------------------------------------------------------------GTCATGGAGGCGCTCTCTTCA---------------------------------------- | 21 | 1 | |
| ---------------------------------------AGAGAGCAGTCTATTGACAGT---------------------------------------------------------------------------------------- | 21 | 1 | |
| ------------------------------------------------------------------------------------------ATGGAGGCGCTCTCTTCA---------------------------------------- | 18 | 1 | |
| --------------------------------------AAGAGAGCAGTCTATTGA-------------------------------------------------------------------------------------------- | 18 | 1 | |
| --------------------------------------------------------------------------------------TGTCATGGAGGCGCTCTC-------------------------------------------- | 18 | 1 | |
| celegans | --------------------GAGAGCCGACTGAAACTGAAGAGAGCAGTCTATTGACAGTCGG--TTACT----CGAAATCTTTACTGTCATGGAGGCGCTCTCTTCAGAT-----GATGTCTGGCCC-------------------- | ||
| cbriggsae | ---------AAGTTTAAATTAATAGCTGAGGAAGACTGAAGGGAGCTTTCTTTTGACAGTTCG----ATT----TCGAACTCTTACTGTCATGGAGGCGCTCTCTTCAGGT-----GAACTCTGGCTCTTTTTTTTTGTTTTT----- | ||
| cbrenneri | ------------------------GCCGAGAGAAGCTGAAGGGAGCTTTCTGGTGACAGTTCG----ATT----TTGAACTCTTACTGTCATGGAGGCGCTCTCTTCAGAT-----GATCTTTGGCTGCTTTTT-------------- | ||
| cjaponica | CAGCTTGGTAAGTTTGGGTTTACAGCTCTGAAAAGCTGAAGAGAGCAGTCTATTGACAGTTGGTTCTACT----CCAA---CTCACTGTCATGGAGGCGCTCTCTTCAGAT-----GATCCGACGTTGTTACGTTATTTTTTAAGTTG | ||
| ppacificus | AGACACCAGGACCCCCGGCACCACGC----AGAGACCGAAGAGAGCCTTCTGTTGACAGTGCGGGCCGTTGGTGCTAA--TGCTATTGTCATGGAGTCGCTCTCTTCAGGCTTGTGGTCCTCAGGGTACGGTAGCT------------ | ||
| cremanei | ---TAAGGTAAGTTTCGA-AAAAAGCCGAGTGAGACTGAAGAGAGCATTCTGTTGACAGTTCG----ATT----CCGAACTCCTACTGTCATGGAGGCGCTCTCTTCAGGT-----GATCTCTGGCTAGTTTTTCTTTGTTTTTCTTG | ||
| ** * * **** **** *** ******* * * * * ********** ************ * * | |||
| celegans | ....((((((.....(((((((((((.((((..(((((((.(( ((... ...))))...)))))))...))))))))))))))).. ...))).))).. | 1.000 -42.50 | |
| cbriggsae | ......(((..((.(((((((.....((((((((((((((((..(((((((..( (.. ......))..))))))).))))).))))))))))).. ...))).)))).))..)))........ | 0.994 -40.70 | |
| cbrenneri | (((((((....((((((((((((((((.((((((((..( (.. ......))..))))))))))))).))))))))))).. ..)))).)))........ | 1.000 -41.80 | |
| cjaponica | ((((((((.((((....((..(((((((.((....(((((((((((.((((..(((((((.((((..... ..)) )).)))))))...))))))))))))))).. ..)).)).))))).))...)))).)))))))) | 0.906 -51.50 | |
| ppacificus | ((..(((...((((..((.(((((.. .(((.(((((((((((((((...(((((((((.(((.......))).. .)).))))))).))))..))))))))).))))))))))))...))))..)))..)) | 0.996 -52.40 | |
| cremanei | (((((........(( (((((((((((.....(((((((((((.(((((.(((((((..( (.. ......))..))))))))))))..))))))))))).. ...))).))))..))))))........))))) | 0.999 -47.19 |
| celegans | chromosome:X:13921173:13921269:1 | intergenic ## {SimpF: WRM0613aE03 1 fosmid,WRM062aA05 1 fosmid,WRM068dG07 1 fosmid,WRM0610cB07 1 fosmid,WRM068bE04 1 fosmid,WRM0641cE06 1 fosmid,WRM061cB05 1 fosmid,WRM0632cF06 1 fosmid,WRM0633bD12 1 fosmid,WRM0611dE11 1 fosmid,WRM0619cH08 1 fosmid,WRM061bE03 1 fosmid,WRM0638dG01 1 fosmid,WRM0632cC01 1 fosmid,WRM0630aB10 1 fosmid} ## {MIR: cel-mir-47} |
| cbriggsae | chromosome:chrX:19620632:19620752:1 | Opposite_strand|Intronic_coding|NM_072416 ## {MIR: cbr-mir-47} |
| cbrenneri | chromosome:chrUn:53134808:53134904:1 | Same_strand|Intronic_coding|NM_001047803 |
| cjaponica | chromosome:chrUn:36289907:36290042:1 | Opposite_strand|Intronic_coding|NM_134474 |
| ppacificus | chromosome:chrUn:163065258:163065387:1 | intergenic |
| cremanei | chromosome:chrUn:96562078:96562208:1 | intergenic |
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