miRNA display CGI


Results 1 - 20 of 38 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
18054 3' -53.4 NC_004680.1 + 51532 0.74 0.381586
Target:  5'- aGGCGCACGCCgCCCAUGucGCuGAUGUCCu -3'
miRNA:   3'- -UUGUGUGCGGaGGGUGC--UG-UUGUAGG- -5'
18054 3' -53.4 NC_004680.1 + 36255 0.66 0.837962
Target:  5'- --aGCGCGCCaagacggcUgCCGCGAgcgagggauuCAACGUCCg -3'
miRNA:   3'- uugUGUGCGG--------AgGGUGCU----------GUUGUAGG- -5'
18054 3' -53.4 NC_004680.1 + 42666 0.66 0.828929
Target:  5'- cGACGacgGCGCCUCCUacacggaugccGCGGCGACGg-- -3'
miRNA:   3'- -UUGUg--UGCGGAGGG-----------UGCUGUUGUagg -5'
18054 3' -53.4 NC_004680.1 + 55083 0.66 0.800599
Target:  5'- --aACcCGCCUCUaCACGgGCAGCGUCUc -3'
miRNA:   3'- uugUGuGCGGAGG-GUGC-UGUUGUAGG- -5'
18054 3' -53.4 NC_004680.1 + 7045 0.67 0.790781
Target:  5'- -gUACGCGCCUgCCCAgaaGACAGCuaaacaGUUCg -3'
miRNA:   3'- uuGUGUGCGGA-GGGUg--CUGUUG------UAGG- -5'
18054 3' -53.4 NC_004680.1 + 28575 0.67 0.780794
Target:  5'- -uCACgGCGgCUCCCcaAUGGCAcCAUCCa -3'
miRNA:   3'- uuGUG-UGCgGAGGG--UGCUGUuGUAGG- -5'
18054 3' -53.4 NC_004680.1 + 18428 0.67 0.780794
Target:  5'- uGACACGguggugucCGCUaUCCGCGGCGGCGUgCa -3'
miRNA:   3'- -UUGUGU--------GCGGaGGGUGCUGUUGUAgG- -5'
18054 3' -53.4 NC_004680.1 + 11050 0.67 0.780794
Target:  5'- ----gAUGUCUCCCGCcgucGAUGGCAUCCu -3'
miRNA:   3'- uugugUGCGGAGGGUG----CUGUUGUAGG- -5'
18054 3' -53.4 NC_004680.1 + 28867 0.67 0.739384
Target:  5'- aAACGCACcgGCC-CgCACGuggacuACAACGUCCa -3'
miRNA:   3'- -UUGUGUG--CGGaGgGUGC------UGUUGUAGG- -5'
18054 3' -53.4 NC_004680.1 + 55842 0.68 0.680813
Target:  5'- gGACACucaccuuugacgagACGCC-CgCCGCGACAACcaucgucGUCCa -3'
miRNA:   3'- -UUGUG--------------UGCGGaG-GGUGCUGUUG-------UAGG- -5'
18054 3' -53.4 NC_004680.1 + 12201 0.69 0.674187
Target:  5'- --aGC-CGCCccgUCCGCGGCAGCGUUCc -3'
miRNA:   3'- uugUGuGCGGa--GGGUGCUGUUGUAGG- -5'
18054 3' -53.4 NC_004680.1 + 30031 0.7 0.563341
Target:  5'- gGACGCaaACGgUUCCUGCGGCG-CGUCCa -3'
miRNA:   3'- -UUGUG--UGCgGAGGGUGCUGUuGUAGG- -5'
18054 3' -53.4 NC_004680.1 + 43514 0.66 0.800599
Target:  5'- -uCACgACGCCUCCUccGCGACcuaguGCGUUg -3'
miRNA:   3'- uuGUG-UGCGGAGGG--UGCUGu----UGUAGg -5'
18054 3' -53.4 NC_004680.1 + 2383 0.66 0.810237
Target:  5'- --aACGCGCCaacaaacgcaCCCGCGACAu--UCCg -3'
miRNA:   3'- uugUGUGCGGa---------GGGUGCUGUuguAGG- -5'
18054 3' -53.4 NC_004680.1 + 34547 0.66 0.810237
Target:  5'- cAGCAU-CGCCgacuaCCGCGGCGGCGaacacUCCg -3'
miRNA:   3'- -UUGUGuGCGGag---GGUGCUGUUGU-----AGG- -5'
18054 3' -53.4 NC_004680.1 + 9304 0.66 0.810237
Target:  5'- cAGCACGCGCCa-CCGCGccauugaccggcGCGAaAUCCa -3'
miRNA:   3'- -UUGUGUGCGGagGGUGC------------UGUUgUAGG- -5'
18054 3' -53.4 NC_004680.1 + 18768 0.66 0.828014
Target:  5'- -uCugAUGCCaaggaugUCCCACGAgAACAaCCc -3'
miRNA:   3'- uuGugUGCGG-------AGGGUGCUgUUGUaGG- -5'
18054 3' -53.4 NC_004680.1 + 48835 0.66 0.835275
Target:  5'- uGCGCGCGCUUCCCGaguauucgguuuucUGAaccccggucuCGACAUCg -3'
miRNA:   3'- uUGUGUGCGGAGGGU--------------GCU----------GUUGUAGg -5'
18054 3' -53.4 NC_004680.1 + 32488 0.66 0.837962
Target:  5'- --uGCGCGCC-CgCAgCGACGACggCCg -3'
miRNA:   3'- uugUGUGCGGaGgGU-GCUGUUGuaGG- -5'
18054 3' -53.4 NC_004680.1 + 2203 1.09 0.001674
Target:  5'- cAACACACGCCUCCCACGACAACAUCCc -3'
miRNA:   3'- -UUGUGUGCGGAGGGUGCUGUUGUAGG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.