miRNA display CGI


Results 21 - 38 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 + 28867 0.67 0.739384
Target:  5'- aAACGCACcgGCC-CgCACGuggacuACAACGUCCa -3'
miRNA:   3'- -UUGUGUG--CGGaGgGUGC------UGUUGUAGG- -5'
18054 3' -53.4 NC_004680.1 + 33657 0.68 0.717968
Target:  5'- cAGCGCAgGCCgaggaguucCCCACGGCgGGCGcCCg -3'
miRNA:   3'- -UUGUGUgCGGa--------GGGUGCUG-UUGUaGG- -5'
18054 3' -53.4 NC_004680.1 + 50629 0.68 0.707124
Target:  5'- ----aGCGCaUCCCAguccgccugguCGACAGCAUCCu -3'
miRNA:   3'- uugugUGCGgAGGGU-----------GCUGUUGUAGG- -5'
18054 3' -53.4 NC_004680.1 + 39046 0.68 0.696204
Target:  5'- cACGCugcUGCCUCaUCGCGGCGAguUCCu -3'
miRNA:   3'- uUGUGu--GCGGAG-GGUGCUGUUguAGG- -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 + 10801 0.69 0.626411
Target:  5'- cAACGCccuugauCGCCUUCCACGcggcgaacgcgcccACAACAUCg -3'
miRNA:   3'- -UUGUGu------GCGGAGGGUGC--------------UGUUGUAGg -5'
18054 3' -53.4 NC_004680.1 + 430 0.7 0.607503
Target:  5'- cGCACGCGCCU-UCGCGuuauCGGCAgUCCa -3'
miRNA:   3'- uUGUGUGCGGAgGGUGCu---GUUGU-AGG- -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 + 37981 0.71 0.552422
Target:  5'- aGGCGCACGCCgguacgcaUCCUcgGCGGCAGuCAUgCCg -3'
miRNA:   3'- -UUGUGUGCGG--------AGGG--UGCUGUU-GUA-GG- -5'
18054 3' -53.4 NC_004680.1 + 51264 0.71 0.530784
Target:  5'- -cCGCACGUaCUCCCucagauGCGACAGCG-CCa -3'
miRNA:   3'- uuGUGUGCG-GAGGG------UGCUGUUGUaGG- -5'
18054 3' -53.4 NC_004680.1 + 37762 0.71 0.52008
Target:  5'- cAACACGCGCCUCCCGaccguuacCGAUcgGAUAagCCu -3'
miRNA:   3'- -UUGUGUGCGGAGGGU--------GCUG--UUGUa-GG- -5'
18054 3' -53.4 NC_004680.1 + 11336 0.71 0.509462
Target:  5'- --gGCAUGCCaggaaUCCCcgGCGGCAACGUCg -3'
miRNA:   3'- uugUGUGCGG-----AGGG--UGCUGUUGUAGg -5'
18054 3' -53.4 NC_004680.1 + 40649 0.72 0.498936
Target:  5'- cGACGCGCGCagagcCCCACGccACGACGUgCg -3'
miRNA:   3'- -UUGUGUGCGga---GGGUGC--UGUUGUAgG- -5'
18054 3' -53.4 NC_004680.1 + 47437 0.72 0.498936
Target:  5'- cACGCaACGCUUCCCG-GAUAaggGCGUCCg -3'
miRNA:   3'- uUGUG-UGCGGAGGGUgCUGU---UGUAGG- -5'
18054 3' -53.4 NC_004680.1 + 44923 0.73 0.42828
Target:  5'- gGACACGCGCC-CCgucCGACAGCcaGUCCc -3'
miRNA:   3'- -UUGUGUGCGGaGGgu-GCUGUUG--UAGG- -5'
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 + 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.