miRNA display CGI


Results 1 - 20 of 65 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
13002 3' -56.9 NC_003387.1 + 470 0.67 0.561469
Target:  5'- gGCGCGGCgUugCCGUcagucUCGACUGGUG-Cu -3'
miRNA:   3'- -UGUGUUG-AugGGCG-----GGCUGACCACcG- -5'
13002 3' -56.9 NC_003387.1 + 481 0.66 0.637478
Target:  5'- gGCGCgAGCUGCUCGUCgCGAUgcgcgcccGcGUGGCg -3'
miRNA:   3'- -UGUG-UUGAUGGGCGG-GCUGa-------C-CACCG- -5'
13002 3' -56.9 NC_003387.1 + 3559 0.75 0.189793
Target:  5'- uGCGCGACcGCCUGCgCG-CUGGUGuGCa -3'
miRNA:   3'- -UGUGUUGaUGGGCGgGCuGACCAC-CG- -5'
13002 3' -56.9 NC_003387.1 + 3895 0.67 0.568993
Target:  5'- gGCGCcGCUGCCCGaCCCuGACcgccugGGUgcuaacgcccggugGGCg -3'
miRNA:   3'- -UGUGuUGAUGGGC-GGG-CUGa-----CCA--------------CCG- -5'
13002 3' -56.9 NC_003387.1 + 5187 0.66 0.604748
Target:  5'- gGCAgGGC-AUCaagGCCCGGCU-GUGGCg -3'
miRNA:   3'- -UGUgUUGaUGGg--CGGGCUGAcCACCG- -5'
13002 3' -56.9 NC_003387.1 + 5244 0.69 0.438605
Target:  5'- uGCugAACaACUCGCCCG-CUGuGcgGGCg -3'
miRNA:   3'- -UGugUUGaUGGGCGGGCuGAC-Ca-CCG- -5'
13002 3' -56.9 NC_003387.1 + 6142 0.66 0.615647
Target:  5'- -gGCGACccUGCCCGaggCCGAUUGGgucGGUg -3'
miRNA:   3'- ugUGUUG--AUGGGCg--GGCUGACCa--CCG- -5'
13002 3' -56.9 NC_003387.1 + 7438 0.83 0.052318
Target:  5'- cCACAGaUGCCCGCCCGACggGGUcGGCg -3'
miRNA:   3'- uGUGUUgAUGGGCGGGCUGa-CCA-CCG- -5'
13002 3' -56.9 NC_003387.1 + 7998 0.73 0.252376
Target:  5'- cCGCAACagugacucucgUGCCCucugucgGCCCG-CUGGUGGCc -3'
miRNA:   3'- uGUGUUG-----------AUGGG-------CGGGCuGACCACCG- -5'
13002 3' -56.9 NC_003387.1 + 8041 0.69 0.458081
Target:  5'- cGCGCGAgcCUAUCUGCUCGacgaGCUGGcGGCc -3'
miRNA:   3'- -UGUGUU--GAUGGGCGGGC----UGACCaCCG- -5'
13002 3' -56.9 NC_003387.1 + 9949 0.73 0.240358
Target:  5'- cACAcCAGCcACuuGCCCGACUcGG-GGCa -3'
miRNA:   3'- -UGU-GUUGaUGggCGGGCUGA-CCaCCG- -5'
13002 3' -56.9 NC_003387.1 + 10250 0.67 0.540133
Target:  5'- cCACGGCgggaUCGCCCGGUUGGUcgcGGCg -3'
miRNA:   3'- uGUGUUGaug-GGCGGGCUGACCA---CCG- -5'
13002 3' -56.9 NC_003387.1 + 10669 0.76 0.148819
Target:  5'- gACGCGGCUGCgaccacggCCGCCuCGGC-GGUGGCc -3'
miRNA:   3'- -UGUGUUGAUG--------GGCGG-GCUGaCCACCG- -5'
13002 3' -56.9 NC_003387.1 + 11887 0.67 0.529567
Target:  5'- gGCACAACgucAUCgaGCCgGugUGGgagGGCa -3'
miRNA:   3'- -UGUGUUGa--UGGg-CGGgCugACCa--CCG- -5'
13002 3' -56.9 NC_003387.1 + 12111 0.66 0.637478
Target:  5'- cACGCcACcgGCCCGCCuCGAaaugcGGUGuGCu -3'
miRNA:   3'- -UGUGuUGa-UGGGCGG-GCUga---CCAC-CG- -5'
13002 3' -56.9 NC_003387.1 + 13883 0.68 0.488132
Target:  5'- aACGCAAUg--CCGCCgggcagguuCGACgucgGGUGGCg -3'
miRNA:   3'- -UGUGUUGaugGGCGG---------GCUGa---CCACCG- -5'
13002 3' -56.9 NC_003387.1 + 13969 0.73 0.259558
Target:  5'- cACGCGAUUucuggcucgACCCGCCCaaguauccgaauGACUGGcagGGCa -3'
miRNA:   3'- -UGUGUUGA---------UGGGCGGG------------CUGACCa--CCG- -5'
13002 3' -56.9 NC_003387.1 + 14662 0.68 0.479016
Target:  5'- gACGCGGCgcucgcucagccaCCGCCCGAUcGG-GGCg -3'
miRNA:   3'- -UGUGUUGaug----------GGCGGGCUGaCCaCCG- -5'
13002 3' -56.9 NC_003387.1 + 14927 0.69 0.448284
Target:  5'- uGCGCGGCUACCgGCgcagCGGCgcauccccGGUGGUa -3'
miRNA:   3'- -UGUGUUGAUGGgCGg---GCUGa-------CCACCG- -5'
13002 3' -56.9 NC_003387.1 + 14972 0.67 0.561469
Target:  5'- -gACGGCaagauCCCGCCgCGcAC-GGUGGCg -3'
miRNA:   3'- ugUGUUGau---GGGCGG-GC-UGaCCACCG- -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.