miRNA display CGI


Results 1 - 17 of 17 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
19652 3' -61.8 NC_004686.1 + 33822 0.66 0.420578
Target:  5'- cGgUGCCGGUG-CCgCCAUUGGAgCcGUCa -3'
miRNA:   3'- -CgGCGGCCGCaGG-GGUGACCU-GuCAG- -5'
19652 3' -61.8 NC_004686.1 + 39211 0.66 0.411606
Target:  5'- cCCGCCGGCGgccaggCCCgugaggaaucuCugUGGGgGGUa -3'
miRNA:   3'- cGGCGGCCGCa-----GGG-----------GugACCUgUCAg -5'
19652 3' -61.8 NC_004686.1 + 3124 0.66 0.411606
Target:  5'- gGUgGCCGGUacaggucgagguGUUCCCACgguuccggaucaUGGACGGUg -3'
miRNA:   3'- -CGgCGGCCG------------CAGGGGUG------------ACCUGUCAg -5'
19652 3' -61.8 NC_004686.1 + 32546 0.66 0.410715
Target:  5'- aGCCaGuaGGCGagccauuUCUCCACUGuGACGGUUc -3'
miRNA:   3'- -CGG-CggCCGC-------AGGGGUGAC-CUGUCAG- -5'
19652 3' -61.8 NC_004686.1 + 29956 0.66 0.402754
Target:  5'- aGCCGCCGccacacCGaCCCCGgCUGaGACAGg- -3'
miRNA:   3'- -CGGCGGCc-----GCaGGGGU-GAC-CUGUCag -5'
19652 3' -61.8 NC_004686.1 + 11896 0.66 0.394023
Target:  5'- uCCGCUGGUcugCCUC-CUGGGcCGGUCg -3'
miRNA:   3'- cGGCGGCCGca-GGGGuGACCU-GUCAG- -5'
19652 3' -61.8 NC_004686.1 + 19463 0.66 0.394023
Target:  5'- uGCCGaUCGGCGUUUCCACaaaGGACu-UCa -3'
miRNA:   3'- -CGGC-GGCCGCAGGGGUGa--CCUGucAG- -5'
19652 3' -61.8 NC_004686.1 + 32044 0.67 0.363626
Target:  5'- gGCCGCCuGGCgggguugguuucucaGgccuucgCCCCGCcGGGCGGUg -3'
miRNA:   3'- -CGGCGG-CCG---------------Ca------GGGGUGaCCUGUCAg -5'
19652 3' -61.8 NC_004686.1 + 47567 0.67 0.36035
Target:  5'- -gCGCCGGCuggCCCgCGCUGu-CGGUCg -3'
miRNA:   3'- cgGCGGCCGca-GGG-GUGACcuGUCAG- -5'
19652 3' -61.8 NC_004686.1 + 44437 0.67 0.344283
Target:  5'- cGCUGCCcGCGUUCuCCACguugaugccguUGGGCAGg- -3'
miRNA:   3'- -CGGCGGcCGCAGG-GGUG-----------ACCUGUCag -5'
19652 3' -61.8 NC_004686.1 + 16081 0.67 0.321161
Target:  5'- aGUgGUCGGCGUUCaCGCUcGGACAGg- -3'
miRNA:   3'- -CGgCGGCCGCAGGgGUGA-CCUGUCag -5'
19652 3' -61.8 NC_004686.1 + 46409 0.67 0.321161
Target:  5'- cGCCGgCGGCGaCCgCAgUGGcgGCAGUg -3'
miRNA:   3'- -CGGCgGCCGCaGGgGUgACC--UGUCAg -5'
19652 3' -61.8 NC_004686.1 + 30276 0.68 0.306403
Target:  5'- uGCUGCCGGuCGggcaUUCCGUUGGGCAGUUu -3'
miRNA:   3'- -CGGCGGCC-GCa---GGGGUGACCUGUCAG- -5'
19652 3' -61.8 NC_004686.1 + 49965 0.69 0.265265
Target:  5'- gGCCGaCCGGCG-CCgUAC-GGGgAGUCa -3'
miRNA:   3'- -CGGC-GGCCGCaGGgGUGaCCUgUCAG- -5'
19652 3' -61.8 NC_004686.1 + 28796 0.69 0.240403
Target:  5'- cGCCGCgguguuguUGGUGUUCCUGCUGGAUgAGUg -3'
miRNA:   3'- -CGGCG--------GCCGCAGGGGUGACCUG-UCAg -5'
19652 3' -61.8 NC_004686.1 + 46353 0.73 0.125973
Target:  5'- cGCCG-CGGCGUCCgcgaCAUUGGACaaauAGUCg -3'
miRNA:   3'- -CGGCgGCCGCAGGg---GUGACCUG----UCAG- -5'
19652 3' -61.8 NC_004686.1 + 9803 1.1 0.0002
Target:  5'- cGCCGCCGGCGUCCCCACUGGACAGUCu -3'
miRNA:   3'- -CGGCGGCCGCAGGGGUGACCUGUCAG- -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.