miRNA display CGI


Results 1 - 20 of 25 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
23970 3' -53.1 NC_005262.1 + 58081 0.66 0.869822
Target:  5'- uGCUGGCCUCCAuuuuuuccgUAGgAGAugcGGGCG-CGc -3'
miRNA:   3'- -UGGCUGGAGGU---------AUCgUCU---UUCGCaGC- -5'
23970 3' -53.1 NC_005262.1 + 53437 0.66 0.869822
Target:  5'- uGCUGuuCCUCCAgaagcGCGGcgccGGCGUCGa -3'
miRNA:   3'- -UGGCu-GGAGGUau---CGUCuu--UCGCAGC- -5'
23970 3' -53.1 NC_005262.1 + 48678 0.66 0.858392
Target:  5'- uGCCGGCCagcgcguUCCAgccggacgccgcgccGCAGAAAgacGCGUCGu -3'
miRNA:   3'- -UGGCUGG-------AGGUau-------------CGUCUUU---CGCAGC- -5'
23970 3' -53.1 NC_005262.1 + 9051 0.66 0.844755
Target:  5'- gGCUGG-CUCCGgaugGGUGGAGuGCGUCGc -3'
miRNA:   3'- -UGGCUgGAGGUa---UCGUCUUuCGCAGC- -5'
23970 3' -53.1 NC_005262.1 + 59375 0.66 0.844755
Target:  5'- cGCCGAgCUCCAggcgcucgcGCAGcAGGCGcgCGa -3'
miRNA:   3'- -UGGCUgGAGGUau-------CGUCuUUCGCa-GC- -5'
23970 3' -53.1 NC_005262.1 + 32165 0.66 0.844755
Target:  5'- gAUCGACUUCCAgaaGGCGGc-GGCGgCGg -3'
miRNA:   3'- -UGGCUGGAGGUa--UCGUCuuUCGCaGC- -5'
23970 3' -53.1 NC_005262.1 + 49891 0.66 0.835936
Target:  5'- gGCCGAUCgggCCGgacgguGCAG-GGGCGUCc -3'
miRNA:   3'- -UGGCUGGa--GGUau----CGUCuUUCGCAGc -5'
23970 3' -53.1 NC_005262.1 + 14235 0.67 0.8269
Target:  5'- gUCGACCaCgCAcgAGCAGGAcgcAGCGUCGc -3'
miRNA:   3'- uGGCUGGaG-GUa-UCGUCUU---UCGCAGC- -5'
23970 3' -53.1 NC_005262.1 + 28803 0.67 0.8269
Target:  5'- cGCgCGGCCUCgc-GGCGGAAcuCGUCGa -3'
miRNA:   3'- -UG-GCUGGAGguaUCGUCUUucGCAGC- -5'
23970 3' -53.1 NC_005262.1 + 49848 0.67 0.808215
Target:  5'- gGCCGgaGCCUCgGgcGCGGGcgccgccGGCGUCGg -3'
miRNA:   3'- -UGGC--UGGAGgUauCGUCUu------UCGCAGC- -5'
23970 3' -53.1 NC_005262.1 + 12522 0.67 0.798587
Target:  5'- uGCCGcgcgacgcgaucGCCUCCAUguugcggcGGCAGGucGCGgCGg -3'
miRNA:   3'- -UGGC------------UGGAGGUA--------UCGUCUuuCGCaGC- -5'
23970 3' -53.1 NC_005262.1 + 25569 0.67 0.788783
Target:  5'- aGCuCGGCCUUCGU-GCAGuuGGCGagCGg -3'
miRNA:   3'- -UG-GCUGGAGGUAuCGUCuuUCGCa-GC- -5'
23970 3' -53.1 NC_005262.1 + 19695 0.68 0.76869
Target:  5'- cGCCGACCgCCAcucGCAccGAAGGCGaCGa -3'
miRNA:   3'- -UGGCUGGaGGUau-CGU--CUUUCGCaGC- -5'
23970 3' -53.1 NC_005262.1 + 35302 0.68 0.75739
Target:  5'- cGCCGACCUCCGcauccuuGCGGAcguAGGCuggccacgcggcgGUCGu -3'
miRNA:   3'- -UGGCUGGAGGUau-----CGUCU---UUCG-------------CAGC- -5'
23970 3' -53.1 NC_005262.1 + 40236 0.68 0.748027
Target:  5'- cGCCGcACCcugUCCGgguuGCAGcgcGAGCGUCGu -3'
miRNA:   3'- -UGGC-UGG---AGGUau--CGUCu--UUCGCAGC- -5'
23970 3' -53.1 NC_005262.1 + 4 0.68 0.737511
Target:  5'- uACUGuuccCCUCCugcGCGGgcGGCGUCGa -3'
miRNA:   3'- -UGGCu---GGAGGuauCGUCuuUCGCAGC- -5'
23970 3' -53.1 NC_005262.1 + 30256 0.69 0.69449
Target:  5'- cGCCGAUCUCCuucAGCuuc--GCGUCGg -3'
miRNA:   3'- -UGGCUGGAGGua-UCGucuuuCGCAGC- -5'
23970 3' -53.1 NC_005262.1 + 191 0.69 0.69449
Target:  5'- cGCCGGCCggugaCAUGcGCAG-AAGCGUgCGg -3'
miRNA:   3'- -UGGCUGGag---GUAU-CGUCuUUCGCA-GC- -5'
23970 3' -53.1 NC_005262.1 + 32697 0.69 0.683553
Target:  5'- cGCCGGCCUCCAggugGGCGacaucaucGAGcucGGCGUg- -3'
miRNA:   3'- -UGGCUGGAGGUa---UCGU--------CUU---UCGCAgc -5'
23970 3' -53.1 NC_005262.1 + 54089 0.69 0.672567
Target:  5'- uGCCGugCUUCGccGU-GAAGGCGUCGu -3'
miRNA:   3'- -UGGCugGAGGUauCGuCUUUCGCAGC- -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.