miRNA display CGI


Results 1 - 20 of 20 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
3587 3' -51.2 NC_001650.1 + 9027 0.71 0.89722
Target:  5'- uCACUugguAGUGGUCUCGAAG-GCACUcAGu -3'
miRNA:   3'- -GUGA----UCACCAGGGUUUCaCGUGGuUC- -5'
3587 3' -51.2 NC_001650.1 + 24359 0.66 0.995369
Target:  5'- gGCgUGGaGGUCCCAcucGGUGCGCauggaGAGg -3'
miRNA:   3'- gUG-AUCaCCAGGGUu--UCACGUGg----UUC- -5'
3587 3' -51.2 NC_001650.1 + 120361 0.66 0.99461
Target:  5'- uGCUGGUGGaCCUGGAGUcCGCCc-- -3'
miRNA:   3'- gUGAUCACCaGGGUUUCAcGUGGuuc -5'
3587 3' -51.2 NC_001650.1 + 91671 0.66 0.991712
Target:  5'- aCACUGGcugaggugGGUCuCCAGgguGUGCACCu-- -3'
miRNA:   3'- -GUGAUCa-------CCAG-GGUUu--CACGUGGuuc -5'
3587 3' -51.2 NC_001650.1 + 78517 0.67 0.987699
Target:  5'- aACg---GGcUCCUAuuuAAGUGCACCAAGa -3'
miRNA:   3'- gUGaucaCC-AGGGU---UUCACGUGGUUC- -5'
3587 3' -51.2 NC_001650.1 + 68623 0.67 0.984285
Target:  5'- aCACgu-UGaUCCCGAAcccGUGCACCGAGa -3'
miRNA:   3'- -GUGaucACcAGGGUUU---CACGUGGUUC- -5'
3587 3' -51.2 NC_001650.1 + 26924 0.68 0.97997
Target:  5'- aGCUGGUGGUgguagagucccagUCCAGAgcGUGCGCguGGg -3'
miRNA:   3'- gUGAUCACCA-------------GGGUUU--CACGUGguUC- -5'
3587 3' -51.2 NC_001650.1 + 36345 0.68 0.975358
Target:  5'- gGCcggGGUGGUgCCCAuAGacaUGUACCAGGu -3'
miRNA:   3'- gUGa--UCACCA-GGGUuUC---ACGUGGUUC- -5'
3587 3' -51.2 NC_001650.1 + 29198 0.69 0.96285
Target:  5'- aCACUGGggucacgGGcaacUCCCAGaucuuccAGUGCGCCAAc -3'
miRNA:   3'- -GUGAUCa------CC----AGGGUU-------UCACGUGGUUc -5'
3587 3' -51.2 NC_001650.1 + 175734 0.71 0.89722
Target:  5'- uCACUugguAGUGGUCUCGAAG-GCACUcAGu -3'
miRNA:   3'- -GUGA----UCACCAGGGUUUCaCGUGGuUC- -5'
3587 3' -51.2 NC_001650.1 + 41923 0.66 0.99461
Target:  5'- --gUGGUGGUCC---AGaGCACCGAGc -3'
miRNA:   3'- gugAUCACCAGGguuUCaCGUGGUUC- -5'
3587 3' -51.2 NC_001650.1 + 83662 0.66 0.991712
Target:  5'- gCGCaGGUGGUCCCucuGG-GcCACCAu- -3'
miRNA:   3'- -GUGaUCACCAGGGuu-UCaC-GUGGUuc -5'
3587 3' -51.2 NC_001650.1 + 41744 0.68 0.980194
Target:  5'- gCugUGGUGGUCCaagacaccaaaCAGAGUGUugggaaGCCAGc -3'
miRNA:   3'- -GugAUCACCAGG-----------GUUUCACG------UGGUUc -5'
3587 3' -51.2 NC_001650.1 + 102519 0.68 0.980194
Target:  5'- uGCUGGgcgGGUCCCAuaAAGUacagaGCGCCc-- -3'
miRNA:   3'- gUGAUCa--CCAGGGU--UUCA-----CGUGGuuc -5'
3587 3' -51.2 NC_001650.1 + 134540 0.69 0.963199
Target:  5'- aCACggAG-GGcCCCGGGGgGCGCCGGGg -3'
miRNA:   3'- -GUGa-UCaCCaGGGUUUCaCGUGGUUC- -5'
3587 3' -51.2 NC_001650.1 + 141384 0.69 0.959601
Target:  5'- gGCcGG-GGUcaCCCAGAGUucGCGCCAGGg -3'
miRNA:   3'- gUGaUCaCCA--GGGUUUCA--CGUGGUUC- -5'
3587 3' -51.2 NC_001650.1 + 159339 0.72 0.886187
Target:  5'- uGCUGGUGGUgcugcucguacagagCCCAcccAGGaGCGCCAGGa -3'
miRNA:   3'- gUGAUCACCA---------------GGGU---UUCaCGUGGUUC- -5'
3587 3' -51.2 NC_001650.1 + 9280 1.1 0.008239
Target:  5'- cCACUAGUGGUCCCAAAGUGCACCAAGa -3'
miRNA:   3'- -GUGAUCACCAGGGUUUCACGUGGUUC- -5'
3587 3' -51.2 NC_001650.1 + 175987 1.1 0.008239
Target:  5'- cCACUAGUGGUCCCAAAGUGCACCAAGa -3'
miRNA:   3'- -GUGAUCACCAGGGUUUCACGUGGUUC- -5'
3587 3' -51.2 NC_001650.1 + 99635 0.66 0.995369
Target:  5'- gCACcucGGUGGUCCCGGuGGUGgGCUuGGc -3'
miRNA:   3'- -GUGa--UCACCAGGGUU-UCACgUGGuUC- -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.