miRNA display CGI


Results 1 - 20 of 27 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
28106 5' -53.7 NC_005887.1 + 3035 1.07 0.001173
Target:  5'- aAAGCCAUGCUCGGCCAAUGACGAACGa -3'
miRNA:   3'- -UUCGGUACGAGCCGGUUACUGCUUGC- -5'
28106 5' -53.7 NC_005887.1 + 23503 0.76 0.189416
Target:  5'- -uGCCGacgUGUUCGGCCGcgcUGACGAACGc -3'
miRNA:   3'- uuCGGU---ACGAGCCGGUu--ACUGCUUGC- -5'
28106 5' -53.7 NC_005887.1 + 3897 0.72 0.332856
Target:  5'- -cGCCAUGC-CGgauguGCgGAUGGCGAACGa -3'
miRNA:   3'- uuCGGUACGaGC-----CGgUUACUGCUUGC- -5'
28106 5' -53.7 NC_005887.1 + 5572 0.71 0.395711
Target:  5'- cGGCCgGUGCUgCGGCCGGUGcuGCGGcCGg -3'
miRNA:   3'- uUCGG-UACGA-GCCGGUUAC--UGCUuGC- -5'
28106 5' -53.7 NC_005887.1 + 40413 0.71 0.405295
Target:  5'- cGGCCGcGCUcgaCGGCCAGUccauuucggcGGCGAACGu -3'
miRNA:   3'- uUCGGUaCGA---GCCGGUUA----------CUGCUUGC- -5'
28106 5' -53.7 NC_005887.1 + 42048 0.7 0.445049
Target:  5'- cAGGCCGUGCU--GCUGAUaGGCGAGCGc -3'
miRNA:   3'- -UUCGGUACGAgcCGGUUA-CUGCUUGC- -5'
28106 5' -53.7 NC_005887.1 + 39478 0.7 0.476252
Target:  5'- aAAGCgCGUGUUgccgcUGGCCAGgcUGACGAACu -3'
miRNA:   3'- -UUCG-GUACGA-----GCCGGUU--ACUGCUUGc -5'
28106 5' -53.7 NC_005887.1 + 4253 0.69 0.516164
Target:  5'- cGGCCGcacgcagucugaacUGCUCGGcCCGAUGAuCGcGCGc -3'
miRNA:   3'- uUCGGU--------------ACGAGCC-GGUUACU-GCuUGC- -5'
28106 5' -53.7 NC_005887.1 + 12658 0.69 0.519461
Target:  5'- -cGCCGaGCgucgCGGCCGGgucGGCGGACa -3'
miRNA:   3'- uuCGGUaCGa---GCCGGUUa--CUGCUUGc -5'
28106 5' -53.7 NC_005887.1 + 1461 0.69 0.530509
Target:  5'- -uGCCGaGCg-GGCCcAUGAUGAACGa -3'
miRNA:   3'- uuCGGUaCGagCCGGuUACUGCUUGC- -5'
28106 5' -53.7 NC_005887.1 + 38225 0.68 0.552851
Target:  5'- cAGCCuUGCgcgUGGCCGggAUGGuCGAGCGc -3'
miRNA:   3'- uUCGGuACGa--GCCGGU--UACU-GCUUGC- -5'
28106 5' -53.7 NC_005887.1 + 36776 0.68 0.564129
Target:  5'- aAGGCguuCAUGCUUGaGCCAGUGGcCGAAUu -3'
miRNA:   3'- -UUCG---GUACGAGC-CGGUUACU-GCUUGc -5'
28106 5' -53.7 NC_005887.1 + 36363 0.68 0.564129
Target:  5'- -cGCCGcGCagaUCGGCCAAccgGACGAGuCGa -3'
miRNA:   3'- uuCGGUaCG---AGCCGGUUa--CUGCUU-GC- -5'
28106 5' -53.7 NC_005887.1 + 9776 0.68 0.575467
Target:  5'- cAGCC-UGCugaUCGGC--AUGACGGGCGa -3'
miRNA:   3'- uUCGGuACG---AGCCGguUACUGCUUGC- -5'
28106 5' -53.7 NC_005887.1 + 1405 0.68 0.586856
Target:  5'- uGGGCCc-GCUCGGCagcggCAA-GACGAACGc -3'
miRNA:   3'- -UUCGGuaCGAGCCG-----GUUaCUGCUUGC- -5'
28106 5' -53.7 NC_005887.1 + 21404 0.67 0.609748
Target:  5'- uGAGUCGUGUUcguacCGGCCGAUGcggucggcGCGGugGg -3'
miRNA:   3'- -UUCGGUACGA-----GCCGGUUAC--------UGCUugC- -5'
28106 5' -53.7 NC_005887.1 + 30130 0.67 0.609748
Target:  5'- -cGCCA-GCUCGGCaagGUGAUGGAg- -3'
miRNA:   3'- uuCGGUaCGAGCCGgu-UACUGCUUgc -5'
28106 5' -53.7 NC_005887.1 + 11309 0.67 0.62123
Target:  5'- cGGCCG-GCUCGGCa----GCGAGCGc -3'
miRNA:   3'- uUCGGUaCGAGCCGguuacUGCUUGC- -5'
28106 5' -53.7 NC_005887.1 + 41858 0.67 0.632723
Target:  5'- -cGCCugAUGCUCGuGCCGuu--CGAGCGg -3'
miRNA:   3'- uuCGG--UACGAGC-CGGUuacuGCUUGC- -5'
28106 5' -53.7 NC_005887.1 + 40749 0.67 0.644216
Target:  5'- cAGCCGUGCgcgCGcGCCAGgugcagGAUGGuGCGg -3'
miRNA:   3'- uUCGGUACGa--GC-CGGUUa-----CUGCU-UGC- -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.