miRNA display CGI


Results 1 - 20 of 77 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
28178 5' -56.3 NC_005887.1 + 15643 0.66 0.651331
Target:  5'- gCCGAucagggcgccGUGUCGcagauGCG-CGcCGAGCUCGAc -3'
miRNA:   3'- -GGCU----------UACGGC-----CGCaGCuGCUCGAGCU- -5'
28178 5' -56.3 NC_005887.1 + 7924 0.66 0.629437
Target:  5'- aCCGcu--CCGGaaacCGagGACGAGCUCGAc -3'
miRNA:   3'- -GGCuuacGGCC----GCagCUGCUCGAGCU- -5'
28178 5' -56.3 NC_005887.1 + 15145 0.66 0.629437
Target:  5'- aCCGAccccAUGCaGGCGcUCGACG-GCauggCGAa -3'
miRNA:   3'- -GGCU----UACGgCCGC-AGCUGCuCGa---GCU- -5'
28178 5' -56.3 NC_005887.1 + 40413 0.66 0.629437
Target:  5'- gCCGAcGUGCCGGuCGaacUCGAgcugaucaaauCGGcGCUCGAc -3'
miRNA:   3'- -GGCU-UACGGCC-GC---AGCU-----------GCU-CGAGCU- -5'
28178 5' -56.3 NC_005887.1 + 35624 0.66 0.628342
Target:  5'- cCCGggUugaagucgcucggGCUGaGCGgu-GCGAGCUCGAc -3'
miRNA:   3'- -GGCuuA-------------CGGC-CGCagcUGCUCGAGCU- -5'
28178 5' -56.3 NC_005887.1 + 30493 0.66 0.618488
Target:  5'- -aGAccGCCGaGCGUCGAaaaCGAuccgcccgugcuGCUCGAg -3'
miRNA:   3'- ggCUuaCGGC-CGCAGCU---GCU------------CGAGCU- -5'
28178 5' -56.3 NC_005887.1 + 38392 0.66 0.618488
Target:  5'- gCGAGcaaCGGCGggUCGACGAGCUUc- -3'
miRNA:   3'- gGCUUacgGCCGC--AGCUGCUCGAGcu -5'
28178 5' -56.3 NC_005887.1 + 23249 0.66 0.618488
Target:  5'- gCGGcgGUCGGCGcgcaaaaGGCGcAGCUCGu -3'
miRNA:   3'- gGCUuaCGGCCGCag-----CUGC-UCGAGCu -5'
28178 5' -56.3 NC_005887.1 + 29434 0.66 0.618488
Target:  5'- gCCGAGUagucGUCGGCGUCaGGCGcuucuguaaucAGUUCGu -3'
miRNA:   3'- -GGCUUA----CGGCCGCAG-CUGC-----------UCGAGCu -5'
28178 5' -56.3 NC_005887.1 + 36036 0.66 0.618488
Target:  5'- cUCGGc-GCCGGCGaggcgcaaggccUCGACGcGCUCGc -3'
miRNA:   3'- -GGCUuaCGGCCGC------------AGCUGCuCGAGCu -5'
28178 5' -56.3 NC_005887.1 + 34946 0.66 0.617394
Target:  5'- gCGggUGCgaccgUGGCGaucgucgUCGGCGAGCU-GAa -3'
miRNA:   3'- gGCuuACG-----GCCGC-------AGCUGCUCGAgCU- -5'
28178 5' -56.3 NC_005887.1 + 33472 0.66 0.607552
Target:  5'- gCGAGcGCguaCGGCGUCG-CGAuCUCGAc -3'
miRNA:   3'- gGCUUaCG---GCCGCAGCuGCUcGAGCU- -5'
28178 5' -56.3 NC_005887.1 + 26333 0.66 0.607552
Target:  5'- gCCGug-GCCGGCGcUGGcCGGGUgcgCGAa -3'
miRNA:   3'- -GGCuuaCGGCCGCaGCU-GCUCGa--GCU- -5'
28178 5' -56.3 NC_005887.1 + 30008 0.66 0.596636
Target:  5'- aCCGccugGCCGGCGagCGACGuacgcAGUUCGc -3'
miRNA:   3'- -GGCuua-CGGCCGCa-GCUGC-----UCGAGCu -5'
28178 5' -56.3 NC_005887.1 + 36965 0.66 0.596636
Target:  5'- uCCGucGUcUCGGCGUCGcgcggguCGAGCUCGc -3'
miRNA:   3'- -GGCu-UAcGGCCGCAGCu------GCUCGAGCu -5'
28178 5' -56.3 NC_005887.1 + 21159 0.66 0.596636
Target:  5'- uCCGAcggcguuuucgAUGCCGaGUuguUCGACcAGCUCGAg -3'
miRNA:   3'- -GGCU-----------UACGGC-CGc--AGCUGcUCGAGCU- -5'
28178 5' -56.3 NC_005887.1 + 16233 0.66 0.596636
Target:  5'- aUCGAuacGCCGGC--CGGCGAGCgcaCGGg -3'
miRNA:   3'- -GGCUua-CGGCCGcaGCUGCUCGa--GCU- -5'
28178 5' -56.3 NC_005887.1 + 40274 0.66 0.596636
Target:  5'- gCCGcugGCCGGCaaGUCGGUGccGCUCGAu -3'
miRNA:   3'- -GGCuuaCGGCCG--CAGCUGCu-CGAGCU- -5'
28178 5' -56.3 NC_005887.1 + 33695 0.66 0.596636
Target:  5'- uCCGGAUugguuuuucgugGCgCGGCgGUCGAUcuGCUCGAu -3'
miRNA:   3'- -GGCUUA------------CG-GCCG-CAGCUGcuCGAGCU- -5'
28178 5' -56.3 NC_005887.1 + 41362 0.67 0.585751
Target:  5'- aCGGcgGCCGGCaauuugcgcguGUCGGCGAucacCUCGu -3'
miRNA:   3'- gGCUuaCGGCCG-----------CAGCUGCUc---GAGCu -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.