miRNA display CGI


Results 1 - 15 of 15 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
23311 3' -52.3 NC_005259.1 + 2173 0.66 0.920634
Target:  5'- gCCGCcGGUugccgagGUCaUGGGCCGCUACggCAa -3'
miRNA:   3'- -GGCGcUUA-------UAG-ACCUGGCGAUGgaGU- -5'
23311 3' -52.3 NC_005259.1 + 2595 0.66 0.919426
Target:  5'- gCGaCGAggacacgaucuccgGUGUCUGGcacuACCGC-ACCUCGc -3'
miRNA:   3'- gGC-GCU--------------UAUAGACC----UGGCGaUGGAGU- -5'
23311 3' -52.3 NC_005259.1 + 33464 0.66 0.90872
Target:  5'- gUGcCGggUGUCUGGACUGCcGCa--- -3'
miRNA:   3'- gGC-GCuuAUAGACCUGGCGaUGgagu -5'
23311 3' -52.3 NC_005259.1 + 11432 0.66 0.90872
Target:  5'- aCGgGGAUGcUUGGGCCGCUcgcuGCCg-- -3'
miRNA:   3'- gGCgCUUAUaGACCUGGCGA----UGGagu -5'
23311 3' -52.3 NC_005259.1 + 46345 0.67 0.872746
Target:  5'- aCCGCuuGUAgguUCUGGGCCGCgauggcACCg-- -3'
miRNA:   3'- -GGCGcuUAU---AGACCUGGCGa-----UGGagu -5'
23311 3' -52.3 NC_005259.1 + 45411 0.67 0.864783
Target:  5'- gCGCGcuga--UGGccgccGCCGCUGCCUCGu -3'
miRNA:   3'- gGCGCuuauagACC-----UGGCGAUGGAGU- -5'
23311 3' -52.3 NC_005259.1 + 48184 0.68 0.848139
Target:  5'- gCCGcCGggUGUC-GGACCGggcaUGCCgUCGu -3'
miRNA:   3'- -GGC-GCuuAUAGaCCUGGCg---AUGG-AGU- -5'
23311 3' -52.3 NC_005259.1 + 7693 0.68 0.820579
Target:  5'- cCCGUacGUcugcaccaccaucGUCUGGGCCGagggaUACCUCAc -3'
miRNA:   3'- -GGCGcuUA-------------UAGACCUGGCg----AUGGAGU- -5'
23311 3' -52.3 NC_005259.1 + 23659 0.69 0.802731
Target:  5'- aCgGCGAcgG-CUGGACCGCcgACCcCGa -3'
miRNA:   3'- -GgCGCUuaUaGACCUGGCGa-UGGaGU- -5'
23311 3' -52.3 NC_005259.1 + 61944 0.69 0.77327
Target:  5'- gCGCGggUGcCgGGgccACCGCaGCCUCAc -3'
miRNA:   3'- gGCGCuuAUaGaCC---UGGCGaUGGAGU- -5'
23311 3' -52.3 NC_005259.1 + 20295 0.69 0.763144
Target:  5'- aCCGCGAGU-UCUGGucGCCgaGCUACUaCAa -3'
miRNA:   3'- -GGCGCUUAuAGACC--UGG--CGAUGGaGU- -5'
23311 3' -52.3 NC_005259.1 + 29153 0.7 0.732006
Target:  5'- aCCGCGcucggCUGGACCGuCUACUaCGa -3'
miRNA:   3'- -GGCGCuuauaGACCUGGC-GAUGGaGU- -5'
23311 3' -52.3 NC_005259.1 + 65475 0.7 0.71073
Target:  5'- uCCGCG--UGUCUGGcugccauaggcuGCCaCUACCUCGg -3'
miRNA:   3'- -GGCGCuuAUAGACC------------UGGcGAUGGAGU- -5'
23311 3' -52.3 NC_005259.1 + 17915 0.73 0.532247
Target:  5'- gUGUGGAUgcccgGUCUGGACCGCgcccgguguccacGCCUCAc -3'
miRNA:   3'- gGCGCUUA-----UAGACCUGGCGa------------UGGAGU- -5'
23311 3' -52.3 NC_005259.1 + 15244 1.12 0.001891
Target:  5'- aCCGCGAAUAUCUGGACCGCUACCUCAa -3'
miRNA:   3'- -GGCGCUUAUAGACCUGGCGAUGGAGU- -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.