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
25981 3' -55.1 NC_005340.1 + 7806 0.73 0.212861
Target:  5'- cCAUCCGCUGacgaaaaaccgugGCUACGacgucauuGUCACCGGCu- -3'
miRNA:   3'- -GUAGGCGAC-------------UGGUGU--------UAGUGGCCGcg -5'
25981 3' -55.1 NC_005340.1 + 5209 0.66 0.578337
Target:  5'- gCAUCCGUgacGCCAUuGUCAagcgucaGGCGCu -3'
miRNA:   3'- -GUAGGCGac-UGGUGuUAGUgg-----CCGCG- -5'
25981 3' -55.1 NC_005340.1 + 11840 0.66 0.555711
Target:  5'- uCAUUCaCUG-CCACAAggggacUAUCGGCGCa -3'
miRNA:   3'- -GUAGGcGACuGGUGUUa-----GUGGCCGCG- -5'
25981 3' -55.1 NC_005340.1 + 10499 0.66 0.555711
Target:  5'- uGUCugCGCUGauugacauGCCGCAAaacCCGGCGCu -3'
miRNA:   3'- gUAG--GCGAC--------UGGUGUUaguGGCCGCG- -5'
25981 3' -55.1 NC_005340.1 + 16878 0.66 0.533349
Target:  5'- --cCCGCaUGACCuaccccGCAcUCACC-GCGCa -3'
miRNA:   3'- guaGGCG-ACUGG------UGUuAGUGGcCGCG- -5'
25981 3' -55.1 NC_005340.1 + 4966 0.66 0.53113
Target:  5'- uCAUCCGCguuucugaaaacGAUUACAuUCuGCCGGuCGCa -3'
miRNA:   3'- -GUAGGCGa-----------CUGGUGUuAG-UGGCC-GCG- -5'
25981 3' -55.1 NC_005340.1 + 28787 0.66 0.522287
Target:  5'- aCAUCUGacuaccgGcAUCACAAUCAgCCGGgGCg -3'
miRNA:   3'- -GUAGGCga-----C-UGGUGUUAGU-GGCCgCG- -5'
25981 3' -55.1 NC_005340.1 + 6471 0.67 0.468461
Target:  5'- ----aGCUcGACCGCAAU-ACCGGUGUg -3'
miRNA:   3'- guaggCGA-CUGGUGUUAgUGGCCGCG- -5'
25981 3' -55.1 NC_005340.1 + 13146 0.68 0.441616
Target:  5'- aAUCCGUgGACUACGgcggaguuuAUCGCCuggcuggagaguugcGGCGCa -3'
miRNA:   3'- gUAGGCGaCUGGUGU---------UAGUGG---------------CCGCG- -5'
25981 3' -55.1 NC_005340.1 + 12981 0.69 0.398253
Target:  5'- ---aCGCUGGCCGCAA-CGCCGaaaGCg -3'
miRNA:   3'- guagGCGACUGGUGUUaGUGGCcg-CG- -5'
25981 3' -55.1 NC_005340.1 + 9860 0.69 0.379465
Target:  5'- --cUgGCUGACCACccgCGCCGGuCGUu -3'
miRNA:   3'- guaGgCGACUGGUGuuaGUGGCC-GCG- -5'
25981 3' -55.1 NC_005340.1 + 15233 0.7 0.352419
Target:  5'- -cUCUcCUGACUGCucaggccGUCACCGGCGUc -3'
miRNA:   3'- guAGGcGACUGGUGu------UAGUGGCCGCG- -5'
25981 3' -55.1 NC_005340.1 + 16942 0.7 0.347176
Target:  5'- --gUCGCUGGCCGCuAaggugauugguuuuuGUCACCGGCu- -3'
miRNA:   3'- guaGGCGACUGGUG-U---------------UAGUGGCCGcg -5'
25981 3' -55.1 NC_005340.1 + 5428 0.69 0.388784
Target:  5'- cCGUCCGCgucgGugauguugcucAUCACGcgCGCCGGgGCu -3'
miRNA:   3'- -GUAGGCGa---C-----------UGGUGUuaGUGGCCgCG- -5'
25981 3' -55.1 NC_005340.1 + 2160 0.69 0.387846
Target:  5'- cCAUCCGCaaaaccaUGACCAgCA---GCgGGCGCa -3'
miRNA:   3'- -GUAGGCG-------ACUGGU-GUuagUGgCCGCG- -5'
25981 3' -55.1 NC_005340.1 + 14384 0.69 0.379465
Target:  5'- uGUCUGCUGAaaAUAAUUGCUGGCauGCa -3'
miRNA:   3'- gUAGGCGACUggUGUUAGUGGCCG--CG- -5'
25981 3' -55.1 NC_005340.1 + 8201 0.7 0.310448
Target:  5'- -cUCgCGCUGGCCGua---ACCGGCGCc -3'
miRNA:   3'- guAG-GCGACUGGUguuagUGGCCGCG- -5'
25981 3' -55.1 NC_005340.1 + 2843 0.72 0.268085
Target:  5'- cCAgugCUGCUGACCGCAucgaaaucgacaucaGUCACa-GCGCg -3'
miRNA:   3'- -GUa--GGCGACUGGUGU---------------UAGUGgcCGCG- -5'
25981 3' -55.1 NC_005340.1 + 10120 0.73 0.225523
Target:  5'- --gCCGCUGACCGuCAGcgCACCGGUuuccgGCu -3'
miRNA:   3'- guaGGCGACUGGU-GUUa-GUGGCCG-----CG- -5'
25981 3' -55.1 NC_005340.1 + 19186 0.66 0.578337
Target:  5'- -cUCCuGUgUGGCCu---UCACCGGUGCa -3'
miRNA:   3'- guAGG-CG-ACUGGuguuAGUGGCCGCG- -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.