miRNA display CGI


Results 1 - 20 of 30 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
18237 3' -56.5 NC_004680.1 + 10793 0.66 0.721733
Target:  5'- uUGAuCGCCUUCCACGcgGCGaacgCGCC-Ca -3'
miRNA:   3'- gGCU-GCGGGAGGUGU--UGCaa--GCGGaG- -5'
18237 3' -56.5 NC_004680.1 + 58334 0.66 0.721733
Target:  5'- gCCGGCGCCuaCUCCACGcaguCGgcacaGCCa- -3'
miRNA:   3'- -GGCUGCGG--GAGGUGUu---GCaag--CGGag -5'
18237 3' -56.5 NC_004680.1 + 10776 0.66 0.721733
Target:  5'- aCGAUGCUCgCCACGACGcUUC-CCg- -3'
miRNA:   3'- gGCUGCGGGaGGUGUUGC-AAGcGGag -5'
18237 3' -56.5 NC_004680.1 + 5697 0.66 0.720693
Target:  5'- cCCGAuggugccCGCCCgcagaCCAgCAGCG-UCGCCg- -3'
miRNA:   3'- -GGCU-------GCGGGa----GGU-GUUGCaAGCGGag -5'
18237 3' -56.5 NC_004680.1 + 28912 0.66 0.718609
Target:  5'- gCCGGCGUCCa--ACAgugccuuggugaucGCGaUCGCCUCc -3'
miRNA:   3'- -GGCUGCGGGaggUGU--------------UGCaAGCGGAG- -5'
18237 3' -56.5 NC_004680.1 + 15394 0.66 0.71129
Target:  5'- gCGACcauGUUCUCCACGACGguuugcagCGCC-Ca -3'
miRNA:   3'- gGCUG---CGGGAGGUGUUGCaa------GCGGaG- -5'
18237 3' -56.5 NC_004680.1 + 7712 0.66 0.71129
Target:  5'- aCCGugGUg--CCGCGACGgacaugUCGCCg- -3'
miRNA:   3'- -GGCugCGggaGGUGUUGCa-----AGCGGag -5'
18237 3' -56.5 NC_004680.1 + 43512 0.66 0.71129
Target:  5'- aCGACGCcuCCUCCGCGACcuagUGCgUUg -3'
miRNA:   3'- gGCUGCG--GGAGGUGUUGcaa-GCGgAG- -5'
18237 3' -56.5 NC_004680.1 + 11317 0.66 0.710241
Target:  5'- -gGAUGCCCgCCACAaacuggcggagaaGCGUgcccgCGCCg- -3'
miRNA:   3'- ggCUGCGGGaGGUGU-------------UGCAa----GCGGag -5'
18237 3' -56.5 NC_004680.1 + 24934 0.66 0.700772
Target:  5'- -gGGCGCCC---GCAGCGUUguaguccccggCGCCUCc -3'
miRNA:   3'- ggCUGCGGGaggUGUUGCAA-----------GCGGAG- -5'
18237 3' -56.5 NC_004680.1 + 55860 0.66 0.700772
Target:  5'- -aGACGCCCgCCGCGACaaccaUCGUCg- -3'
miRNA:   3'- ggCUGCGGGaGGUGUUGca---AGCGGag -5'
18237 3' -56.5 NC_004680.1 + 16760 0.67 0.658167
Target:  5'- aCCGAuacCGCCCUgcggCCGCAACuGgaggaUCGCCg- -3'
miRNA:   3'- -GGCU---GCGGGA----GGUGUUG-Ca----AGCGGag -5'
18237 3' -56.5 NC_004680.1 + 24241 0.67 0.658167
Target:  5'- aCCGACucgucaGCCUUCgACAGCGaa-GCCUg -3'
miRNA:   3'- -GGCUG------CGGGAGgUGUUGCaagCGGAg -5'
18237 3' -56.5 NC_004680.1 + 53369 0.67 0.647434
Target:  5'- cCCGACGUUucugUUCC-CGACGUUCcugGUCUCg -3'
miRNA:   3'- -GGCUGCGG----GAGGuGUUGCAAG---CGGAG- -5'
18237 3' -56.5 NC_004680.1 + 39798 0.67 0.647434
Target:  5'- gCGGCGCUCUCUGCGGCGcUCcaugcgGCgCUCc -3'
miRNA:   3'- gGCUGCGGGAGGUGUUGCaAG------CG-GAG- -5'
18237 3' -56.5 NC_004680.1 + 28974 0.68 0.583071
Target:  5'- gCCGaACGCgCggcCCGC-ACGUUCGCC-Ca -3'
miRNA:   3'- -GGC-UGCGgGa--GGUGuUGCAAGCGGaG- -5'
18237 3' -56.5 NC_004680.1 + 52264 0.68 0.572432
Target:  5'- gCCGGCGCagCUCUGCGGCGaggGCUUCg -3'
miRNA:   3'- -GGCUGCGg-GAGGUGUUGCaagCGGAG- -5'
18237 3' -56.5 NC_004680.1 + 47906 0.68 0.572432
Target:  5'- gCCGGCGCUccaaCUCCGCGucACGggCauccucacgaGCCUCa -3'
miRNA:   3'- -GGCUGCGG----GAGGUGU--UGCaaG----------CGGAG- -5'
18237 3' -56.5 NC_004680.1 + 10555 0.68 0.561839
Target:  5'- aCCGAacacCGCCC-CCAgGAaGUUCGCCcCg -3'
miRNA:   3'- -GGCU----GCGGGaGGUgUUgCAAGCGGaG- -5'
18237 3' -56.5 NC_004680.1 + 23299 0.69 0.520077
Target:  5'- gCCGAccagaugcCGCCCUCCACAuagg-UGCCUg -3'
miRNA:   3'- -GGCU--------GCGGGAGGUGUugcaaGCGGAg -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.