miRNA display CGI


Results 1 - 20 of 29 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
27575 3' -55.9 NC_005882.1 + 9475 1.08 0.000545
Target:  5'- cAUCGGGUGCCAACGCCAUCGACGAUCg -3'
miRNA:   3'- -UAGCCCACGGUUGCGGUAGCUGCUAG- -5'
27575 3' -55.9 NC_005882.1 + 12536 0.73 0.218232
Target:  5'- uGUCGcGGcggcgGCCGGCGCUG-CGGCGAUCg -3'
miRNA:   3'- -UAGC-CCa----CGGUUGCGGUaGCUGCUAG- -5'
27575 3' -55.9 NC_005882.1 + 27207 0.71 0.277511
Target:  5'- gAUCGGGauUGCCAucacCGCgAUCG-CGGUCg -3'
miRNA:   3'- -UAGCCC--ACGGUu---GCGgUAGCuGCUAG- -5'
27575 3' -55.9 NC_005882.1 + 27539 0.71 0.29156
Target:  5'- --aGGGcGCCGcaaucggcaucggGCGCuCGUCGGCGGUCg -3'
miRNA:   3'- uagCCCaCGGU-------------UGCG-GUAGCUGCUAG- -5'
27575 3' -55.9 NC_005882.1 + 12020 0.71 0.299946
Target:  5'- -gCGcGGUacGCCAGCGCC-UCGGCGggCa -3'
miRNA:   3'- uaGC-CCA--CGGUUGCGGuAGCUGCuaG- -5'
27575 3' -55.9 NC_005882.1 + 22970 0.71 0.299946
Target:  5'- -cCGGGUGauGACGCCGUUGAUcaGGUCg -3'
miRNA:   3'- uaGCCCACggUUGCGGUAGCUG--CUAG- -5'
27575 3' -55.9 NC_005882.1 + 16880 0.7 0.307729
Target:  5'- -aCGGGUcGaUCGGCGCCGUCGAaguucaGGUCg -3'
miRNA:   3'- uaGCCCA-C-GGUUGCGGUAGCUg-----CUAG- -5'
27575 3' -55.9 NC_005882.1 + 24802 0.7 0.315666
Target:  5'- gGUCGaGUucGCCGAUGUCuUCGACGGUCa -3'
miRNA:   3'- -UAGCcCA--CGGUUGCGGuAGCUGCUAG- -5'
27575 3' -55.9 NC_005882.1 + 17775 0.7 0.340398
Target:  5'- cUCGGGcGCguGCgGCUGUCGAgGAUCg -3'
miRNA:   3'- uAGCCCaCGguUG-CGGUAGCUgCUAG- -5'
27575 3' -55.9 NC_005882.1 + 21422 0.7 0.340398
Target:  5'- -aCGGcGcaCCGGCGCCGaCGACGAUCa -3'
miRNA:   3'- uaGCC-CacGGUUGCGGUaGCUGCUAG- -5'
27575 3' -55.9 NC_005882.1 + 32251 0.69 0.348949
Target:  5'- -aCGGGUGUCAGUGUCAUCc-CGAUCg -3'
miRNA:   3'- uaGCCCACGGUUGCGGUAGcuGCUAG- -5'
27575 3' -55.9 NC_005882.1 + 1563 0.69 0.366504
Target:  5'- cAUCGGGcGUCGccGCGCagcUCGACGAUUa -3'
miRNA:   3'- -UAGCCCaCGGU--UGCGgu-AGCUGCUAG- -5'
27575 3' -55.9 NC_005882.1 + 5324 0.68 0.403398
Target:  5'- uGUCGucGGUGCCgGGCGUCAuggUCGGCGAg- -3'
miRNA:   3'- -UAGC--CCACGG-UUGCGGU---AGCUGCUag -5'
27575 3' -55.9 NC_005882.1 + 21658 0.68 0.403398
Target:  5'- -cCGGGaGCgCGGCGCCuuccgGUCGACGggCa -3'
miRNA:   3'- uaGCCCaCG-GUUGCGG-----UAGCUGCuaG- -5'
27575 3' -55.9 NC_005882.1 + 19830 0.68 0.407214
Target:  5'- -aCGGGcGCCGACaCCGUCGAguacggcgagaacguCGAUCc -3'
miRNA:   3'- uaGCCCaCGGUUGcGGUAGCU---------------GCUAG- -5'
27575 3' -55.9 NC_005882.1 + 30734 0.68 0.412982
Target:  5'- ---uGGUGCCAGucgcguucacguUGCCGUCGACGuUCa -3'
miRNA:   3'- uagcCCACGGUU------------GCGGUAGCUGCuAG- -5'
27575 3' -55.9 NC_005882.1 + 8251 0.68 0.422705
Target:  5'- -cUGGGUGgCGgcaaGCGCCGgUCGGCuGAUCa -3'
miRNA:   3'- uaGCCCACgGU----UGCGGU-AGCUG-CUAG- -5'
27575 3' -55.9 NC_005882.1 + 1596 0.68 0.432565
Target:  5'- -aUGGGcGUCGAC-CCGUgCGGCGAUCg -3'
miRNA:   3'- uaGCCCaCGGUUGcGGUA-GCUGCUAG- -5'
27575 3' -55.9 NC_005882.1 + 26301 0.68 0.44659
Target:  5'- uUCuGGUaGUCGACGCCGgccuucuuguaggcgUCGAUGGUCg -3'
miRNA:   3'- uAGcCCA-CGGUUGCGGU---------------AGCUGCUAG- -5'
27575 3' -55.9 NC_005882.1 + 17651 0.68 0.44659
Target:  5'- -gCGGGccGCU-ACGCCGagcaaauggcgaacgUCGACGAUCg -3'
miRNA:   3'- uaGCCCa-CGGuUGCGGU---------------AGCUGCUAG- -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.