miRNA display CGI


Results 1 - 20 of 53 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
27411 3' -58.1 NC_005869.1 + 9567 0.66 0.442695
Target:  5'- gGCGGGGGagaaGAggGCCGCuuccaGGCGGcggcugagcUCCg -3'
miRNA:   3'- aCGCUCCCg---UUgaUGGCG-----UCGCC---------AGG- -5'
27411 3' -58.1 NC_005869.1 + 8317 0.66 0.442695
Target:  5'- gGCGcGGGcCAGCUccACCGCGGUcugggGGguagCCu -3'
miRNA:   3'- aCGCuCCC-GUUGA--UGGCGUCG-----CCa---GG- -5'
27411 3' -58.1 NC_005869.1 + 5845 0.66 0.442695
Target:  5'- gGCGAGgacgaagcuGGCGAcCUGCgagggGUAGCGGUCg -3'
miRNA:   3'- aCGCUC---------CCGUU-GAUGg----CGUCGCCAGg -5'
27411 3' -58.1 NC_005869.1 + 22422 0.66 0.442695
Target:  5'- aGCGGGG---ACUGCCaccucacgcGCcGCGGUCCc -3'
miRNA:   3'- aCGCUCCcguUGAUGG---------CGuCGCCAGG- -5'
27411 3' -58.1 NC_005869.1 + 17833 0.66 0.432842
Target:  5'- gGCGccucGGcGCAGCggcgGCagGCGGCGGUaCCg -3'
miRNA:   3'- aCGCu---CC-CGUUGa---UGg-CGUCGCCA-GG- -5'
27411 3' -58.1 NC_005869.1 + 17473 0.66 0.432842
Target:  5'- cGCGgggcuaGGGGCGGCgugggUGCUGgAGCGGgcggcUCCa -3'
miRNA:   3'- aCGC------UCCCGUUG-----AUGGCgUCGCC-----AGG- -5'
27411 3' -58.1 NC_005869.1 + 11762 0.66 0.432842
Target:  5'- gGCGAGgaagaggaGGCAGaagaguCCGCAggcggcgcuguGCGGUCCc -3'
miRNA:   3'- aCGCUC--------CCGUUgau---GGCGU-----------CGCCAGG- -5'
27411 3' -58.1 NC_005869.1 + 7246 0.66 0.432842
Target:  5'- cUGaCGuGGGCugguucuGCUGCCGCcgcugcuGCGG-CCu -3'
miRNA:   3'- -AC-GCuCCCGu------UGAUGGCGu------CGCCaGG- -5'
27411 3' -58.1 NC_005869.1 + 11961 0.66 0.423118
Target:  5'- cGCGAGgcgggcucccGGCGACggccaGCCaGUGGCGGccUCCg -3'
miRNA:   3'- aCGCUC----------CCGUUGa----UGG-CGUCGCC--AGG- -5'
27411 3' -58.1 NC_005869.1 + 17386 0.66 0.423118
Target:  5'- gGC-AGGuGCGGCUgACgGCGGUGGUgCCc -3'
miRNA:   3'- aCGcUCC-CGUUGA-UGgCGUCGCCA-GG- -5'
27411 3' -58.1 NC_005869.1 + 370 0.66 0.404069
Target:  5'- aGCG-GGGUGuccuucgcGCUGagagguCCGCGGCGG-CCg -3'
miRNA:   3'- aCGCuCCCGU--------UGAU------GGCGUCGCCaGG- -5'
27411 3' -58.1 NC_005869.1 + 210 0.66 0.404069
Target:  5'- cGCG-GGGCGGg-GCCgaGCGGCGGaaauUCCc -3'
miRNA:   3'- aCGCuCCCGUUgaUGG--CGUCGCC----AGG- -5'
27411 3' -58.1 NC_005869.1 + 11406 0.66 0.39475
Target:  5'- gGcCGAcaaccuGGGCAugUACCGCaacaAGCGG-CUg -3'
miRNA:   3'- aC-GCU------CCCGUugAUGGCG----UCGCCaGG- -5'
27411 3' -58.1 NC_005869.1 + 12646 0.66 0.39475
Target:  5'- gGC-AGcGGCGGCUGCCGgCGGCGuaugCCc -3'
miRNA:   3'- aCGcUC-CCGUUGAUGGC-GUCGCca--GG- -5'
27411 3' -58.1 NC_005869.1 + 3040 0.67 0.385572
Target:  5'- aGCGGGaGGUgguGCUGCacaaGCGGCGGg-- -3'
miRNA:   3'- aCGCUC-CCGu--UGAUGg---CGUCGCCagg -5'
27411 3' -58.1 NC_005869.1 + 24654 0.67 0.385572
Target:  5'- cGCGcacuGGCGGCUGCC-CAGUGGgacCCc -3'
miRNA:   3'- aCGCuc--CCGUUGAUGGcGUCGCCa--GG- -5'
27411 3' -58.1 NC_005869.1 + 6372 0.67 0.376535
Target:  5'- gGCGAugaacuggucgGGGUAGgUcCCG-GGCGGUCCg -3'
miRNA:   3'- aCGCU-----------CCCGUUgAuGGCgUCGCCAGG- -5'
27411 3' -58.1 NC_005869.1 + 10706 0.67 0.37564
Target:  5'- gGgGAGGGCcuggcgcGGCUgucgGgCGCGGCGGcCCc -3'
miRNA:   3'- aCgCUCCCG-------UUGA----UgGCGUCGCCaGG- -5'
27411 3' -58.1 NC_005869.1 + 25728 0.67 0.372961
Target:  5'- gGCGAGGGCcucuuugagugcuACUGCCGCuGCaa-CCu -3'
miRNA:   3'- aCGCUCCCGu------------UGAUGGCGuCGccaGG- -5'
27411 3' -58.1 NC_005869.1 + 8223 0.67 0.367643
Target:  5'- gGCG-GGGCGGCggGCCcucggGCGgGgGGUCCc -3'
miRNA:   3'- aCGCuCCCGUUGa-UGG-----CGU-CgCCAGG- -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.