miRNA display CGI


Results 1 - 20 of 23 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
22254 3' -57.2 NC_005045.1 + 25740 0.66 0.573124
Target:  5'- aCAcCCGaUCCCGUC-CGCUGAacacccAGGCc -3'
miRNA:   3'- gGUaGGCcGGGGUAGaGCGACU------UCCG- -5'
22254 3' -57.2 NC_005045.1 + 33355 0.66 0.562281
Target:  5'- aCC-UCCuGGCCCag-CcCGgaGAGGGCg -3'
miRNA:   3'- -GGuAGG-CCGGGguaGaGCgaCUUCCG- -5'
22254 3' -57.2 NC_005045.1 + 42286 0.66 0.551494
Target:  5'- cCCuggcUCUGGCCCUggCU-GCUGGguacGGGCu -3'
miRNA:   3'- -GGu---AGGCCGGGGuaGAgCGACU----UCCG- -5'
22254 3' -57.2 NC_005045.1 + 14748 0.66 0.551494
Target:  5'- cCCggCuCGGCCCugcaCAUCcUGCUGGGuGGCg -3'
miRNA:   3'- -GGuaG-GCCGGG----GUAGaGCGACUU-CCG- -5'
22254 3' -57.2 NC_005045.1 + 223 0.66 0.551494
Target:  5'- cCCuggcUCUGGCCCUggCU-GCUGGguacGGGCu -3'
miRNA:   3'- -GGu---AGGCCGGGGuaGAgCGACU----UCCG- -5'
22254 3' -57.2 NC_005045.1 + 29758 0.66 0.550419
Target:  5'- gCCAa-CGGUgCCAUCacagaccUCGCUGAgguugAGGCg -3'
miRNA:   3'- -GGUagGCCGgGGUAG-------AGCGACU-----UCCG- -5'
22254 3' -57.2 NC_005045.1 + 27487 0.66 0.540771
Target:  5'- cUCAgCCGGCCCCGgcauguagCUCGg-GAuguGGCu -3'
miRNA:   3'- -GGUaGGCCGGGGUa-------GAGCgaCUu--CCG- -5'
22254 3' -57.2 NC_005045.1 + 25722 0.66 0.530119
Target:  5'- cUCGUCCGGUCCaAUCUCGU--GAGuGUa -3'
miRNA:   3'- -GGUAGGCCGGGgUAGAGCGacUUC-CG- -5'
22254 3' -57.2 NC_005045.1 + 33147 0.66 0.519544
Target:  5'- aCCAcagucCCGGCCCaccgUCGCUGuagcgcAGGCg -3'
miRNA:   3'- -GGUa----GGCCGGGguagAGCGACu-----UCCG- -5'
22254 3' -57.2 NC_005045.1 + 26861 0.67 0.498653
Target:  5'- gCCA-CUGGCCCUg---CGCUGGgaugAGGCu -3'
miRNA:   3'- -GGUaGGCCGGGGuagaGCGACU----UCCG- -5'
22254 3' -57.2 NC_005045.1 + 11189 0.67 0.498653
Target:  5'- gCCGUcCCGGCCCCA-CU-GCgacAGGUg -3'
miRNA:   3'- -GGUA-GGCCGGGGUaGAgCGacuUCCG- -5'
22254 3' -57.2 NC_005045.1 + 20830 0.67 0.497618
Target:  5'- uCCAUCgUGGUCCCAgggcugaUCUUGUguucgggGAAGGUc -3'
miRNA:   3'- -GGUAG-GCCGGGGU-------AGAGCGa------CUUCCG- -5'
22254 3' -57.2 NC_005045.1 + 15926 0.67 0.487324
Target:  5'- uUCGUCCGGCCUuccgccaguggauCAUCgaGCUGGacgccuacacgAGGCg -3'
miRNA:   3'- -GGUAGGCCGGG-------------GUAGagCGACU-----------UCCG- -5'
22254 3' -57.2 NC_005045.1 + 41282 0.68 0.44819
Target:  5'- cCCAggCUGGCCUgAUCcgCGCUGuagcGGCc -3'
miRNA:   3'- -GGUa-GGCCGGGgUAGa-GCGACuu--CCG- -5'
22254 3' -57.2 NC_005045.1 + 11596 0.68 0.44819
Target:  5'- aCCAgacCCGGCCaCGcgUCGCagGAAGGCc -3'
miRNA:   3'- -GGUa--GGCCGGgGUagAGCGa-CUUCCG- -5'
22254 3' -57.2 NC_005045.1 + 40543 0.68 0.419303
Target:  5'- cCUcgCCGGCCU--UgUCGCccugGAAGGCa -3'
miRNA:   3'- -GGuaGGCCGGGguAgAGCGa---CUUCCG- -5'
22254 3' -57.2 NC_005045.1 + 6854 0.69 0.37905
Target:  5'- cCUGUCCGGCCUgAUgguagguuccugcCUCguaguagguggugaGCUGAAGGCc -3'
miRNA:   3'- -GGUAGGCCGGGgUA-------------GAG--------------CGACUUCCG- -5'
22254 3' -57.2 NC_005045.1 + 19974 0.69 0.356513
Target:  5'- gCCAUggaaUGGCUCCAgcggCUCGCU-AAGGCc -3'
miRNA:   3'- -GGUAg---GCCGGGGUa---GAGCGAcUUCCG- -5'
22254 3' -57.2 NC_005045.1 + 13679 0.69 0.356513
Target:  5'- -uGUUCGGCCCCAUCUCagccaCUGccGGg -3'
miRNA:   3'- ggUAGGCCGGGGUAGAGc----GACuuCCg -5'
22254 3' -57.2 NC_005045.1 + 23413 0.71 0.30063
Target:  5'- cUCAgCCGGCCCCGguagCUCcgccgGCUGcGGGUg -3'
miRNA:   3'- -GGUaGGCCGGGGUa---GAG-----CGACuUCCG- -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.