miRNA display CGI


Results 1 - 18 of 18 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
25982 3' -58.4 NC_005340.1 + 17831 0.66 0.391983
Target:  5'- cGCCAgaaaugcaggcgcUgcGCaaacaGGCGCGCCaGCuCGGUGAc -3'
miRNA:   3'- -CGGU-------------AaaCGg----CUGCGCGG-CG-GCCACU- -5'
25982 3' -58.4 NC_005340.1 + 17685 0.66 0.383747
Target:  5'- uGCCGguaacaugGCCGcagcAgGCGCUGCCGGg-- -3'
miRNA:   3'- -CGGUaaa-----CGGC----UgCGCGGCGGCCacu -5'
25982 3' -58.4 NC_005340.1 + 20410 0.66 0.374731
Target:  5'- gGUCAgg-GUaucaGGCGCGCC-CCGGUGc -3'
miRNA:   3'- -CGGUaaaCGg---CUGCGCGGcGGCCACu -5'
25982 3' -58.4 NC_005340.1 + 9385 0.66 0.374731
Target:  5'- uGCCGUcgggUGCCugcugucgccuGAUGCGCUGCUGcUGAc -3'
miRNA:   3'- -CGGUAa---ACGG-----------CUGCGCGGCGGCcACU- -5'
25982 3' -58.4 NC_005340.1 + 20722 0.66 0.36586
Target:  5'- uGCCA-UUGCCGAC-CGCgGagcuuauaCCGGUGu -3'
miRNA:   3'- -CGGUaAACGGCUGcGCGgC--------GGCCACu -5'
25982 3' -58.4 NC_005340.1 + 8559 0.66 0.36586
Target:  5'- cCCGc--GCCGcCuGCGCCagcGCCGGUGAu -3'
miRNA:   3'- cGGUaaaCGGCuG-CGCGG---CGGCCACU- -5'
25982 3' -58.4 NC_005340.1 + 9357 0.66 0.36586
Target:  5'- cCCGUaUGCCGcccgaaaGCGCCaGUCGGUGc -3'
miRNA:   3'- cGGUAaACGGCug-----CGCGG-CGGCCACu -5'
25982 3' -58.4 NC_005340.1 + 2816 0.67 0.348557
Target:  5'- -aCAUcaGUCacaGCGCGCuCGCCGGUGGg -3'
miRNA:   3'- cgGUAaaCGGc--UGCGCG-GCGGCCACU- -5'
25982 3' -58.4 NC_005340.1 + 11750 0.67 0.340126
Target:  5'- uGCCGUg-GCUGGCGUgggcguuuucuGUCGaCCGGUGGg -3'
miRNA:   3'- -CGGUAaaCGGCUGCG-----------CGGC-GGCCACU- -5'
25982 3' -58.4 NC_005340.1 + 14345 0.67 0.339292
Target:  5'- gGCCAUccucugaUUGaaGAUGCGCCGCacCGGcGAa -3'
miRNA:   3'- -CGGUA-------AACggCUGCGCGGCG--GCCaCU- -5'
25982 3' -58.4 NC_005340.1 + 6279 0.69 0.264017
Target:  5'- cGCU---UGCCGcacugcgucuGCGCGauGCCGGUGAa -3'
miRNA:   3'- -CGGuaaACGGC----------UGCGCggCGGCCACU- -5'
25982 3' -58.4 NC_005340.1 + 5674 0.69 0.244047
Target:  5'- gGCaggUUGCCGAUGCGCUuCUGGcUGAu -3'
miRNA:   3'- -CGguaAACGGCUGCGCGGcGGCC-ACU- -5'
25982 3' -58.4 NC_005340.1 + 12147 0.7 0.225349
Target:  5'- cGCCAUc-GCagGACaCGCCGCCGGUa- -3'
miRNA:   3'- -CGGUAaaCGg-CUGcGCGGCGGCCAcu -5'
25982 3' -58.4 NC_005340.1 + 6714 0.7 0.207881
Target:  5'- cCCGcUUUGaCCGGCGUGCCGcCCGGcucggGAg -3'
miRNA:   3'- cGGU-AAAC-GGCUGCGCGGC-GGCCa----CU- -5'
25982 3' -58.4 NC_005340.1 + 11154 0.73 0.141129
Target:  5'- gGCCGUagUGCUGACGgGCgCGUCGGcGAu -3'
miRNA:   3'- -CGGUAa-ACGGCUGCgCG-GCGGCCaCU- -5'
25982 3' -58.4 NC_005340.1 + 6078 0.74 0.119023
Target:  5'- uGCCGUUcuaugcGCCGugG-GUCGCCGGUGu -3'
miRNA:   3'- -CGGUAAa-----CGGCugCgCGGCGGCCACu -5'
25982 3' -58.4 NC_005340.1 + 2492 0.84 0.018425
Target:  5'- uGCCGgaugUGUCGuacuCGCGCCGCCGGUGGu -3'
miRNA:   3'- -CGGUaa--ACGGCu---GCGCGGCGGCCACU- -5'
25982 3' -58.4 NC_005340.1 + 9315 1.1 0.000187
Target:  5'- cGCCAUUUGCCGACGCGCCGCCGGUGAc -3'
miRNA:   3'- -CGGUAAACGGCUGCGCGGCGGCCACU- -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.