miRNA display CGI


Results 1 - 20 of 37 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
16300 3' -56.8 NC_004084.1 + 11737 0.66 0.692531
Target:  5'- -gGCGACGUGCUCgaAUCGCGgaCUGUgGc -3'
miRNA:   3'- gaCGCUGCACGAG--UGGCGCa-GGUAgC- -5'
16300 3' -56.8 NC_004084.1 + 31496 0.66 0.68188
Target:  5'- -cGCGAUGgagGCagUCGCCGCcUCCAcuaUCGc -3'
miRNA:   3'- gaCGCUGCa--CG--AGUGGCGcAGGU---AGC- -5'
16300 3' -56.8 NC_004084.1 + 6777 0.66 0.660452
Target:  5'- cCUGCggaacgccgaaGACGUcggggaucaGCUC-CCGCG-CCGUCGa -3'
miRNA:   3'- -GACG-----------CUGCA---------CGAGuGGCGCaGGUAGC- -5'
16300 3' -56.8 NC_004084.1 + 16726 0.66 0.649694
Target:  5'- -cGgGACGcGCUCGCCG-GUCUgcAUCGc -3'
miRNA:   3'- gaCgCUGCaCGAGUGGCgCAGG--UAGC- -5'
16300 3' -56.8 NC_004084.1 + 32056 0.67 0.628143
Target:  5'- -gGCGAUGgauucGgUUGCgGCGUCCAUCa -3'
miRNA:   3'- gaCGCUGCa----CgAGUGgCGCAGGUAGc -5'
16300 3' -56.8 NC_004084.1 + 6676 0.67 0.628143
Target:  5'- gCUuCGGCGcUGCUCGaCGaCGUCCAUCu -3'
miRNA:   3'- -GAcGCUGC-ACGAGUgGC-GCAGGUAGc -5'
16300 3' -56.8 NC_004084.1 + 22486 0.67 0.628143
Target:  5'- -gGCGACGccggggacaUGCUCgugaACCGCGUCauccUCGa -3'
miRNA:   3'- gaCGCUGC---------ACGAG----UGGCGCAGgu--AGC- -5'
16300 3' -56.8 NC_004084.1 + 11690 0.67 0.617368
Target:  5'- -aGCGACGU-CUaCACgGCGUcggaagCCAUCGa -3'
miRNA:   3'- gaCGCUGCAcGA-GUGgCGCA------GGUAGC- -5'
16300 3' -56.8 NC_004084.1 + 40251 0.67 0.585151
Target:  5'- -aGUGACGUGCUCGaucuCCauCGUCCAcUCGc -3'
miRNA:   3'- gaCGCUGCACGAGU----GGc-GCAGGU-AGC- -5'
16300 3' -56.8 NC_004084.1 + 38207 0.67 0.585151
Target:  5'- -cGuCGACGUGCUugCGCCGgaaUGuUCCAUCGu -3'
miRNA:   3'- gaC-GCUGCACGA--GUGGC---GC-AGGUAGC- -5'
16300 3' -56.8 NC_004084.1 + 26351 0.67 0.574477
Target:  5'- uUGCGAUGaUGgaCGCCGCaaccgaaUCCAUCGc -3'
miRNA:   3'- gACGCUGC-ACgaGUGGCGc------AGGUAGC- -5'
16300 3' -56.8 NC_004084.1 + 24052 0.67 0.574477
Target:  5'- -gGCGAUGgacGCggUUGCgGCGUCCAUCa -3'
miRNA:   3'- gaCGCUGCa--CG--AGUGgCGCAGGUAGc -5'
16300 3' -56.8 NC_004084.1 + 26526 0.68 0.553271
Target:  5'- -cGCGAgGguggagGCacUUACCGCGUCCAUgGc -3'
miRNA:   3'- gaCGCUgCa-----CG--AGUGGCGCAGGUAgC- -5'
16300 3' -56.8 NC_004084.1 + 20987 0.68 0.546954
Target:  5'- -cGCGA-GUGC-CGCCGCuaucgagauccaagcGUCCAUCa -3'
miRNA:   3'- gaCGCUgCACGaGUGGCG---------------CAGGUAGc -5'
16300 3' -56.8 NC_004084.1 + 41118 0.68 0.542755
Target:  5'- uCU-CGAUGUGCUCGCCGCcaCCGcCGc -3'
miRNA:   3'- -GAcGCUGCACGAGUGGCGcaGGUaGC- -5'
16300 3' -56.8 NC_004084.1 + 34363 0.68 0.532306
Target:  5'- aUG-GACGccGCa-ACCGCGUCCAUCGc -3'
miRNA:   3'- gACgCUGCa-CGagUGGCGCAGGUAGC- -5'
16300 3' -56.8 NC_004084.1 + 46823 0.69 0.50142
Target:  5'- -gGCGGCucuucuucugcuGUGCccacgaUCGCCGCGUCCGUg- -3'
miRNA:   3'- gaCGCUG------------CACG------AGUGGCGCAGGUAgc -5'
16300 3' -56.8 NC_004084.1 + 32283 0.7 0.432736
Target:  5'- cCUG-GGCGUGCUCACCgacaacGCGaUCGUCGc -3'
miRNA:   3'- -GACgCUGCACGAGUGG------CGCaGGUAGC- -5'
16300 3' -56.8 NC_004084.1 + 31071 0.7 0.405018
Target:  5'- gCUGaGACGUcguccgGCcCACCGCGUCCcUCGa -3'
miRNA:   3'- -GACgCUGCA------CGaGUGGCGCAGGuAGC- -5'
16300 3' -56.8 NC_004084.1 + 26565 0.71 0.39603
Target:  5'- ---gGACGUaCUUACCGCGUCCAUgGc -3'
miRNA:   3'- gacgCUGCAcGAGUGGCGCAGGUAgC- -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.