miRNA display CGI


Results 1 - 19 of 19 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
16444 5' -56.5 NC_004084.1 + 7248 0.66 0.70826
Target:  5'- -aUCGGCgc-GUGCUCGGcGACCGUCu -3'
miRNA:   3'- gaGGUCGaccCAUGAGCU-CUGGCAGc -5'
16444 5' -56.5 NC_004084.1 + 1642 0.66 0.687026
Target:  5'- uUCUGGCgGGaGUACUCGcucgucaucauGGGCuCGUCGg -3'
miRNA:   3'- gAGGUCGaCC-CAUGAGC-----------UCUG-GCAGC- -5'
16444 5' -56.5 NC_004084.1 + 5412 0.66 0.676327
Target:  5'- aUCCAGUa-GGU-CUCGuGGCCGUCc -3'
miRNA:   3'- gAGGUCGacCCAuGAGCuCUGGCAGc -5'
16444 5' -56.5 NC_004084.1 + 45395 0.66 0.676327
Target:  5'- gUCCGGUcgUGaaGGUguuGCUCGAGGUCGUCGa -3'
miRNA:   3'- gAGGUCG--AC--CCA---UGAGCUCUGGCAGC- -5'
16444 5' -56.5 NC_004084.1 + 21074 0.66 0.676327
Target:  5'- uUCgAGCUGGGcguCgUCGGGAUCGcCGa -3'
miRNA:   3'- gAGgUCGACCCau-G-AGCUCUGGCaGC- -5'
16444 5' -56.5 NC_004084.1 + 32622 0.67 0.64403
Target:  5'- aCUCCAGCgaUGcGGaGgaCGAGACgGUCGu -3'
miRNA:   3'- -GAGGUCG--AC-CCaUgaGCUCUGgCAGC- -5'
16444 5' -56.5 NC_004084.1 + 39550 0.67 0.64403
Target:  5'- uCUCCAGagaucucaaCUGcGUACUCGAGcaGCuCGUCGa -3'
miRNA:   3'- -GAGGUC---------GACcCAUGAGCUC--UG-GCAGC- -5'
16444 5' -56.5 NC_004084.1 + 52454 0.67 0.600862
Target:  5'- cCUCCGgcGCUGGGUugUacaucgccugGAcGCCGUCGg -3'
miRNA:   3'- -GAGGU--CGACCCAugAg---------CUcUGGCAGC- -5'
16444 5' -56.5 NC_004084.1 + 5697 0.67 0.590113
Target:  5'- gUCC-GCUGGGUugagUUCGAGGaCGUCGc -3'
miRNA:   3'- gAGGuCGACCCAu---GAGCUCUgGCAGC- -5'
16444 5' -56.5 NC_004084.1 + 56719 0.68 0.579398
Target:  5'- cCUCC-GCUGGG-ACUCG-GACguccuucgCGUCGa -3'
miRNA:   3'- -GAGGuCGACCCaUGAGCuCUG--------GCAGC- -5'
16444 5' -56.5 NC_004084.1 + 35010 0.69 0.516244
Target:  5'- -aUCAGCUGGG--CUCGAGuuUCGUCGu -3'
miRNA:   3'- gaGGUCGACCCauGAGCUCu-GGCAGC- -5'
16444 5' -56.5 NC_004084.1 + 10740 0.69 0.505972
Target:  5'- uUCCGGUUGGGgauccgGCUCGccagugGGGgCGUCGc -3'
miRNA:   3'- gAGGUCGACCCa-----UGAGC------UCUgGCAGC- -5'
16444 5' -56.5 NC_004084.1 + 22735 0.69 0.499851
Target:  5'- -gCCAGUUGGGgugagaUGCUCGAccuucgcguuacgugGACCGUUGc -3'
miRNA:   3'- gaGGUCGACCC------AUGAGCU---------------CUGGCAGC- -5'
16444 5' -56.5 NC_004084.1 + 56505 0.7 0.436818
Target:  5'- -aCCAGCUGGGU-CUUGAuGuCgGUCGg -3'
miRNA:   3'- gaGGUCGACCCAuGAGCU-CuGgCAGC- -5'
16444 5' -56.5 NC_004084.1 + 13615 0.73 0.309
Target:  5'- -aCCGaCcGGGUGgUCGGGACCGUCGu -3'
miRNA:   3'- gaGGUcGaCCCAUgAGCUCUGGCAGC- -5'
16444 5' -56.5 NC_004084.1 + 39821 0.74 0.262509
Target:  5'- uCUCCGGCUuuGUGCUCGugaucucaccgaagcAGACCGUCGc -3'
miRNA:   3'- -GAGGUCGAccCAUGAGC---------------UCUGGCAGC- -5'
16444 5' -56.5 NC_004084.1 + 1795 0.74 0.253409
Target:  5'- gUUCGGCUGGuUGUUCGGGACCGUCu -3'
miRNA:   3'- gAGGUCGACCcAUGAGCUCUGGCAGc -5'
16444 5' -56.5 NC_004084.1 + 46184 0.75 0.240861
Target:  5'- -cCCAGCUGGuagGCggCGAGAUCGUCGu -3'
miRNA:   3'- gaGGUCGACCca-UGa-GCUCUGGCAGC- -5'
16444 5' -56.5 NC_004084.1 + 38591 1.08 0.00101
Target:  5'- aCUCCAGCUGGGUACUCGAGACCGUCGc -3'
miRNA:   3'- -GAGGUCGACCCAUGAGCUCUGGCAGC- -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.