miRNA display CGI


Results 1 - 11 of 11 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
19285 3' -50.5 NC_004685.1 + 53288 0.66 0.957823
Target:  5'- uGCGCGCcuCGUUGaacugGGUCAgcuCCAu -3'
miRNA:   3'- -CGCGCGuuGCAACaacaaCCAGU---GGU- -5'
19285 3' -50.5 NC_004685.1 + 50450 0.66 0.949153
Target:  5'- aGCGUGCAugAUGgcGggGcUGGUCAgCCAg -3'
miRNA:   3'- -CGCGCGU--UGCaaCaaCaACCAGU-GGU- -5'
19285 3' -50.5 NC_004685.1 + 41246 0.67 0.939374
Target:  5'- gGCGCGC-GCGUUcg-GcUUGGUCGCgGa -3'
miRNA:   3'- -CGCGCGuUGCAAcaaC-AACCAGUGgU- -5'
19285 3' -50.5 NC_004685.1 + 51659 0.67 0.928461
Target:  5'- cGCGCGCGGCagca-UGUUGGccgCGCCu -3'
miRNA:   3'- -CGCGCGUUGcaacaACAACCa--GUGGu -5'
19285 3' -50.5 NC_004685.1 + 37034 0.67 0.922575
Target:  5'- aGCGUGUuguaguucucGAUGUagacgccggUGUUGUUGGUCGgcCCAg -3'
miRNA:   3'- -CGCGCG----------UUGCA---------ACAACAACCAGU--GGU- -5'
19285 3' -50.5 NC_004685.1 + 50500 0.69 0.873507
Target:  5'- cGCGUGCGAUGUgccccgacaUGUaccGGUCGCCGa -3'
miRNA:   3'- -CGCGCGUUGCAaca------ACAa--CCAGUGGU- -5'
19285 3' -50.5 NC_004685.1 + 41539 0.7 0.82511
Target:  5'- uUGCGCAgcuccucgguguugcGCGUcagGUcGUUGGUCGCCc -3'
miRNA:   3'- cGCGCGU---------------UGCAa--CAaCAACCAGUGGu -5'
19285 3' -50.5 NC_004685.1 + 9062 0.71 0.740833
Target:  5'- cGCGCacccGCGACGUUGc----GGUCACCGa -3'
miRNA:   3'- -CGCG----CGUUGCAACaacaaCCAGUGGU- -5'
19285 3' -50.5 NC_004685.1 + 47102 0.73 0.641839
Target:  5'- aCGCacgGCAGCGUgaaGUUGUcgaacacacUGGUCACCGa -3'
miRNA:   3'- cGCG---CGUUGCAa--CAACA---------ACCAGUGGU- -5'
19285 3' -50.5 NC_004685.1 + 30449 0.77 0.457763
Target:  5'- uCGCGC--CGUUGUUGccGGUCACCGa -3'
miRNA:   3'- cGCGCGuuGCAACAACaaCCAGUGGU- -5'
19285 3' -50.5 NC_004685.1 + 60582 1.12 0.002714
Target:  5'- cGCGCGCAACGUUGUUGUUGGUCACCAu -3'
miRNA:   3'- -CGCGCGUUGCAACAACAACCAGUGGU- -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.