miRNA display CGI


Results 1 - 20 of 21 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
16367 5' -57.6 NC_004084.1 + 22844 0.65 0.646203
Target:  5'- -cCGAGGCGAacgUCGUuguagagcugcguccGGcggcacucgccgccgAGGUCCUCGa -3'
miRNA:   3'- caGCUCCGCU---AGCA---------------CC---------------UCCAGGAGCa -5'
16367 5' -57.6 NC_004084.1 + 50123 0.66 0.637613
Target:  5'- aGUCGAGGCccgcGAUCGUccggaugacGAGGUCgUUGUc -3'
miRNA:   3'- -CAGCUCCG----CUAGCAc--------CUCCAGgAGCA- -5'
16367 5' -57.6 NC_004084.1 + 21334 0.66 0.626872
Target:  5'- cUCGAGGuCGGUacugaCGaGGAGGaCCUCGa -3'
miRNA:   3'- cAGCUCC-GCUA-----GCaCCUCCaGGAGCa -5'
16367 5' -57.6 NC_004084.1 + 36978 0.66 0.616135
Target:  5'- uUCGAGGCGcUCGcGGAcaUCCUCa- -3'
miRNA:   3'- cAGCUCCGCuAGCaCCUccAGGAGca -5'
16367 5' -57.6 NC_004084.1 + 26373 0.66 0.605412
Target:  5'- aGUCGcguucGGGaucGUCGUaGAGGUCCUCGa -3'
miRNA:   3'- -CAGC-----UCCgc-UAGCAcCUCCAGGAGCa -5'
16367 5' -57.6 NC_004084.1 + 17994 0.67 0.58404
Target:  5'- uGUCGAG-CGuUCGUGaAGGUCuCUCGg -3'
miRNA:   3'- -CAGCUCcGCuAGCACcUCCAG-GAGCa -5'
16367 5' -57.6 NC_004084.1 + 49333 0.67 0.531405
Target:  5'- cUCGAuaucGGCGAUCGUGucGAGGUgaUCGUc -3'
miRNA:   3'- cAGCU----CCGCUAGCAC--CUCCAggAGCA- -5'
16367 5' -57.6 NC_004084.1 + 36940 0.68 0.521071
Target:  5'- -cCGAGGCGAUCGccgcccucGAGGgcgagccgguUCCUCGUc -3'
miRNA:   3'- caGCUCCGCUAGCac------CUCC----------AGGAGCA- -5'
16367 5' -57.6 NC_004084.1 + 56926 0.68 0.510817
Target:  5'- cUCGAgGGCGA-CGUcuaccaGGAGGUCgUCGa -3'
miRNA:   3'- cAGCU-CCGCUaGCA------CCUCCAGgAGCa -5'
16367 5' -57.6 NC_004084.1 + 30899 0.68 0.510817
Target:  5'- -aCGGcGCGAUCuccccggaGGAGGUCCUCGa -3'
miRNA:   3'- caGCUcCGCUAGca------CCUCCAGGAGCa -5'
16367 5' -57.6 NC_004084.1 + 16905 0.68 0.490568
Target:  5'- aGUCGuucccAGGCGAUCGUGGccGGGUgCgguUCGg -3'
miRNA:   3'- -CAGC-----UCCGCUAGCACC--UCCAgG---AGCa -5'
16367 5' -57.6 NC_004084.1 + 56898 0.68 0.470701
Target:  5'- cGUCGAcaGCGGU-GUaGAGGUCCUCGUc -3'
miRNA:   3'- -CAGCUc-CGCUAgCAcCUCCAGGAGCA- -5'
16367 5' -57.6 NC_004084.1 + 48898 0.69 0.441692
Target:  5'- -aCGgcAGGCGAUCaUGGAGGUCUgCGa -3'
miRNA:   3'- caGC--UCCGCUAGcACCUCCAGGaGCa -5'
16367 5' -57.6 NC_004084.1 + 10205 0.69 0.432249
Target:  5'- cUC-AGGCGAUCGccUGGAGGaguUCCUUGa -3'
miRNA:   3'- cAGcUCCGCUAGC--ACCUCC---AGGAGCa -5'
16367 5' -57.6 NC_004084.1 + 5712 0.69 0.432249
Target:  5'- uUCGAGGaCGucgcUCGggccGAGGUCCUCGa -3'
miRNA:   3'- cAGCUCC-GCu---AGCac--CUCCAGGAGCa -5'
16367 5' -57.6 NC_004084.1 + 14258 0.71 0.352902
Target:  5'- uGUCGAccGG-GAccagGUGGAGGUCCUCGUc -3'
miRNA:   3'- -CAGCU--CCgCUag--CACCUCCAGGAGCA- -5'
16367 5' -57.6 NC_004084.1 + 35269 0.71 0.336726
Target:  5'- -cCGAGGgGGaaguccUCGgcgcuggGGAGGUCCUCGa -3'
miRNA:   3'- caGCUCCgCU------AGCa------CCUCCAGGAGCa -5'
16367 5' -57.6 NC_004084.1 + 622 0.72 0.31349
Target:  5'- cGUUGAagcuGGCGAucucgUCGUGGAGcUCCUCGa -3'
miRNA:   3'- -CAGCU----CCGCU-----AGCACCUCcAGGAGCa -5'
16367 5' -57.6 NC_004084.1 + 52679 0.72 0.298685
Target:  5'- cGUCGAGGCGAUCaucccgaucGAGGaCCUCGg -3'
miRNA:   3'- -CAGCUCCGCUAGcac------CUCCaGGAGCa -5'
16367 5' -57.6 NC_004084.1 + 16624 0.73 0.247376
Target:  5'- cUCGAGGuCGAucgugacgcccUCGUcgucgacgucguccgGGAGGUCCUCGUc -3'
miRNA:   3'- cAGCUCC-GCU-----------AGCA---------------CCUCCAGGAGCA- -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.