miRNA display CGI


Results 1 - 20 of 34 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
18198 3' -56.5 NC_004680.1 + 25675 0.66 0.698287
Target:  5'- -gGCACCGGCaccg---GCCUCAUCUa -3'
miRNA:   3'- cgCGUGGUCGgcacuuaCGGAGUGGG- -5'
18198 3' -56.5 NC_004680.1 + 51533 0.66 0.698287
Target:  5'- cCGCAUccaCAGCCGaGGAaGUCUC-CCCg -3'
miRNA:   3'- cGCGUG---GUCGGCaCUUaCGGAGuGGG- -5'
18198 3' -56.5 NC_004680.1 + 37820 0.66 0.675774
Target:  5'- aGCGUGCCaaggccgauauggAGCUGUGGG-GCCgCACuCCg -3'
miRNA:   3'- -CGCGUGG-------------UCGGCACUUaCGGaGUG-GG- -5'
18198 3' -56.5 NC_004680.1 + 21576 0.66 0.666065
Target:  5'- aCGCACUcacccagcccgGGCCGgug--GCCUCAUCUg -3'
miRNA:   3'- cGCGUGG-----------UCGGCacuuaCGGAGUGGG- -5'
18198 3' -56.5 NC_004680.1 + 1641 0.66 0.661742
Target:  5'- cUGCACCAGgCGUGucauaucgaacGCCUgcgaGCCCg -3'
miRNA:   3'- cGCGUGGUCgGCACuua--------CGGAg---UGGG- -5'
18198 3' -56.5 NC_004680.1 + 30831 0.66 0.655249
Target:  5'- uGCGCgaccuGCCAGCCGUc---GCCcugcgCAUCCa -3'
miRNA:   3'- -CGCG-----UGGUCGGCAcuuaCGGa----GUGGG- -5'
18198 3' -56.5 NC_004680.1 + 22666 0.66 0.655249
Target:  5'- aGCcCACCGGCUucggguggGUGGggGCCgUCGCCg -3'
miRNA:   3'- -CGcGUGGUCGG--------CACUuaCGG-AGUGGg -5'
18198 3' -56.5 NC_004680.1 + 14261 0.66 0.644412
Target:  5'- gGUG-ACCAGCCGauguauugGGAUGCC--ACCCu -3'
miRNA:   3'- -CGCgUGGUCGGCa-------CUUACGGagUGGG- -5'
18198 3' -56.5 NC_004680.1 + 24313 0.67 0.633565
Target:  5'- aGCaCACCcGCCGUGccGGUGCCgggaaggguggUGCCCa -3'
miRNA:   3'- -CGcGUGGuCGGCAC--UUACGGa----------GUGGG- -5'
18198 3' -56.5 NC_004680.1 + 13134 0.67 0.622716
Target:  5'- uCGUACCAuCCGUGcg-GCgUCACCg -3'
miRNA:   3'- cGCGUGGUcGGCACuuaCGgAGUGGg -5'
18198 3' -56.5 NC_004680.1 + 33664 0.67 0.601051
Target:  5'- cGCGUcCaCGGCUGUGGGgauCCUCuGCCCg -3'
miRNA:   3'- -CGCGuG-GUCGGCACUUac-GGAG-UGGG- -5'
18198 3' -56.5 NC_004680.1 + 8532 0.67 0.601051
Target:  5'- -gGUGCCuGCCGggUGggUGCCa-GCCCc -3'
miRNA:   3'- cgCGUGGuCGGC--ACuuACGGagUGGG- -5'
18198 3' -56.5 NC_004680.1 + 21704 0.67 0.59997
Target:  5'- -gGCcCCGGCCGaGAAcGCCugcagcgUCACCCc -3'
miRNA:   3'- cgCGuGGUCGGCaCUUaCGG-------AGUGGG- -5'
18198 3' -56.5 NC_004680.1 + 42669 0.67 0.590253
Target:  5'- cCGCGgCugauGCCGUGccgcacCCUCACCCg -3'
miRNA:   3'- cGCGUgGu---CGGCACuuac--GGAGUGGG- -5'
18198 3' -56.5 NC_004680.1 + 34255 0.67 0.590253
Target:  5'- cUGCA-UGGCCuccaGAUGCCUCGCCCg -3'
miRNA:   3'- cGCGUgGUCGGcac-UUACGGAGUGGG- -5'
18198 3' -56.5 NC_004680.1 + 59173 0.68 0.568768
Target:  5'- uGCGCACCcucuGCaagGcGUGCCacgCGCCCa -3'
miRNA:   3'- -CGCGUGGu---CGgcaCuUACGGa--GUGGG- -5'
18198 3' -56.5 NC_004680.1 + 57419 0.68 0.568768
Target:  5'- cGCGUuucagguucGCCGGCCGgcgUGGAU-CCUUACCg -3'
miRNA:   3'- -CGCG---------UGGUCGGC---ACUUAcGGAGUGGg -5'
18198 3' -56.5 NC_004680.1 + 28183 0.68 0.568768
Target:  5'- cCGCgGCCGGUCGUGGacacccggcccGUGCUgaUCACCg -3'
miRNA:   3'- cGCG-UGGUCGGCACU-----------UACGG--AGUGGg -5'
18198 3' -56.5 NC_004680.1 + 16852 0.68 0.568768
Target:  5'- cGUGUACCGGU--UGAA--CCUCGCCCu -3'
miRNA:   3'- -CGCGUGGUCGgcACUUacGGAGUGGG- -5'
18198 3' -56.5 NC_004680.1 + 51703 0.68 0.547482
Target:  5'- cCGCAUCGGCuCGUGAAcuagcUGCCgaUCugCUu -3'
miRNA:   3'- cGCGUGGUCG-GCACUU-----ACGG--AGugGG- -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.