miRNA display CGI


Results 1 - 20 of 25 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
19668 3' -64 NC_004686.1 + 17004 0.66 0.326875
Target:  5'- cGGCGGGuCGGCGuaaucauggguGCGGacugGugGaucGCUCCc -3'
miRNA:   3'- -CCGCCC-GCCGU-----------CGCCa---CugC---CGAGGu -5'
19668 3' -64 NC_004686.1 + 28848 0.66 0.326875
Target:  5'- gGGuuGGCGGCgaAGUGGUcguuGACGGUguucgCCGg -3'
miRNA:   3'- -CCgcCCGCCG--UCGCCA----CUGCCGa----GGU- -5'
19668 3' -64 NC_004686.1 + 81 0.66 0.304913
Target:  5'- cGGCGGGCugaGGUucgccGGC-GUGACGgggacGCUCCGu -3'
miRNA:   3'- -CCGCCCG---CCG-----UCGcCACUGC-----CGAGGU- -5'
19668 3' -64 NC_004686.1 + 28786 0.66 0.297848
Target:  5'- cGGCGGGUGucGCcGCGGUGuuguUGGUguUCCu -3'
miRNA:   3'- -CCGCCCGC--CGuCGCCACu---GCCG--AGGu -5'
19668 3' -64 NC_004686.1 + 13322 0.66 0.297848
Target:  5'- aGGCGGGCugGGguGaGGUGGaGGUgUCCAa -3'
miRNA:   3'- -CCGCCCG--CCguCgCCACUgCCG-AGGU- -5'
19668 3' -64 NC_004686.1 + 16893 0.67 0.251938
Target:  5'- cGCGGGCacgcugcacgGuGCGGUGGUGGCaGC-CCAg -3'
miRNA:   3'- cCGCCCG----------C-CGUCGCCACUGcCGaGGU- -5'
19668 3' -64 NC_004686.1 + 19211 0.67 0.245876
Target:  5'- uGUGGGCGGCAaUGGUGGCGaCaCCGu -3'
miRNA:   3'- cCGCCCGCCGUcGCCACUGCcGaGGU- -5'
19668 3' -64 NC_004686.1 + 178 0.68 0.239936
Target:  5'- uGGCGGGUgccgGGCgGGUGGgcGACGGUgCCGu -3'
miRNA:   3'- -CCGCCCG----CCG-UCGCCa-CUGCCGaGGU- -5'
19668 3' -64 NC_004686.1 + 10428 0.68 0.228416
Target:  5'- gGGCGucguuGGUGGUggugaauucGGCGGUGACGGg-CCGg -3'
miRNA:   3'- -CCGC-----CCGCCG---------UCGCCACUGCCgaGGU- -5'
19668 3' -64 NC_004686.1 + 3431 0.68 0.222833
Target:  5'- uGCGGGUaugaagcaguuGGCGGCGGUGccgUGGCUUg- -3'
miRNA:   3'- cCGCCCG-----------CCGUCGCCACu--GCCGAGgu -5'
19668 3' -64 NC_004686.1 + 11928 0.69 0.206778
Target:  5'- cGGUGGGCaacccguccagGGCAGUgauGGUGcCGcGCUCCc -3'
miRNA:   3'- -CCGCCCG-----------CCGUCG---CCACuGC-CGAGGu -5'
19668 3' -64 NC_004686.1 + 3743 0.69 0.206778
Target:  5'- uGGC-GGCGGCGGCGGacugguacGACGaGCUgCGu -3'
miRNA:   3'- -CCGcCCGCCGUCGCCa-------CUGC-CGAgGU- -5'
19668 3' -64 NC_004686.1 + 19375 0.69 0.20369
Target:  5'- uGGCGGGCGGgcaucagaaggugccCAGUGGUGGUGGUaUCGc -3'
miRNA:   3'- -CCGCCCGCC---------------GUCGCCACUGCCGaGGU- -5'
19668 3' -64 NC_004686.1 + 36660 0.69 0.185046
Target:  5'- cGGCGGcGuCGGCGGCGucguaucaacCGGCUCCGg -3'
miRNA:   3'- -CCGCC-C-GCCGUCGCcacu------GCCGAGGU- -5'
19668 3' -64 NC_004686.1 + 21982 0.7 0.179479
Target:  5'- cGGCGGcGCuGGCGGUgccaaggcguauuccGGUGACGGCa--- -3'
miRNA:   3'- -CCGCC-CG-CCGUCG---------------CCACUGCCGaggu -5'
19668 3' -64 NC_004686.1 + 1025 0.7 0.160321
Target:  5'- uGGUGGGCGuCGGCGGcUGcCGGUUCgAg -3'
miRNA:   3'- -CCGCCCGCcGUCGCC-ACuGCCGAGgU- -5'
19668 3' -64 NC_004686.1 + 18275 0.71 0.148336
Target:  5'- uGGUGGGUcagcacGGCAGCGG-GGCGaGcCUCCc -3'
miRNA:   3'- -CCGCCCG------CCGUCGCCaCUGC-C-GAGGu -5'
19668 3' -64 NC_004686.1 + 17647 0.71 0.137171
Target:  5'- uGCGGGCaagucgcGCAGCaGUGACGGUUCgGg -3'
miRNA:   3'- cCGCCCGc------CGUCGcCACUGCCGAGgU- -5'
19668 3' -64 NC_004686.1 + 37830 0.72 0.126784
Target:  5'- aGGCGGGCcgucgccccauGCGGCGGgacGACGGC-CCu -3'
miRNA:   3'- -CCGCCCGc----------CGUCGCCa--CUGCCGaGGu -5'
19668 3' -64 NC_004686.1 + 22249 0.72 0.126784
Target:  5'- gGGCGcuGGCGGUaagGGCGGcGGCGGCaagcugUCCAa -3'
miRNA:   3'- -CCGC--CCGCCG---UCGCCaCUGCCG------AGGU- -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.