miRNA display CGI


Results 1 - 13 of 13 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
18136 5' -60.3 NC_004680.1 + 37445 0.66 0.494103
Target:  5'- cGGUAaccGGCaacauuGAGGUAGGCCAGGucgguuCCGu -3'
miRNA:   3'- -CCGU---CCGg-----CUCCAUCCGGUCUcu----GGC- -5'
18136 5' -60.3 NC_004680.1 + 18589 0.66 0.474474
Target:  5'- cGGUGGGCCu-GGUAGGCCuuc--CCGg -3'
miRNA:   3'- -CCGUCCGGcuCCAUCCGGucucuGGC- -5'
18136 5' -60.3 NC_004680.1 + 13296 0.66 0.464806
Target:  5'- --gAGGuuGAGGUAGGUguGGaaugccgcGGCCGg -3'
miRNA:   3'- ccgUCCggCUCCAUCCGguCU--------CUGGC- -5'
18136 5' -60.3 NC_004680.1 + 57911 0.67 0.427207
Target:  5'- aGguGGuaGAGGUGGaaGCCGG-GGCCGu -3'
miRNA:   3'- cCguCCggCUCCAUC--CGGUCuCUGGC- -5'
18136 5' -60.3 NC_004680.1 + 5305 0.67 0.418091
Target:  5'- cGCGuccGCCGAGGUcugccGGCCAGcGGCCu -3'
miRNA:   3'- cCGUc--CGGCUCCAu----CCGGUCuCUGGc -5'
18136 5' -60.3 NC_004680.1 + 25047 0.68 0.340864
Target:  5'- aGGCAGGUCccGGUggcggugGGGCCGGucgGGAUCGg -3'
miRNA:   3'- -CCGUCCGGcuCCA-------UCCGGUC---UCUGGC- -5'
18136 5' -60.3 NC_004680.1 + 41820 0.69 0.333811
Target:  5'- cGGCGGG-CGGGGUcGGCggugUAGuGGCCGg -3'
miRNA:   3'- -CCGUCCgGCUCCAuCCG----GUCuCUGGC- -5'
18136 5' -60.3 NC_004680.1 + 32859 0.69 0.311076
Target:  5'- aGCGGGUCGGGGguucgaaacccUcacggcgcacAGGUCAGAGGCCa -3'
miRNA:   3'- cCGUCCGGCUCC-----------A----------UCCGGUCUCUGGc -5'
18136 5' -60.3 NC_004680.1 + 54985 0.7 0.289537
Target:  5'- uGGCGGGUCGGaaugaaacgucGGgcGGCCAG-GAUCa -3'
miRNA:   3'- -CCGUCCGGCU-----------CCauCCGGUCuCUGGc -5'
18136 5' -60.3 NC_004680.1 + 42720 0.71 0.237854
Target:  5'- aGGCGGGCCGcc-UGGGCCAG-GACa- -3'
miRNA:   3'- -CCGUCCGGCuccAUCCGGUCuCUGgc -5'
18136 5' -60.3 NC_004680.1 + 11122 0.72 0.197647
Target:  5'- cGGCgggagacaucgacgGGGCCGGGGggccggcuGGCCcgauggGGAGGCCGg -3'
miRNA:   3'- -CCG--------------UCCGGCUCCau------CCGG------UCUCUGGC- -5'
18136 5' -60.3 NC_004680.1 + 55133 0.74 0.153484
Target:  5'- gGGUGGGUCGAGGUGGcGUgacaCAGAGAUCa -3'
miRNA:   3'- -CCGUCCGGCUCCAUC-CG----GUCUCUGGc -5'
18136 5' -60.3 NC_004680.1 + 41086 1.09 0.000365
Target:  5'- gGGCAGGCCGAGGUAGGCCAGAGACCGc -3'
miRNA:   3'- -CCGUCCGGCUCCAUCCGGUCUCUGGC- -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.