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
11586 5' -58.9 NC_003085.1 + 22576 0.66 0.48516
Target:  5'- uGCGGCUuccgauguCGGUGCCgucCGUCGCCa-- -3'
miRNA:   3'- uCGUCGG--------GCCACGGaa-GUAGUGGccu -5'
11586 5' -58.9 NC_003085.1 + 43657 0.66 0.483135
Target:  5'- cAGCAGCCCGGgggGCgggguugCAgCGGAg -3'
miRNA:   3'- -UCGUCGGGCCa--CGgaagua-GUgGCCU- -5'
11586 5' -58.9 NC_003085.1 + 41358 0.66 0.475078
Target:  5'- cGGCAGgCCGG-GCCg-CGUCACCc-- -3'
miRNA:   3'- -UCGUCgGGCCaCGGaaGUAGUGGccu -5'
11586 5' -58.9 NC_003085.1 + 11779 0.66 0.465101
Target:  5'- cGGCGGCgccgcgcuCCGGgcgugucggcUGCCc-CAUCGCCGGGu -3'
miRNA:   3'- -UCGUCG--------GGCC----------ACGGaaGUAGUGGCCU- -5'
11586 5' -58.9 NC_003085.1 + 36909 0.66 0.459168
Target:  5'- aGGCAGCguguaGGUGCCaacggaguugcgugUCGcgcUCGCCGGAg -3'
miRNA:   3'- -UCGUCGgg---CCACGGa-------------AGU---AGUGGCCU- -5'
11586 5' -58.9 NC_003085.1 + 17845 0.66 0.455235
Target:  5'- gGGCAGUgCUGGUGCCcgCAggCGCCGu- -3'
miRNA:   3'- -UCGUCG-GGCCACGGaaGUa-GUGGCcu -5'
11586 5' -58.9 NC_003085.1 + 48960 0.66 0.445483
Target:  5'- cGGUccGGCCCGcGcGCCUUCAUCuCCGc- -3'
miRNA:   3'- -UCG--UCGGGC-CaCGGAAGUAGuGGCcu -5'
11586 5' -58.9 NC_003085.1 + 30002 0.66 0.445483
Target:  5'- gAGCGGCCCuGGgcgGCCUUggcgaCGUCGuCCGcGGc -3'
miRNA:   3'- -UCGUCGGG-CCa--CGGAA-----GUAGU-GGC-CU- -5'
11586 5' -58.9 NC_003085.1 + 5252 0.66 0.445483
Target:  5'- cGGCGccGCCC--UGCCUUCcgCGCCaGGAu -3'
miRNA:   3'- -UCGU--CGGGccACGGAAGuaGUGG-CCU- -5'
11586 5' -58.9 NC_003085.1 + 17604 0.67 0.426336
Target:  5'- uGCuGCuCCGccGUGCCUUCcGUCgcguGCCGGAg -3'
miRNA:   3'- uCGuCG-GGC--CACGGAAG-UAG----UGGCCU- -5'
11586 5' -58.9 NC_003085.1 + 25211 0.68 0.363369
Target:  5'- gAGCAGUacggCUGGUaCC-UCAUCACCGGc -3'
miRNA:   3'- -UCGUCG----GGCCAcGGaAGUAGUGGCCu -5'
11586 5' -58.9 NC_003085.1 + 41423 0.68 0.35828
Target:  5'- cGCGGCCCGGccUGCCguagaaggccaaGUCcCCGGGc -3'
miRNA:   3'- uCGUCGGGCC--ACGGaag---------UAGuGGCCU- -5'
11586 5' -58.9 NC_003085.1 + 29965 0.68 0.346602
Target:  5'- cAGCAGCCCuccgGCaagcagUCAUCcACCGGAu -3'
miRNA:   3'- -UCGUCGGGcca-CGga----AGUAG-UGGCCU- -5'
11586 5' -58.9 NC_003085.1 + 22117 0.68 0.338428
Target:  5'- cAGCagAGCCCGGcGCCg-CAgcaGCCGGAc -3'
miRNA:   3'- -UCG--UCGGGCCaCGGaaGUag-UGGCCU- -5'
11586 5' -58.9 NC_003085.1 + 16652 0.7 0.28517
Target:  5'- aAGUAGCCCGGgucGUCgcaGUgGCCGGGc -3'
miRNA:   3'- -UCGUCGGGCCa--CGGaagUAgUGGCCU- -5'
11586 5' -58.9 NC_003085.1 + 11347 0.71 0.238752
Target:  5'- aAGCcgGGCCCacucUGCCUUCGaggugUCACCGGAc -3'
miRNA:   3'- -UCG--UCGGGcc--ACGGAAGU-----AGUGGCCU- -5'
11586 5' -58.9 NC_003085.1 + 26734 0.72 0.204147
Target:  5'- cGCGGCgCCGGUGCUgUCAcUCaACCGGc -3'
miRNA:   3'- uCGUCG-GGCCACGGaAGU-AG-UGGCCu -5'
11586 5' -58.9 NC_003085.1 + 24215 0.73 0.164837
Target:  5'- aAGCAGUacgCGGUGCCcgucgUCAUCAgCGGGu -3'
miRNA:   3'- -UCGUCGg--GCCACGGa----AGUAGUgGCCU- -5'
11586 5' -58.9 NC_003085.1 + 23281 0.74 0.151936
Target:  5'- gAGCAGCCCGGccacUGCCUUCAcagggUC-CUGGc -3'
miRNA:   3'- -UCGUCGGGCC----ACGGAAGU-----AGuGGCCu -5'
11586 5' -58.9 NC_003085.1 + 35948 0.77 0.08226
Target:  5'- cGCGGCCCGGUGUCaUCGcgUACUGGAc -3'
miRNA:   3'- uCGUCGGGCCACGGaAGUa-GUGGCCU- -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.