miRNA display CGI


Results 1 - 20 of 26 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
7999 5' -56.9 NC_001973.1 + 134960 0.66 0.855769
Target:  5'- uGAGCgaacgccgGGUCGGCGaUCGAGUACg---- -3'
miRNA:   3'- -CUCGa-------CCAGCCGC-GGUUCGUGauguu -5'
7999 5' -56.9 NC_001973.1 + 53847 0.66 0.847783
Target:  5'- cGAGCUcgccccggcggcGG-CGGCGCCGccgAGCGCgGCGg -3'
miRNA:   3'- -CUCGA------------CCaGCCGCGGU---UCGUGaUGUu -5'
7999 5' -56.9 NC_001973.1 + 52160 0.66 0.847783
Target:  5'- cAGCcGGUgGGCGCCGuacuuggcgacgAGCGCgGCGGg -3'
miRNA:   3'- cUCGaCCAgCCGCGGU------------UCGUGaUGUU- -5'
7999 5' -56.9 NC_001973.1 + 7861 0.66 0.813904
Target:  5'- cGAGCUGG-C-GCGCCAgGGCGCguuuUGCAAc -3'
miRNA:   3'- -CUCGACCaGcCGCGGU-UCGUG----AUGUU- -5'
7999 5' -56.9 NC_001973.1 + 5319 0.66 0.813904
Target:  5'- -uGCaGGUUGGUGCCGucGCugUGCGc -3'
miRNA:   3'- cuCGaCCAGCCGCGGUu-CGugAUGUu -5'
7999 5' -56.9 NC_001973.1 + 14353 0.67 0.804088
Target:  5'- uGGCgUGGUCGGCGUgGucgacggGGCGCgGCGAg -3'
miRNA:   3'- cUCG-ACCAGCCGCGgU-------UCGUGaUGUU- -5'
7999 5' -56.9 NC_001973.1 + 124551 0.67 0.789468
Target:  5'- cGGCUGGUgGuacgacaaguuuuGCgucgucgccuacgcgGCCAAGCACUACAAg -3'
miRNA:   3'- cUCGACCAgC-------------CG---------------CGGUUCGUGAUGUU- -5'
7999 5' -56.9 NC_001973.1 + 51851 0.68 0.758178
Target:  5'- cGAGCUGGgCGcCGUCGAGCAC-ACGc -3'
miRNA:   3'- -CUCGACCaGCcGCGGUUCGUGaUGUu -5'
7999 5' -56.9 NC_001973.1 + 58977 0.68 0.748434
Target:  5'- --cUUGGaCGGCGCCGAGCACa---- -3'
miRNA:   3'- cucGACCaGCCGCGGUUCGUGauguu -5'
7999 5' -56.9 NC_001973.1 + 5880 0.68 0.728639
Target:  5'- aGGCUGGUgCGGCGC--AGCGCgcGCGAc -3'
miRNA:   3'- cUCGACCA-GCCGCGguUCGUGa-UGUU- -5'
7999 5' -56.9 NC_001973.1 + 141267 0.68 0.728639
Target:  5'- cGAGCUGGagagCGGgGCCAAuacGUACaGCGAg -3'
miRNA:   3'- -CUCGACCa---GCCgCGGUU---CGUGaUGUU- -5'
7999 5' -56.9 NC_001973.1 + 101623 0.69 0.696287
Target:  5'- uGGGCggcacgaucucGUUGGCGCCGuugaAGCACUGCAc -3'
miRNA:   3'- -CUCGac---------CAGCCGCGGU----UCGUGAUGUu -5'
7999 5' -56.9 NC_001973.1 + 83085 0.7 0.636411
Target:  5'- cGAGCggcGG-CGGCGCCGucGCGCUcauGCAAg -3'
miRNA:   3'- -CUCGa--CCaGCCGCGGUu-CGUGA---UGUU- -5'
7999 5' -56.9 NC_001973.1 + 56541 0.7 0.636411
Target:  5'- nGGGCgGGcUCGGCGCCGAGCucgAUAu -3'
miRNA:   3'- -CUCGaCC-AGCCGCGGUUCGugaUGUu -5'
7999 5' -56.9 NC_001973.1 + 143407 0.7 0.626028
Target:  5'- cGGGCaGGUUGGUGUCGAuGCGCUugAu -3'
miRNA:   3'- -CUCGaCCAGCCGCGGUU-CGUGAugUu -5'
7999 5' -56.9 NC_001973.1 + 56212 0.7 0.615651
Target:  5'- cGGC--GUCGGCGCCGGGCGCgaUGCGu -3'
miRNA:   3'- cUCGacCAGCCGCGGUUCGUG--AUGUu -5'
7999 5' -56.9 NC_001973.1 + 37897 0.7 0.605286
Target:  5'- --cUUGGagGGCGCCGGGCGCgGCAAg -3'
miRNA:   3'- cucGACCagCCGCGGUUCGUGaUGUU- -5'
7999 5' -56.9 NC_001973.1 + 5162 0.71 0.584625
Target:  5'- cAGCUGGUUGGUGUCcggcgcGAGCcACUGCGg -3'
miRNA:   3'- cUCGACCAGCCGCGG------UUCG-UGAUGUu -5'
7999 5' -56.9 NC_001973.1 + 64614 0.71 0.564106
Target:  5'- cGGCgaaaGUCGGCGCCGAGCAaaagACGGa -3'
miRNA:   3'- cUCGac--CAGCCGCGGUUCGUga--UGUU- -5'
7999 5' -56.9 NC_001973.1 + 146059 0.71 0.553916
Target:  5'- aGGUUGGgccgCGGCGCCGAGCcgGCUcggGCGGg -3'
miRNA:   3'- cUCGACCa---GCCGCGGUUCG--UGA---UGUU- -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.