miRNA display CGI


Results 1 - 16 of 16 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
30546 3' -56.6 NC_006548.1 + 29152 0.66 0.464439
Target:  5'- cUGCUGG-GCGGCcuggauacucGACUCC--UGCCg -3'
miRNA:   3'- cACGACCuCGCCG----------UUGAGGucAUGGa -5'
30546 3' -56.6 NC_006548.1 + 29027 0.67 0.444014
Target:  5'- -gGCUGagcuGCaGCAGCUCCAGgACCa -3'
miRNA:   3'- caCGACcu--CGcCGUUGAGGUCaUGGa -5'
30546 3' -56.6 NC_006548.1 + 32756 0.67 0.433993
Target:  5'- -gGCUGGGGCgGGCGgaucugggcGCUgCCGGUgugGCCg -3'
miRNA:   3'- caCGACCUCG-CCGU---------UGA-GGUCA---UGGa -5'
30546 3' -56.6 NC_006548.1 + 29664 0.68 0.395266
Target:  5'- gGUGCcGGuGCGGCAGgUgCGGcUGCCg -3'
miRNA:   3'- -CACGaCCuCGCCGUUgAgGUC-AUGGa -5'
30546 3' -56.6 NC_006548.1 + 25777 0.68 0.395266
Target:  5'- gGUaCUGGAGuuGCcGCUCCAGcACCUg -3'
miRNA:   3'- -CAcGACCUCgcCGuUGAGGUCaUGGA- -5'
30546 3' -56.6 NC_006548.1 + 15184 0.68 0.380412
Target:  5'- uUGCUGGAcauacuguggauacgGCGGCcauuggcgAACUCCAGgacguagGCCg -3'
miRNA:   3'- cACGACCU---------------CGCCG--------UUGAGGUCa------UGGa -5'
30546 3' -56.6 NC_006548.1 + 37425 0.68 0.367725
Target:  5'- -cGCUGGuG-GGCAACgggugCCAGUACg- -3'
miRNA:   3'- caCGACCuCgCCGUUGa----GGUCAUGga -5'
30546 3' -56.6 NC_006548.1 + 27756 0.68 0.367725
Target:  5'- -gGCUGGuGuUGaGCAGCUCCAG-GCCa -3'
miRNA:   3'- caCGACCuC-GC-CGUUGAGGUCaUGGa -5'
30546 3' -56.6 NC_006548.1 + 27348 0.69 0.350111
Target:  5'- -aGCaGGAGCGGCAGuugaccgagcauUUCCGGgcggGCCg -3'
miRNA:   3'- caCGaCCUCGCCGUU------------GAGGUCa---UGGa -5'
30546 3' -56.6 NC_006548.1 + 1482 0.69 0.349246
Target:  5'- -gGCagUGGAGUGGUAgcGCUCCAugucaguGUACCUc -3'
miRNA:   3'- caCG--ACCUCGCCGU--UGAGGU-------CAUGGA- -5'
30546 3' -56.6 NC_006548.1 + 16993 0.69 0.333105
Target:  5'- cUGCUGGaAGCcgGGC-GCUCCGGgACCg -3'
miRNA:   3'- cACGACC-UCG--CCGuUGAGGUCaUGGa -5'
30546 3' -56.6 NC_006548.1 + 29701 0.7 0.300936
Target:  5'- -cGCUGGcAGCGGCA---CCAGcACCUg -3'
miRNA:   3'- caCGACC-UCGCCGUugaGGUCaUGGA- -5'
30546 3' -56.6 NC_006548.1 + 2274 0.7 0.27842
Target:  5'- gGUGCUGGAGCGaCAGCUgCAGaagGCg- -3'
miRNA:   3'- -CACGACCUCGCcGUUGAgGUCa--UGga -5'
30546 3' -56.6 NC_006548.1 + 26096 0.72 0.213027
Target:  5'- -aGgUGGGGCGGCAcuguucuuccuACggCCGGUGCCg -3'
miRNA:   3'- caCgACCUCGCCGU-----------UGa-GGUCAUGGa -5'
30546 3' -56.6 NC_006548.1 + 14383 0.79 0.070718
Target:  5'- -aGCUGGAGCGGCGGCUggcggcaauucgugCCAGcACCg -3'
miRNA:   3'- caCGACCUCGCCGUUGA--------------GGUCaUGGa -5'
30546 3' -56.6 NC_006548.1 + 25715 1.08 0.000466
Target:  5'- gGUGCUGGAGCGGCAACUCCAGUACCUg -3'
miRNA:   3'- -CACGACCUCGCCGUUGAGGUCAUGGA- -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.