miRNA display CGI


Results 1 - 18 of 18 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
23439 5' -59.4 NC_005259.1 + 51667 0.66 0.533104
Target:  5'- cGCGG-GCGcGUCGggcaCGGGC-GCGCGa -3'
miRNA:   3'- cCGCCaCGC-CAGUa---GCCCGuCGUGUa -5'
23439 5' -59.4 NC_005259.1 + 3107 0.67 0.482714
Target:  5'- aGCGG-GCGGcCAUUGcGCGGCACc- -3'
miRNA:   3'- cCGCCaCGCCaGUAGCcCGUCGUGua -5'
23439 5' -59.4 NC_005259.1 + 3175 0.67 0.463203
Target:  5'- cGGCGaUGUcaaGGUCGUCGGuGC-GCGCAc -3'
miRNA:   3'- -CCGCcACG---CCAGUAGCC-CGuCGUGUa -5'
23439 5' -59.4 NC_005259.1 + 61599 0.67 0.463203
Target:  5'- gGGcCGGUGgGGUCggCGGGgaaCAGCAgAc -3'
miRNA:   3'- -CC-GCCACgCCAGuaGCCC---GUCGUgUa -5'
23439 5' -59.4 NC_005259.1 + 65876 0.68 0.444113
Target:  5'- cGGUGGgGCGGUCaAUCG-GCGGgACGg -3'
miRNA:   3'- -CCGCCaCGCCAG-UAGCcCGUCgUGUa -5'
23439 5' -59.4 NC_005259.1 + 53537 0.68 0.444113
Target:  5'- gGGCucGGUGCccgguGUCGgcUCGGGCGGUGCGa -3'
miRNA:   3'- -CCG--CCACGc----CAGU--AGCCCGUCGUGUa -5'
23439 5' -59.4 NC_005259.1 + 59428 0.68 0.432874
Target:  5'- cGGCGGccaugaagaacgGCGGuUCGUUacgGGGCGGUACGa -3'
miRNA:   3'- -CCGCCa-----------CGCC-AGUAG---CCCGUCGUGUa -5'
23439 5' -59.4 NC_005259.1 + 39468 0.68 0.41633
Target:  5'- uGGCGa-GCcGUCGUCGcGGUAGCACGa -3'
miRNA:   3'- -CCGCcaCGcCAGUAGC-CCGUCGUGUa -5'
23439 5' -59.4 NC_005259.1 + 51801 0.69 0.38099
Target:  5'- cGGCGG-GuCGGUCAgcUCaGGCAGgGCGg -3'
miRNA:   3'- -CCGCCaC-GCCAGU--AGcCCGUCgUGUa -5'
23439 5' -59.4 NC_005259.1 + 41638 0.69 0.38099
Target:  5'- uGGCGGUGcCGGUCugCGGGC-GCuCGg -3'
miRNA:   3'- -CCGCCAC-GCCAGuaGCCCGuCGuGUa -5'
23439 5' -59.4 NC_005259.1 + 32564 0.7 0.339722
Target:  5'- cGGCGaGcGCGGggauagCGUUGGGCAGCGg-- -3'
miRNA:   3'- -CCGC-CaCGCCa-----GUAGCCCGUCGUgua -5'
23439 5' -59.4 NC_005259.1 + 67238 0.73 0.218637
Target:  5'- cGGCGGUGUaggGGUUGagcggggccUCGGGCAGC-CGUg -3'
miRNA:   3'- -CCGCCACG---CCAGU---------AGCCCGUCGuGUA- -5'
23439 5' -59.4 NC_005259.1 + 49586 0.73 0.213126
Target:  5'- cGGCGGgcGgGGUCAgcaccucgaccUCGGGCAGCuCAUc -3'
miRNA:   3'- -CCGCCa-CgCCAGU-----------AGCCCGUCGuGUA- -5'
23439 5' -59.4 NC_005259.1 + 26825 0.73 0.197304
Target:  5'- cGGCGGUggugccgggGCGGUCugcUCGGGCAGgAUg- -3'
miRNA:   3'- -CCGCCA---------CGCCAGu--AGCCCGUCgUGua -5'
23439 5' -59.4 NC_005259.1 + 60590 0.73 0.197304
Target:  5'- cGGCgagucgGGUGCcGUCAUCGaGCAGCACAg -3'
miRNA:   3'- -CCG------CCACGcCAGUAGCcCGUCGUGUa -5'
23439 5' -59.4 NC_005259.1 + 16030 0.75 0.155861
Target:  5'- gGGUGGgauuuucaagGCGGUCAacuacacgguUCaGGGCAGCGCAUa -3'
miRNA:   3'- -CCGCCa---------CGCCAGU----------AG-CCCGUCGUGUA- -5'
23439 5' -59.4 NC_005259.1 + 44956 0.76 0.129251
Target:  5'- gGGCaGUGCGGUCAUCGGGaugccgagggcCGGUGCGa -3'
miRNA:   3'- -CCGcCACGCCAGUAGCCC-----------GUCGUGUa -5'
23439 5' -59.4 NC_005259.1 + 1989 0.76 0.121466
Target:  5'- aGCGGUcggaguacaacuacGCGGcCAUCGGGUGGCGCAc -3'
miRNA:   3'- cCGCCA--------------CGCCaGUAGCCCGUCGUGUa -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.