miRNA display CGI


Results 1 - 20 of 36 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
22404 3' -59 NC_005056.1 + 27112 0.78 0.055399
Target:  5'- aCACCAUCGCCGgUAuuGAGCguuaCGCCGCCg -3'
miRNA:   3'- gGUGGUAGUGGUgGU--CUCG----GCGGCGG- -5'
22404 3' -59 NC_005056.1 + 11867 0.66 0.391817
Target:  5'- -aACCGUUAUCACCAcuGCCGgUGCa -3'
miRNA:   3'- ggUGGUAGUGGUGGUcuCGGCgGCGg -5'
22404 3' -59 NC_005056.1 + 8247 0.66 0.373896
Target:  5'- gCGCCggUugCACCAGcGCC-CgGCCu -3'
miRNA:   3'- gGUGGuaGugGUGGUCuCGGcGgCGG- -5'
22404 3' -59 NC_005056.1 + 21212 0.66 0.365147
Target:  5'- uUCACCGUUGaugagguugaaCACCGGGGCgCGCCGg- -3'
miRNA:   3'- -GGUGGUAGUg----------GUGGUCUCG-GCGGCgg -5'
22404 3' -59 NC_005056.1 + 5787 0.66 0.365147
Target:  5'- -aGCUGaaACCgaaGCCGGAGCCGCaGCCc -3'
miRNA:   3'- ggUGGUagUGG---UGGUCUCGGCGgCGG- -5'
22404 3' -59 NC_005056.1 + 16688 0.67 0.331583
Target:  5'- aCACCcgCACCGCgCAGGuGCUgGCCGaCa -3'
miRNA:   3'- gGUGGuaGUGGUG-GUCU-CGG-CGGCgG- -5'
22404 3' -59 NC_005056.1 + 7662 0.67 0.32276
Target:  5'- gCCACUgaguaugugcuggAaCGCUacggGCgGGAGCUGCCGCCu -3'
miRNA:   3'- -GGUGG-------------UaGUGG----UGgUCUCGGCGGCGG- -5'
22404 3' -59 NC_005056.1 + 8955 0.67 0.315672
Target:  5'- aUCGCUGUCACCGUCAGGGC-GUCGgCg -3'
miRNA:   3'- -GGUGGUAGUGGUGGUCUCGgCGGCgG- -5'
22404 3' -59 NC_005056.1 + 12701 0.68 0.285597
Target:  5'- gCCGCgAUUGCCGCCcuuguAGAcUCGUCGCCu -3'
miRNA:   3'- -GGUGgUAGUGGUGG-----UCUcGGCGGCGG- -5'
22404 3' -59 NC_005056.1 + 19821 0.7 0.220364
Target:  5'- gCCGCCAUUGUCGCCGGGG-CGuuGCUu -3'
miRNA:   3'- -GGUGGUAGUGGUGGUCUCgGCggCGG- -5'
22404 3' -59 NC_005056.1 + 8836 0.77 0.062259
Target:  5'- -aACCccCGCCGCCGGAGCCGgucacCCGCCc -3'
miRNA:   3'- ggUGGuaGUGGUGGUCUCGGC-----GGCGG- -5'
22404 3' -59 NC_005056.1 + 11333 0.75 0.090672
Target:  5'- aCCGgcUCAUCACCGCUuGaAGuuGCCGCCg -3'
miRNA:   3'- -GGU--GGUAGUGGUGGuC-UCggCGGCGG- -5'
22404 3' -59 NC_005056.1 + 4311 0.71 0.17294
Target:  5'- aCCACCGaCACCGCCGGuGGCaccgaGCgucaGCCg -3'
miRNA:   3'- -GGUGGUaGUGGUGGUC-UCGg----CGg---CGG- -5'
22404 3' -59 NC_005056.1 + 1693 0.7 0.21459
Target:  5'- aCCACCGgcggUGCCAguaccacgcauCCGGcGCUGUCGCCa -3'
miRNA:   3'- -GGUGGUa---GUGGU-----------GGUCuCGGCGGCGG- -5'
22404 3' -59 NC_005056.1 + 5898 0.7 0.21459
Target:  5'- -aACCGaaugCGCCccgcGCCAGGGCgGCaCGCCg -3'
miRNA:   3'- ggUGGUa---GUGG----UGGUCUCGgCG-GCGG- -5'
22404 3' -59 NC_005056.1 + 16418 0.7 0.21459
Target:  5'- gUACCAcCGCCACCGcGuauGCCaCCGCCc -3'
miRNA:   3'- gGUGGUaGUGGUGGU-Cu--CGGcGGCGG- -5'
22404 3' -59 NC_005056.1 + 7826 1.12 0.000143
Target:  5'- gCCACCAUCACCACCAGAGCCGCCGCCc -3'
miRNA:   3'- -GGUGGUAGUGGUGGUCUCGGCGGCGG- -5'
22404 3' -59 NC_005056.1 + 21573 0.66 0.391817
Target:  5'- -gGCCGUCACCcCCu--GCC-CCGCUu -3'
miRNA:   3'- ggUGGUAGUGGuGGucuCGGcGGCGG- -5'
22404 3' -59 NC_005056.1 + 10031 0.66 0.382787
Target:  5'- uUACCGuuugaugagaguUCACCGCCGGuaugcgcgauGuuGCCGCg -3'
miRNA:   3'- gGUGGU------------AGUGGUGGUCu---------CggCGGCGg -5'
22404 3' -59 NC_005056.1 + 14190 0.66 0.373015
Target:  5'- gCACCAUC-CUuaaacauccauuuACCAGAGUCaucaGCaCGCCg -3'
miRNA:   3'- gGUGGUAGuGG-------------UGGUCUCGG----CG-GCGG- -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.