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
27045 3' -58.1 NC_005832.1 + 84666 0.66 0.688822
Target:  5'- uGGCAGCGGCGuugGCCgaG-GCAGUc -3'
miRNA:   3'- gUCGUCGUCGUug-CGGgaCaCGUCGu -5'
27045 3' -58.1 NC_005832.1 + 76273 0.66 0.688822
Target:  5'- aGGCGGCAGagaggcaGAgGCaCCUGUGCcagGGCc -3'
miRNA:   3'- gUCGUCGUCg------UUgCG-GGACACG---UCGu -5'
27045 3' -58.1 NC_005832.1 + 4480 0.66 0.678334
Target:  5'- -uGCgGGCAGCGACGUCUcGUGCucgaccgauuuaAGCAa -3'
miRNA:   3'- guCG-UCGUCGUUGCGGGaCACG------------UCGU- -5'
27045 3' -58.1 NC_005832.1 + 86400 0.66 0.678334
Target:  5'- aCAGCAGCAGCAAgagcaGCCUaagGaGCugAGCAg -3'
miRNA:   3'- -GUCGUCGUCGUUg----CGGGa--CaCG--UCGU- -5'
27045 3' -58.1 NC_005832.1 + 47551 0.67 0.614885
Target:  5'- -uGUGGCcGgGACGCuCCUGgGCAGCAa -3'
miRNA:   3'- guCGUCGuCgUUGCG-GGACaCGUCGU- -5'
27045 3' -58.1 NC_005832.1 + 33889 0.67 0.593753
Target:  5'- aAGCcuuGCAGUcuGCGCaCuCUGUGCAGCc -3'
miRNA:   3'- gUCGu--CGUCGu-UGCG-G-GACACGUCGu -5'
27045 3' -58.1 NC_005832.1 + 6491 0.67 0.587434
Target:  5'- aGGCGGCggaugacgaggacggGGUgucuGugGCCCUGUGCGGg- -3'
miRNA:   3'- gUCGUCG---------------UCG----UugCGGGACACGUCgu -5'
27045 3' -58.1 NC_005832.1 + 17975 0.68 0.572741
Target:  5'- ------nAGCAACGCCCUGUuCAGCAg -3'
miRNA:   3'- gucgucgUCGUUGCGGGACAcGUCGU- -5'
27045 3' -58.1 NC_005832.1 + 102055 0.68 0.572741
Target:  5'- gAGCAGCGGCAugGCUCaGgagaCGGUAa -3'
miRNA:   3'- gUCGUCGUCGUugCGGGaCac--GUCGU- -5'
27045 3' -58.1 NC_005832.1 + 71755 0.68 0.55191
Target:  5'- uGGUAgGCGGCGGCGCCgCUa-GCGGCGa -3'
miRNA:   3'- gUCGU-CGUCGUUGCGG-GAcaCGUCGU- -5'
27045 3' -58.1 NC_005832.1 + 95931 0.68 0.55191
Target:  5'- gCGGCcagGGCAGCAA-GCCCgaggGCAGCc -3'
miRNA:   3'- -GUCG---UCGUCGUUgCGGGaca-CGUCGu -5'
27045 3' -58.1 NC_005832.1 + 18315 0.73 0.280129
Target:  5'- uCAGCAaCAGCAGCGUCCUGcucaagGaCAGCAg -3'
miRNA:   3'- -GUCGUcGUCGUUGCGGGACa-----C-GUCGU- -5'
27045 3' -58.1 NC_005832.1 + 86328 0.74 0.26676
Target:  5'- gAGCAGCAGCAGgaGCCUgcagaGCAGCAg -3'
miRNA:   3'- gUCGUCGUCGUUg-CGGGaca--CGUCGU- -5'
27045 3' -58.1 NC_005832.1 + 86286 0.74 0.26676
Target:  5'- gAGCAGCAGCAGgaGCCUgcagaGCAGCAg -3'
miRNA:   3'- gUCGUCGUCGUUg-CGGGaca--CGUCGU- -5'
27045 3' -58.1 NC_005832.1 + 18062 0.82 0.079161
Target:  5'- ---nAGCAGCAACGCCCUGUccaGCAGCAn -3'
miRNA:   3'- gucgUCGUCGUUGCGGGACA---CGUCGU- -5'
27045 3' -58.1 NC_005832.1 + 18036 0.98 0.005032
Target:  5'- gCAGCAGCAGCGACGCCCUGUccaGCAGCAg -3'
miRNA:   3'- -GUCGUCGUCGUUGCGGGACA---CGUCGU- -5'
27045 3' -58.1 NC_005832.1 + 18003 0.99 0.004616
Target:  5'- gCAGCAGCAGCAACGCCCUGUucaGCAGCAg -3'
miRNA:   3'- -GUCGUCGUCGUUGCGGGACA---CGUCGU- -5'
27045 3' -58.1 NC_005832.1 + 18087 1.08 0.001005
Target:  5'- gCAGCAGCAGCAACGCCCUGUGCAGCAg -3'
miRNA:   3'- -GUCGUCGUCGUUGCGGGACACGUCGU- -5'
27045 3' -58.1 NC_005832.1 + 18129 1.08 0.001005
Target:  5'- gCAGCAGCAGCAACGCCCUGUGCAGCAg -3'
miRNA:   3'- -GUCGUCGUCGUUGCGGGACACGUCGU- -5'
27045 3' -58.1 NC_005832.1 + 18171 1.08 0.001005
Target:  5'- gCAGCAGCAGCAGCGCCCUGUGCAGCAg -3'
miRNA:   3'- -GUCGUCGUCGUUGCGGGACACGUCGU- -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.