miRNA display CGI


Results 1 - 20 of 28 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
23198 3' -49.3 NC_005259.1 + 56553 0.66 0.983645
Target:  5'- cUCGUCGGUcucgGGUucg--GUGAucGUCGCGg -3'
miRNA:   3'- -GGUAGCCG----CCGuuuuaCACU--UAGCGC- -5'
23198 3' -49.3 NC_005259.1 + 48950 0.66 0.983645
Target:  5'- aCCGUCGGUuacaucGGCAAcgcccgcaUGggUCGUGa -3'
miRNA:   3'- -GGUAGCCG------CCGUUuuac----ACuuAGCGC- -5'
23198 3' -49.3 NC_005259.1 + 64813 0.66 0.981496
Target:  5'- gCC-UCGGCGGCAAugagcGUGUGG--UGaCGg -3'
miRNA:   3'- -GGuAGCCGCCGUUu----UACACUuaGC-GC- -5'
23198 3' -49.3 NC_005259.1 + 39093 0.66 0.981496
Target:  5'- uCCGUUGaGCGGguuGAGGUGcUGcAAUCGCGu -3'
miRNA:   3'- -GGUAGC-CGCCg--UUUUAC-AC-UUAGCGC- -5'
23198 3' -49.3 NC_005259.1 + 60963 0.66 0.98127
Target:  5'- gCGUcCGGCGGCAGAucgaaccAUuccucuucgGUGAGcUCGCGc -3'
miRNA:   3'- gGUA-GCCGCCGUUU-------UA---------CACUU-AGCGC- -5'
23198 3' -49.3 NC_005259.1 + 27405 0.66 0.979141
Target:  5'- gCAgCGGCGGCAGcucgGUGcc-CGCGa -3'
miRNA:   3'- gGUaGCCGCCGUUuua-CACuuaGCGC- -5'
23198 3' -49.3 NC_005259.1 + 50276 0.66 0.976572
Target:  5'- gUCGUCGGUGGCGGGAac---GUCGUGc -3'
miRNA:   3'- -GGUAGCCGCCGUUUUacacuUAGCGC- -5'
23198 3' -49.3 NC_005259.1 + 49063 0.66 0.974067
Target:  5'- -gAUCGGCGGUuggcgcaagGGAUCGCu -3'
miRNA:   3'- ggUAGCCGCCGuuuuaca--CUUAGCGc -5'
23198 3' -49.3 NC_005259.1 + 57017 0.66 0.973777
Target:  5'- cUCAgcgCGGCucGGCGcgGUG-GggUCGCa -3'
miRNA:   3'- -GGUa--GCCG--CCGUuuUACaCuuAGCGc -5'
23198 3' -49.3 NC_005259.1 + 42608 0.66 0.973777
Target:  5'- aCAUCGGCGGuCAuGAgcccgauGUCGCGc -3'
miRNA:   3'- gGUAGCCGCC-GUuUUacacu--UAGCGC- -5'
23198 3' -49.3 NC_005259.1 + 26374 0.67 0.967477
Target:  5'- -uGUCGGUGGCGAGccUGUugcUCGCGa -3'
miRNA:   3'- ggUAGCCGCCGUUUu-ACAcuuAGCGC- -5'
23198 3' -49.3 NC_005259.1 + 20650 0.67 0.957777
Target:  5'- aCguUCGGCGGCAccgGggccgaggacgccauGAUGUG-GUCGCa -3'
miRNA:   3'- -GguAGCCGCCGU---U---------------UUACACuUAGCGc -5'
23198 3' -49.3 NC_005259.1 + 49629 0.68 0.947217
Target:  5'- gUCAUCGGCGGCAGccgcgucggcGAUGgcgGccucGAUaCGCGc -3'
miRNA:   3'- -GGUAGCCGCCGUU----------UUACa--C----UUA-GCGC- -5'
23198 3' -49.3 NC_005259.1 + 41496 0.68 0.946742
Target:  5'- aCC-UCGGCgguggcgGGCAGAccGUGGAUCuGCa -3'
miRNA:   3'- -GGuAGCCG-------CCGUUUuaCACUUAG-CGc -5'
23198 3' -49.3 NC_005259.1 + 41104 0.68 0.937188
Target:  5'- gCgGUCGGCGGUAugacGAUGUcGGcggugcccgcGUCGCGc -3'
miRNA:   3'- -GgUAGCCGCCGUu---UUACA-CU----------UAGCGC- -5'
23198 3' -49.3 NC_005259.1 + 47788 0.69 0.907116
Target:  5'- -aAUCGcGCaGCGguccGAcgGUGAGUCGCGa -3'
miRNA:   3'- ggUAGC-CGcCGU----UUuaCACUUAGCGC- -5'
23198 3' -49.3 NC_005259.1 + 44865 0.69 0.900248
Target:  5'- cUCAgacCGGCGGCGAGAUccGAcgCGCc -3'
miRNA:   3'- -GGUa--GCCGCCGUUUUAcaCUuaGCGc -5'
23198 3' -49.3 NC_005259.1 + 39130 0.7 0.893101
Target:  5'- aCAUCGGUGaGCugcccGAUGUG-AUCGCc -3'
miRNA:   3'- gGUAGCCGC-CGuu---UUACACuUAGCGc -5'
23198 3' -49.3 NC_005259.1 + 62738 0.71 0.853368
Target:  5'- aCCGgacCGGCGGCAGuacGcgGUGGuacUCGUGg -3'
miRNA:   3'- -GGUa--GCCGCCGUU---UuaCACUu--AGCGC- -5'
23198 3' -49.3 NC_005259.1 + 37088 0.71 0.853368
Target:  5'- aCCggCGGUGGUguAGAcgcGUGUGAuAUCGCGc -3'
miRNA:   3'- -GGuaGCCGCCG--UUU---UACACU-UAGCGC- -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.