miRNA display CGI


Results 1 - 20 of 55 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
28041 5' -51.4 NC_005887.1 + 1817 0.66 0.880142
Target:  5'- gCCGCCGACCuGGUacggcaucuucGGCG-ACACGaaCGc -3'
miRNA:   3'- -GGUGGUUGG-CCA-----------CUGCuUGUGCaaGC- -5'
28041 5' -51.4 NC_005887.1 + 1993 0.67 0.855575
Target:  5'- aCCuCCGGCCGGcuacuACGAGCGCGg--- -3'
miRNA:   3'- -GGuGGUUGGCCac---UGCUUGUGCaagc -5'
28041 5' -51.4 NC_005887.1 + 3800 0.68 0.779984
Target:  5'- gUCACCGGCCaGUGGCGcccGCugGUguaagCGc -3'
miRNA:   3'- -GGUGGUUGGcCACUGCu--UGugCAa----GC- -5'
28041 5' -51.4 NC_005887.1 + 4024 0.68 0.809851
Target:  5'- cCCACCAccuuccugaGCCGGUGAUcGACaACGgcgaCGg -3'
miRNA:   3'- -GGUGGU---------UGGCCACUGcUUG-UGCaa--GC- -5'
28041 5' -51.4 NC_005887.1 + 4620 0.69 0.74867
Target:  5'- cUCGCCGcggcGCCGGUGGCcgccGGCGCGaUCa -3'
miRNA:   3'- -GGUGGU----UGGCCACUGc---UUGUGCaAGc -5'
28041 5' -51.4 NC_005887.1 + 6286 0.69 0.716237
Target:  5'- aCAUCGACgGcGUGcGCGAGCGCG-UCGa -3'
miRNA:   3'- gGUGGUUGgC-CAC-UGCUUGUGCaAGC- -5'
28041 5' -51.4 NC_005887.1 + 6324 0.66 0.872212
Target:  5'- cUCGCCGGCgccgaGGUGACGcuGCugGUUg- -3'
miRNA:   3'- -GGUGGUUGg----CCACUGCu-UGugCAAgc -5'
28041 5' -51.4 NC_005887.1 + 6526 0.68 0.769691
Target:  5'- aCGCCGACgCGGcGcACGAggaacacaGCGCGUUCu -3'
miRNA:   3'- gGUGGUUG-GCCaC-UGCU--------UGUGCAAGc -5'
28041 5' -51.4 NC_005887.1 + 9628 0.66 0.895192
Target:  5'- -uGCgCGACCGGUGGCu--CGCGaugUCGg -3'
miRNA:   3'- ggUG-GUUGGCCACUGcuuGUGCa--AGC- -5'
28041 5' -51.4 NC_005887.1 + 9895 0.71 0.626784
Target:  5'- --uCCAGCCGGUGcaggucggcggcACGAuCAUGUUCGu -3'
miRNA:   3'- gguGGUUGGCCAC------------UGCUuGUGCAAGC- -5'
28041 5' -51.4 NC_005887.1 + 10903 0.67 0.846884
Target:  5'- aCCugCAGCCGGcgcaGAugACG-UCGg -3'
miRNA:   3'- -GGugGUUGGCCacugCUugUGCaAGC- -5'
28041 5' -51.4 NC_005887.1 + 11093 0.66 0.872212
Target:  5'- gCgGCCGacgaguACUGGUGGCaGAacggugGCAUGUUCGa -3'
miRNA:   3'- -GgUGGU------UGGCCACUG-CU------UGUGCAAGC- -5'
28041 5' -51.4 NC_005887.1 + 12151 0.71 0.638065
Target:  5'- gCGCCAgAUUGGUGACGAuCGCGUg-- -3'
miRNA:   3'- gGUGGU-UGGCCACUGCUuGUGCAagc -5'
28041 5' -51.4 NC_005887.1 + 12313 0.7 0.683018
Target:  5'- gCGCUcGCCuaugagGGUGGCGucgGCGCGUUCGu -3'
miRNA:   3'- gGUGGuUGG------CCACUGCu--UGUGCAAGC- -5'
28041 5' -51.4 NC_005887.1 + 12915 0.67 0.828802
Target:  5'- gCCAgCAcGCCGGUuucGCGAGCGCGUc-- -3'
miRNA:   3'- -GGUgGU-UGGCCAc--UGCUUGUGCAagc -5'
28041 5' -51.4 NC_005887.1 + 14825 0.74 0.473545
Target:  5'- gCCGCgAcGCUGaUGGCGGGCACGUUCGc -3'
miRNA:   3'- -GGUGgU-UGGCcACUGCUUGUGCAAGC- -5'
28041 5' -51.4 NC_005887.1 + 15593 0.68 0.809851
Target:  5'- cCgGCCGACUGGUucgaccugGACGAGC-CGaUCGu -3'
miRNA:   3'- -GgUGGUUGGCCA--------CUGCUUGuGCaAGC- -5'
28041 5' -51.4 NC_005887.1 + 16012 0.68 0.800076
Target:  5'- gCCGCgAGCCGGUGACGuauCGgGa--- -3'
miRNA:   3'- -GGUGgUUGGCCACUGCuu-GUgCaagc -5'
28041 5' -51.4 NC_005887.1 + 16152 0.66 0.895192
Target:  5'- aCCACCGgcgcGCCGaGUGcGCGAGCGa--UCGa -3'
miRNA:   3'- -GGUGGU----UGGC-CAC-UGCUUGUgcaAGC- -5'
28041 5' -51.4 NC_005887.1 + 16239 0.67 0.828802
Target:  5'- aCGCCGGCCGGcGAgcgcaCGGGCACcgUCGc -3'
miRNA:   3'- gGUGGUUGGCCaCU-----GCUUGUGcaAGC- -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.