miRNA display CGI


Results 1 - 20 of 24 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
28179 3' -52.6 NC_005887.1 + 5375 0.66 0.809034
Target:  5'- gGCGAGcuCGACCCGCGcGacgCCgagaCGACg -3'
miRNA:   3'- -CGUUCauGUUGGGCGC-Caa-GGa---GCUG- -5'
28179 3' -52.6 NC_005887.1 + 7651 0.66 0.809034
Target:  5'- cGCAAGcGCGacgacggccGCCCGCuGcUgCUCGACa -3'
miRNA:   3'- -CGUUCaUGU---------UGGGCGcCaAgGAGCUG- -5'
28179 3' -52.6 NC_005887.1 + 37568 0.66 0.799151
Target:  5'- --cAGUugGCGGCUCGCGGagCCgCGGCg -3'
miRNA:   3'- cguUCA--UGUUGGGCGCCaaGGaGCUG- -5'
28179 3' -52.6 NC_005887.1 + 3566 0.66 0.78908
Target:  5'- aGCAuGUACAACCCgaGCGGcgacaugucgUUCCgggaaGGCg -3'
miRNA:   3'- -CGUuCAUGUUGGG--CGCC----------AAGGag---CUG- -5'
28179 3' -52.6 NC_005887.1 + 37763 0.66 0.78908
Target:  5'- uGCAucuGcGCGGCCUGCG---CCUCGGCg -3'
miRNA:   3'- -CGUu--CaUGUUGGGCGCcaaGGAGCUG- -5'
28179 3' -52.6 NC_005887.1 + 15827 0.66 0.78908
Target:  5'- cGCAGGUGCAGCgcuugCGCGGcgCgaUCGAg -3'
miRNA:   3'- -CGUUCAUGUUGg----GCGCCaaGg-AGCUg -5'
28179 3' -52.6 NC_005887.1 + 32705 0.66 0.78908
Target:  5'- cGCAcGgAUAGCCgCGCGGUUCacccaCGGCg -3'
miRNA:   3'- -CGUuCaUGUUGG-GCGCCAAGga---GCUG- -5'
28179 3' -52.6 NC_005887.1 + 344 0.66 0.788063
Target:  5'- cGCGAGccgucGCAugUgCGCGGUgagcugaUCCUCGAUc -3'
miRNA:   3'- -CGUUCa----UGUugG-GCGCCA-------AGGAGCUG- -5'
28179 3' -52.6 NC_005887.1 + 26484 0.66 0.768427
Target:  5'- aGCAcGgGCAugCCGgcCGcUUCCUCGACg -3'
miRNA:   3'- -CGUuCaUGUugGGC--GCcAAGGAGCUG- -5'
28179 3' -52.6 NC_005887.1 + 1160 0.67 0.757868
Target:  5'- cGCGGGUcggauGCAGCCagGCGGaUCauguUCGACa -3'
miRNA:   3'- -CGUUCA-----UGUUGGg-CGCCaAGg---AGCUG- -5'
28179 3' -52.6 NC_005887.1 + 17982 0.68 0.703267
Target:  5'- uGC-AGcGCGGCUCGUGGUUCgUCGcCg -3'
miRNA:   3'- -CGuUCaUGUUGGGCGCCAAGgAGCuG- -5'
28179 3' -52.6 NC_005887.1 + 31398 0.68 0.703267
Target:  5'- aGC-GGUGCGugCCGUGGUUCagCGGg -3'
miRNA:   3'- -CGuUCAUGUugGGCGCCAAGgaGCUg -5'
28179 3' -52.6 NC_005887.1 + 41751 0.68 0.692073
Target:  5'- uGCA---GCAAUuuGCGGUUUCUUGAg -3'
miRNA:   3'- -CGUucaUGUUGggCGCCAAGGAGCUg -5'
28179 3' -52.6 NC_005887.1 + 34214 0.68 0.669513
Target:  5'- aGCcGGUAUugauagcugAACCCgaacaGCGGcgCCUCGGCg -3'
miRNA:   3'- -CGuUCAUG---------UUGGG-----CGCCaaGGAGCUG- -5'
28179 3' -52.6 NC_005887.1 + 28945 0.68 0.65817
Target:  5'- aGCGAGc---ACUgGCGG-UCCUCGACu -3'
miRNA:   3'- -CGUUCauguUGGgCGCCaAGGAGCUG- -5'
28179 3' -52.6 NC_005887.1 + 17403 0.68 0.65817
Target:  5'- cGCAAG-GCGGCCCGCGcGcaCCgcgucgcgaUCGACa -3'
miRNA:   3'- -CGUUCaUGUUGGGCGC-CaaGG---------AGCUG- -5'
28179 3' -52.6 NC_005887.1 + 15405 0.69 0.646802
Target:  5'- uGCAGgaucuGUGgGGCCagcaGUGGUUCgUCGACg -3'
miRNA:   3'- -CGUU-----CAUgUUGGg---CGCCAAGgAGCUG- -5'
28179 3' -52.6 NC_005887.1 + 22684 0.69 0.589962
Target:  5'- gGUggGcGCAACCguguUGC-GUUCCUCGACa -3'
miRNA:   3'- -CGuuCaUGUUGG----GCGcCAAGGAGCUG- -5'
28179 3' -52.6 NC_005887.1 + 7664 0.7 0.556231
Target:  5'- uGCAGGUGaaagcaauCAAgCCGgGGUUCUUCGGu -3'
miRNA:   3'- -CGUUCAU--------GUUgGGCgCCAAGGAGCUg -5'
28179 3' -52.6 NC_005887.1 + 25032 0.71 0.501405
Target:  5'- cGCGgaAGUGCAGCaCGCGGUgcgCCgaacCGGCg -3'
miRNA:   3'- -CGU--UCAUGUUGgGCGCCAa--GGa---GCUG- -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.