miRNA display CGI


Results 1 - 20 of 23 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
2349 3' -53 NC_001416.1 + 5579 0.66 0.779894
Target:  5'- aACGGCccgccgCAUUCUG-GCC-GCAGCa -3'
miRNA:   3'- -UGCCGuuua--GUGAGACgUGGaCGUCG- -5'
2349 3' -53 NC_001416.1 + 13865 0.66 0.76945
Target:  5'- aGCGGCuGAUCACcucCUGCuCCggauCGGCg -3'
miRNA:   3'- -UGCCGuUUAGUGa--GACGuGGac--GUCG- -5'
2349 3' -53 NC_001416.1 + 5293 0.66 0.748116
Target:  5'- cCGGCAucAAUgGCcuccugaccgCUGUACaCUGCAGCc -3'
miRNA:   3'- uGCCGU--UUAgUGa---------GACGUG-GACGUCG- -5'
2349 3' -53 NC_001416.1 + 12071 0.66 0.748116
Target:  5'- gGCGGCGcaacGUCGCcagcugUCUGCAcaggagaaaucCCUGCuGGCg -3'
miRNA:   3'- -UGCCGUu---UAGUG------AGACGU-----------GGACG-UCG- -5'
2349 3' -53 NC_001416.1 + 11081 0.67 0.726272
Target:  5'- cCaGCGAGUCACUCaGCGCaCUGguuaaGGCg -3'
miRNA:   3'- uGcCGUUUAGUGAGaCGUG-GACg----UCG- -5'
2349 3' -53 NC_001416.1 + 11828 0.67 0.726272
Target:  5'- gGCGGUAuAUUuCUCcagcgGCGUCUGCAGCc -3'
miRNA:   3'- -UGCCGUuUAGuGAGa----CGUGGACGUCG- -5'
2349 3' -53 NC_001416.1 + 16297 0.67 0.715192
Target:  5'- cGCGucuGCGGGUUAUaguUCgacgGCACCUGCAGa -3'
miRNA:   3'- -UGC---CGUUUAGUG---AGa---CGUGGACGUCg -5'
2349 3' -53 NC_001416.1 + 9721 0.67 0.715192
Target:  5'- gACGGUAAu---UUCUGCaACC-GCAGCa -3'
miRNA:   3'- -UGCCGUUuaguGAGACG-UGGaCGUCG- -5'
2349 3' -53 NC_001416.1 + 5752 0.67 0.704023
Target:  5'- aACGGCAucagaugccgGGUUAC-CUGCAgCCaGCGGUg -3'
miRNA:   3'- -UGCCGU----------UUAGUGaGACGU-GGaCGUCG- -5'
2349 3' -53 NC_001416.1 + 18987 0.67 0.692779
Target:  5'- uGCGGUGAcaGUCACUCcgGC-CCgUGCGGa -3'
miRNA:   3'- -UGCCGUU--UAGUGAGa-CGuGG-ACGUCg -5'
2349 3' -53 NC_001416.1 + 9226 0.67 0.681471
Target:  5'- cCGGCAGAUU--UCUGCcCCUGCccGGUc -3'
miRNA:   3'- uGCCGUUUAGugAGACGuGGACG--UCG- -5'
2349 3' -53 NC_001416.1 + 20273 0.68 0.631274
Target:  5'- gUGGCcgccgcguuuuuuGAggACUCUGCGgCUGCGGCa -3'
miRNA:   3'- uGCCGu------------UUagUGAGACGUgGACGUCG- -5'
2349 3' -53 NC_001416.1 + 40398 0.68 0.62212
Target:  5'- cGCGGCcugauuuaugcuGGUUACUgUUGCGCCUGuUAGCg -3'
miRNA:   3'- -UGCCGu-----------UUAGUGA-GACGUGGAC-GUCG- -5'
2349 3' -53 NC_001416.1 + 44256 0.69 0.58903
Target:  5'- cAUGGCAAu---CUCUGCAUCUugcccccggcgucGCGGCa -3'
miRNA:   3'- -UGCCGUUuaguGAGACGUGGA-------------CGUCG- -5'
2349 3' -53 NC_001416.1 + 17413 0.69 0.567513
Target:  5'- uGCGGuCAGGUg---CUGCACCgcugGCGGCg -3'
miRNA:   3'- -UGCC-GUUUAgugaGACGUGGa---CGUCG- -5'
2349 3' -53 NC_001416.1 + 4735 0.7 0.501171
Target:  5'- aACGGCAuuAUCGCccgUCUGCAacaggCUGcCAGCg -3'
miRNA:   3'- -UGCCGUu-UAGUG---AGACGUg----GAC-GUCG- -5'
2349 3' -53 NC_001416.1 + 11016 0.71 0.490432
Target:  5'- gACGGCAGAUCGuaugCUGguCCUGUccagAGCc -3'
miRNA:   3'- -UGCCGUUUAGUga--GACguGGACG----UCG- -5'
2349 3' -53 NC_001416.1 + 20424 0.71 0.448611
Target:  5'- gGCGGCAGAaaAUUCUGC-CaggGCGGCa -3'
miRNA:   3'- -UGCCGUUUagUGAGACGuGga-CGUCG- -5'
2349 3' -53 NC_001416.1 + 5451 0.72 0.408838
Target:  5'- aACGcGCAGAUCACcgCaGCGgUUGCGGCa -3'
miRNA:   3'- -UGC-CGUUUAGUGa-GaCGUgGACGUCG- -5'
2349 3' -53 NC_001416.1 + 3719 0.74 0.301309
Target:  5'- gGCGGCAuacaucgccuucacAAUggCGCUCUGCAgcugcguguUCUGCAGCg -3'
miRNA:   3'- -UGCCGU--------------UUA--GUGAGACGU---------GGACGUCG- -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.