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
19216 5' -52.3 NC_004684.1 + 14426 0.66 0.904385
Target:  5'- aCUGCUGGCCaaggggucaacgaggUGGUgaccgaacgcaGCGCCUgccUGGAa- -3'
miRNA:   3'- -GACGACCGG---------------ACCA-----------UGUGGAa--ACUUcc -5'
19216 5' -52.3 NC_004684.1 + 4282 0.66 0.8946
Target:  5'- -aGCaagGGCCUGGUGCugCcacacGAguGGGa -3'
miRNA:   3'- gaCGa--CCGGACCAUGugGaaa--CU--UCC- -5'
19216 5' -52.3 NC_004684.1 + 48462 0.66 0.892434
Target:  5'- -cGCUacauggacaagGGCCUGGUcugauGCGCCgcgaccccgccgacgUGGAGGa -3'
miRNA:   3'- gaCGA-----------CCGGACCA-----UGUGGaa-------------ACUUCC- -5'
19216 5' -52.3 NC_004684.1 + 10925 0.66 0.887284
Target:  5'- -aGCaguuUGGCCUcGUGCuccagGCCUUUGAGGa -3'
miRNA:   3'- gaCG----ACCGGAcCAUG-----UGGAAACUUCc -5'
19216 5' -52.3 NC_004684.1 + 24902 0.66 0.879701
Target:  5'- -cGUUGGCCUGGUcguuggacaggAUGCC---GAAGGu -3'
miRNA:   3'- gaCGACCGGACCA-----------UGUGGaaaCUUCC- -5'
19216 5' -52.3 NC_004684.1 + 41522 0.67 0.863758
Target:  5'- uCUGCccGGCCUGGccgAgGCCgUUGAacAGGc -3'
miRNA:   3'- -GACGa-CCGGACCa--UgUGGaAACU--UCC- -5'
19216 5' -52.3 NC_004684.1 + 58047 0.67 0.846827
Target:  5'- -aGCUGcGUCUGGUGCGCCa------- -3'
miRNA:   3'- gaCGAC-CGGACCAUGUGGaaacuucc -5'
19216 5' -52.3 NC_004684.1 + 21943 0.68 0.810272
Target:  5'- uCUGC-GGCCUGGUgaugACGCCa-UGAGcGGc -3'
miRNA:   3'- -GACGaCCGGACCA----UGUGGaaACUU-CC- -5'
19216 5' -52.3 NC_004684.1 + 65371 0.68 0.800628
Target:  5'- -cGCUGGCCUGGUcaACGUCgg-GgcGGu -3'
miRNA:   3'- gaCGACCGGACCA--UGUGGaaaCuuCC- -5'
19216 5' -52.3 NC_004684.1 + 56030 0.68 0.800628
Target:  5'- gCUGCUGGCCaccaccGUGgGCCU--GGAGGc -3'
miRNA:   3'- -GACGACCGGac----CAUgUGGAaaCUUCC- -5'
19216 5' -52.3 NC_004684.1 + 5633 0.68 0.790805
Target:  5'- -aGCUGgacGCCUGGUuCGCCcgUGgcGGa -3'
miRNA:   3'- gaCGAC---CGGACCAuGUGGaaACuuCC- -5'
19216 5' -52.3 NC_004684.1 + 57889 0.68 0.780811
Target:  5'- gUGCUGG-CUGGUG-GCCgggcUGAAGGu -3'
miRNA:   3'- gACGACCgGACCAUgUGGaa--ACUUCC- -5'
19216 5' -52.3 NC_004684.1 + 543 0.68 0.780811
Target:  5'- -gGCgaaaGGCCUGGaggGCACCgggUUUGAcgAGGa -3'
miRNA:   3'- gaCGa---CCGGACCa--UGUGG---AAACU--UCC- -5'
19216 5' -52.3 NC_004684.1 + 25965 0.69 0.739376
Target:  5'- -aGCUGGCCaagcUGGUGCGC----GAAGGc -3'
miRNA:   3'- gaCGACCGG----ACCAUGUGgaaaCUUCC- -5'
19216 5' -52.3 NC_004684.1 + 35998 0.7 0.696169
Target:  5'- -cGUUGGCCUGGUugGCgagcgUGAuGGu -3'
miRNA:   3'- gaCGACCGGACCAugUGgaa--ACUuCC- -5'
19216 5' -52.3 NC_004684.1 + 23410 0.7 0.696169
Target:  5'- -aGCUGGCCgGGUACGCCc------- -3'
miRNA:   3'- gaCGACCGGaCCAUGUGGaaacuucc -5'
19216 5' -52.3 NC_004684.1 + 32881 0.71 0.636356
Target:  5'- -aGCUGuCCUGGUACACCgcccaauuuucGggGGu -3'
miRNA:   3'- gaCGACcGGACCAUGUGGaaa--------CuuCC- -5'
19216 5' -52.3 NC_004684.1 + 3257 0.72 0.596309
Target:  5'- gCUGCUGGCCUGGccggACAUCgugGAc-- -3'
miRNA:   3'- -GACGACCGGACCa---UGUGGaaaCUucc -5'
19216 5' -52.3 NC_004684.1 + 43401 0.72 0.574207
Target:  5'- aCUGCUGGCCUGGcgACGgCU-UGAGc- -3'
miRNA:   3'- -GACGACCGGACCa-UGUgGAaACUUcc -5'
19216 5' -52.3 NC_004684.1 + 2079 0.72 0.574207
Target:  5'- -cGCUGGCCgUGGUGCACagc--GAGGc -3'
miRNA:   3'- gaCGACCGG-ACCAUGUGgaaacUUCC- -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.