miRNA display CGI


Results 1 - 20 of 62 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
15747 3' -55.4 NC_004065.1 + 745 0.72 0.729164
Target:  5'- aCGCGaCCaGcgUGCCgcGUCGCGGGUUCGc -3'
miRNA:   3'- aGCGC-GG-CuaAUGG--UAGUGCCCGAGU- -5'
15747 3' -55.4 NC_004065.1 + 5680 0.71 0.776037
Target:  5'- cCGUGCUGAUcgUCAUCACGuGGUUCGu -3'
miRNA:   3'- aGCGCGGCUAauGGUAGUGC-CCGAGU- -5'
15747 3' -55.4 NC_004065.1 + 16456 0.69 0.874181
Target:  5'- cUCGUGUuuaacaCGAcaucugACCGUCACGuGGCUCAc -3'
miRNA:   3'- -AGCGCG------GCUaa----UGGUAGUGC-CCGAGU- -5'
15747 3' -55.4 NC_004065.1 + 26949 0.68 0.906937
Target:  5'- cCGCuCCGGcgGCCGcgGCGGGCUCc -3'
miRNA:   3'- aGCGcGGCUaaUGGUagUGCCCGAGu -5'
15747 3' -55.4 NC_004065.1 + 27087 0.66 0.965957
Target:  5'- cUCGUGUCGAgucaagGgUAUCGCgaccGGGCUCGa -3'
miRNA:   3'- -AGCGCGGCUaa----UgGUAGUG----CCCGAGU- -5'
15747 3' -55.4 NC_004065.1 + 28012 0.69 0.881162
Target:  5'- -aGCGCCGAggaggacGCCAUCGCGuuGGCg-- -3'
miRNA:   3'- agCGCGGCUaa-----UGGUAGUGC--CCGagu -5'
15747 3' -55.4 NC_004065.1 + 29229 0.68 0.923929
Target:  5'- cCGCGCCGAgacGCCGUCGCccGC-CAc -3'
miRNA:   3'- aGCGCGGCUaa-UGGUAGUGccCGaGU- -5'
15747 3' -55.4 NC_004065.1 + 34503 0.69 0.864062
Target:  5'- aUCGCGCCGcgcuggacgggACCGggcgcucugaCGCGGGCUCc -3'
miRNA:   3'- -AGCGCGGCuaa--------UGGUa---------GUGCCCGAGu -5'
15747 3' -55.4 NC_004065.1 + 37884 0.66 0.965957
Target:  5'- -aGCGCgGAagGCCGUCugGcGGC-CGu -3'
miRNA:   3'- agCGCGgCUaaUGGUAGugC-CCGaGU- -5'
15747 3' -55.4 NC_004065.1 + 38456 0.66 0.959295
Target:  5'- gCGCGCCGAUcACCG-CACGcGuGCg-- -3'
miRNA:   3'- aGCGCGGCUAaUGGUaGUGC-C-CGagu -5'
15747 3' -55.4 NC_004065.1 + 40480 0.77 0.484362
Target:  5'- uUCGCGCUGGgguccagGCCGcUCGCGGGCUa- -3'
miRNA:   3'- -AGCGCGGCUaa-----UGGU-AGUGCCCGAgu -5'
15747 3' -55.4 NC_004065.1 + 42002 0.66 0.971812
Target:  5'- gUCGUGuuGGUcgugucUACCGUCGCGGacCUCc -3'
miRNA:   3'- -AGCGCggCUA------AUGGUAGUGCCc-GAGu -5'
15747 3' -55.4 NC_004065.1 + 51122 0.66 0.968983
Target:  5'- cUGCGCCGAUUGCUgcggCACGuagcGGCg-- -3'
miRNA:   3'- aGCGCGGCUAAUGGua--GUGC----CCGagu -5'
15747 3' -55.4 NC_004065.1 + 51644 0.7 0.844246
Target:  5'- gUCGCGUCGGau-CCAggagagCGCGGGUUCc -3'
miRNA:   3'- -AGCGCGGCUaauGGUa-----GUGCCCGAGu -5'
15747 3' -55.4 NC_004065.1 + 55785 0.66 0.971812
Target:  5'- -gGCGCCGAgcagGCgAUCGC-GGCUg- -3'
miRNA:   3'- agCGCGGCUaa--UGgUAGUGcCCGAgu -5'
15747 3' -55.4 NC_004065.1 + 59725 0.69 0.866994
Target:  5'- -gGCGCaCGGcgACCGUCGCGGaCUCu -3'
miRNA:   3'- agCGCG-GCUaaUGGUAGUGCCcGAGu -5'
15747 3' -55.4 NC_004065.1 + 61254 0.66 0.96273
Target:  5'- -gGCGUCGAagGCCugcgcggcGUCgACGGGCUUg -3'
miRNA:   3'- agCGCGGCUaaUGG--------UAG-UGCCCGAGu -5'
15747 3' -55.4 NC_004065.1 + 76374 0.71 0.793986
Target:  5'- aUCGCGCCGGc-GCCGcCGCGGaugaGCUCGc -3'
miRNA:   3'- -AGCGCGGCUaaUGGUaGUGCC----CGAGU- -5'
15747 3' -55.4 NC_004065.1 + 77361 0.66 0.955648
Target:  5'- cUCGCGCCGuc-GCCGcCGuuGGCUCc -3'
miRNA:   3'- -AGCGCGGCuaaUGGUaGUgcCCGAGu -5'
15747 3' -55.4 NC_004065.1 + 78876 0.66 0.968983
Target:  5'- cUCGCggucGCCGAcgAUCAUCGCGGcGUUg- -3'
miRNA:   3'- -AGCG----CGGCUaaUGGUAGUGCC-CGAgu -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.