miRNA display CGI


Results 1 - 20 of 25 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
16331 5' -56.2 NC_004084.1 + 53150 0.66 0.729207
Target:  5'- cUCugGgAUCGAuaggcCCUCCUCgugugCgCCGCGa -3'
miRNA:   3'- -AGugCgUAGUU-----GGAGGAGa----G-GGCGCc -5'
16331 5' -56.2 NC_004084.1 + 28697 0.66 0.729207
Target:  5'- gUCGCcCGgaCGAUCUCCUCgaacggCCgCGCGGg -3'
miRNA:   3'- -AGUGcGUa-GUUGGAGGAGa-----GG-GCGCC- -5'
16331 5' -56.2 NC_004084.1 + 29356 0.66 0.697674
Target:  5'- cUCGCGCugGUCGACgC-CCgggaUCCCGCGu -3'
miRNA:   3'- -AGUGCG--UAGUUG-GaGGag--AGGGCGCc -5'
16331 5' -56.2 NC_004084.1 + 31229 0.66 0.691292
Target:  5'- gUACGCAuUCAGCgUCgcgaucguccugagaUUCUCaCCGCGGu -3'
miRNA:   3'- aGUGCGU-AGUUGgAG---------------GAGAG-GGCGCC- -5'
16331 5' -56.2 NC_004084.1 + 9639 0.66 0.687026
Target:  5'- gCGCGgAUCGuCCUCCUCgcgcuUCCCGauauGGc -3'
miRNA:   3'- aGUGCgUAGUuGGAGGAG-----AGGGCg---CC- -5'
16331 5' -56.2 NC_004084.1 + 16032 0.66 0.685958
Target:  5'- -uGCGCG--GGCCUCCUCgaggaugcguugcUCCCGCu- -3'
miRNA:   3'- agUGCGUagUUGGAGGAG-------------AGGGCGcc -5'
16331 5' -56.2 NC_004084.1 + 6400 0.66 0.676327
Target:  5'- cUCAgccUGC-UCGaggGCCUUCUCccagUCCCGCGGc -3'
miRNA:   3'- -AGU---GCGuAGU---UGGAGGAG----AGGGCGCC- -5'
16331 5' -56.2 NC_004084.1 + 15229 0.66 0.676327
Target:  5'- cCGgGCAUCGuccACCUCCUCgggcgacUCCGUGa -3'
miRNA:   3'- aGUgCGUAGU---UGGAGGAGa------GGGCGCc -5'
16331 5' -56.2 NC_004084.1 + 21007 0.66 0.676327
Target:  5'- aUCGCGCA--GGCCaUCCUCgaggCgCGUGGu -3'
miRNA:   3'- -AGUGCGUagUUGG-AGGAGa---GgGCGCC- -5'
16331 5' -56.2 NC_004084.1 + 43769 0.67 0.665588
Target:  5'- gCGgGCAUCGACUgggCgCUCgCCgGCGGa -3'
miRNA:   3'- aGUgCGUAGUUGGa--G-GAGaGGgCGCC- -5'
16331 5' -56.2 NC_004084.1 + 41801 0.67 0.665588
Target:  5'- gUCACG-AUCGACCUCgaggagCCCGcCGGg -3'
miRNA:   3'- -AGUGCgUAGUUGGAGgaga--GGGC-GCC- -5'
16331 5' -56.2 NC_004084.1 + 11514 0.67 0.665588
Target:  5'- aUC-UGCAUCAacACCUCCUgCagCCGcCGGg -3'
miRNA:   3'- -AGuGCGUAGU--UGGAGGA-GagGGC-GCC- -5'
16331 5' -56.2 NC_004084.1 + 5250 0.67 0.632151
Target:  5'- aCACGCuggggucagucAUCGGCCUCgUCgacgacgUCCCGCa- -3'
miRNA:   3'- aGUGCG-----------UAGUUGGAGgAG-------AGGGCGcc -5'
16331 5' -56.2 NC_004084.1 + 16582 0.68 0.600862
Target:  5'- cUCAC-CAUCGGCCUCgUCaCCCccuacggacccgGCGGg -3'
miRNA:   3'- -AGUGcGUAGUUGGAGgAGaGGG------------CGCC- -5'
16331 5' -56.2 NC_004084.1 + 40629 0.68 0.597635
Target:  5'- uUCACGacugaagagggcaaCGUCGACgUCCaguacaugcUCUCgCCGCGGa -3'
miRNA:   3'- -AGUGC--------------GUAGUUGgAGG---------AGAG-GGCGCC- -5'
16331 5' -56.2 NC_004084.1 + 31727 0.69 0.547534
Target:  5'- cUACGCcgauAUCGacgaugucGCCUCCUCUCagaCCGCGa -3'
miRNA:   3'- aGUGCG----UAGU--------UGGAGGAGAG---GGCGCc -5'
16331 5' -56.2 NC_004084.1 + 10423 0.69 0.547534
Target:  5'- aUCuCGCAgUCGACgUCCUCgugcaUCCCGCa- -3'
miRNA:   3'- -AGuGCGU-AGUUGgAGGAG-----AGGGCGcc -5'
16331 5' -56.2 NC_004084.1 + 26072 0.69 0.505972
Target:  5'- aUCGCGCGgaugcUCGugCUCUUCgCCUGCGc -3'
miRNA:   3'- -AGUGCGU-----AGUugGAGGAGaGGGCGCc -5'
16331 5' -56.2 NC_004084.1 + 48535 0.69 0.505972
Target:  5'- uUCACGuCAUCGgucGCCgaCUCUUCCGcCGGg -3'
miRNA:   3'- -AGUGC-GUAGU---UGGagGAGAGGGC-GCC- -5'
16331 5' -56.2 NC_004084.1 + 55479 0.7 0.485698
Target:  5'- gUCGCGUgaGUCcuccggGAUCUCCUCUCCCagcuuCGGg -3'
miRNA:   3'- -AGUGCG--UAG------UUGGAGGAGAGGGc----GCC- -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.