miRNA display CGI


Results 1 - 20 of 74 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
12968 5' -54.4 NC_003387.1 + 439 0.67 0.671723
Target:  5'- uGGCGGUuaagucuGUCGC-CGCcGcgGCGGCCg -3'
miRNA:   3'- -CCGCCGu------UAGUGuGCGaCa-UGUCGGa -5'
12968 5' -54.4 NC_003387.1 + 900 0.68 0.603595
Target:  5'- cGGCGcGCucguGUU-CGCGCUGUGCAucaagacGCCUa -3'
miRNA:   3'- -CCGC-CGu---UAGuGUGCGACAUGU-------CGGA- -5'
12968 5' -54.4 NC_003387.1 + 1624 0.69 0.571395
Target:  5'- cGGuCGGCGcgUGCugGCUGauggacgacgACGGCCg -3'
miRNA:   3'- -CC-GCCGUuaGUGugCGACa---------UGUCGGa -5'
12968 5' -54.4 NC_003387.1 + 1696 0.73 0.319063
Target:  5'- cGGCGGCGGUCgACuggauCGCUGaGCgGGCCg -3'
miRNA:   3'- -CCGCCGUUAG-UGu----GCGACaUG-UCGGa -5'
12968 5' -54.4 NC_003387.1 + 2360 0.66 0.75216
Target:  5'- cGGCGucgagcgccacguacGCGGUCACGuugcCGCgg-GCGGCCUg -3'
miRNA:   3'- -CCGC---------------CGUUAGUGU----GCGacaUGUCGGA- -5'
12968 5' -54.4 NC_003387.1 + 2725 0.7 0.464785
Target:  5'- gGGCGGCGggCAggcCACGCa--GCAGCCg -3'
miRNA:   3'- -CCGCCGUuaGU---GUGCGacaUGUCGGa -5'
12968 5' -54.4 NC_003387.1 + 4009 0.7 0.484318
Target:  5'- uGGCGGCGAUCAgcCAggcccaaaagaacCGCgugGCGGCCUc -3'
miRNA:   3'- -CCGCCGUUAGU--GU-------------GCGacaUGUCGGA- -5'
12968 5' -54.4 NC_003387.1 + 4933 0.71 0.415457
Target:  5'- cGCGGC-GUCGCGCGUUGUcgaacgugACAGaCCa -3'
miRNA:   3'- cCGCCGuUAGUGUGCGACA--------UGUC-GGa -5'
12968 5' -54.4 NC_003387.1 + 6832 0.7 0.516994
Target:  5'- gGGCGGCAggucgAUCGCcCGCUcggccgcggcGcGCAGCCg -3'
miRNA:   3'- -CCGCCGU-----UAGUGuGCGA----------CaUGUCGGa -5'
12968 5' -54.4 NC_003387.1 + 6895 0.67 0.671723
Target:  5'- cGCGGCGucGUCGCGgGCcau-CAGCCg -3'
miRNA:   3'- cCGCCGU--UAGUGUgCGacauGUCGGa -5'
12968 5' -54.4 NC_003387.1 + 7177 0.68 0.60471
Target:  5'- uGGCGGCgGAUCGCcuUGCcGcACGGCCa -3'
miRNA:   3'- -CCGCCG-UUAGUGu-GCGaCaUGUCGGa -5'
12968 5' -54.4 NC_003387.1 + 7757 0.72 0.378386
Target:  5'- aGCGGCGAUCGCGgC-CUGagccGCGGCCUg -3'
miRNA:   3'- cCGCCGUUAGUGU-GcGACa---UGUCGGA- -5'
12968 5' -54.4 NC_003387.1 + 10442 0.7 0.516994
Target:  5'- cGGCGGgCAucgacaGCGCGCUGU-CGGUCg -3'
miRNA:   3'- -CCGCC-GUuag---UGUGCGACAuGUCGGa -5'
12968 5' -54.4 NC_003387.1 + 10750 0.7 0.495804
Target:  5'- cGGCGGCcuccgcgCGCAgcuccuCGCUG-GCGGCCUg -3'
miRNA:   3'- -CCGCCGuua----GUGU------GCGACaUGUCGGA- -5'
12968 5' -54.4 NC_003387.1 + 11387 0.74 0.31118
Target:  5'- uGCGGCGAUCGgcgcCACGCUGgccgcgauCGGCCc -3'
miRNA:   3'- cCGCCGUUAGU----GUGCGACau------GUCGGa -5'
12968 5' -54.4 NC_003387.1 + 11566 0.68 0.58246
Target:  5'- cGGUGGCGAUCgGCACcaagGC-GUACGGCg- -3'
miRNA:   3'- -CCGCCGUUAG-UGUG----CGaCAUGUCGga -5'
12968 5' -54.4 NC_003387.1 + 11777 0.68 0.615877
Target:  5'- gGGCGGC-AUCAaggcCGCUGUGCAcGUg- -3'
miRNA:   3'- -CCGCCGuUAGUgu--GCGACAUGU-CGga -5'
12968 5' -54.4 NC_003387.1 + 12245 0.72 0.369471
Target:  5'- aGCGGCGcucggcuugauGUacUugGCGCUGUACAGCUUc -3'
miRNA:   3'- cCGCCGU-----------UA--GugUGCGACAUGUCGGA- -5'
12968 5' -54.4 NC_003387.1 + 12370 0.7 0.485357
Target:  5'- cGGCcGCGAUCACGgccUGCUGcACGGCUUu -3'
miRNA:   3'- -CCGcCGUUAGUGU---GCGACaUGUCGGA- -5'
12968 5' -54.4 NC_003387.1 + 13400 0.71 0.425067
Target:  5'- cGCGGUGAUCACAgcacgcccucgcCGUUGU-CGGCCg -3'
miRNA:   3'- cCGCCGUUAGUGU------------GCGACAuGUCGGa -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.