miRNA display CGI


Results 1 - 20 of 46 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
23510 3' -58.5 NC_005259.1 + 2082 0.69 0.451327
Target:  5'- gGGCGGgccUGCuCGAuuuCAUCGGCGAGGccaaUUGGc -3'
miRNA:   3'- -CUGCC---ACG-GCU---GUAGCCGCUCC----AGCC- -5'
23510 3' -58.5 NC_005259.1 + 8371 0.75 0.209486
Target:  5'- cGGCGGcgGCCucGGCAUCGGCGAGaGccUCGGc -3'
miRNA:   3'- -CUGCCa-CGG--CUGUAGCCGCUC-C--AGCC- -5'
23510 3' -58.5 NC_005259.1 + 9031 0.67 0.580378
Target:  5'- cGCGGUGCuCGAUcaUGuGCGGGG-CGGu -3'
miRNA:   3'- cUGCCACG-GCUGuaGC-CGCUCCaGCC- -5'
23510 3' -58.5 NC_005259.1 + 9161 0.67 0.611574
Target:  5'- cGACGGcaUGCCGguggcagccgauGCAaUGGuCGAGGUCGu -3'
miRNA:   3'- -CUGCC--ACGGC------------UGUaGCC-GCUCCAGCc -5'
23510 3' -58.5 NC_005259.1 + 10942 0.68 0.529243
Target:  5'- -uCGGUGUCGACcucGUCGGUGucGGUCu- -3'
miRNA:   3'- cuGCCACGGCUG---UAGCCGCu-CCAGcc -5'
23510 3' -58.5 NC_005259.1 + 14076 0.7 0.405938
Target:  5'- cGGCGGUGgCCuACGUgCGcaGCGAGGUCGa -3'
miRNA:   3'- -CUGCCAC-GGcUGUA-GC--CGCUCCAGCc -5'
23510 3' -58.5 NC_005259.1 + 14540 0.66 0.662736
Target:  5'- -uCGGUGCCGAguUCGuccggcaggccgaGCGGGGacCGGc -3'
miRNA:   3'- cuGCCACGGCUguAGC-------------CGCUCCa-GCC- -5'
23510 3' -58.5 NC_005259.1 + 17330 0.68 0.539353
Target:  5'- cGAgGGUguGCCGgucaACGUCGccguCGAGGUCGGc -3'
miRNA:   3'- -CUgCCA--CGGC----UGUAGCc---GCUCCAGCC- -5'
23510 3' -58.5 NC_005259.1 + 22988 0.69 0.442025
Target:  5'- -cCGGUGUCGACGcCGcCGAGGUCa- -3'
miRNA:   3'- cuGCCACGGCUGUaGCcGCUCCAGcc -5'
23510 3' -58.5 NC_005259.1 + 23290 0.67 0.601149
Target:  5'- cGCGGUGguuggguaUCGGgGUcCGGCGcGGUCGGu -3'
miRNA:   3'- cUGCCAC--------GGCUgUA-GCCGCuCCAGCC- -5'
23510 3' -58.5 NC_005259.1 + 27063 0.67 0.590748
Target:  5'- cGACGGUcacggcgacaucGCCGACAUucugCGGCGGcugccaugcGGUgGGc -3'
miRNA:   3'- -CUGCCA------------CGGCUGUA----GCCGCU---------CCAgCC- -5'
23510 3' -58.5 NC_005259.1 + 27394 0.75 0.209486
Target:  5'- cGGCGGUGUCGGCAgCGGCGgcAGcUCGGu -3'
miRNA:   3'- -CUGCCACGGCUGUaGCCGC--UCcAGCC- -5'
23510 3' -58.5 NC_005259.1 + 28002 0.68 0.529243
Target:  5'- --gGGUGCCGG----GGCGGGGUCGc -3'
miRNA:   3'- cugCCACGGCUguagCCGCUCCAGCc -5'
23510 3' -58.5 NC_005259.1 + 28217 0.7 0.39721
Target:  5'- aGACGGUcguGCCGccacCGUCGGCGGcgggguGGUCGa -3'
miRNA:   3'- -CUGCCA---CGGCu---GUAGCCGCU------CCAGCc -5'
23510 3' -58.5 NC_005259.1 + 28641 0.7 0.414786
Target:  5'- -cCGGUGCCGACAcCGcCGAGGcCGc -3'
miRNA:   3'- cuGCCACGGCUGUaGCcGCUCCaGCc -5'
23510 3' -58.5 NC_005259.1 + 28941 0.7 0.388603
Target:  5'- aGGCGGcacgauccugcGCCG-CAUCGcCGAGGUCGGu -3'
miRNA:   3'- -CUGCCa----------CGGCuGUAGCcGCUCCAGCC- -5'
23510 3' -58.5 NC_005259.1 + 32637 0.69 0.489562
Target:  5'- -uCGGUacGCCG-CAUUGGcCGGGGUgGGg -3'
miRNA:   3'- cuGCCA--CGGCuGUAGCC-GCUCCAgCC- -5'
23510 3' -58.5 NC_005259.1 + 33342 0.66 0.663777
Target:  5'- uGAuCGGgGUCGAUgcaAUCgGGCGAGGUCa- -3'
miRNA:   3'- -CU-GCCaCGGCUG---UAG-CCGCUCCAGcc -5'
23510 3' -58.5 NC_005259.1 + 34563 0.67 0.570046
Target:  5'- -uCGGgGCCGA---CGGCGAGGuucUCGGa -3'
miRNA:   3'- cuGCCaCGGCUguaGCCGCUCC---AGCC- -5'
23510 3' -58.5 NC_005259.1 + 35983 0.68 0.539353
Target:  5'- cGGCGGgaaaCCGA---CGGCGAGGcCGGa -3'
miRNA:   3'- -CUGCCac--GGCUguaGCCGCUCCaGCC- -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.