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 + 68802 0.69 0.476001
Target:  5'- gGGCGGUGUCGgugcccgguacauGCucucggucaaagcaGUCGGUGAGGUgGGc -3'
miRNA:   3'- -CUGCCACGGC-------------UG--------------UAGCCGCUCCAgCC- -5'
23510 3' -58.5 NC_005259.1 + 67238 0.7 0.432832
Target:  5'- cGGCGGUGuaGGgGUUGaGCGGGGccUCGGg -3'
miRNA:   3'- -CUGCCACggCUgUAGC-CGCUCC--AGCC- -5'
23510 3' -58.5 NC_005259.1 + 67208 0.68 0.499358
Target:  5'- -----cGCCGcUGUCGGCGGGGUCGa -3'
miRNA:   3'- cugccaCGGCuGUAGCCGCUCCAGCc -5'
23510 3' -58.5 NC_005259.1 + 66664 0.68 0.498375
Target:  5'- cGGCGGUGCUGcgaugcuCAUCGuGCcgcccauGAGGUCGa -3'
miRNA:   3'- -CUGCCACGGCu------GUAGC-CG-------CUCCAGCc -5'
23510 3' -58.5 NC_005259.1 + 64359 0.74 0.237345
Target:  5'- gGGCGGUGCC--CAUCaGCGAGGUCu- -3'
miRNA:   3'- -CUGCCACGGcuGUAGcCGCUCCAGcc -5'
23510 3' -58.5 NC_005259.1 + 61049 0.66 0.652311
Target:  5'- cGACGGgcggcucaccuugUGCCgGGCAUCggcauaGGCGucGUCGGc -3'
miRNA:   3'- -CUGCC-------------ACGG-CUGUAG------CCGCucCAGCC- -5'
23510 3' -58.5 NC_005259.1 + 61012 0.71 0.363528
Target:  5'- cGACGGUGagcuuccacUCGGUggCGGCGAGGUCGa -3'
miRNA:   3'- -CUGCCAC---------GGCUGuaGCCGCUCCAGCc -5'
23510 3' -58.5 NC_005259.1 + 60754 0.74 0.237345
Target:  5'- uGCaGUGCaguCGGC-UCGGCGAGGUUGGg -3'
miRNA:   3'- cUGcCACG---GCUGuAGCCGCUCCAGCC- -5'
23510 3' -58.5 NC_005259.1 + 60599 0.7 0.387749
Target:  5'- --nGGUGCCGuCAUcgagcagcacaggCGGCGAGGUgUGGa -3'
miRNA:   3'- cugCCACGGCuGUA-------------GCCGCUCCA-GCC- -5'
23510 3' -58.5 NC_005259.1 + 60565 0.75 0.197144
Target:  5'- -cCGGUGCCGACGgucaggcggcccaCGGCGA-GUCGGg -3'
miRNA:   3'- cuGCCACGGCUGUa------------GCCGCUcCAGCC- -5'
23510 3' -58.5 NC_005259.1 + 58941 0.7 0.405938
Target:  5'- cGCGGUGgCaGCGUCGGCcuuggccagcAGGUCGGg -3'
miRNA:   3'- cUGCCACgGcUGUAGCCGc---------UCCAGCC- -5'
23510 3' -58.5 NC_005259.1 + 57403 0.66 0.62306
Target:  5'- cACGGUGCCcgcucucagucugcuGcuaccggcucgcuuACG-CGGCGAGGUUGGu -3'
miRNA:   3'- cUGCCACGG---------------C--------------UGUaGCCGCUCCAGCC- -5'
23510 3' -58.5 NC_005259.1 + 56921 0.68 0.539353
Target:  5'- aGGC-GUGCCcGCGUCGGUGAgcaugcGGUUGGc -3'
miRNA:   3'- -CUGcCACGGcUGUAGCCGCU------CCAGCC- -5'
23510 3' -58.5 NC_005259.1 + 56179 0.68 0.528236
Target:  5'- cACGGUGCCGACAUaCGcguuGCGcgagcugugcucaAGGaUCGGu -3'
miRNA:   3'- cUGCCACGGCUGUA-GC----CGC-------------UCC-AGCC- -5'
23510 3' -58.5 NC_005259.1 + 54795 0.74 0.24933
Target:  5'- uGCGGUGCCGACcguUCGGUaGGGGaUCGu -3'
miRNA:   3'- cUGCCACGGCUGu--AGCCG-CUCC-AGCc -5'
23510 3' -58.5 NC_005259.1 + 50987 0.68 0.548507
Target:  5'- aGCGGUGUCGAguCAcCGGCGAaaaaccggacguuGGUCGu -3'
miRNA:   3'- cUGCCACGGCU--GUaGCCGCU-------------CCAGCc -5'
23510 3' -58.5 NC_005259.1 + 49811 0.66 0.642914
Target:  5'- --aGGUGagcCCGACuuuacCaGCGAGGUCGGc -3'
miRNA:   3'- cugCCAC---GGCUGua---GcCGCUCCAGCC- -5'
23510 3' -58.5 NC_005259.1 + 49634 0.73 0.281478
Target:  5'- cGGCGGcaGCCG-CGUCGGCGAuGG-CGGc -3'
miRNA:   3'- -CUGCCa-CGGCuGUAGCCGCU-CCaGCC- -5'
23510 3' -58.5 NC_005259.1 + 47587 0.71 0.38012
Target:  5'- cGGCGGUguuGCCGAauaucugGUCGGCGAGGcugaGGu -3'
miRNA:   3'- -CUGCCA---CGGCUg------UAGCCGCUCCag--CC- -5'
23510 3' -58.5 NC_005259.1 + 42459 0.66 0.642914
Target:  5'- aACaGUcGCCGACuaCGGCGAGGccCGGc -3'
miRNA:   3'- cUGcCA-CGGCUGuaGCCGCUCCa-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.