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 + 33342 0.66 0.663777
Target:  5'- uGAuCGGgGUCGAUgcaAUCgGGCGAGGUCa- -3'
miRNA:   3'- -CU-GCCaCGGCUG---UAG-CCGCUCCAGcc -5'
23510 3' -58.5 NC_005259.1 + 36368 0.66 0.663777
Target:  5'- --aGGgauugcGUCGAag-CGGCGAGGUUGGc -3'
miRNA:   3'- cugCCa-----CGGCUguaGCCGCUCCAGCC- -5'
23510 3' -58.5 NC_005259.1 + 41195 0.66 0.663777
Target:  5'- cGAUGGUgauGCCGuuGUCGGUGuGGaUCGu -3'
miRNA:   3'- -CUGCCA---CGGCugUAGCCGCuCC-AGCc -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 + 61049 0.66 0.652311
Target:  5'- cGACGGgcggcucaccuugUGCCgGGCAUCggcauaGGCGucGUCGGc -3'
miRNA:   3'- -CUGCC-------------ACGG-CUGUAG------CCGCucCAGCC- -5'
23510 3' -58.5 NC_005259.1 + 42459 0.66 0.642914
Target:  5'- aACaGUcGCCGACuaCGGCGAGGccCGGc -3'
miRNA:   3'- cUGcCA-CGGCUGuaGCCGCUCCa-GCC- -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 + 57403 0.66 0.62306
Target:  5'- cACGGUGCCcgcucucagucugcuGcuaccggcucgcuuACG-CGGCGAGGUUGGu -3'
miRNA:   3'- cUGCCACGG---------------C--------------UGUaGCCGCUCCAGCC- -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 + 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 + 36163 0.67 0.590748
Target:  5'- cACGGUGaCGACcUUGcCGAGGUCGa -3'
miRNA:   3'- cUGCCACgGCUGuAGCcGCUCCAGCc -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 + 34563 0.67 0.570046
Target:  5'- -uCGGgGCCGA---CGGCGAGGuucUCGGa -3'
miRNA:   3'- cuGCCaCGGCUguaGCCGCUCC---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 + 56921 0.68 0.539353
Target:  5'- aGGC-GUGCCcGCGUCGGUGAgcaugcGGUUGGc -3'
miRNA:   3'- -CUGcCACGGcUGUAGCCGCU------CCAGCC- -5'
23510 3' -58.5 NC_005259.1 + 35983 0.68 0.539353
Target:  5'- cGGCGGgaaaCCGA---CGGCGAGGcCGGa -3'
miRNA:   3'- -CUGCCac--GGCUguaGCCGCUCCaGCC- -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 + 28002 0.68 0.529243
Target:  5'- --gGGUGCCGG----GGCGGGGUCGc -3'
miRNA:   3'- cugCCACGGCUguagCCGCUCCAGCc -5'
23510 3' -58.5 NC_005259.1 + 10942 0.68 0.529243
Target:  5'- -uCGGUGUCGACcucGUCGGUGucGGUCu- -3'
miRNA:   3'- cuGCCACGGCUG---UAGCCGCu-CCAGcc -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.