miRNA display CGI


Results 1 - 16 of 16 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
23412 5' -61.5 NC_005259.1 + 56350 0.66 0.444973
Target:  5'- uGCGUuGCCCUCGGGcacgcgguacagccGUCGCGGGCc- -3'
miRNA:   3'- cUGCGcUGGGAGCCC--------------CGGCGCUUGuu -5'
23412 5' -61.5 NC_005259.1 + 60581 0.66 0.42933
Target:  5'- --gGCGGCCCacggcgagUCGGGuGCCGUcaucGAGCAGc -3'
miRNA:   3'- cugCGCUGGG--------AGCCC-CGGCG----CUUGUU- -5'
23412 5' -61.5 NC_005259.1 + 66258 0.66 0.411349
Target:  5'- aGCGCGGCCCgcgCcGGGCgGCGGcucACGc -3'
miRNA:   3'- cUGCGCUGGGa--GcCCCGgCGCU---UGUu -5'
23412 5' -61.5 NC_005259.1 + 35690 0.67 0.385271
Target:  5'- cGACGCcguGCCCggcgaGGGGUCGCuGACGAg -3'
miRNA:   3'- -CUGCGc--UGGGag---CCCCGGCGcUUGUU- -5'
23412 5' -61.5 NC_005259.1 + 56761 0.67 0.368503
Target:  5'- -gUGUGGCCCaUCGGGGaCCGCuuGACAc -3'
miRNA:   3'- cuGCGCUGGG-AGCCCC-GGCGc-UUGUu -5'
23412 5' -61.5 NC_005259.1 + 56032 0.68 0.328821
Target:  5'- gGGCGgGACuuCCUCGGgcGGCUGCGggUAc -3'
miRNA:   3'- -CUGCgCUG--GGAGCC--CCGGCGCuuGUu -5'
23412 5' -61.5 NC_005259.1 + 46319 0.68 0.321274
Target:  5'- -uCGCGGCCC-CGaGGGUCGCGucgcGCAc -3'
miRNA:   3'- cuGCGCUGGGaGC-CCCGGCGCu---UGUu -5'
23412 5' -61.5 NC_005259.1 + 24224 0.69 0.299413
Target:  5'- aACGUGACCggCGGGGCCGa-GGCAc -3'
miRNA:   3'- cUGCGCUGGgaGCCCCGGCgcUUGUu -5'
23412 5' -61.5 NC_005259.1 + 40806 0.69 0.292386
Target:  5'- --aGCGgucACCCUCGGGGUCGaCGcGCAc -3'
miRNA:   3'- cugCGC---UGGGAGCCCCGGC-GCuUGUu -5'
23412 5' -61.5 NC_005259.1 + 16794 0.7 0.259184
Target:  5'- cGACGCGgucgcguacaucGCgCUCGGGGCCGgGGuCAu -3'
miRNA:   3'- -CUGCGC------------UGgGAGCCCCGGCgCUuGUu -5'
23412 5' -61.5 NC_005259.1 + 56308 0.71 0.207244
Target:  5'- cGugGCcgGACCCUCGucGCCGuCGAGCAAu -3'
miRNA:   3'- -CugCG--CUGGGAGCccCGGC-GCUUGUU- -5'
23412 5' -61.5 NC_005259.1 + 6528 0.73 0.160325
Target:  5'- cGCGCGACaaccggCCUCGGGGCgaGCGGugAAg -3'
miRNA:   3'- cUGCGCUG------GGAGCCCCGg-CGCUugUU- -5'
23412 5' -61.5 NC_005259.1 + 50648 0.74 0.1232
Target:  5'- uACGCcGCCCUCGGGGCCauaGGGCAc -3'
miRNA:   3'- cUGCGcUGGGAGCCCCGGcg-CUUGUu -5'
23412 5' -61.5 NC_005259.1 + 66012 0.76 0.096771
Target:  5'- uGCGC-ACCCUCGGGGCCGCa----- -3'
miRNA:   3'- cUGCGcUGGGAGCCCCGGCGcuuguu -5'
23412 5' -61.5 NC_005259.1 + 15569 0.77 0.077865
Target:  5'- gGugGCcACCCUCGGGGCCaGCGcGACGGg -3'
miRNA:   3'- -CugCGcUGGGAGCCCCGG-CGC-UUGUU- -5'
23412 5' -61.5 NC_005259.1 + 64449 0.84 0.023573
Target:  5'- gGGCGCuGCCCUUGGGGCgGCGAACGAc -3'
miRNA:   3'- -CUGCGcUGGGAGCCCCGgCGCUUGUU- -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.