miRNA display CGI


Results 1 - 13 of 13 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
28001 5' -60.6 NC_005887.1 + 31912 0.66 0.386724
Target:  5'- --aUGGGUGCACUGc---GCCGUCGGu -3'
miRNA:   3'- cagGCCCACGUGGCcgaaCGGCAGCU- -5'
28001 5' -60.6 NC_005887.1 + 34394 0.66 0.360861
Target:  5'- -gCCGGGcGCGaggcCCGGCcUGCaaucaGUCGAg -3'
miRNA:   3'- caGGCCCaCGU----GGCCGaACGg----CAGCU- -5'
28001 5' -60.6 NC_005887.1 + 36967 0.67 0.312845
Target:  5'- -aCCGGucGCGCUGGCUUcGCCuUCGAg -3'
miRNA:   3'- caGGCCcaCGUGGCCGAA-CGGcAGCU- -5'
28001 5' -60.6 NC_005887.1 + 28920 0.67 0.308319
Target:  5'- -gCUGagcGGUGCGCCgcucgucgcagcagcGGCUUGCCGcCGAc -3'
miRNA:   3'- caGGC---CCACGUGG---------------CCGAACGGCaGCU- -5'
28001 5' -60.6 NC_005887.1 + 22119 0.67 0.297952
Target:  5'- -gCCGGGUGCgAUUGGCUcGCUGaUCGc -3'
miRNA:   3'- caGGCCCACG-UGGCCGAaCGGC-AGCu -5'
28001 5' -60.6 NC_005887.1 + 29608 0.7 0.195124
Target:  5'- uUCCGGGUGUACUGGUucacgcccauauagcUgaucucGCCGUCGu -3'
miRNA:   3'- cAGGCCCACGUGGCCG---------------Aa-----CGGCAGCu -5'
28001 5' -60.6 NC_005887.1 + 29772 0.71 0.175491
Target:  5'- -gCCGGGUcggcggacaccaugcGCauGCCGGCg-GCCGUCGAc -3'
miRNA:   3'- caGGCCCA---------------CG--UGGCCGaaCGGCAGCU- -5'
28001 5' -60.6 NC_005887.1 + 34643 0.71 0.169045
Target:  5'- cGUCgaCGaGGcGCGCCGGCUUGCCGguuucCGGa -3'
miRNA:   3'- -CAG--GC-CCaCGUGGCCGAACGGCa----GCU- -5'
28001 5' -60.6 NC_005887.1 + 35286 0.71 0.160205
Target:  5'- -gUCGGuGcgcUGCACCGGaaUGCCGUCGAa -3'
miRNA:   3'- caGGCC-C---ACGUGGCCgaACGGCAGCU- -5'
28001 5' -60.6 NC_005887.1 + 23970 0.71 0.160205
Target:  5'- -aUCGGGUucgcgaGCGCCGGCgcGCCGUCu- -3'
miRNA:   3'- caGGCCCA------CGUGGCCGaaCGGCAGcu -5'
28001 5' -60.6 NC_005887.1 + 33103 0.71 0.158916
Target:  5'- aGUCgGGGUcGC-CCGGCUUGCguuccucgccguugCGUCGGu -3'
miRNA:   3'- -CAGgCCCA-CGuGGCCGAACG--------------GCAGCU- -5'
28001 5' -60.6 NC_005887.1 + 39847 0.84 0.017957
Target:  5'- aGUCCGGGUGCacgagcagGCCgGGCUcGCCGUCGAu -3'
miRNA:   3'- -CAGGCCCACG--------UGG-CCGAaCGGCAGCU- -5'
28001 5' -60.6 NC_005887.1 + 40266 1.08 0.00027
Target:  5'- aGUCCGGGUGCACCGGCUUGCCGUCGAc -3'
miRNA:   3'- -CAGGCCCACGUGGCCGAACGGCAGCU- -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.