miRNA display CGI


Results 1 - 14 of 14 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
7298 5' -57.1 NC_001900.1 + 9392 0.66 0.641652
Target:  5'- uGUCGAGgGUu---UCCGGC-UCGGGg -3'
miRNA:   3'- cCAGCUCgCGuacuAGGCCGcAGCCU- -5'
7298 5' -57.1 NC_001900.1 + 10218 0.66 0.60918
Target:  5'- aGGUCGAGCGgAaGAacgcgaucUUCGGCGgugcgUGGGa -3'
miRNA:   3'- -CCAGCUCGCgUaCU--------AGGCCGCa----GCCU- -5'
7298 5' -57.1 NC_001900.1 + 12815 0.66 0.598382
Target:  5'- cGGaCGGGCGac-GAUCCGGCccgaaCGGAa -3'
miRNA:   3'- -CCaGCUCGCguaCUAGGCCGca---GCCU- -5'
7298 5' -57.1 NC_001900.1 + 21894 0.67 0.556612
Target:  5'- cGUCuGGGCGCuccgcaaucucccguUGAUUgcaGGCGUCGGGg -3'
miRNA:   3'- cCAG-CUCGCGu--------------ACUAGg--CCGCAGCCU- -5'
7298 5' -57.1 NC_001900.1 + 11619 0.67 0.541811
Target:  5'- gGGUCGGGUcgccgGCcgGAgugccuucgguaguUgCGGUGUCGGAc -3'
miRNA:   3'- -CCAGCUCG-----CGuaCU--------------AgGCCGCAGCCU- -5'
7298 5' -57.1 NC_001900.1 + 34315 0.67 0.534459
Target:  5'- aGGUCGAuGUaGUcgGucuucCCGGCGUCGGu -3'
miRNA:   3'- -CCAGCU-CG-CGuaCua---GGCCGCAGCCu -5'
7298 5' -57.1 NC_001900.1 + 40970 0.67 0.522979
Target:  5'- uGGUCGAGUccgaggacgggcuGCAUuggagggaGAUCUGauGCGUCGGGu -3'
miRNA:   3'- -CCAGCUCG-------------CGUA--------CUAGGC--CGCAGCCU- -5'
7298 5' -57.1 NC_001900.1 + 27469 0.68 0.513657
Target:  5'- gGGcCGAGcCGCAcggccuUGAgCCGGCcGUCGGc -3'
miRNA:   3'- -CCaGCUC-GCGU------ACUaGGCCG-CAGCCu -5'
7298 5' -57.1 NC_001900.1 + 43809 0.68 0.480096
Target:  5'- --gUGAGCGCGagcGAaccggaacgccgcuUCUGGCGUCGGGa -3'
miRNA:   3'- ccaGCUCGCGUa--CU--------------AGGCCGCAGCCU- -5'
7298 5' -57.1 NC_001900.1 + 23820 0.69 0.434244
Target:  5'- cGGUCGgcuaucGGCGC-UGGcuUCCGGCGcUGGGg -3'
miRNA:   3'- -CCAGC------UCGCGuACU--AGGCCGCaGCCU- -5'
7298 5' -57.1 NC_001900.1 + 416 0.69 0.424819
Target:  5'- aGG-CGcGGCGCuaGAUCCGGCGguugcCGGAu -3'
miRNA:   3'- -CCaGC-UCGCGuaCUAGGCCGCa----GCCU- -5'
7298 5' -57.1 NC_001900.1 + 5225 0.69 0.415516
Target:  5'- cGGUCGuuccaGGCGCGUGcgCCGuCGUagaGGAa -3'
miRNA:   3'- -CCAGC-----UCGCGUACuaGGCcGCAg--CCU- -5'
7298 5' -57.1 NC_001900.1 + 9877 0.71 0.321912
Target:  5'- aGGUcCGAGaGCcgGGUCCGGU-UCGGAa -3'
miRNA:   3'- -CCA-GCUCgCGuaCUAGGCCGcAGCCU- -5'
7298 5' -57.1 NC_001900.1 + 13359 1.11 0.000516
Target:  5'- aGGUCGAGCGCAUGAUCCGGCGUCGGAu -3'
miRNA:   3'- -CCAGCUCGCGUACUAGGCCGCAGCCU- -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.