miRNA display CGI


Results 1 - 20 of 36 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
31784 3' -55.6 NC_006938.1 + 1625 1.1 0.000926
Target:  5'- cUACUCCUCCGCCAAGUCGGUGAAGCCu -3'
miRNA:   3'- -AUGAGGAGGCGGUUCAGCCACUUCGG- -5'
31784 3' -55.6 NC_006938.1 + 52169 0.74 0.275793
Target:  5'- aGCUCCUCgGUgGAGgaggCGGUGGAGgCg -3'
miRNA:   3'- aUGAGGAGgCGgUUCa---GCCACUUCgG- -5'
31784 3' -55.6 NC_006938.1 + 19408 0.73 0.32785
Target:  5'- aACUaCUuuGCCAGG-CgGGUGAAGCCg -3'
miRNA:   3'- aUGAgGAggCGGUUCaG-CCACUUCGG- -5'
31784 3' -55.6 NC_006938.1 + 41274 0.71 0.433028
Target:  5'- aGCaaCUCCGCCAucaacuuccgGGcCGGUGgcGCCa -3'
miRNA:   3'- aUGagGAGGCGGU----------UCaGCCACuuCGG- -5'
31784 3' -55.6 NC_006938.1 + 39495 0.71 0.433028
Target:  5'- gUugUCCUCCGUUGAGaagagagCGG-GGAGCCc -3'
miRNA:   3'- -AugAGGAGGCGGUUCa------GCCaCUUCGG- -5'
31784 3' -55.6 NC_006938.1 + 63433 0.71 0.442647
Target:  5'- cGCUCUaccacaagaUCGCCAAGgCGGUGAAGCa -3'
miRNA:   3'- aUGAGGa--------GGCGGUUCaGCCACUUCGg -5'
31784 3' -55.6 NC_006938.1 + 35475 0.7 0.46224
Target:  5'- gGCUCCUCCGUgu-GUCGGgccgGGugcGCCa -3'
miRNA:   3'- aUGAGGAGGCGguuCAGCCa---CUu--CGG- -5'
31784 3' -55.6 NC_006938.1 + 42769 0.7 0.502731
Target:  5'- gACcCCUCCaCCuGAGgaggUGGUGGAGCCg -3'
miRNA:   3'- aUGaGGAGGcGG-UUCa---GCCACUUCGG- -5'
31784 3' -55.6 NC_006938.1 + 19426 0.69 0.566104
Target:  5'- -cCUCCUCCGCCGcGUCcaUGAAGaaCCg -3'
miRNA:   3'- auGAGGAGGCGGUuCAGccACUUC--GG- -5'
31784 3' -55.6 NC_006938.1 + 17322 0.68 0.587726
Target:  5'- gACUCCuucucgaucUCCGCCAGGUUgcccucgcggaGGUGGcagaccagcuGGCCc -3'
miRNA:   3'- aUGAGG---------AGGCGGUUCAG-----------CCACU----------UCGG- -5'
31784 3' -55.6 NC_006938.1 + 62707 0.68 0.587726
Target:  5'- gACgUCCUCCGUCGAcccGUCauaGGUGuccAGCCg -3'
miRNA:   3'- aUG-AGGAGGCGGUU---CAG---CCACu--UCGG- -5'
31784 3' -55.6 NC_006938.1 + 29870 0.68 0.587726
Target:  5'- gGCcCCUCgGCCGAGcCGGaUGGcuGCCa -3'
miRNA:   3'- aUGaGGAGgCGGUUCaGCC-ACUu-CGG- -5'
31784 3' -55.6 NC_006938.1 + 10970 0.68 0.587726
Target:  5'- uUGCUgCCaacaUCgGCCGGGUCuGG-GGAGCCa -3'
miRNA:   3'- -AUGA-GG----AGgCGGUUCAG-CCaCUUCGG- -5'
31784 3' -55.6 NC_006938.1 + 35399 0.68 0.598596
Target:  5'- cACUCCgucauggacaUGCCAGcGUUGGcGAAGCCa -3'
miRNA:   3'- aUGAGGag--------GCGGUU-CAGCCaCUUCGG- -5'
31784 3' -55.6 NC_006938.1 + 62976 0.68 0.598596
Target:  5'- aACUUCUgUGUCGGGgCGGUGAAGUUc -3'
miRNA:   3'- aUGAGGAgGCGGUUCaGCCACUUCGG- -5'
31784 3' -55.6 NC_006938.1 + 11186 0.68 0.598596
Target:  5'- cACUcgCCUCCuGCCAAGgCGGcGAuguGCCg -3'
miRNA:   3'- aUGA--GGAGG-CGGUUCaGCCaCUu--CGG- -5'
31784 3' -55.6 NC_006938.1 + 27896 0.68 0.610585
Target:  5'- -cCUCUUCCGCCAcgcguacgcguucuuGUCGGgGucGCCg -3'
miRNA:   3'- auGAGGAGGCGGUu--------------CAGCCaCuuCGG- -5'
31784 3' -55.6 NC_006938.1 + 37955 0.68 0.619319
Target:  5'- cGCUUCUCCuggaucuccuggaGCCAgaGGUCaggGGUGAuGCCg -3'
miRNA:   3'- aUGAGGAGG-------------CGGU--UCAG---CCACUuCGG- -5'
31784 3' -55.6 NC_006938.1 + 20015 0.68 0.620411
Target:  5'- gAgUCCUCCacGCCGA--CGGgGAAGCCg -3'
miRNA:   3'- aUgAGGAGG--CGGUUcaGCCaCUUCGG- -5'
31784 3' -55.6 NC_006938.1 + 41151 0.68 0.620411
Target:  5'- gGCUCCUUCGCCGcG-CGGgaccGAGUCa -3'
miRNA:   3'- aUGAGGAGGCGGUuCaGCCac--UUCGG- -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.