miRNA display CGI


Results 1 - 12 of 12 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
2258 3' -56.3 NC_001405.1 + 9560 0.66 0.568344
Target:  5'- uGGCGGGgGGCUGCCgugcggcagggauaCGGCGCU-AACg -3'
miRNA:   3'- uCUGCUCgCUGAUGG--------------GCUGCGGcUUG- -5'
2258 3' -56.3 NC_001405.1 + 13292 0.66 0.549646
Target:  5'- uGAUGcGCGACgggguaacGCCCagcguGGCGCUGGACa -3'
miRNA:   3'- uCUGCuCGCUGa-------UGGG-----CUGCGGCUUG- -5'
2258 3' -56.3 NC_001405.1 + 27884 0.66 0.535476
Target:  5'- gAGGCaGAGCGACUgcGCCUGACacaccucgaccacuGCCGc-- -3'
miRNA:   3'- -UCUG-CUCGCUGA--UGGGCUG--------------CGGCuug -5'
2258 3' -56.3 NC_001405.1 + 16322 0.66 0.5279
Target:  5'- cGACGAGCGGCcGCCgCaGCaGCCGcGGCc -3'
miRNA:   3'- uCUGCUCGCUGaUGG-GcUG-CGGC-UUG- -5'
2258 3' -56.3 NC_001405.1 + 15751 0.67 0.506482
Target:  5'- -aGCGAGUGACcauuaCUGACGCCaGACg -3'
miRNA:   3'- ucUGCUCGCUGaug--GGCUGCGGcUUG- -5'
2258 3' -56.3 NC_001405.1 + 17833 0.67 0.506482
Target:  5'- cGACGGuGCGACgcGCgCCGcCGCCGGu- -3'
miRNA:   3'- uCUGCU-CGCUGa-UG-GGCuGCGGCUug -5'
2258 3' -56.3 NC_001405.1 + 11162 0.67 0.47405
Target:  5'- cAGAUG-GUGAUUAcgaacccCCgCGGCGCCGGGCc -3'
miRNA:   3'- -UCUGCuCGCUGAU-------GG-GCUGCGGCUUG- -5'
2258 3' -56.3 NC_001405.1 + 22797 0.68 0.451678
Target:  5'- cGACaaGAGCGuGCUggccagcgugcaccACCCGGCGCUGAu- -3'
miRNA:   3'- uCUG--CUCGC-UGA--------------UGGGCUGCGGCUug -5'
2258 3' -56.3 NC_001405.1 + 26849 0.68 0.405911
Target:  5'- aGGAgGAGCG-CUGCguCUGGCGCCcAACg -3'
miRNA:   3'- -UCUgCUCGCuGAUG--GGCUGCGGcUUG- -5'
2258 3' -56.3 NC_001405.1 + 8957 0.7 0.310952
Target:  5'- cGugGAGCGA--GCCgGACGCgGAGa -3'
miRNA:   3'- uCugCUCGCUgaUGGgCUGCGgCUUg -5'
2258 3' -56.3 NC_001405.1 + 11424 0.73 0.198991
Target:  5'- cGAgGAG-GACUuugaGCCCGACGCgCGGACc -3'
miRNA:   3'- uCUgCUCgCUGA----UGGGCUGCG-GCUUG- -5'
2258 3' -56.3 NC_001405.1 + 17472 1.08 0.000549
Target:  5'- aAGACGAGCGACUACCCGACGCCGAACc -3'
miRNA:   3'- -UCUGCUCGCUGAUGGGCUGCGGCUUG- -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.