miRNA display CGI


Results 1 - 15 of 15 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
11910 3' -58.9 NC_003278.1 + 1164 0.66 0.361217
Target:  5'- --uAGCUUGGCCUgcugcugcaGUGcgcgcagcGCCGGGGCc -3'
miRNA:   3'- guuUCGGACCGGAa--------CAC--------CGGUCCCGa -5'
11910 3' -58.9 NC_003278.1 + 16544 0.66 0.357703
Target:  5'- gGAGGUC-GGCCggguccaugccgGUGGCCucGGGCUc -3'
miRNA:   3'- gUUUCGGaCCGGaa----------CACCGGu-CCCGA- -5'
11910 3' -58.9 NC_003278.1 + 29897 0.66 0.330459
Target:  5'- gAGGGCCUGGCgCUUGaGGaucgcgucgcgcagCAGGGCc -3'
miRNA:   3'- gUUUCGGACCG-GAACaCCg-------------GUCCCGa -5'
11910 3' -58.9 NC_003278.1 + 31740 0.66 0.327163
Target:  5'- uCGAGcGCCUGGCCg-GUGuCCcGGGCa -3'
miRNA:   3'- -GUUU-CGGACCGGaaCACcGGuCCCGa -5'
11910 3' -58.9 NC_003278.1 + 12564 0.67 0.303222
Target:  5'- cCAGAaCCUGGCC----GGCCAGGuGCUc -3'
miRNA:   3'- -GUUUcGGACCGGaacaCCGGUCC-CGA- -5'
11910 3' -58.9 NC_003278.1 + 14056 0.67 0.288023
Target:  5'- --cGGCCUGGCCggcgccgaGGCCcuGGGCc -3'
miRNA:   3'- guuUCGGACCGGaaca----CCGGu-CCCGa -5'
11910 3' -58.9 NC_003278.1 + 9853 0.67 0.280651
Target:  5'- --cGGCCUGGCCUg--GGCCgAGuGCg -3'
miRNA:   3'- guuUCGGACCGGAacaCCGG-UCcCGa -5'
11910 3' -58.9 NC_003278.1 + 21519 0.68 0.27343
Target:  5'- cCAAGGCCUGGUCagcgcgGGCCGucaGGCUg -3'
miRNA:   3'- -GUUUCGGACCGGaaca--CCGGUc--CCGA- -5'
11910 3' -58.9 NC_003278.1 + 25201 0.68 0.266359
Target:  5'- --cGGCCcaucgaccucgaUGGCCUcgGUGaGCUGGGGCUc -3'
miRNA:   3'- guuUCGG------------ACCGGAa-CAC-CGGUCCCGA- -5'
11910 3' -58.9 NC_003278.1 + 21456 0.68 0.252661
Target:  5'- --cGGCCUGGCCcag-GGCCucGGCg -3'
miRNA:   3'- guuUCGGACCGGaacaCCGGucCCGa -5'
11910 3' -58.9 NC_003278.1 + 1304 0.68 0.239547
Target:  5'- aCAAAGcCCUGGCCacaaGGCCAGG-CUu -3'
miRNA:   3'- -GUUUC-GGACCGGaacaCCGGUCCcGA- -5'
11910 3' -58.9 NC_003278.1 + 25309 0.69 0.212698
Target:  5'- cCAAAGCCUcauaGGCCUUGaagcagguuucguUGGCgcugcugcggauacCAGGGCg -3'
miRNA:   3'- -GUUUCGGA----CCGGAAC-------------ACCG--------------GUCCCGa -5'
11910 3' -58.9 NC_003278.1 + 22140 0.71 0.149764
Target:  5'- --cGGCCUGGCCca-UGGUCgAGGGCa -3'
miRNA:   3'- guuUCGGACCGGaacACCGG-UCCCGa -5'
11910 3' -58.9 NC_003278.1 + 21019 0.72 0.133627
Target:  5'- uGGGGCCUGGCCgccaacccgGUGGUCcuGGCa -3'
miRNA:   3'- gUUUCGGACCGGaa-------CACCGGucCCGa -5'
11910 3' -58.9 NC_003278.1 + 34212 1.07 0.00026
Target:  5'- aCAAAGCCUGGCCUUGUGGCCAGGGCUu -3'
miRNA:   3'- -GUUUCGGACCGGAACACCGGUCCCGA- -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.