miRNA display CGI


Results 1 - 20 of 49 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
12377 3' -59.5 NC_003324.1 + 38010 0.66 0.513061
Target:  5'- cGGUUGCGGC-GCACGGGgCGcgucaacauuccGCCGa- -3'
miRNA:   3'- -CCGACGUCGuCGUGUCCgGC------------UGGUcc -5'
12377 3' -59.5 NC_003324.1 + 24580 0.67 0.434423
Target:  5'- cGCUGCGGgcgacCAGCGCAGGaUC-AUCGGGg -3'
miRNA:   3'- cCGACGUC-----GUCGUGUCC-GGcUGGUCC- -5'
12377 3' -59.5 NC_003324.1 + 42650 0.67 0.443879
Target:  5'- cGGauCUGCAaCAGCAaggccauucgcCGGGCC-ACCAGGa -3'
miRNA:   3'- -CC--GACGUcGUCGU-----------GUCCGGcUGGUCC- -5'
12377 3' -59.5 NC_003324.1 + 13401 0.66 0.47292
Target:  5'- uGCUGCAGCucGGCcagauACAGG-CGACUgAGGu -3'
miRNA:   3'- cCGACGUCG--UCG-----UGUCCgGCUGG-UCC- -5'
12377 3' -59.5 NC_003324.1 + 19614 0.66 0.47292
Target:  5'- uGGUuuUG-AGCAGCGCGGGCUG--CAGGu -3'
miRNA:   3'- -CCG--ACgUCGUCGUGUCCGGCugGUCC- -5'
12377 3' -59.5 NC_003324.1 + 8432 0.66 0.47292
Target:  5'- cGGCUGCAGguGC--AGGCgGAUUugcGGc -3'
miRNA:   3'- -CCGACGUCguCGugUCCGgCUGGu--CC- -5'
12377 3' -59.5 NC_003324.1 + 44310 0.66 0.47292
Target:  5'- gGGC-GCGGUGGCGC-GGCCGAUa--- -3'
miRNA:   3'- -CCGaCGUCGUCGUGuCCGGCUGgucc -5'
12377 3' -59.5 NC_003324.1 + 13605 0.66 0.502887
Target:  5'- cGGCUGCAaauuccGCGaagacGCGCAGGC-GAUCGGc -3'
miRNA:   3'- -CCGACGU------CGU-----CGUGUCCGgCUGGUCc -5'
12377 3' -59.5 NC_003324.1 + 15456 0.66 0.513061
Target:  5'- aGGUUGcCAGgGGCG-AGGCCaaGGCCgAGGa -3'
miRNA:   3'- -CCGAC-GUCgUCGUgUCCGG--CUGG-UCC- -5'
12377 3' -59.5 NC_003324.1 + 49570 0.67 0.415868
Target:  5'- gGGUUGaagaaCGGCAccgucGUugAGGCUGACCAGa -3'
miRNA:   3'- -CCGAC-----GUCGU-----CGugUCCGGCUGGUCc -5'
12377 3' -59.5 NC_003324.1 + 32042 0.68 0.380255
Target:  5'- uGCcgGCGGCGGCuCAcGGCCGAgCaAGGc -3'
miRNA:   3'- cCGa-CGUCGUCGuGU-CCGGCUgG-UCC- -5'
12377 3' -59.5 NC_003324.1 + 29971 0.68 0.354917
Target:  5'- aGCgGCGGCAGC-CGGGuccgcaucgaucCCGGCCGGu -3'
miRNA:   3'- cCGaCGUCGUCGuGUCC------------GGCUGGUCc -5'
12377 3' -59.5 NC_003324.1 + 54063 0.77 0.091768
Target:  5'- cGCUGCGGCGGaAUcGGCCGACCGGc -3'
miRNA:   3'- cCGACGUCGUCgUGuCCGGCUGGUCc -5'
12377 3' -59.5 NC_003324.1 + 16137 0.76 0.105385
Target:  5'- cGCUuCGGUAGCGgGGGCCGcGCCAGGc -3'
miRNA:   3'- cCGAcGUCGUCGUgUCCGGC-UGGUCC- -5'
12377 3' -59.5 NC_003324.1 + 49419 0.75 0.120884
Target:  5'- cGGCgagcccgGCAGCGGCGCuuGGCUGAUCuGGc -3'
miRNA:   3'- -CCGa------CGUCGUCGUGu-CCGGCUGGuCC- -5'
12377 3' -59.5 NC_003324.1 + 47543 0.74 0.143814
Target:  5'- aGCUGCGGCAGUGCcaugguggaugacgaGGGCCGAUCGa- -3'
miRNA:   3'- cCGACGUCGUCGUG---------------UCCGGCUGGUcc -5'
12377 3' -59.5 NC_003324.1 + 14586 0.72 0.217049
Target:  5'- cGGCgcaagcgGcCGGCGGCGCAGGCgguagcguggCGGCCGGa -3'
miRNA:   3'- -CCGa------C-GUCGUCGUGUCCG----------GCUGGUCc -5'
12377 3' -59.5 NC_003324.1 + 1784 0.69 0.330794
Target:  5'- uGCUGCuGCAGCACAaGGaCGAUgAGa -3'
miRNA:   3'- cCGACGuCGUCGUGU-CCgGCUGgUCc -5'
12377 3' -59.5 NC_003324.1 + 6230 0.69 0.338699
Target:  5'- aGGCgcaGCAGCAGCGCAG-CaagcGCCAGa -3'
miRNA:   3'- -CCGa--CGUCGUCGUGUCcGgc--UGGUCc -5'
12377 3' -59.5 NC_003324.1 + 35033 0.69 0.34674
Target:  5'- cGGCgGCGGCAGCAgcGGCCuGAUCGu- -3'
miRNA:   3'- -CCGaCGUCGUCGUguCCGG-CUGGUcc -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.