miRNA display CGI


Results 1 - 19 of 19 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
11856 5' -58.1 NC_003266.2 + 12163 0.66 0.411269
Target:  5'- cUCCAGgauGGCCGaGaGCCgGuuGGCCUGg -3'
miRNA:   3'- -AGGUCgu-UCGGC-C-CGGgUuuCUGGAC- -5'
11856 5' -58.1 NC_003266.2 + 10881 0.66 0.411269
Target:  5'- gCCgugAGCgGGGCCGGGCagaguCAGuauGACCUGg -3'
miRNA:   3'- aGG---UCG-UUCGGCCCGg----GUUu--CUGGAC- -5'
11856 5' -58.1 NC_003266.2 + 7520 0.66 0.392437
Target:  5'- cUCgAGC-AGCaCGGGCUCAgcGACCc- -3'
miRNA:   3'- -AGgUCGuUCG-GCCCGGGUuuCUGGac -5'
11856 5' -58.1 NC_003266.2 + 19124 0.66 0.383234
Target:  5'- gUCAGCAGGCCauGCCUAAcAGACCc- -3'
miRNA:   3'- aGGUCGUUCGGccCGGGUU-UCUGGac -5'
11856 5' -58.1 NC_003266.2 + 21122 0.66 0.383234
Target:  5'- cUCCuGCucGCCGGaGCCCGc-GGCCa- -3'
miRNA:   3'- -AGGuCGuuCGGCC-CGGGUuuCUGGac -5'
11856 5' -58.1 NC_003266.2 + 8278 0.66 0.380501
Target:  5'- cUCCuGCAAgucaaccgcgcgccGCCGcuGCCCAcuGACCUGa -3'
miRNA:   3'- -AGGuCGUU--------------CGGCc-CGGGUuuCUGGAC- -5'
11856 5' -58.1 NC_003266.2 + 5106 0.67 0.374175
Target:  5'- gUCCAGCGcGGCCaGGGUCCGGu--CCUu -3'
miRNA:   3'- -AGGUCGU-UCGG-CCCGGGUUucuGGAc -5'
11856 5' -58.1 NC_003266.2 + 23255 0.67 0.339416
Target:  5'- gCCAGCcacccGCCGGGCCgCGAGaGCCc- -3'
miRNA:   3'- aGGUCGuu---CGGCCCGG-GUUUcUGGac -5'
11856 5' -58.1 NC_003266.2 + 22182 0.67 0.339416
Target:  5'- cCCGGCugcguGCCcaccauGGGCCgGcAGACCUGc -3'
miRNA:   3'- aGGUCGuu---CGG------CCCGGgUuUCUGGAC- -5'
11856 5' -58.1 NC_003266.2 + 17772 0.68 0.314921
Target:  5'- gCCGGCGGGgggaaCCGGGUCCAGGcGGCUg- -3'
miRNA:   3'- aGGUCGUUC-----GGCCCGGGUUU-CUGGac -5'
11856 5' -58.1 NC_003266.2 + 8161 0.68 0.291787
Target:  5'- ---cGCAGGCCGGagcuGUCCAGGGuCCUGa -3'
miRNA:   3'- agguCGUUCGGCC----CGGGUUUCuGGAC- -5'
11856 5' -58.1 NC_003266.2 + 11367 0.69 0.287323
Target:  5'- cUCCAGCAGGUCccacaggugcaucaGGCCCAGGGucACCUc -3'
miRNA:   3'- -AGGUCGUUCGGc-------------CCGGGUUUC--UGGAc -5'
11856 5' -58.1 NC_003266.2 + 26394 0.69 0.270003
Target:  5'- cUCAGC--GCCGGGCCCGGgauGAUCUc -3'
miRNA:   3'- aGGUCGuuCGGCCCGGGUUu--CUGGAc -5'
11856 5' -58.1 NC_003266.2 + 26395 0.71 0.195795
Target:  5'- gCCGGC-GGCCaGGCCCAucuGGGgCUGg -3'
miRNA:   3'- aGGUCGuUCGGcCCGGGUu--UCUgGAC- -5'
11856 5' -58.1 NC_003266.2 + 21072 0.71 0.180259
Target:  5'- cUCCGGCGAGCaGGaGCUCAGGgccaucauccgcGACCUGg -3'
miRNA:   3'- -AGGUCGUUCGgCC-CGGGUUU------------CUGGAC- -5'
11856 5' -58.1 NC_003266.2 + 13439 0.72 0.16125
Target:  5'- cCCAGCAAGCgCGGGCgCGu-GAuCCUGc -3'
miRNA:   3'- aGGUCGUUCG-GCCCGgGUuuCU-GGAC- -5'
11856 5' -58.1 NC_003266.2 + 27154 0.73 0.148199
Target:  5'- cUCC-GUggGCCGGGCCCugAGGGugCUc -3'
miRNA:   3'- -AGGuCGuuCGGCCCGGG--UUUCugGAc -5'
11856 5' -58.1 NC_003266.2 + 21919 0.82 0.029309
Target:  5'- cCCAGCAGGUCGGGCgCGGAGAUCUu -3'
miRNA:   3'- aGGUCGUUCGGCCCGgGUUUCUGGAc -5'
11856 5' -58.1 NC_003266.2 + 9707 1.09 0.000235
Target:  5'- aUCCAGCAAGCCGGGCCCAAAGACCUGg -3'
miRNA:   3'- -AGGUCGUUCGGCCCGGGUUUCUGGAC- -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.