miRNA display CGI


Results 1 - 20 of 99 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
19298 3' -53.3 NC_004685.1 + 3230 0.68 0.802221
Target:  5'- -gGgcGGGGUCGggGUCGG--GCCGg -3'
miRNA:   3'- agCuuCCUCAGCuuCGGCUagUGGCg -5'
19298 3' -53.3 NC_004685.1 + 50324 0.7 0.679279
Target:  5'- -aGcGGGcuGcCGggGCCGAcuUCGCCGCg -3'
miRNA:   3'- agCuUCCu-CaGCuuCGGCU--AGUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 8037 0.7 0.687877
Target:  5'- cCGAAGGAugucauccaGUCGGAGCUGGacaaggcguaugCGCUGCa -3'
miRNA:   3'- aGCUUCCU---------CAGCUUCGGCUa-----------GUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 21500 0.69 0.721883
Target:  5'- uUCGAcGGGcuUCGAGGCCG---GCCGCu -3'
miRNA:   3'- -AGCU-UCCucAGCUUCGGCuagUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 348 0.69 0.721883
Target:  5'- aCGccGGGGUCGAaugcgcGGCgagCGGUCACCaGCg -3'
miRNA:   3'- aGCuuCCUCAGCU------UCG---GCUAGUGG-CG- -5'
19298 3' -53.3 NC_004685.1 + 29955 0.69 0.721883
Target:  5'- aCcAAGGAGUggguggccgcgcUGAAGCUGGcCGCCGCg -3'
miRNA:   3'- aGcUUCCUCA------------GCUUCGGCUaGUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 26572 0.68 0.782964
Target:  5'- gCG-AGGAGaacuaugCGAAGCUGcgCGCCGg -3'
miRNA:   3'- aGCuUCCUCa------GCUUCGGCuaGUGGCg -5'
19298 3' -53.3 NC_004685.1 + 45832 0.68 0.782964
Target:  5'- aUCGGcaccGUCGuGGCCGAccggcUCACCGCg -3'
miRNA:   3'- -AGCUuccuCAGCuUCGGCU-----AGUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 34498 0.68 0.802221
Target:  5'- cUCGGauuGGGAGcCGGAGCCaGAaCGCCugGCu -3'
miRNA:   3'- -AGCU---UCCUCaGCUUCGG-CUaGUGG--CG- -5'
19298 3' -53.3 NC_004685.1 + 45599 0.7 0.679279
Target:  5'- aCGAAGGGGUgGguGCuguucgucgCGAUCGCgGCg -3'
miRNA:   3'- aGCUUCCUCAgCuuCG---------GCUAGUGgCG- -5'
19298 3' -53.3 NC_004685.1 + 1357 0.71 0.61426
Target:  5'- cUGggGGAG-CaGAAGuuGAUCcuGCCGCc -3'
miRNA:   3'- aGCuuCCUCaG-CUUCggCUAG--UGGCG- -5'
19298 3' -53.3 NC_004685.1 + 58344 0.72 0.581826
Target:  5'- ----cGGuGUCGggGCgGGUCGCCGg -3'
miRNA:   3'- agcuuCCuCAGCuuCGgCUAGUGGCg -5'
19298 3' -53.3 NC_004685.1 + 49420 0.76 0.369228
Target:  5'- gUCGAGGGuuucggcgacccaguGGUCGAcGGCgCGAUgACCGCa -3'
miRNA:   3'- -AGCUUCC---------------UCAGCU-UCG-GCUAgUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 10208 0.75 0.383131
Target:  5'- cUCGGAGGAcuggCGGcuGGCCGGUCugGCCGCc -3'
miRNA:   3'- -AGCUUCCUca--GCU--UCGGCUAG--UGGCG- -5'
19298 3' -53.3 NC_004685.1 + 38720 0.74 0.477428
Target:  5'- cCGcuGcccuGUCGAugAGCCGAUCGCCGCu -3'
miRNA:   3'- aGCuuCcu--CAGCU--UCGGCUAGUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 68276 0.73 0.487491
Target:  5'- -aGGAGGuGUUcgGAAGCCGAacaggcgCGCCGCg -3'
miRNA:   3'- agCUUCCuCAG--CUUCGGCUa------GUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 38317 0.73 0.487491
Target:  5'- gUGAAGGcG-CGGgccuGGCCGAUCugCGCg -3'
miRNA:   3'- aGCUUCCuCaGCU----UCGGCUAGugGCG- -5'
19298 3' -53.3 NC_004685.1 + 38532 0.72 0.539183
Target:  5'- aUCGAA-GAGUCcauGCCGAUCGgCGCu -3'
miRNA:   3'- -AGCUUcCUCAGcuuCGGCUAGUgGCG- -5'
19298 3' -53.3 NC_004685.1 + 34341 0.72 0.571085
Target:  5'- cUUGAAGGccGGuUCGccAAGCCGAUC-CCGCc -3'
miRNA:   3'- -AGCUUCC--UC-AGC--UUCGGCUAGuGGCG- -5'
19298 3' -53.3 NC_004685.1 + 40936 0.72 0.581826
Target:  5'- cCGGAGGAuUCGguGCUG-UCGCCGUg -3'
miRNA:   3'- aGCUUCCUcAGCuuCGGCuAGUGGCG- -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.