miRNA display CGI


Results 1 - 20 of 28 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
12788 3' -57 NC_003387.1 + 3367 0.68 0.506777
Target:  5'- gACGGcAUCaccaaGcugGCCUCGGCGGGCAu -3'
miRNA:   3'- -UGCUcUAGg----Caa-CGGAGCCGCUCGUc -5'
12788 3' -57 NC_003387.1 + 31158 0.68 0.456244
Target:  5'- uGCaGGAUCagcucgGUUGCCUCGGUgccGGGCGGc -3'
miRNA:   3'- -UGcUCUAGg-----CAACGGAGCCG---CUCGUC- -5'
12788 3' -57 NC_003387.1 + 18197 0.69 0.446463
Target:  5'- uGCGAGGUgC---GCCUCGGCGAcGCGa -3'
miRNA:   3'- -UGCUCUAgGcaaCGGAGCCGCU-CGUc -5'
12788 3' -57 NC_003387.1 + 49808 0.69 0.40855
Target:  5'- gACGAGAgccucgcCCGcgGCCUgccgcgccCGGCGAGCGa -3'
miRNA:   3'- -UGCUCUa------GGCaaCGGA--------GCCGCUCGUc -5'
12788 3' -57 NC_003387.1 + 39249 0.72 0.271654
Target:  5'- gGCGAGG-CCGUcgaguucGaCCUCGGCGAGCuGg -3'
miRNA:   3'- -UGCUCUaGGCAa------C-GGAGCCGCUCGuC- -5'
12788 3' -57 NC_003387.1 + 2702 0.66 0.591946
Target:  5'- gGCGAGGUUg--UG-CUCGGCGAcGCGGg -3'
miRNA:   3'- -UGCUCUAGgcaACgGAGCCGCU-CGUC- -5'
12788 3' -57 NC_003387.1 + 24273 0.68 0.476146
Target:  5'- cGCGAucugCCGccGCCUCGGCGuGCGc -3'
miRNA:   3'- -UGCUcua-GGCaaCGGAGCCGCuCGUc -5'
12788 3' -57 NC_003387.1 + 4690 0.66 0.602825
Target:  5'- gACGAGGUgCUGaa-CCUCGuCGAGCAGg -3'
miRNA:   3'- -UGCUCUA-GGCaacGGAGCcGCUCGUC- -5'
12788 3' -57 NC_003387.1 + 28020 0.66 0.581101
Target:  5'- gACGAGcgcggcaagCCGau-CCUCGGCGAGCuGa -3'
miRNA:   3'- -UGCUCua-------GGCaacGGAGCCGCUCGuC- -5'
12788 3' -57 NC_003387.1 + 5953 0.67 0.527656
Target:  5'- cGCGAGGaCCGa--CCUCGGCGGGagaaAGg -3'
miRNA:   3'- -UGCUCUaGGCaacGGAGCCGCUCg---UC- -5'
12788 3' -57 NC_003387.1 + 3637 0.67 0.570298
Target:  5'- uGCGGGuaucgCCGUcgaccggcucgUGCCcCGGCuGAGCGGc -3'
miRNA:   3'- -UGCUCua---GGCA-----------ACGGaGCCG-CUCGUC- -5'
12788 3' -57 NC_003387.1 + 21687 0.66 0.602825
Target:  5'- cCGAcGccCUGgccGCCUCGGCGAGCGc -3'
miRNA:   3'- uGCU-CuaGGCaa-CGGAGCCGCUCGUc -5'
12788 3' -57 NC_003387.1 + 37125 0.66 0.581101
Target:  5'- cGCGAuaauGGUCCGagugUUGCC-CGGC-AGCAGc -3'
miRNA:   3'- -UGCU----CUAGGC----AACGGaGCCGcUCGUC- -5'
12788 3' -57 NC_003387.1 + 47293 0.68 0.496469
Target:  5'- gGCGcccucGGUCgaGUUGuCCUCGGCGGGCu- -3'
miRNA:   3'- -UGCu----CUAGg-CAAC-GGAGCCGCUCGuc -5'
12788 3' -57 NC_003387.1 + 51470 0.75 0.193823
Target:  5'- cCGGGGUCCGUcgGCUUCGGUGgcguaccggccAGCAGg -3'
miRNA:   3'- uGCUCUAGGCAa-CGGAGCCGC-----------UCGUC- -5'
12788 3' -57 NC_003387.1 + 48142 0.74 0.227002
Target:  5'- uCGAGcu-UGUcgGCCUCGGCGAGCAGc -3'
miRNA:   3'- uGCUCuagGCAa-CGGAGCCGCUCGUC- -5'
12788 3' -57 NC_003387.1 + 17077 0.71 0.320752
Target:  5'- uCGAGGUcggccagugcccgcCCGgccGCCUCGGCGGGCu- -3'
miRNA:   3'- uGCUCUA--------------GGCaa-CGGAGCCGCUCGuc -5'
12788 3' -57 NC_003387.1 + 7956 0.7 0.372713
Target:  5'- uCGAGGUCgGgccGCUUcaCGGCGGGCGGg -3'
miRNA:   3'- uGCUCUAGgCaa-CGGA--GCCGCUCGUC- -5'
12788 3' -57 NC_003387.1 + 52549 0.68 0.46614
Target:  5'- uCGAGcaCCGUcuUGCCgUCGGCcAGCAGg -3'
miRNA:   3'- uGCUCuaGGCA--ACGG-AGCCGcUCGUC- -5'
12788 3' -57 NC_003387.1 + 43784 0.7 0.39939
Target:  5'- uGCGGGcgCCGUgcaucgcggugGCCUCGGacguGAGCAc -3'
miRNA:   3'- -UGCUCuaGGCAa----------CGGAGCCg---CUCGUc -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.