miRNA display CGI


Results 1 - 20 of 23 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
31788 5' -55.4 NC_006938.1 + 53827 0.66 0.761281
Target:  5'- -cCCUGGGcaccGAGGcCGCGCUCcaGACCa -3'
miRNA:   3'- caGGACUUc---UUCCuGCGCGAG--CUGGa -5'
31788 5' -55.4 NC_006938.1 + 40579 0.66 0.760266
Target:  5'- aUCCUGGAGGccucggucgAGGACcucauGCGCUCcccggagcuggcgGACCg -3'
miRNA:   3'- cAGGACUUCU---------UCCUG-----CGCGAG-------------CUGGa -5'
31788 5' -55.4 NC_006938.1 + 48445 0.66 0.751066
Target:  5'- cUCC-GAc--AGGACGCGCUCGucACCg -3'
miRNA:   3'- cAGGaCUucuUCCUGCGCGAGC--UGGa -5'
31788 5' -55.4 NC_006938.1 + 2750 0.66 0.740731
Target:  5'- aUCCUGGAcGGggucuacucggcGGGauccuGCGCGgUCGACCUg -3'
miRNA:   3'- cAGGACUU-CU------------UCC-----UGCGCgAGCUGGA- -5'
31788 5' -55.4 NC_006938.1 + 3266 0.66 0.730288
Target:  5'- -aCCaGGAGGAGGA---GCUCGACCa -3'
miRNA:   3'- caGGaCUUCUUCCUgcgCGAGCUGGa -5'
31788 5' -55.4 NC_006938.1 + 49980 0.67 0.676847
Target:  5'- cUCCUGucGAcuccGGcCGCGCUCGGuCCa -3'
miRNA:   3'- cAGGACuuCUu---CCuGCGCGAGCU-GGa -5'
31788 5' -55.4 NC_006938.1 + 5896 0.67 0.655103
Target:  5'- -aCCgUGAAGAuGGcGugGCGCUUGAUCa -3'
miRNA:   3'- caGG-ACUUCU-UC-CugCGCGAGCUGGa -5'
31788 5' -55.4 NC_006938.1 + 30731 0.67 0.655103
Target:  5'- -aCCUGAgccAGGGucgcggcucGGGCGCGUUCGugCUc -3'
miRNA:   3'- caGGACU---UCUU---------CCUGCGCGAGCugGA- -5'
31788 5' -55.4 NC_006938.1 + 33287 0.67 0.654013
Target:  5'- cUCCaUGAAGAAGGgcaucguguggacACGCGC-CGACa- -3'
miRNA:   3'- cAGG-ACUUCUUCC-------------UGCGCGaGCUGga -5'
31788 5' -55.4 NC_006938.1 + 17406 0.68 0.644194
Target:  5'- cUCCUGGaagggagcgcGGAGGGugGCcUUCGAUCUc -3'
miRNA:   3'- cAGGACU----------UCUUCCugCGcGAGCUGGA- -5'
31788 5' -55.4 NC_006938.1 + 52951 0.68 0.644194
Target:  5'- cGUCgaGGcucccGAGGGugGUGCaUCGACCa -3'
miRNA:   3'- -CAGgaCUu----CUUCCugCGCG-AGCUGGa -5'
31788 5' -55.4 NC_006938.1 + 20096 0.68 0.611441
Target:  5'- aGUCCUGcuGuGAGGAUgGCGUUCGGCUc -3'
miRNA:   3'- -CAGGACuuC-UUCCUG-CGCGAGCUGGa -5'
31788 5' -55.4 NC_006938.1 + 9889 0.68 0.611441
Target:  5'- -cCCaGGAGAAGGGCGCGUUC--CCg -3'
miRNA:   3'- caGGaCUUCUUCCUGCGCGAGcuGGa -5'
31788 5' -55.4 NC_006938.1 + 6596 0.69 0.578846
Target:  5'- --gCUGAAGGAGaucacaGCGCGCUCGGCa- -3'
miRNA:   3'- cagGACUUCUUCc-----UGCGCGAGCUGga -5'
31788 5' -55.4 NC_006938.1 + 18081 0.69 0.536026
Target:  5'- aUCCgagcgacGAAGGagcgucGGGACGCGUcCGACCUg -3'
miRNA:   3'- cAGGa------CUUCU------UCCUGCGCGaGCUGGA- -5'
31788 5' -55.4 NC_006938.1 + 50998 0.7 0.515024
Target:  5'- cGUCCUGcAGGcAGucGGCGCGUUCGACgCUg -3'
miRNA:   3'- -CAGGAC-UUCuUC--CUGCGCGAGCUG-GA- -5'
31788 5' -55.4 NC_006938.1 + 16117 0.7 0.47409
Target:  5'- --gCUGAGGGAGGGCG-GCugggUCGACCg -3'
miRNA:   3'- cagGACUUCUUCCUGCgCG----AGCUGGa -5'
31788 5' -55.4 NC_006938.1 + 35040 0.72 0.39756
Target:  5'- aUCCaGGAGGAGGACGCcuccCUgGACCUc -3'
miRNA:   3'- cAGGaCUUCUUCCUGCGc---GAgCUGGA- -5'
31788 5' -55.4 NC_006938.1 + 28621 0.73 0.329433
Target:  5'- -gUCUGAAGGAGGcccgcuGgGUGCUCGACCa -3'
miRNA:   3'- caGGACUUCUUCC------UgCGCGAGCUGGa -5'
31788 5' -55.4 NC_006938.1 + 16228 0.75 0.277213
Target:  5'- cGUCUUGAGGAGGGuguggcaGCGgUCGACCc -3'
miRNA:   3'- -CAGGACUUCUUCCug-----CGCgAGCUGGa -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.