miRNA display CGI


Results 1 - 10 of 10 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
22139 3' -52.9 NC_004927.1 + 57917 0.66 0.924649
Target:  5'- cGCuca-UCGGAGUGGUgcuggcgaagaccaUCGUGACGa -3'
miRNA:   3'- cCGuuggAGCCUCGCCA--------------AGCAUUGCc -5'
22139 3' -52.9 NC_004927.1 + 26642 0.66 0.920602
Target:  5'- cGCGACCUCucGGCGcgUCGUgagcGACGGg -3'
miRNA:   3'- cCGUUGGAGccUCGCcaAGCA----UUGCC- -5'
22139 3' -52.9 NC_004927.1 + 12361 0.66 0.920602
Target:  5'- cGGCuccgGCCcacCGGAGCagGGUUCGUucuUGGu -3'
miRNA:   3'- -CCGu---UGGa--GCCUCG--CCAAGCAuu-GCC- -5'
22139 3' -52.9 NC_004927.1 + 6479 0.66 0.914597
Target:  5'- aGGCuuCCcgaaucuccuUCGGAGUGuGUUCG--ACGGu -3'
miRNA:   3'- -CCGuuGG----------AGCCUCGC-CAAGCauUGCC- -5'
22139 3' -52.9 NC_004927.1 + 5957 0.66 0.914597
Target:  5'- aGGCuucAACCUCcucgauggGGAgaaucaGCGGUUCGUucuCGGu -3'
miRNA:   3'- -CCG---UUGGAG--------CCU------CGCCAAGCAuu-GCC- -5'
22139 3' -52.9 NC_004927.1 + 73746 0.66 0.90833
Target:  5'- uGGCAuacuACCUCGGAGagccgauuauCGGcUUCGUAGg-- -3'
miRNA:   3'- -CCGU----UGGAGCCUC----------GCC-AAGCAUUgcc -5'
22139 3' -52.9 NC_004927.1 + 55003 0.66 0.90833
Target:  5'- cGGCcACCcuUCGGAGUGucagUCcacgGUGACGGg -3'
miRNA:   3'- -CCGuUGG--AGCCUCGCca--AG----CAUUGCC- -5'
22139 3' -52.9 NC_004927.1 + 58495 0.67 0.90313
Target:  5'- cGGCGuucaucgGCCUCGGuuuggucGGCcacGGUaacaguauggcagagUCGUGGCGGa -3'
miRNA:   3'- -CCGU-------UGGAGCC-------UCG---CCA---------------AGCAUUGCC- -5'
22139 3' -52.9 NC_004927.1 + 5794 0.68 0.864617
Target:  5'- uGCuuccACgUCGGAGCuGGcaguaacggugauUUCGUAGCGGu -3'
miRNA:   3'- cCGu---UGgAGCCUCG-CC-------------AAGCAUUGCC- -5'
22139 3' -52.9 NC_004927.1 + 53515 0.71 0.716507
Target:  5'- aGGCAAUUUUGGAGacgaaGGggauggauucgacccUCGUGGCGGg -3'
miRNA:   3'- -CCGUUGGAGCCUCg----CCa--------------AGCAUUGCC- -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.