miRNA display CGI


Results 1 - 14 of 14 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
20750 3' -56.4 NC_004688.1 + 57006 0.65 0.835826
Target:  5'- cACCCGguugaCGGUGUUGugGauuguguucacggGGGCGGGCa -3'
miRNA:   3'- -UGGGUa----GUCGCAGCugUa------------CCCGUCUG- -5'
20750 3' -56.4 NC_004688.1 + 60212 0.66 0.830712
Target:  5'- cGCCCG-CGGUG-CaGguUGGGCAGACc -3'
miRNA:   3'- -UGGGUaGUCGCaGcUguACCCGUCUG- -5'
20750 3' -56.4 NC_004688.1 + 73899 0.66 0.792167
Target:  5'- -gCCGUCGGCGUUGAaugGGGUccagccccccgaggGGGCg -3'
miRNA:   3'- ugGGUAGUCGCAGCUguaCCCG--------------UCUG- -5'
20750 3' -56.4 NC_004688.1 + 83404 0.67 0.766485
Target:  5'- -aCCA-CGGCGUCuACGcgaucGGGCAGGCg -3'
miRNA:   3'- ugGGUaGUCGCAGcUGUa----CCCGUCUG- -5'
20750 3' -56.4 NC_004688.1 + 88341 0.67 0.75673
Target:  5'- aGCCCucuUCAuCGUCGAUAUGGcGCaucaGGGCc -3'
miRNA:   3'- -UGGGu--AGUcGCAGCUGUACC-CG----UCUG- -5'
20750 3' -56.4 NC_004688.1 + 34915 0.67 0.746859
Target:  5'- aACgUGUCAGCGaUCGACGcGGGgGGAg -3'
miRNA:   3'- -UGgGUAGUCGC-AGCUGUaCCCgUCUg -5'
20750 3' -56.4 NC_004688.1 + 51684 0.67 0.736882
Target:  5'- gAUCgCGguUCAGCGcCGACAccGGCGGACg -3'
miRNA:   3'- -UGG-GU--AGUCGCaGCUGUacCCGUCUG- -5'
20750 3' -56.4 NC_004688.1 + 91371 0.68 0.675356
Target:  5'- uACCC--CAGuCGUCGu--UGGGCAGGCc -3'
miRNA:   3'- -UGGGuaGUC-GCAGCuguACCCGUCUG- -5'
20750 3' -56.4 NC_004688.1 + 86239 0.69 0.633461
Target:  5'- gGCCCGggAGCucGUCGAg--GGGCAGGCc -3'
miRNA:   3'- -UGGGUagUCG--CAGCUguaCCCGUCUG- -5'
20750 3' -56.4 NC_004688.1 + 109429 0.7 0.612472
Target:  5'- cGCCCGUgGGCGUCGAUcgccgaauGGUGGACc -3'
miRNA:   3'- -UGGGUAgUCGCAGCUGuac-----CCGUCUG- -5'
20750 3' -56.4 NC_004688.1 + 51030 0.7 0.591544
Target:  5'- uGCCCGcUgGGUGUCGGgAUGGaGCgAGACa -3'
miRNA:   3'- -UGGGU-AgUCGCAGCUgUACC-CG-UCUG- -5'
20750 3' -56.4 NC_004688.1 + 10684 0.7 0.570741
Target:  5'- gUCCGUCAG-GUCGACcucAUGGGCgcuggGGGCg -3'
miRNA:   3'- uGGGUAGUCgCAGCUG---UACCCG-----UCUG- -5'
20750 3' -56.4 NC_004688.1 + 16899 0.72 0.460888
Target:  5'- gGCCCAUCAaccGCGaCGACGUGGuCGGAa -3'
miRNA:   3'- -UGGGUAGU---CGCaGCUGUACCcGUCUg -5'
20750 3' -56.4 NC_004688.1 + 48976 0.74 0.369014
Target:  5'- cGCCCAgcucguggagaugcUCGGCGUCGACGUGGacaccgucaaacGCuGGCg -3'
miRNA:   3'- -UGGGU--------------AGUCGCAGCUGUACC------------CGuCUG- -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.