miRNA display CGI


Results 1 - 20 of 32 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
31728 3' -55.6 NC_006938.1 + 31616 0.66 0.766473
Target:  5'- gCGGACCaagaaguucaUGGAC-AAGCCGGucguggAGCAGa -3'
miRNA:   3'- -GCCUGG----------GCUUGuUUCGGCCca----UCGUC- -5'
31728 3' -55.6 NC_006938.1 + 13578 0.66 0.746179
Target:  5'- uGGA-CCGAGCGcGGCCGGaGUcGaCAGg -3'
miRNA:   3'- gCCUgGGCUUGUuUCGGCC-CAuC-GUC- -5'
31728 3' -55.6 NC_006938.1 + 49920 0.66 0.746179
Target:  5'- aCGGACCCGAGaucgcucgaAAGGCCGcccucGCAGu -3'
miRNA:   3'- -GCCUGGGCUUg--------UUUCGGCccau-CGUC- -5'
31728 3' -55.6 NC_006938.1 + 4476 0.66 0.746179
Target:  5'- aGGGCCCaGAAC-AAGCaGGaGUGGCu- -3'
miRNA:   3'- gCCUGGG-CUUGuUUCGgCC-CAUCGuc -5'
31728 3' -55.6 NC_006938.1 + 42232 0.66 0.714924
Target:  5'- cCGGAgUCGAugAugagaguggGAGCCGGGgAGUGGc -3'
miRNA:   3'- -GCCUgGGCUugU---------UUCGGCCCaUCGUC- -5'
31728 3' -55.6 NC_006938.1 + 28090 0.67 0.693672
Target:  5'- cCGG-CCCGAcACAcggagGAGCCcgaucuGGUGGCGGa -3'
miRNA:   3'- -GCCuGGGCU-UGU-----UUCGGc-----CCAUCGUC- -5'
31728 3' -55.6 NC_006938.1 + 2664 0.67 0.682954
Target:  5'- aGGGUCCGAACgGAAGCCGGGg----- -3'
miRNA:   3'- gCCUGGGCUUG-UUUCGGCCCaucguc -5'
31728 3' -55.6 NC_006938.1 + 30629 0.67 0.65814
Target:  5'- gGGAgCaCGAACGcgcccGAGCCGucgacccuggcucaGGUGGCAGa -3'
miRNA:   3'- gCCUgG-GCUUGU-----UUCGGC--------------CCAUCGUC- -5'
31728 3' -55.6 NC_006938.1 + 34205 0.67 0.650558
Target:  5'- gGGACaaGGACuucGAGUgGGuGUGGCAGg -3'
miRNA:   3'- gCCUGggCUUGu--UUCGgCC-CAUCGUC- -5'
31728 3' -55.6 NC_006938.1 + 48333 0.67 0.650558
Target:  5'- aCGG-CCUGAACcccGGCuCGGGcGGCGGu -3'
miRNA:   3'- -GCCuGGGCUUGuu-UCG-GCCCaUCGUC- -5'
31728 3' -55.6 NC_006938.1 + 35230 0.68 0.639713
Target:  5'- uGGcCCCGGACuu-GCUGGucgccucuauGUAGCAGa -3'
miRNA:   3'- gCCuGGGCUUGuuuCGGCC----------CAUCGUC- -5'
31728 3' -55.6 NC_006938.1 + 30299 0.68 0.628862
Target:  5'- gGGAaugaagaacCCCGuccgcACGAAGCCGGGUcAGCc- -3'
miRNA:   3'- gCCU---------GGGCu----UGUUUCGGCCCA-UCGuc -5'
31728 3' -55.6 NC_006938.1 + 4279 0.68 0.628862
Target:  5'- aGGACgUGAACGgaGAGCCGGuGgAGCGc -3'
miRNA:   3'- gCCUGgGCUUGU--UUCGGCC-CaUCGUc -5'
31728 3' -55.6 NC_006938.1 + 40112 0.68 0.628862
Target:  5'- -cGACgCGGACAGcgccggucAGCCGGGUGucGCGGc -3'
miRNA:   3'- gcCUGgGCUUGUU--------UCGGCCCAU--CGUC- -5'
31728 3' -55.6 NC_006938.1 + 19303 0.68 0.628862
Target:  5'- gCGGACUacgcaGGGCgGAGGCCGgaGGUGGCAc -3'
miRNA:   3'- -GCCUGGg----CUUG-UUUCGGC--CCAUCGUc -5'
31728 3' -55.6 NC_006938.1 + 366 0.68 0.628862
Target:  5'- --aACUCGAACGAGGuCCGGGUGGa-- -3'
miRNA:   3'- gccUGGGCUUGUUUC-GGCCCAUCguc -5'
31728 3' -55.6 NC_006938.1 + 21607 0.68 0.607176
Target:  5'- -cGugCCGAAC-GAGCCGGGUc-CAGa -3'
miRNA:   3'- gcCugGGCUUGuUUCGGCCCAucGUC- -5'
31728 3' -55.6 NC_006938.1 + 13318 0.68 0.607176
Target:  5'- cCGGACCCGccgGACcccGGCCuGGaUGGCGGu -3'
miRNA:   3'- -GCCUGGGC---UUGuu-UCGGcCC-AUCGUC- -5'
31728 3' -55.6 NC_006938.1 + 47328 0.68 0.59636
Target:  5'- uGGcCuuGAuCAGGuCCGGGUGGCAGu -3'
miRNA:   3'- gCCuGggCUuGUUUcGGCCCAUCGUC- -5'
31728 3' -55.6 NC_006938.1 + 55571 0.69 0.574825
Target:  5'- aCGGGCggGAGCuGGGCCGGGUcgccgAGCAc -3'
miRNA:   3'- -GCCUGggCUUGuUUCGGCCCA-----UCGUc -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.