miRNA display CGI


Results 1 - 15 of 15 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
21987 3' -59.4 NC_004914.1 + 39852 0.66 0.489847
Target:  5'- -uGCAauauGCCAuuGCAGGGUGGcCUGuuGCUg -3'
miRNA:   3'- gcCGU----UGGU--CGUCCCGCC-GACuuCGG- -5'
21987 3' -59.4 NC_004914.1 + 19450 0.67 0.47009
Target:  5'- aGGCAACCGGUAaGGCuGUcagUGAugguGCCa -3'
miRNA:   3'- gCCGUUGGUCGUcCCGcCG---ACUu---CGG- -5'
21987 3' -59.4 NC_004914.1 + 26151 0.67 0.460364
Target:  5'- cCGGUuugucacGCCAGCA-GGCGGCgucucuuGCCa -3'
miRNA:   3'- -GCCGu------UGGUCGUcCCGCCGacuu---CGG- -5'
21987 3' -59.4 NC_004914.1 + 15070 0.67 0.460364
Target:  5'- cCGGCAgcuucuGCCAGaacggauauCAGGGCGaauuaCUGGAGUCu -3'
miRNA:   3'- -GCCGU------UGGUC---------GUCCCGCc----GACUUCGG- -5'
21987 3' -59.4 NC_004914.1 + 55842 0.67 0.431848
Target:  5'- uGGuCAGCCAGUGGcGGCagGGCaGAAGUg -3'
miRNA:   3'- gCC-GUUGGUCGUC-CCG--CCGaCUUCGg -5'
21987 3' -59.4 NC_004914.1 + 20139 0.68 0.421653
Target:  5'- gGGCGAUUAaugcggcGCAGGGCGGCUauucacGCUa -3'
miRNA:   3'- gCCGUUGGU-------CGUCCCGCCGAcuu---CGG- -5'
21987 3' -59.4 NC_004914.1 + 21487 0.68 0.386709
Target:  5'- uGGCGACCAGCGGcGuuuucCGGUgccGGAGCUu -3'
miRNA:   3'- gCCGUUGGUCGUC-Cc----GCCGa--CUUCGG- -5'
21987 3' -59.4 NC_004914.1 + 9421 0.73 0.194339
Target:  5'- aCGGgGACCGGCAGGuGauGCUGGuccggcaGGCCc -3'
miRNA:   3'- -GCCgUUGGUCGUCC-CgcCGACU-------UCGG- -5'
21987 3' -59.4 NC_004914.1 + 56801 0.73 0.194339
Target:  5'- uGGCAgaacgaccugACCAGCuguGGGUGGCUGAuuuuacuuacgucAGCa -3'
miRNA:   3'- gCCGU----------UGGUCGu--CCCGCCGACU-------------UCGg -5'
21987 3' -59.4 NC_004914.1 + 6922 0.73 0.189833
Target:  5'- aCGGCAcACCAaCGacuGGCGGCUGAAuGCCa -3'
miRNA:   3'- -GCCGU-UGGUcGUc--CCGCCGACUU-CGG- -5'
21987 3' -59.4 NC_004914.1 + 9341 0.75 0.149621
Target:  5'- aCGG-GGCCAGCAGGucCGGCUG-GGCCg -3'
miRNA:   3'- -GCCgUUGGUCGUCCc-GCCGACuUCGG- -5'
21987 3' -59.4 NC_004914.1 + 28316 0.76 0.120549
Target:  5'- uGGCGcuuuuGCaCAGCAGGGCGGUuuccaagggccUGAAGCa -3'
miRNA:   3'- gCCGU-----UG-GUCGUCCCGCCG-----------ACUUCGg -5'
21987 3' -59.4 NC_004914.1 + 19363 0.77 0.108065
Target:  5'- cCGGUGG-CAGCAGGGgGGCUGAugaGGUCa -3'
miRNA:   3'- -GCCGUUgGUCGUCCCgCCGACU---UCGG- -5'
21987 3' -59.4 NC_004914.1 + 48775 0.77 0.102288
Target:  5'- gGGCAGggcgUCAGgAGGGCGGCaUGAGGCg -3'
miRNA:   3'- gCCGUU----GGUCgUCCCGCCG-ACUUCGg -5'
21987 3' -59.4 NC_004914.1 + 8403 1.12 0.000242
Target:  5'- aCGGCAACCAGCAGGGCGGCUGAAGCCg -3'
miRNA:   3'- -GCCGUUGGUCGUCCCGCCGACUUCGG- -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.