miRNA display CGI


Results 1 - 20 of 42 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
21294 3' -49.1 NC_004778.3 + 2512 0.65 0.997872
Target:  5'- gGGCGUCAACGagcuauuagaGGUGCAgcguauuAAUgcgGGCGGc -3'
miRNA:   3'- -CUGCAGUUGC----------CCGCGU-------UUAaa-UCGCU- -5'
21294 3' -49.1 NC_004778.3 + 74984 0.66 0.997499
Target:  5'- cGGCGccCAccgacuACGGGCGCAA----GGCGGu -3'
miRNA:   3'- -CUGCa-GU------UGCCCGCGUUuaaaUCGCU- -5'
21294 3' -49.1 NC_004778.3 + 33210 0.66 0.997499
Target:  5'- cGCGcUCGGcCGGGCGCAAGUcc-GCa- -3'
miRNA:   3'- cUGC-AGUU-GCCCGCGUUUAaauCGcu -5'
21294 3' -49.1 NC_004778.3 + 49578 0.66 0.997499
Target:  5'- uGCGUCGGC-GGCGCAAuacauGUUUcAGCa- -3'
miRNA:   3'- cUGCAGUUGcCCGCGUU-----UAAA-UCGcu -5'
21294 3' -49.1 NC_004778.3 + 8575 0.66 0.996471
Target:  5'- cGGCGUCAauuugcucuauGCGGcCGCAuucAUUUAGCa- -3'
miRNA:   3'- -CUGCAGU-----------UGCCcGCGUu--UAAAUCGcu -5'
21294 3' -49.1 NC_004778.3 + 47377 0.66 0.99584
Target:  5'- cGGCGUUAuuuUGGGCGCGAcgUgucGCa- -3'
miRNA:   3'- -CUGCAGUu--GCCCGCGUUuaAau-CGcu -5'
21294 3' -49.1 NC_004778.3 + 6555 0.67 0.99512
Target:  5'- aGCGUaCGGCGGGCcaGCAAcgcGUUUuacgacGGCGAc -3'
miRNA:   3'- cUGCA-GUUGCCCG--CGUU---UAAA------UCGCU- -5'
21294 3' -49.1 NC_004778.3 + 129534 0.67 0.99512
Target:  5'- cGCGUCGACcGcGCGCAAAUacgcaUUGGCu- -3'
miRNA:   3'- cUGCAGUUGcC-CGCGUUUA-----AAUCGcu -5'
21294 3' -49.1 NC_004778.3 + 91935 0.67 0.994301
Target:  5'- cGAUG-CGcACGGGCGCuAAAga-AGCGAu -3'
miRNA:   3'- -CUGCaGU-UGCCCGCG-UUUaaaUCGCU- -5'
21294 3' -49.1 NC_004778.3 + 2558 0.67 0.993375
Target:  5'- aGugGUCGuCGGGCGCG-----GGCa- -3'
miRNA:   3'- -CugCAGUuGCCCGCGUuuaaaUCGcu -5'
21294 3' -49.1 NC_004778.3 + 128320 0.67 0.992332
Target:  5'- gGACGaCGGCGGcGUGUAcGUUugUGGCGAc -3'
miRNA:   3'- -CUGCaGUUGCC-CGCGUuUAA--AUCGCU- -5'
21294 3' -49.1 NC_004778.3 + 90377 0.68 0.989858
Target:  5'- uGCGUCAGCGcGGaGCAG----GGCGAa -3'
miRNA:   3'- cUGCAGUUGC-CCgCGUUuaaaUCGCU- -5'
21294 3' -49.1 NC_004778.3 + 121711 0.68 0.985024
Target:  5'- cGCGUCGggcACGuugucGGCGCGccguagcuGGUUUAGCGAc -3'
miRNA:   3'- cUGCAGU---UGC-----CCGCGU--------UUAAAUCGCU- -5'
21294 3' -49.1 NC_004778.3 + 2389 0.68 0.983073
Target:  5'- uACGUCcGCGGGCGUGAcgUUucuGuCGAu -3'
miRNA:   3'- cUGCAGuUGCCCGCGUUuaAAu--C-GCU- -5'
21294 3' -49.1 NC_004778.3 + 57587 0.68 0.983073
Target:  5'- -cCGUUccgaauugGACGGGCGCGAcgagGGCGGc -3'
miRNA:   3'- cuGCAG--------UUGCCCGCGUUuaaaUCGCU- -5'
21294 3' -49.1 NC_004778.3 + 41334 0.68 0.983073
Target:  5'- cGCGUCggaaGugGGGuUGCucGAUUUGGCGAc -3'
miRNA:   3'- cUGCAG----UugCCC-GCGu-UUAAAUCGCU- -5'
21294 3' -49.1 NC_004778.3 + 43991 0.69 0.980937
Target:  5'- cGCGUCgGACGGccGCGCAA--UUAGCGc -3'
miRNA:   3'- cUGCAG-UUGCC--CGCGUUuaAAUCGCu -5'
21294 3' -49.1 NC_004778.3 + 54835 0.69 0.980937
Target:  5'- gGACGUCGuUGGGCGCAAu----GCu- -3'
miRNA:   3'- -CUGCAGUuGCCCGCGUUuaaauCGcu -5'
21294 3' -49.1 NC_004778.3 + 30318 0.69 0.97332
Target:  5'- cGCGUCGucuucggagUGGGCGCG--UUUGGCGGc -3'
miRNA:   3'- cUGCAGUu--------GCCCGCGUuuAAAUCGCU- -5'
21294 3' -49.1 NC_004778.3 + 40589 0.69 0.970349
Target:  5'- -uCGUCAACGGGCgGCucAUUUAcuGCGu -3'
miRNA:   3'- cuGCAGUUGCCCG-CGuuUAAAU--CGCu -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.