miRNA display CGI


Results 1 - 19 of 19 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
6263 3' -55.9 NC_001844.1 + 136788 0.66 0.902605
Target:  5'- --aCCCAcGCAAAcgGGCC-GGCcgGGGUGa -3'
miRNA:   3'- ggaGGGUuCGUUU--UCGGuCCG--CCCAC- -5'
6263 3' -55.9 NC_001844.1 + 78119 0.66 0.896126
Target:  5'- ---aCC-AGCuc-AGCCAGGCGGGa- -3'
miRNA:   3'- ggagGGuUCGuuuUCGGUCCGCCCac -5'
6263 3' -55.9 NC_001844.1 + 115816 0.66 0.889412
Target:  5'- gCCUaCCCGcGCGAcgacGCCGGGCGGc-- -3'
miRNA:   3'- -GGA-GGGUuCGUUuu--CGGUCCGCCcac -5'
6263 3' -55.9 NC_001844.1 + 143678 0.66 0.882468
Target:  5'- cCCUCCCuGGcCGGAGGCCcguugcaGCGGGcUGc -3'
miRNA:   3'- -GGAGGGuUC-GUUUUCGGuc-----CGCCC-AC- -5'
6263 3' -55.9 NC_001844.1 + 141106 0.67 0.860301
Target:  5'- gCCUCCCcucGGgGGAGGCCGa--GGGUGg -3'
miRNA:   3'- -GGAGGGu--UCgUUUUCGGUccgCCCAC- -5'
6263 3' -55.9 NC_001844.1 + 121883 0.67 0.859529
Target:  5'- --cCCCAGGCAGcaccaguGGGCgCaaaaaaggAGGCGGGUGc -3'
miRNA:   3'- ggaGGGUUCGUU-------UUCG-G--------UCCGCCCAC- -5'
6263 3' -55.9 NC_001844.1 + 117243 0.67 0.844467
Target:  5'- cCUUCCCcGGCccccGAGCCccgcGGCGGGa- -3'
miRNA:   3'- -GGAGGGuUCGuu--UUCGGu---CCGCCCac -5'
6263 3' -55.9 NC_001844.1 + 140623 0.67 0.844467
Target:  5'- cUCUCCCGGGUuuuAGGGagaaCGGGUGaGGUGc -3'
miRNA:   3'- -GGAGGGUUCGu--UUUCg---GUCCGC-CCAC- -5'
6263 3' -55.9 NC_001844.1 + 114768 0.67 0.836253
Target:  5'- --cUCCGAGCcccuGGAGCCGgcGGCGGGg- -3'
miRNA:   3'- ggaGGGUUCGu---UUUCGGU--CCGCCCac -5'
6263 3' -55.9 NC_001844.1 + 141464 0.68 0.819266
Target:  5'- gCUCCCgGGGCGAGGGgcccgcCCGGGUuacucgGGGUGg -3'
miRNA:   3'- gGAGGG-UUCGUUUUC------GGUCCG------CCCAC- -5'
6263 3' -55.9 NC_001844.1 + 114896 0.68 0.783287
Target:  5'- gCCUCCCAGGCuauccucGGCCAGGagaugccGGUc -3'
miRNA:   3'- -GGAGGGUUCGuuu----UCGGUCCgc-----CCAc -5'
6263 3' -55.9 NC_001844.1 + 85874 0.69 0.735283
Target:  5'- cCCagCCAAGCuugGAAGCCAGGauuugugauaGGGUa -3'
miRNA:   3'- -GGagGGUUCGu--UUUCGGUCCg---------CCCAc -5'
6263 3' -55.9 NC_001844.1 + 143479 0.69 0.735283
Target:  5'- gCCUCCCcGGCGGuguGGCCccucGGGCGGc-- -3'
miRNA:   3'- -GGAGGGuUCGUUu--UCGG----UCCGCCcac -5'
6263 3' -55.9 NC_001844.1 + 116994 0.69 0.735283
Target:  5'- gCCUCCCccGAGgGGAGGCCGGcGCcaaGGGg- -3'
miRNA:   3'- -GGAGGG--UUCgUUUUCGGUC-CG---CCCac -5'
6263 3' -55.9 NC_001844.1 + 144202 0.69 0.725372
Target:  5'- gCUCCCGgggccAGCGAAcGGCgCAGGCgacccgagGGGUGa -3'
miRNA:   3'- gGAGGGU-----UCGUUU-UCG-GUCCG--------CCCAC- -5'
6263 3' -55.9 NC_001844.1 + 116658 0.7 0.695184
Target:  5'- cCCcCCCGAGUAAc--CCGGGCGGGc- -3'
miRNA:   3'- -GGaGGGUUCGUUuucGGUCCGCCCac -5'
6263 3' -55.9 NC_001844.1 + 143048 0.7 0.695184
Target:  5'- gCUUCCCGGGaacaguGGGCCacaAGGCGGGg- -3'
miRNA:   3'- -GGAGGGUUCguu---UUCGG---UCCGCCCac -5'
6263 3' -55.9 NC_001844.1 + 54211 0.72 0.602681
Target:  5'- uCCUCU--AGCAGucGCCuGGGCGGGUu -3'
miRNA:   3'- -GGAGGguUCGUUuuCGG-UCCGCCCAc -5'
6263 3' -55.9 NC_001844.1 + 143851 0.79 0.265929
Target:  5'- gCUCCCGGcGCGAGccGCCGGGuCGGGUGg -3'
miRNA:   3'- gGAGGGUU-CGUUUu-CGGUCC-GCCCAC- -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.