miRNA display CGI


Results 1 - 20 of 45 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
11593 3' -60.2 NC_003085.1 + 35142 1.09 0.000275
Target:  5'- gUGGGCCGGCUGCCGCAACAUGAGCGGc -3'
miRNA:   3'- -ACCCGGCCGACGGCGUUGUACUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 27336 0.85 0.019049
Target:  5'- uUGGGuCCGGCUGCUGCGGCGccgggcucugcUGGGCGGc -3'
miRNA:   3'- -ACCC-GGCCGACGGCGUUGU-----------ACUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 3242 0.76 0.089328
Target:  5'- cUGGGCCGGCccacacacucGCC-CGcCAUGAGCGGg -3'
miRNA:   3'- -ACCCGGCCGa---------CGGcGUuGUACUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 37150 0.75 0.097123
Target:  5'- cGGGUCGGUgugcGCCGCAACcc-AGCGGa -3'
miRNA:   3'- aCCCGGCCGa---CGGCGUUGuacUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 15034 0.75 0.099862
Target:  5'- cUGGGCCGGCccaaGCCGCAGCccaGGGCc- -3'
miRNA:   3'- -ACCCGGCCGa---CGGCGUUGua-CUCGcc -5'
11593 3' -60.2 NC_003085.1 + 48364 0.75 0.11156
Target:  5'- cGGGCUcGCUGCCGCGG-AUGGGCaGGu -3'
miRNA:   3'- aCCCGGcCGACGGCGUUgUACUCG-CC- -5'
11593 3' -60.2 NC_003085.1 + 34442 0.74 0.127986
Target:  5'- cGGaGCCGGCgacGUCGgcCAGCAUGAGCGu -3'
miRNA:   3'- aCC-CGGCCGa--CGGC--GUUGUACUCGCc -5'
11593 3' -60.2 NC_003085.1 + 12392 0.73 0.135163
Target:  5'- aGGGCCGGgUGCUGCuGCucgacccGGCGGg -3'
miRNA:   3'- aCCCGGCCgACGGCGuUGuac----UCGCC- -5'
11593 3' -60.2 NC_003085.1 + 35606 0.73 0.146625
Target:  5'- cGGGCgCgGGUUGCCGCAcauccgGCAcuucccUGGGCGGc -3'
miRNA:   3'- aCCCG-G-CCGACGGCGU------UGU------ACUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 40331 0.72 0.181625
Target:  5'- aGGGCUGGCgcgUGCCuCA--GUGGGCGGu -3'
miRNA:   3'- aCCCGGCCG---ACGGcGUugUACUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 24649 0.72 0.181626
Target:  5'- cUGGuugaaaGCCGcGC-GCCGCGACGggcUGAGCGGc -3'
miRNA:   3'- -ACC------CGGC-CGaCGGCGUUGU---ACUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 8067 0.71 0.196558
Target:  5'- cGaGUCaGGCaugGCCGguACAUGAGCGGa -3'
miRNA:   3'- aCcCGG-CCGa--CGGCguUGUACUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 20343 0.71 0.201768
Target:  5'- cUGGGCCacGGC-GCCuCAGCGcggGAGCGGc -3'
miRNA:   3'- -ACCCGG--CCGaCGGcGUUGUa--CUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 11682 0.71 0.207099
Target:  5'- gGGGCUGugaGUUGCCGCuaccaguuCAUGGGCGa -3'
miRNA:   3'- aCCCGGC---CGACGGCGuu------GUACUCGCc -5'
11593 3' -60.2 NC_003085.1 + 15625 0.7 0.218126
Target:  5'- gUGGGCCGGUgGCCG-GGCGgaGAGCGu -3'
miRNA:   3'- -ACCCGGCCGaCGGCgUUGUa-CUCGCc -5'
11593 3' -60.2 NC_003085.1 + 20834 0.7 0.218126
Target:  5'- gGGGUaucgaaaGGCcgGCCGCAGCAgcGAGCGc -3'
miRNA:   3'- aCCCGg------CCGa-CGGCGUUGUa-CUCGCc -5'
11593 3' -60.2 NC_003085.1 + 40895 0.7 0.223825
Target:  5'- cGGcauGCCacGGUUGuuGCGGCggGAGCGGg -3'
miRNA:   3'- aCC---CGG--CCGACggCGUUGuaCUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 35338 0.7 0.22965
Target:  5'- cGGGCagcaCGGUgaUGCCGUGGCAgUGGGCGa -3'
miRNA:   3'- aCCCG----GCCG--ACGGCGUUGU-ACUCGCc -5'
11593 3' -60.2 NC_003085.1 + 26506 0.69 0.260716
Target:  5'- cUGGGCCGGCUcguccggcuucGCCGuCGcCGUcGAcGCGGc -3'
miRNA:   3'- -ACCCGGCCGA-----------CGGC-GUuGUA-CU-CGCC- -5'
11593 3' -60.2 NC_003085.1 + 25426 0.69 0.260716
Target:  5'- -cGGCaaCGGCUGa-GCAGCAcUGAGCGGc -3'
miRNA:   3'- acCCG--GCCGACggCGUUGU-ACUCGCC- -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.