miRNA display CGI


Results 1 - 20 of 25 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
28013 3' -55.6 NC_005887.1 + 29161 0.66 0.636821
Target:  5'- gUCGGccgGCGGCCUGcucgACCGcucccgcugucUGCGCg -3'
miRNA:   3'- -AGCC---UGCCGGACuua-UGGCu----------ACGCGa -5'
28013 3' -55.6 NC_005887.1 + 1709 0.71 0.359459
Target:  5'- aUCGGcGCGcgcucgucaguGCCUGucuUGCCGAUGUGCg -3'
miRNA:   3'- -AGCC-UGC-----------CGGACuu-AUGGCUACGCGa -5'
28013 3' -55.6 NC_005887.1 + 26307 0.7 0.377112
Target:  5'- aUCGG-CGGUCUGcAAUACCGGcuccUGCgGCUc -3'
miRNA:   3'- -AGCCuGCCGGAC-UUAUGGCU----ACG-CGA- -5'
28013 3' -55.6 NC_005887.1 + 15307 0.69 0.443311
Target:  5'- gUCGGGCGGCa-GcGUGCgCGGUcGCGCg -3'
miRNA:   3'- -AGCCUGCCGgaCuUAUG-GCUA-CGCGa -5'
28013 3' -55.6 NC_005887.1 + 18926 0.69 0.463397
Target:  5'- gCGGGCGGCUgcgacGAGcugAUCGAcGCGCUg -3'
miRNA:   3'- aGCCUGCCGGa----CUUa--UGGCUaCGCGA- -5'
28013 3' -55.6 NC_005887.1 + 24377 0.67 0.558939
Target:  5'- gUCGGuGCGGCC--GAUGCCGGcgagcccGCGCa -3'
miRNA:   3'- -AGCC-UGCCGGacUUAUGGCUa------CGCGa -5'
28013 3' -55.6 NC_005887.1 + 28447 0.67 0.581018
Target:  5'- gCGuACGuGCCacGAAUGCCGAcGCGCa -3'
miRNA:   3'- aGCcUGC-CGGa-CUUAUGGCUaCGCGa -5'
28013 3' -55.6 NC_005887.1 + 36827 0.67 0.581018
Target:  5'- aUCGuGCGuGCCUGcugcgGCCGGUGCuGCg -3'
miRNA:   3'- -AGCcUGC-CGGACuua--UGGCUACG-CGa -5'
28013 3' -55.6 NC_005887.1 + 11827 0.67 0.585457
Target:  5'- cUCGGccgacggccgccuacGCGGgCUGAugcaguuUugCGGUGCGCa -3'
miRNA:   3'- -AGCC---------------UGCCgGACUu------AugGCUACGCGa -5'
28013 3' -55.6 NC_005887.1 + 11027 0.66 0.614443
Target:  5'- cCGGuCGGCacgugggacgUGAccACCGGUGCGCc -3'
miRNA:   3'- aGCCuGCCGg---------ACUuaUGGCUACGCGa -5'
28013 3' -55.6 NC_005887.1 + 11087 0.66 0.614443
Target:  5'- aUCGacGCGGCCgacGAGUACUGGUG-GCa -3'
miRNA:   3'- -AGCc-UGCCGGa--CUUAUGGCUACgCGa -5'
28013 3' -55.6 NC_005887.1 + 33216 1.08 0.000845
Target:  5'- gUCGGACGGCCUGAAUACCGAUGCGCUu -3'
miRNA:   3'- -AGCCUGCCGGACUUAUGGCUACGCGA- -5'
28013 3' -55.6 NC_005887.1 + 39404 0.71 0.342392
Target:  5'- -aGGAUGGUCgcgGcGGUGCCGcgGCGCUu -3'
miRNA:   3'- agCCUGCCGGa--C-UUAUGGCuaCGCGA- -5'
28013 3' -55.6 NC_005887.1 + 6435 0.73 0.27294
Target:  5'- cCGGACGGCCgcgccGAG-AUCGAagUGCGCg -3'
miRNA:   3'- aGCCUGCCGGa----CUUaUGGCU--ACGCGa -5'
28013 3' -55.6 NC_005887.1 + 35076 0.77 0.130799
Target:  5'- gCGGGCGGCCgGG--GCCGAUGuCGCg -3'
miRNA:   3'- aGCCUGCCGGaCUuaUGGCUAC-GCGa -5'
28013 3' -55.6 NC_005887.1 + 8846 0.66 0.614443
Target:  5'- gCGGGCaGCUugUGAAcGCCGgcGCGCc -3'
miRNA:   3'- aGCCUGcCGG--ACUUaUGGCuaCGCGa -5'
28013 3' -55.6 NC_005887.1 + 20866 0.67 0.526293
Target:  5'- aCGGuguugGCGGCCUGAAUgauaguggcGCCGgcGUGUc -3'
miRNA:   3'- aGCC-----UGCCGGACUUA---------UGGCuaCGCGa -5'
28013 3' -55.6 NC_005887.1 + 17744 0.69 0.463397
Target:  5'- cUCGGcACGGCCgcgcgGCUGAUGgCGCc -3'
miRNA:   3'- -AGCC-UGCCGGacuuaUGGCUAC-GCGa -5'
28013 3' -55.6 NC_005887.1 + 10925 0.69 0.453294
Target:  5'- gUCGGcCGGCCUGcucacgcCCGAUuacGCGCa -3'
miRNA:   3'- -AGCCuGCCGGACuuau---GGCUA---CGCGa -5'
28013 3' -55.6 NC_005887.1 + 2702 0.69 0.423724
Target:  5'- aCGGGCGGCaagcg-GCCGAgccGCGCg -3'
miRNA:   3'- aGCCUGCCGgacuuaUGGCUa--CGCGa -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.