miRNA display CGI


Results 1 - 20 of 33 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
28003 5' -59.4 NC_005887.1 + 1502 0.69 0.257847
Target:  5'- gCGCggCGCGGCCGUGCGGaacacguaccCGGAccuGCu- -3'
miRNA:   3'- -GCGa-GUGCCGGUACGCC----------GCCUu--CGuc -5'
28003 5' -59.4 NC_005887.1 + 2008 0.66 0.408684
Target:  5'- gCGCUCgACGGCCAguccauuucgGCGGCGaacgucuucGGCAu -3'
miRNA:   3'- -GCGAG-UGCCGGUa---------CGCCGCcu-------UCGUc -5'
28003 5' -59.4 NC_005887.1 + 2569 0.71 0.198549
Target:  5'- cCGCcgCAUGGCCGUGa-GCGGcGAGCGGu -3'
miRNA:   3'- -GCGa-GUGCCGGUACgcCGCC-UUCGUC- -5'
28003 5' -59.4 NC_005887.1 + 7014 0.72 0.168963
Target:  5'- aGCUCGUGGCCGgccgccGCGGCGcGcGGCAGu -3'
miRNA:   3'- gCGAGUGCCGGUa-----CGCCGC-CuUCGUC- -5'
28003 5' -59.4 NC_005887.1 + 11549 0.67 0.338949
Target:  5'- aGCUCgGCGcGCagcgcGCGGCGGucGCGGa -3'
miRNA:   3'- gCGAG-UGC-CGgua--CGCCGCCuuCGUC- -5'
28003 5' -59.4 NC_005887.1 + 11816 0.66 0.41801
Target:  5'- aCGCUaa-GGCag-GCGGCGGccuguucucGAGCAGc -3'
miRNA:   3'- -GCGAgugCCGguaCGCCGCC---------UUCGUC- -5'
28003 5' -59.4 NC_005887.1 + 12347 0.76 0.089023
Target:  5'- uCGCUCGcCGGCCAgGCGGUGacguGGCAGg -3'
miRNA:   3'- -GCGAGU-GCCGGUaCGCCGCcu--UCGUC- -5'
28003 5' -59.4 NC_005887.1 + 13381 0.76 0.086525
Target:  5'- gCGCUCGCgcugaaGGCCGgcGCGGCGGAcgucGGCGGc -3'
miRNA:   3'- -GCGAGUG------CCGGUa-CGCCGCCU----UCGUC- -5'
28003 5' -59.4 NC_005887.1 + 13618 0.66 0.408684
Target:  5'- gGCagCGCGGCgc-GCGGCGGccgcacucagccGAGCAGc -3'
miRNA:   3'- gCGa-GUGCCGguaCGCCGCC------------UUCGUC- -5'
28003 5' -59.4 NC_005887.1 + 14368 0.66 0.427465
Target:  5'- aCGCgauuCGGCCcgagccgGCGGCGGcaaGAGCGa -3'
miRNA:   3'- -GCGagu-GCCGGua-----CGCCGCC---UUCGUc -5'
28003 5' -59.4 NC_005887.1 + 14527 0.66 0.390425
Target:  5'- uGCaggCGCGGCCGU-CGGCGGc-GCGu -3'
miRNA:   3'- gCGa--GUGCCGGUAcGCCGCCuuCGUc -5'
28003 5' -59.4 NC_005887.1 + 15160 0.66 0.427465
Target:  5'- gCGCUCgACGGCaugGCgaaguaccuGGCGGAuacgcaaaAGCAGu -3'
miRNA:   3'- -GCGAG-UGCCGguaCG---------CCGCCU--------UCGUC- -5'
28003 5' -59.4 NC_005887.1 + 15686 0.67 0.380614
Target:  5'- aGCUCACcGCCGcGCGGcCGGAugauuccgccgccGGCGu -3'
miRNA:   3'- gCGAGUGcCGGUaCGCC-GCCU-------------UCGUc -5'
28003 5' -59.4 NC_005887.1 + 15771 0.68 0.315121
Target:  5'- gGC-CGCGGCCGcgaaGGCGcaGAAGCAGa -3'
miRNA:   3'- gCGaGUGCCGGUacg-CCGC--CUUCGUC- -5'
28003 5' -59.4 NC_005887.1 + 17493 0.67 0.381498
Target:  5'- aGCUgACGGCCGUGCaugauGGCacGGAAauGCGc -3'
miRNA:   3'- gCGAgUGCCGGUACG-----CCG--CCUU--CGUc -5'
28003 5' -59.4 NC_005887.1 + 17741 0.7 0.238671
Target:  5'- aCGCUCggcACGGCCGcGCGGCuGAuGGCGc -3'
miRNA:   3'- -GCGAG---UGCCGGUaCGCCGcCU-UCGUc -5'
28003 5' -59.4 NC_005887.1 + 18901 0.67 0.364058
Target:  5'- gGCUUcCGGUgGaaGCGGCGGGauGGCGGg -3'
miRNA:   3'- gCGAGuGCCGgUa-CGCCGCCU--UCGUC- -5'
28003 5' -59.4 NC_005887.1 + 19125 0.71 0.183229
Target:  5'- cCGCUCGCGuGCCGU-CGGCGuggcccuuGAAGUAGc -3'
miRNA:   3'- -GCGAGUGC-CGGUAcGCCGC--------CUUCGUC- -5'
28003 5' -59.4 NC_005887.1 + 23189 0.66 0.427465
Target:  5'- gCGCUCGCGaUCA--CGGcCGGggGCGGc -3'
miRNA:   3'- -GCGAGUGCcGGUacGCC-GCCuuCGUC- -5'
28003 5' -59.4 NC_005887.1 + 24120 0.73 0.135679
Target:  5'- uGCUgCGCGuGUCGUGCGGUGuGAAGCGc -3'
miRNA:   3'- gCGA-GUGC-CGGUACGCCGC-CUUCGUc -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.