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 + 14368 0.66 0.427465
Target:  5'- aCGCgauuCGGCCcgagccgGCGGCGGcaaGAGCGa -3'
miRNA:   3'- -GCGagu-GCCGGua-----CGCCGCC---UUCGUc -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 + 15160 0.66 0.427465
Target:  5'- gCGCUCgACGGCaugGCgaaguaccuGGCGGAuacgcaaaAGCAGu -3'
miRNA:   3'- -GCGAG-UGCCGguaCG---------CCGCCU--------UCGUC- -5'
28003 5' -59.4 NC_005887.1 + 32258 0.66 0.423668
Target:  5'- cCGUcggCGCgGGCCGcccacacgacggaaUGCGGCuccugcuGGAAGCAGa -3'
miRNA:   3'- -GCGa--GUG-CCGGU--------------ACGCCG-------CCUUCGUC- -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 + 2008 0.66 0.408684
Target:  5'- gCGCUCgACGGCCAguccauuucgGCGGCGaacgucuucGGCAu -3'
miRNA:   3'- -GCGAG-UGCCGGUa---------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 + 36839 0.66 0.390425
Target:  5'- uGCU-GCGGCCGgugcUGCGGcCGGugcuGCGGc -3'
miRNA:   3'- gCGAgUGCCGGU----ACGCC-GCCuu--CGUC- -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 + 17493 0.67 0.381498
Target:  5'- aGCUgACGGCCGUGCaugauGGCacGGAAauGCGc -3'
miRNA:   3'- gCGAgUGCCGGUACG-----CCG--CCUU--CGUc -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 + 18901 0.67 0.364058
Target:  5'- gGCUUcCGGUgGaaGCGGCGGGauGGCGGg -3'
miRNA:   3'- gCGAGuGCCGgUa-CGCCGCCU--UCGUC- -5'
28003 5' -59.4 NC_005887.1 + 36879 0.67 0.347177
Target:  5'- gCGC-CAuCGGCCugcgucGUGGUGGAugcGGCAGg -3'
miRNA:   3'- -GCGaGU-GCCGGua----CGCCGCCU---UCGUC- -5'
28003 5' -59.4 NC_005887.1 + 26658 0.67 0.347177
Target:  5'- gGCggaaUCAucCGGCCGcGCGGCGGuGAGCuGg -3'
miRNA:   3'- gCG----AGU--GCCGGUaCGCCGCC-UUCGuC- -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 + 34269 0.68 0.318224
Target:  5'- gCGCUCGCGGCuUgcgcaugccgucgccGUGCGGCuGAcuGCGGg -3'
miRNA:   3'- -GCGAGUGCCG-G---------------UACGCCGcCUu-CGUC- -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 + 27371 0.68 0.299951
Target:  5'- gGCcugCGCGGCCugcGCGGCGuAGGCGu -3'
miRNA:   3'- gCGa--GUGCCGGua-CGCCGCcUUCGUc -5'
28003 5' -59.4 NC_005887.1 + 34842 0.69 0.285352
Target:  5'- aCGCUCGgGGUCGUGCcGCcGAGGguGu -3'
miRNA:   3'- -GCGAGUgCCGGUACGcCGcCUUCguC- -5'
28003 5' -59.4 NC_005887.1 + 37576 0.69 0.278266
Target:  5'- gGCUCGCGGagccGCGGCGGAAuuCGGa -3'
miRNA:   3'- gCGAGUGCCgguaCGCCGCCUUc-GUC- -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.