miRNA display CGI


Results 1 - 17 of 17 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
28377 3' -60 NC_005946.1 + 40654 0.66 0.6873
Target:  5'- uGCCACaacuGCAGACAggGCCacgaggGCGGCGg-- -3'
miRNA:   3'- -CGGUG----CGUCUGUggCGG------CGCCGCauc -5'
28377 3' -60 NC_005946.1 + 47447 0.66 0.65703
Target:  5'- uGCCuuGaagaAGACugCGCCuuCGGCGUGa -3'
miRNA:   3'- -CGGugCg---UCUGugGCGGc-GCCGCAUc -5'
28377 3' -60 NC_005946.1 + 95490 0.66 0.636738
Target:  5'- cGCCGCaggugGgAGAC-CCGCCGCaGGUGggAGa -3'
miRNA:   3'- -CGGUG-----CgUCUGuGGCGGCG-CCGCa-UC- -5'
28377 3' -60 NC_005946.1 + 62349 0.67 0.626583
Target:  5'- gGCCGCGUGuGGCGCaGCCGcCGGUGc-- -3'
miRNA:   3'- -CGGUGCGU-CUGUGgCGGC-GCCGCauc -5'
28377 3' -60 NC_005946.1 + 28842 0.67 0.606292
Target:  5'- gGCCGUGUAGGCGUCGUCGCaagucaGCGUAGa -3'
miRNA:   3'- -CGGUGCGUCUGUGGCGGCGc-----CGCAUC- -5'
28377 3' -60 NC_005946.1 + 58404 0.67 0.605279
Target:  5'- aGCCguagacgGCGCAGACgugguaauccacACCGCCG-GGauaGUGGa -3'
miRNA:   3'- -CGG-------UGCGUCUG------------UGGCGGCgCCg--CAUC- -5'
28377 3' -60 NC_005946.1 + 44558 0.67 0.576015
Target:  5'- cGCCAgcaGCAGACcucACgGCCcugGCGGUGUGa -3'
miRNA:   3'- -CGGUg--CGUCUG---UGgCGG---CGCCGCAUc -5'
28377 3' -60 NC_005946.1 + 65024 0.68 0.556016
Target:  5'- cGCC-CGCcuuGACGCCGCUGagacuggaccCGGCGUc- -3'
miRNA:   3'- -CGGuGCGu--CUGUGGCGGC----------GCCGCAuc -5'
28377 3' -60 NC_005946.1 + 92070 0.69 0.507018
Target:  5'- aGCCACGCAGACugUGagagaucCGGCGg-- -3'
miRNA:   3'- -CGGUGCGUCUGugGCggc----GCCGCauc -5'
28377 3' -60 NC_005946.1 + 10429 0.69 0.487928
Target:  5'- aGCCuccCcCGGACacaggACCGCCGCcGCGUAGg -3'
miRNA:   3'- -CGGu--GcGUCUG-----UGGCGGCGcCGCAUC- -5'
28377 3' -60 NC_005946.1 + 40752 0.69 0.478511
Target:  5'- gGCCACcaagacugguagGCGGcgGCGCCGCUaGCGGCGa-- -3'
miRNA:   3'- -CGGUG------------CGUC--UGUGGCGG-CGCCGCauc -5'
28377 3' -60 NC_005946.1 + 20881 0.69 0.459951
Target:  5'- cGCCcuggaGCAG--GCCGCCGCGGUGg-- -3'
miRNA:   3'- -CGGug---CGUCugUGGCGGCGCCGCauc -5'
28377 3' -60 NC_005946.1 + 25011 0.69 0.459951
Target:  5'- uGCCGCuCAuGGCAUUGCCcuuauCGGCGUAGg -3'
miRNA:   3'- -CGGUGcGU-CUGUGGCGGc----GCCGCAUC- -5'
28377 3' -60 NC_005946.1 + 95438 0.7 0.450815
Target:  5'- cCCGcCGCAGGCucgagagcagcaGCCGgCGCGGCGg-- -3'
miRNA:   3'- cGGU-GCGUCUG------------UGGCgGCGCCGCauc -5'
28377 3' -60 NC_005946.1 + 103844 0.71 0.357483
Target:  5'- cUCACGCAGGCgACCGUCGagGGCGg-- -3'
miRNA:   3'- cGGUGCGUCUG-UGGCGGCg-CCGCauc -5'
28377 3' -60 NC_005946.1 + 24507 0.76 0.180165
Target:  5'- cGCCAUGCcgggaaagauguAGGCGCaCGCCGUGGCGg-- -3'
miRNA:   3'- -CGGUGCG------------UCUGUG-GCGGCGCCGCauc -5'
28377 3' -60 NC_005946.1 + 40373 1.1 0.000692
Target:  5'- gGCCACGCAGACACCGCCGCGGCGUAGg -3'
miRNA:   3'- -CGGUGCGUCUGUGGCGGCGCCGCAUC- -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.