miRNA display CGI


Results 1 - 20 of 21 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
1425 5' -54.5 NC_001335.1 + 33858 0.66 0.731011
Target:  5'- -uCGaCCugauCCGGGCGCaUCGUCUGAuGAc -3'
miRNA:   3'- ucGC-GGu---GGUCCGCG-AGUAGAUUuCU- -5'
1425 5' -54.5 NC_001335.1 + 24889 0.66 0.731011
Target:  5'- gAGCGCgACguagAGGCGCUgaCGcCUGAGGAg -3'
miRNA:   3'- -UCGCGgUGg---UCCGCGA--GUaGAUUUCU- -5'
1425 5' -54.5 NC_001335.1 + 46590 0.66 0.720152
Target:  5'- gGGCGgacauucucaACCAGGCGCaUCAUCUGcGGc -3'
miRNA:   3'- -UCGCgg--------UGGUCCGCG-AGUAGAUuUCu -5'
1425 5' -54.5 NC_001335.1 + 12092 0.66 0.704798
Target:  5'- --gGCUACCAGGgugacuuccgccaGCUCGUCUGGGGc -3'
miRNA:   3'- ucgCGGUGGUCCg------------CGAGUAGAUUUCu -5'
1425 5' -54.5 NC_001335.1 + 16059 0.66 0.675923
Target:  5'- cGGCGgCAgCCGGGgGCUCGgagaUCUAGGcGAu -3'
miRNA:   3'- -UCGCgGU-GGUCCgCGAGU----AGAUUU-CU- -5'
1425 5' -54.5 NC_001335.1 + 24138 0.66 0.675923
Target:  5'- uGGCGCUcgcgGCCAGGCGUgguucuucgCGUaCUGAcaAGAa -3'
miRNA:   3'- -UCGCGG----UGGUCCGCGa--------GUA-GAUU--UCU- -5'
1425 5' -54.5 NC_001335.1 + 19924 0.67 0.653501
Target:  5'- uGGgGUCAUCAGGCagcguccacaaGCUCGUCUcGAGc -3'
miRNA:   3'- -UCgCGGUGGUCCG-----------CGAGUAGAuUUCu -5'
1425 5' -54.5 NC_001335.1 + 1708 0.67 0.61974
Target:  5'- uGCGCCgaACCAGGCG-UCcUCgagGAGGGc -3'
miRNA:   3'- uCGCGG--UGGUCCGCgAGuAGa--UUUCU- -5'
1425 5' -54.5 NC_001335.1 + 2134 0.68 0.608496
Target:  5'- uGGC-CCcUCGGGCGUUCGUCgcaGAGAa -3'
miRNA:   3'- -UCGcGGuGGUCCGCGAGUAGau-UUCU- -5'
1425 5' -54.5 NC_001335.1 + 25197 0.68 0.563825
Target:  5'- aGGCaGCCGCCA-GCGCcaUCAcgCUGGAGGa -3'
miRNA:   3'- -UCG-CGGUGGUcCGCG--AGUa-GAUUUCU- -5'
1425 5' -54.5 NC_001335.1 + 29239 0.7 0.488145
Target:  5'- cAGCGCCGCCAGGacgcgaaGCUCcugcgccugguaGUCgacuGAGGc -3'
miRNA:   3'- -UCGCGGUGGUCCg------CGAG------------UAGau--UUCU- -5'
1425 5' -54.5 NC_001335.1 + 16224 0.7 0.457173
Target:  5'- -aCGCCuauCCAGGCGgCUCGUgUGAGGc -3'
miRNA:   3'- ucGCGGu--GGUCCGC-GAGUAgAUUUCu -5'
1425 5' -54.5 NC_001335.1 + 50861 0.7 0.456159
Target:  5'- gGGCGUCACCGGGCaGUUCgAUCUuguaaucGAAGu -3'
miRNA:   3'- -UCGCGGUGGUCCG-CGAG-UAGA-------UUUCu -5'
1425 5' -54.5 NC_001335.1 + 793 0.71 0.427286
Target:  5'- uGCGCCGCCuucGGCauGUUCGUCcAGAGGc -3'
miRNA:   3'- uCGCGGUGGu--CCG--CGAGUAGaUUUCU- -5'
1425 5' -54.5 NC_001335.1 + 10293 0.71 0.408967
Target:  5'- gGGuCGCCACCGGGCGCgaaacaugcgccuggUGUCUGAu-- -3'
miRNA:   3'- -UC-GCGGUGGUCCGCGa--------------GUAGAUUucu -5'
1425 5' -54.5 NC_001335.1 + 40256 0.71 0.398588
Target:  5'- uGCGCCAgCAGGUGCUgGgcgcUCUGAucaAGAc -3'
miRNA:   3'- uCGCGGUgGUCCGCGAgU----AGAUU---UCU- -5'
1425 5' -54.5 NC_001335.1 + 32561 0.72 0.353596
Target:  5'- -uCGCCACCAGGCGCUUc-CUGAGc- -3'
miRNA:   3'- ucGCGGUGGUCCGCGAGuaGAUUUcu -5'
1425 5' -54.5 NC_001335.1 + 13860 0.74 0.28935
Target:  5'- cGGUGCCGCCGauGGCGgCUCGggUGAGGAu -3'
miRNA:   3'- -UCGCGGUGGU--CCGC-GAGUagAUUUCU- -5'
1425 5' -54.5 NC_001335.1 + 36102 0.75 0.25406
Target:  5'- cAGgGCCACCcggaAGGCGCUgAUCgguugGGAGAc -3'
miRNA:   3'- -UCgCGGUGG----UCCGCGAgUAGa----UUUCU- -5'
1425 5' -54.5 NC_001335.1 + 332 0.79 0.134969
Target:  5'- cGCGCCGCCugugcGGCGCUCua-UAGAGAg -3'
miRNA:   3'- uCGCGGUGGu----CCGCGAGuagAUUUCU- -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.