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
28146 5' -55.8 NC_005887.1 + 877 0.66 0.619826
Target:  5'- uGGcCCGCGCCGccgGACgaGUCaggcgGCCUCg-- -3'
miRNA:   3'- -CC-GGCGCGGUa--CUGa-CAG-----UGGAGaag -5'
28146 5' -55.8 NC_005887.1 + 13199 0.66 0.608623
Target:  5'- aGGCCGCcgGCCGacGugUGUCGCUgCUg- -3'
miRNA:   3'- -CCGGCG--CGGUa-CugACAGUGGaGAag -5'
28146 5' -55.8 NC_005887.1 + 5099 0.66 0.597441
Target:  5'- uGCCGUGCCuucguUGGCUucgGUCugcGCCUCggCg -3'
miRNA:   3'- cCGGCGCGGu----ACUGA---CAG---UGGAGaaG- -5'
28146 5' -55.8 NC_005887.1 + 12211 0.66 0.58629
Target:  5'- cGCCGCGCCG-GGCg--CGCCggaUUUCa -3'
miRNA:   3'- cCGGCGCGGUaCUGacaGUGGa--GAAG- -5'
28146 5' -55.8 NC_005887.1 + 16290 0.66 0.585177
Target:  5'- cGGCCgGCGUaucgauCGUGACcugcgUGUCcggucgcagcgcgGCCUCUUCg -3'
miRNA:   3'- -CCGG-CGCG------GUACUG-----ACAG-------------UGGAGAAG- -5'
28146 5' -55.8 NC_005887.1 + 34477 0.66 0.575178
Target:  5'- cGGCuCGCGCCcgagaaGCUGUCGCC-Cg-- -3'
miRNA:   3'- -CCG-GCGCGGuac---UGACAGUGGaGaag -5'
28146 5' -55.8 NC_005887.1 + 24931 0.66 0.575178
Target:  5'- cGGCCGcCGCCuggacggugaAUGAcCUGaUCGCCgaCUUCc -3'
miRNA:   3'- -CCGGC-GCGG----------UACU-GAC-AGUGGa-GAAG- -5'
28146 5' -55.8 NC_005887.1 + 6942 0.67 0.524818
Target:  5'- gGGCCGCGCCGUcugguacaugaaccgGAacCUGcgugaaaagcUCGCCUCggCa -3'
miRNA:   3'- -CCGGCGCGGUA---------------CU--GAC----------AGUGGAGaaG- -5'
28146 5' -55.8 NC_005887.1 + 24525 0.67 0.509812
Target:  5'- cGGCCGCGCCAacggccUGAUgcugcgUGUcCugCUCg-- -3'
miRNA:   3'- -CCGGCGCGGU------ACUG------ACA-GugGAGaag -5'
28146 5' -55.8 NC_005887.1 + 34920 0.68 0.499204
Target:  5'- cGUCGCGCUGUGcggaacuuGCcGUCGCCggCUUCg -3'
miRNA:   3'- cCGGCGCGGUAC--------UGaCAGUGGa-GAAG- -5'
28146 5' -55.8 NC_005887.1 + 32516 0.69 0.418341
Target:  5'- cGCCGCGCaGUGGCUGcgcaACCUgaUCg -3'
miRNA:   3'- cCGGCGCGgUACUGACag--UGGAgaAG- -5'
28146 5' -55.8 NC_005887.1 + 10810 0.7 0.381004
Target:  5'- cGCCGCGCCAguccGAUuccaUGUCGCCaUCg-- -3'
miRNA:   3'- cCGGCGCGGUa---CUG----ACAGUGG-AGaag -5'
28146 5' -55.8 NC_005887.1 + 10077 0.71 0.337566
Target:  5'- cGGCCGCG-CGUGAUgugGUCGgCgaUCUUCg -3'
miRNA:   3'- -CCGGCGCgGUACUGa--CAGUgG--AGAAG- -5'
28146 5' -55.8 NC_005887.1 + 3617 0.71 0.329323
Target:  5'- aGGCCGCgcagcgcuucgGCCGUGAaaacCUGUCGCCg--UCc -3'
miRNA:   3'- -CCGGCG-----------CGGUACU----GACAGUGGagaAG- -5'
28146 5' -55.8 NC_005887.1 + 37171 0.72 0.261847
Target:  5'- cGGCCGCGCgAUcgccgaGGCUGugcUCGCCcgCUUCg -3'
miRNA:   3'- -CCGGCGCGgUA------CUGAC---AGUGGa-GAAG- -5'
28146 5' -55.8 NC_005887.1 + 40081 0.72 0.261847
Target:  5'- aGCCGCGCCAUGAUgcgCACCg---- -3'
miRNA:   3'- cCGGCGCGGUACUGacaGUGGagaag -5'
28146 5' -55.8 NC_005887.1 + 19011 1.12 0.000338
Target:  5'- aGGCCGCGCCAUGACUGUCACCUCUUCg -3'
miRNA:   3'- -CCGGCGCGGUACUGACAGUGGAGAAG- -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.