miRNA display CGI


Results 1 - 20 of 47 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
28543 5' -52.6 NC_005946.1 + 98345 0.66 0.954884
Target:  5'- uGCCgacucccacgacggGAGuGACGCAGgUGuaauuGGAGCCg -3'
miRNA:   3'- -CGGa-------------CUC-CUGCGUCgACugu--UUUCGG- -5'
28543 5' -52.6 NC_005946.1 + 12887 0.66 0.954884
Target:  5'- gGCCgcgGAGGcCGUGGCUcaggugaggcuggacGGCGGAGGUg -3'
miRNA:   3'- -CGGa--CUCCuGCGUCGA---------------CUGUUUUCGg -5'
28543 5' -52.6 NC_005946.1 + 79314 0.66 0.953227
Target:  5'- cCCUGGauaaagacgcGGACGCGGC-GGCAGAgaaugcgggagGGUCg -3'
miRNA:   3'- cGGACU----------CCUGCGUCGaCUGUUU-----------UCGG- -5'
28543 5' -52.6 NC_005946.1 + 2096 0.66 0.948906
Target:  5'- uGCCcu---GCGCGGCUGACGucggAGAGCUa -3'
miRNA:   3'- -CGGacuccUGCGUCGACUGU----UUUCGG- -5'
28543 5' -52.6 NC_005946.1 + 34480 0.66 0.948906
Target:  5'- uGCCcGAGGACGU-GUaGGCGuGAGCa -3'
miRNA:   3'- -CGGaCUCCUGCGuCGaCUGUuUUCGg -5'
28543 5' -52.6 NC_005946.1 + 39832 0.66 0.944329
Target:  5'- gGCuCUGGcuauGGcCGCGGCUG-CGGcGGCCu -3'
miRNA:   3'- -CG-GACU----CCuGCGUCGACuGUUuUCGG- -5'
28543 5' -52.6 NC_005946.1 + 48307 0.66 0.944329
Target:  5'- gGCCuuguUGGGGA-GCAgGUUGGCccuGAGGCCc -3'
miRNA:   3'- -CGG----ACUCCUgCGU-CGACUGu--UUUCGG- -5'
28543 5' -52.6 NC_005946.1 + 52369 0.66 0.944329
Target:  5'- gGCCagagaGAGGGC-CGGCgggGACAuagaagAGGGCCu -3'
miRNA:   3'- -CGGa----CUCCUGcGUCGa--CUGU------UUUCGG- -5'
28543 5' -52.6 NC_005946.1 + 14645 0.66 0.944329
Target:  5'- aGCCgGGGGGa--GGCcGACAAGGGCa -3'
miRNA:   3'- -CGGaCUCCUgcgUCGaCUGUUUUCGg -5'
28543 5' -52.6 NC_005946.1 + 80385 0.66 0.934913
Target:  5'- cGCaaaGAGGAC-CAGCcugucccugccuucgGACAGGGGCCc -3'
miRNA:   3'- -CGga-CUCCUGcGUCGa--------------CUGUUUUCGG- -5'
28543 5' -52.6 NC_005946.1 + 35892 0.66 0.934391
Target:  5'- uCCUGAGGAUgcaagacaccagGCAGCaGAUGucguGCCa -3'
miRNA:   3'- cGGACUCCUG------------CGUCGaCUGUuuu-CGG- -5'
28543 5' -52.6 NC_005946.1 + 23797 0.66 0.934391
Target:  5'- gGUCUGgaGGGACuGCAGgcccaggaggauCUGcGCGAGGGCCg -3'
miRNA:   3'- -CGGAC--UCCUG-CGUC------------GAC-UGUUUUCGG- -5'
28543 5' -52.6 NC_005946.1 + 66291 0.66 0.933866
Target:  5'- cGCCUGAccuccucGGACccuucccuggugGUGGCUGuGCAcGAGCCc -3'
miRNA:   3'- -CGGACU-------CCUG------------CGUCGAC-UGUuUUCGG- -5'
28543 5' -52.6 NC_005946.1 + 88578 0.67 0.929026
Target:  5'- gGCCUGGGG--GCAGUUGu----GGCCu -3'
miRNA:   3'- -CGGACUCCugCGUCGACuguuuUCGG- -5'
28543 5' -52.6 NC_005946.1 + 91985 0.67 0.923397
Target:  5'- aCgUGAGGcgugACGCAGuCUGGCGcaccaAAGGCUa -3'
miRNA:   3'- cGgACUCC----UGCGUC-GACUGU-----UUUCGG- -5'
28543 5' -52.6 NC_005946.1 + 21306 0.67 0.923397
Target:  5'- gGCC-GAGGAgGCcggcaAGCUGucCGAGauGGCCg -3'
miRNA:   3'- -CGGaCUCCUgCG-----UCGACu-GUUU--UCGG- -5'
28543 5' -52.6 NC_005946.1 + 48030 0.67 0.917504
Target:  5'- gGCCUG-GGugGgCGGCcuccuUGGCGAcAGUCu -3'
miRNA:   3'- -CGGACuCCugC-GUCG-----ACUGUUuUCGG- -5'
28543 5' -52.6 NC_005946.1 + 93845 0.67 0.911347
Target:  5'- gGCCuuuaggagaaaaUGGGGACGgGGUguggGAgGAAAGCUc -3'
miRNA:   3'- -CGG------------ACUCCUGCgUCGa---CUgUUUUCGG- -5'
28543 5' -52.6 NC_005946.1 + 20817 0.67 0.910717
Target:  5'- aGCCUGGacucucuGGACGUcaagaAGCUcGACAGgcuccuggagcAGGCCu -3'
miRNA:   3'- -CGGACU-------CCUGCG-----UCGA-CUGUU-----------UUCGG- -5'
28543 5' -52.6 NC_005946.1 + 98608 0.67 0.904928
Target:  5'- gGCCUcagcggacaGGGuGACGUuaaGGCUGGCGuuGGUCa -3'
miRNA:   3'- -CGGA---------CUC-CUGCG---UCGACUGUuuUCGG- -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.