miRNA display CGI


Results 1 - 20 of 20 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
30801 3' -54.1 NC_006552.1 + 63292 0.66 0.814583
Target:  5'- cCACCuCCGaugccauuUACUGucggcaggaACUCAGCCGGu -3'
miRNA:   3'- aGUGG-GGCguu-----AUGAC---------UGAGUCGGUC- -5'
30801 3' -54.1 NC_006552.1 + 29626 0.66 0.811758
Target:  5'- cUCACCCCacugaagcagcacaGCAuuggacGCUGGCggcacgUAGCCGGg -3'
miRNA:   3'- -AGUGGGG--------------CGUua----UGACUGa-----GUCGGUC- -5'
30801 3' -54.1 NC_006552.1 + 2440 0.66 0.8051
Target:  5'- aUCAgCCUcugaggauGCAaaauGUGCggaaGGCUCAGCCAGu -3'
miRNA:   3'- -AGUgGGG--------CGU----UAUGa---CUGAGUCGGUC- -5'
30801 3' -54.1 NC_006552.1 + 45331 0.66 0.786588
Target:  5'- aCGCCuuGCAGUucgggucuuucgggcCUGGCaugUCGGCCGGu -3'
miRNA:   3'- aGUGGggCGUUAu--------------GACUG---AGUCGGUC- -5'
30801 3' -54.1 NC_006552.1 + 6659 0.66 0.775598
Target:  5'- aCACCCCGCGAUcaaUGAagUCGGCa-- -3'
miRNA:   3'- aGUGGGGCGUUAug-ACUg-AGUCGguc -5'
30801 3' -54.1 NC_006552.1 + 26729 0.66 0.775598
Target:  5'- gUCGCCgUGCAGUG--GGCUUuGCCAGa -3'
miRNA:   3'- -AGUGGgGCGUUAUgaCUGAGuCGGUC- -5'
30801 3' -54.1 NC_006552.1 + 63897 0.66 0.77459
Target:  5'- gCACCCaggaacugGCAAUGCUGGUUCgcaugcuGGCCAGu -3'
miRNA:   3'- aGUGGGg-------CGUUAUGACUGAG-------UCGGUC- -5'
30801 3' -54.1 NC_006552.1 + 9399 0.67 0.76545
Target:  5'- gUCGCCCCGUGcgGCgcGCUUcauGCCAGc -3'
miRNA:   3'- -AGUGGGGCGUuaUGacUGAGu--CGGUC- -5'
30801 3' -54.1 NC_006552.1 + 55303 0.67 0.755163
Target:  5'- cUACCCguucaGCG--GCUGGCUCGGCgAGu -3'
miRNA:   3'- aGUGGGg----CGUuaUGACUGAGUCGgUC- -5'
30801 3' -54.1 NC_006552.1 + 44993 0.67 0.734222
Target:  5'- cCuCCUCGCucu-CUG-CUCGGCCAGg -3'
miRNA:   3'- aGuGGGGCGuuauGACuGAGUCGGUC- -5'
30801 3' -54.1 NC_006552.1 + 53525 0.68 0.691192
Target:  5'- cUCACCgCGCGAUGCcgGACgcccaAGCCu- -3'
miRNA:   3'- -AGUGGgGCGUUAUGa-CUGag---UCGGuc -5'
30801 3' -54.1 NC_006552.1 + 5810 0.68 0.680262
Target:  5'- aCGCgCCCGCAAg---GGCgcCAGCCAGc -3'
miRNA:   3'- aGUG-GGGCGUUaugaCUGa-GUCGGUC- -5'
30801 3' -54.1 NC_006552.1 + 12542 0.68 0.680262
Target:  5'- --uCCUCGCG--GCUGacgcGCUCGGCCAGu -3'
miRNA:   3'- aguGGGGCGUuaUGAC----UGAGUCGGUC- -5'
30801 3' -54.1 NC_006552.1 + 20754 0.68 0.658276
Target:  5'- gCACCUCGgAcugGUACUccGGCUCcAGCCAGu -3'
miRNA:   3'- aGUGGGGCgU---UAUGA--CUGAG-UCGGUC- -5'
30801 3' -54.1 NC_006552.1 + 27923 0.68 0.657174
Target:  5'- gCGCCCggaugccuguCGCGuaaggacGUACUGAUUCAGaCCGGg -3'
miRNA:   3'- aGUGGG----------GCGU-------UAUGACUGAGUC-GGUC- -5'
30801 3' -54.1 NC_006552.1 + 16753 0.69 0.647241
Target:  5'- -uGCUCUGCu-UGCUGAC-CAGCCAu -3'
miRNA:   3'- agUGGGGCGuuAUGACUGaGUCGGUc -5'
30801 3' -54.1 NC_006552.1 + 44832 0.69 0.625139
Target:  5'- aCGgCCUGCAAUgcggcggucagcACUGGCUCuucguaggcAGCCAGg -3'
miRNA:   3'- aGUgGGGCGUUA------------UGACUGAG---------UCGGUC- -5'
30801 3' -54.1 NC_006552.1 + 14074 0.7 0.54738
Target:  5'- gCGCCCCcuguguuGCGAUAC-GGC-CGGCCGGg -3'
miRNA:   3'- aGUGGGG-------CGUUAUGaCUGaGUCGGUC- -5'
30801 3' -54.1 NC_006552.1 + 55526 0.73 0.425587
Target:  5'- gUCACCCCGuCGAgccacCUcGAcCUCGGCCAGu -3'
miRNA:   3'- -AGUGGGGC-GUUau---GA-CU-GAGUCGGUC- -5'
30801 3' -54.1 NC_006552.1 + 7386 1.1 0.001207
Target:  5'- uUCACCCCGCAAUACUGACUCAGCCAGg -3'
miRNA:   3'- -AGUGGGGCGUUAUGACUGAGUCGGUC- -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.