miRNA display CGI


Results 1 - 20 of 34 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
28035 3' -56 NC_005887.1 + 24485 0.72 0.280828
Target:  5'- aUCGUGUCGUCGAUGCccggcaggaucuucGCCAGuUCCu -3'
miRNA:   3'- cAGCACGGCGGUUACG--------------UGGUCuAGGc -5'
28035 3' -56 NC_005887.1 + 14495 0.72 0.255087
Target:  5'- aUCGUGcCCGCCGcgGUGCUugguGGUCCGc -3'
miRNA:   3'- cAGCAC-GGCGGUuaCGUGGu---CUAGGC- -5'
28035 3' -56 NC_005887.1 + 2080 0.66 0.58629
Target:  5'- cGUCGacgGCaaGCCGGUGCACCcggacuaugcGGAUUCGc -3'
miRNA:   3'- -CAGCa--CGg-CGGUUACGUGG----------UCUAGGC- -5'
28035 3' -56 NC_005887.1 + 4897 0.66 0.575178
Target:  5'- gGUCGccgaggGCCGgCGcgagguguucGUGCGCCuGAUCCa -3'
miRNA:   3'- -CAGCa-----CGGCgGU----------UACGUGGuCUAGGc -5'
28035 3' -56 NC_005887.1 + 16453 0.66 0.57407
Target:  5'- -gCGUGCgCGCgGgcAUGCGCUcgaccgcgcggcaGGAUCCGg -3'
miRNA:   3'- caGCACG-GCGgU--UACGUGG-------------UCUAGGC- -5'
28035 3' -56 NC_005887.1 + 22424 0.66 0.564116
Target:  5'- cGUCGUGCUGCUGuucUGCAUguGGauugCCGu -3'
miRNA:   3'- -CAGCACGGCGGUu--ACGUGguCUa---GGC- -5'
28035 3' -56 NC_005887.1 + 4617 0.66 0.55311
Target:  5'- ---aUGCuCGCCGcgGCGCCGGuggCCGc -3'
miRNA:   3'- cagcACG-GCGGUuaCGUGGUCua-GGC- -5'
28035 3' -56 NC_005887.1 + 34643 0.67 0.542169
Target:  5'- cGUCGacgagGCgCGCCGGcuUGCcgguuuCCGGAUCCGc -3'
miRNA:   3'- -CAGCa----CG-GCGGUU--ACGu-----GGUCUAGGC- -5'
28035 3' -56 NC_005887.1 + 12132 0.67 0.531301
Target:  5'- -aCGagcagGCCGCCGucgcGCGCCAGAUUgGu -3'
miRNA:   3'- caGCa----CGGCGGUua--CGUGGUCUAGgC- -5'
28035 3' -56 NC_005887.1 + 19227 0.67 0.499204
Target:  5'- ----cGUCGUguAUGCACCGGGUUCGa -3'
miRNA:   3'- cagcaCGGCGguUACGUGGUCUAGGC- -5'
28035 3' -56 NC_005887.1 + 9089 0.68 0.488695
Target:  5'- --gGUGCaUGCCAGcgcggGCACCGGcgCCGu -3'
miRNA:   3'- cagCACG-GCGGUUa----CGUGGUCuaGGC- -5'
28035 3' -56 NC_005887.1 + 6607 0.68 0.467997
Target:  5'- aUCGa--CGCUGGcgGCACCGGAUCCGa -3'
miRNA:   3'- cAGCacgGCGGUUa-CGUGGUCUAGGC- -5'
28035 3' -56 NC_005887.1 + 12561 0.69 0.428017
Target:  5'- cGUCGacgGCCGCCGgcAUGCGCaUGGuGUCCGc -3'
miRNA:   3'- -CAGCa--CGGCGGU--UACGUG-GUC-UAGGC- -5'
28035 3' -56 NC_005887.1 + 31896 0.69 0.418341
Target:  5'- cGUCG-GCCaGCCGGucaggcaugcUGCugCaAGAUCCGg -3'
miRNA:   3'- -CAGCaCGG-CGGUU----------ACGugG-UCUAGGC- -5'
28035 3' -56 NC_005887.1 + 536 0.69 0.393817
Target:  5'- cGUCG-GCCGCCGcgcgccGCGCCGGAUacagcgcgaagaccgCCGg -3'
miRNA:   3'- -CAGCaCGGCGGUua----CGUGGUCUA---------------GGC- -5'
28035 3' -56 NC_005887.1 + 22863 0.69 0.390128
Target:  5'- aUCGacgGCCGCCGGccGCuAUCAGAUCCu -3'
miRNA:   3'- cAGCa--CGGCGGUUa-CG-UGGUCUAGGc -5'
28035 3' -56 NC_005887.1 + 14253 0.7 0.363188
Target:  5'- aUCuUGCCGCCGGUcuuaGCCAGAUCUa -3'
miRNA:   3'- cAGcACGGCGGUUAcg--UGGUCUAGGc -5'
28035 3' -56 NC_005887.1 + 22617 1.08 0.000662
Target:  5'- cGUCGUGCCGCCAAUGCACCAGAUCCGc -3'
miRNA:   3'- -CAGCACGGCGGUUACGUGGUCUAGGC- -5'
28035 3' -56 NC_005887.1 + 32453 0.85 0.033236
Target:  5'- aUCGUGCCGCCGAccUGCACCggcuGGAUCCu -3'
miRNA:   3'- cAGCACGGCGGUU--ACGUGG----UCUAGGc -5'
28035 3' -56 NC_005887.1 + 40523 0.74 0.195147
Target:  5'- uUCGUGUCGCCGAagaUGCcguACCAGGUCgGc -3'
miRNA:   3'- cAGCACGGCGGUU---ACG---UGGUCUAGgC- -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.