miRNA display CGI


Results 1 - 20 of 30 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
24173 3' -53.2 NC_005263.2 + 8915 0.66 0.830151
Target:  5'- gCGGCAGGA---UGUcGUCGAggUCGGUGa -3'
miRNA:   3'- -GCCGUUCUuucGCA-CAGCU--AGCCGCc -5'
24173 3' -53.2 NC_005263.2 + 30244 0.66 0.830151
Target:  5'- gCGGCGA---AGCGUGcgCGGuagucgUCGGCGa -3'
miRNA:   3'- -GCCGUUcuuUCGCACa-GCU------AGCCGCc -5'
24173 3' -53.2 NC_005263.2 + 13005 0.66 0.820935
Target:  5'- aGGCcGGucGGCGUGaugccgaguagcUUGAUCaGCGGg -3'
miRNA:   3'- gCCGuUCuuUCGCAC------------AGCUAGcCGCC- -5'
24173 3' -53.2 NC_005263.2 + 22495 0.66 0.811517
Target:  5'- cCGGCGgcGGccGGCGg--CGGUuCGGCGGc -3'
miRNA:   3'- -GCCGU--UCuuUCGCacaGCUA-GCCGCC- -5'
24173 3' -53.2 NC_005263.2 + 17338 0.66 0.792114
Target:  5'- uGcGCGAGGAAgucguGCGUGUCGAcaaGGCa- -3'
miRNA:   3'- gC-CGUUCUUU-----CGCACAGCUag-CCGcc -5'
24173 3' -53.2 NC_005263.2 + 27747 0.67 0.78215
Target:  5'- cCGGCAAcGAAGC-UGUgGAUCaGGCcGGu -3'
miRNA:   3'- -GCCGUUcUUUCGcACAgCUAG-CCG-CC- -5'
24173 3' -53.2 NC_005263.2 + 1516 0.67 0.772028
Target:  5'- aCGGCGAGucagccugcAGCGUGaUCG-UCaGCGGc -3'
miRNA:   3'- -GCCGUUCuu-------UCGCAC-AGCuAGcCGCC- -5'
24173 3' -53.2 NC_005263.2 + 26322 0.67 0.772028
Target:  5'- aGGCcGGucGGCGUGaaGGUCGguuGCGGg -3'
miRNA:   3'- gCCGuUCuuUCGCACagCUAGC---CGCC- -5'
24173 3' -53.2 NC_005263.2 + 1583 0.67 0.772028
Target:  5'- aCGGCAcGcuuGGaCGUGcCGAgcagcgCGGCGGa -3'
miRNA:   3'- -GCCGUuCuu-UC-GCACaGCUa-----GCCGCC- -5'
24173 3' -53.2 NC_005263.2 + 30337 0.67 0.761758
Target:  5'- -uGCGAGAAGcGCGUGcCGAgcgCGGCc- -3'
miRNA:   3'- gcCGUUCUUU-CGCACaGCUa--GCCGcc -5'
24173 3' -53.2 NC_005263.2 + 7022 0.67 0.761758
Target:  5'- gCGGCGcGAAA-CGUGUCGAcgaUCGuGCGc -3'
miRNA:   3'- -GCCGUuCUUUcGCACAGCU---AGC-CGCc -5'
24173 3' -53.2 NC_005263.2 + 24308 0.67 0.761758
Target:  5'- uGGCucgc--GCGcGUCGcAUCGGCGGu -3'
miRNA:   3'- gCCGuucuuuCGCaCAGC-UAGCCGCC- -5'
24173 3' -53.2 NC_005263.2 + 46882 0.67 0.760723
Target:  5'- aGGCAAGAgcgacaaGAGcCG-GUCGAgaacauUCGGaCGGa -3'
miRNA:   3'- gCCGUUCU-------UUC-GCaCAGCU------AGCC-GCC- -5'
24173 3' -53.2 NC_005263.2 + 10591 0.67 0.760723
Target:  5'- gGGCAAacccucGAAcgacuucAGCGUGUCGGggugcccgaguUCGGuCGGa -3'
miRNA:   3'- gCCGUU------CUU-------UCGCACAGCU-----------AGCC-GCC- -5'
24173 3' -53.2 NC_005263.2 + 2675 0.67 0.751352
Target:  5'- cCGGCAGccu-GCaGUGUCGcgcCGGCGGc -3'
miRNA:   3'- -GCCGUUcuuuCG-CACAGCua-GCCGCC- -5'
24173 3' -53.2 NC_005263.2 + 30016 0.68 0.729109
Target:  5'- uCGGCuuGAGcuuguugaucuggGGCGUGaCGAUCGaGUGGu -3'
miRNA:   3'- -GCCGuuCUU-------------UCGCACaGCUAGC-CGCC- -5'
24173 3' -53.2 NC_005263.2 + 34300 0.68 0.685625
Target:  5'- gCGGaCGAGugcauucgcaccuGGGGCGaagCGAUCGGCGGc -3'
miRNA:   3'- -GCC-GUUC-------------UUUCGCacaGCUAGCCGCC- -5'
24173 3' -53.2 NC_005263.2 + 1386 0.68 0.680115
Target:  5'- uGGUggAAGAGAGCGgguucgauuauugcuUGUCG-UCGGCGc -3'
miRNA:   3'- gCCG--UUCUUUCGC---------------ACAGCuAGCCGCc -5'
24173 3' -53.2 NC_005263.2 + 47432 0.69 0.664631
Target:  5'- uCGGCAAGGcgcgcuacgaugAGGCGU-UCGAUCuGGcCGGc -3'
miRNA:   3'- -GCCGUUCU------------UUCGCAcAGCUAG-CC-GCC- -5'
24173 3' -53.2 NC_005263.2 + 16527 0.69 0.653531
Target:  5'- cCGGCAAauGucGGCGuUGUCGAgcaCGGCGc -3'
miRNA:   3'- -GCCGUU--CuuUCGC-ACAGCUa--GCCGCc -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.