miRNA display CGI


Results 1 - 20 of 49 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
20385 3' -55.1 NC_004687.1 + 16620 0.66 0.945728
Target:  5'- gUCGAccgccaGGCUgAGCGCG-GUCAGGUCa- -3'
miRNA:   3'- aAGCU------CUGG-UCGCGCuCAGUCUAGcc -5'
20385 3' -55.1 NC_004687.1 + 52480 0.66 0.945728
Target:  5'- cUUCGGcGAUCAGguCGCGAaUCAGGUCGu -3'
miRNA:   3'- -AAGCU-CUGGUC--GCGCUcAGUCUAGCc -5'
20385 3' -55.1 NC_004687.1 + 1459 0.66 0.945728
Target:  5'- gUCGucaGGGCCAGCGCGuucugCGGggUGGu -3'
miRNA:   3'- aAGC---UCUGGUCGCGCuca--GUCuaGCC- -5'
20385 3' -55.1 NC_004687.1 + 60844 0.66 0.940736
Target:  5'- cUCGAaccuccugaccGACCGGCGaucgagcUGGGUCAGAUCc- -3'
miRNA:   3'- aAGCU-----------CUGGUCGC-------GCUCAGUCUAGcc -5'
20385 3' -55.1 NC_004687.1 + 106920 0.66 0.936437
Target:  5'- -cCGGGGCgGGCGCGGGU-GGcgCGa -3'
miRNA:   3'- aaGCUCUGgUCGCGCUCAgUCuaGCc -5'
20385 3' -55.1 NC_004687.1 + 7259 0.66 0.934962
Target:  5'- -cUGAGGCUGGCguaccagcgguccaGCGAGgcgugcagCAGGUCGGu -3'
miRNA:   3'- aaGCUCUGGUCG--------------CGCUCa-------GUCUAGCC- -5'
20385 3' -55.1 NC_004687.1 + 18591 0.66 0.931435
Target:  5'- cUCGcGAgCAGCGCGAG-CGGuUCGu -3'
miRNA:   3'- aAGCuCUgGUCGCGCUCaGUCuAGCc -5'
20385 3' -55.1 NC_004687.1 + 96598 0.66 0.931435
Target:  5'- aUCGAGcGCCGuCGCgGGGUCGGcacUCGGg -3'
miRNA:   3'- aAGCUC-UGGUcGCG-CUCAGUCu--AGCC- -5'
20385 3' -55.1 NC_004687.1 + 144834 0.66 0.926192
Target:  5'- gUCGGGAuuCCAGC-CGGGU--GAUCGGc -3'
miRNA:   3'- aAGCUCU--GGUCGcGCUCAguCUAGCC- -5'
20385 3' -55.1 NC_004687.1 + 68342 0.66 0.926192
Target:  5'- -cCGAcACCGGCGCG-GUCGGcAUCa- -3'
miRNA:   3'- aaGCUcUGGUCGCGCuCAGUC-UAGcc -5'
20385 3' -55.1 NC_004687.1 + 75272 0.66 0.925114
Target:  5'- gUCGgccuuggcagccaGGGCCAGUGCG-GUCGccgagcuGAUCGGc -3'
miRNA:   3'- aAGC-------------UCUGGUCGCGCuCAGU-------CUAGCC- -5'
20385 3' -55.1 NC_004687.1 + 93415 0.66 0.920709
Target:  5'- gUCG-GACUGGuCGUugaGGUCAGGUCGGc -3'
miRNA:   3'- aAGCuCUGGUC-GCGc--UCAGUCUAGCC- -5'
20385 3' -55.1 NC_004687.1 + 69585 0.66 0.920709
Target:  5'- gUUCGuAGGCCA-C-CGAGUC-GAUCGGg -3'
miRNA:   3'- -AAGC-UCUGGUcGcGCUCAGuCUAGCC- -5'
20385 3' -55.1 NC_004687.1 + 105937 0.66 0.920147
Target:  5'- -gCGAGGCCuGCGCcucGGcgucagucguuccUCGGGUCGGa -3'
miRNA:   3'- aaGCUCUGGuCGCGc--UC-------------AGUCUAGCC- -5'
20385 3' -55.1 NC_004687.1 + 67786 0.67 0.914986
Target:  5'- cUUGAGcACCAGgGCGGuGaUCAGGccUCGGa -3'
miRNA:   3'- aAGCUC-UGGUCgCGCU-C-AGUCU--AGCC- -5'
20385 3' -55.1 NC_004687.1 + 75881 0.67 0.914986
Target:  5'- gUCGGGugguCCAGCuGCuggGAGUCAaGAUCGa -3'
miRNA:   3'- aAGCUCu---GGUCG-CG---CUCAGU-CUAGCc -5'
20385 3' -55.1 NC_004687.1 + 91071 0.67 0.914986
Target:  5'- cUUCGGcGACCGccGCGuCGAGcUCGGcGUCGGa -3'
miRNA:   3'- -AAGCU-CUGGU--CGC-GCUC-AGUC-UAGCC- -5'
20385 3' -55.1 NC_004687.1 + 88326 0.67 0.914986
Target:  5'- cUCGGGGucCCAGcCGCGAuGcCAGGUCGc -3'
miRNA:   3'- aAGCUCU--GGUC-GCGCU-CaGUCUAGCc -5'
20385 3' -55.1 NC_004687.1 + 52237 0.67 0.914986
Target:  5'- cUCGcuGACC--UGCGGGuUCAGGUCGGa -3'
miRNA:   3'- aAGCu-CUGGucGCGCUC-AGUCUAGCC- -5'
20385 3' -55.1 NC_004687.1 + 16239 0.67 0.896395
Target:  5'- --gGAGACCAGCuugccGCcGGaCAGGUCGGc -3'
miRNA:   3'- aagCUCUGGUCG-----CGcUCaGUCUAGCC- -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.