miRNA display CGI


Results 1 - 19 of 19 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
24865 5' -46.8 NC_005284.1 + 34468 0.66 0.992023
Target:  5'- gGUaAGCgGAGAGCAGCGAcg-CGGAc -3'
miRNA:   3'- gCAcUCG-CUCUUGUCGUUuuaGCUUa -5'
24865 5' -46.8 NC_005284.1 + 10628 0.66 0.992023
Target:  5'- uCGUGucGGCGAcGAGCGGCGg---CGAAg -3'
miRNA:   3'- -GCAC--UCGCU-CUUGUCGUuuuaGCUUa -5'
24865 5' -46.8 NC_005284.1 + 11626 0.66 0.989228
Target:  5'- aCGUGcAGCGcGAACucggGGCGAuGUCGAu- -3'
miRNA:   3'- -GCAC-UCGCuCUUG----UCGUUuUAGCUua -5'
24865 5' -46.8 NC_005284.1 + 19327 0.66 0.98757
Target:  5'- gCGUGGGCauggacaacGAcAACGGCAucGUCGAAUc -3'
miRNA:   3'- -GCACUCG---------CUcUUGUCGUuuUAGCUUA- -5'
24865 5' -46.8 NC_005284.1 + 9905 0.66 0.98757
Target:  5'- uGUGAGCGAcGGCGuGCGccguAUCGAGa -3'
miRNA:   3'- gCACUCGCUcUUGU-CGUuu--UAGCUUa -5'
24865 5' -46.8 NC_005284.1 + 46712 0.67 0.978379
Target:  5'- -uUGGGCGAcgccaauGAGCAGCGAaaacagcAAUCGGAc -3'
miRNA:   3'- gcACUCGCU-------CUUGUCGUU-------UUAGCUUa -5'
24865 5' -46.8 NC_005284.1 + 42127 0.67 0.976172
Target:  5'- uCGUGaAGUGccucgauGAGCAGC-AGAUCGAAUc -3'
miRNA:   3'- -GCAC-UCGCu------CUUGUCGuUUUAGCUUA- -5'
24865 5' -46.8 NC_005284.1 + 17997 0.67 0.974411
Target:  5'- gGUGAaagcgaaagcacuacGCGAGAACAGCcAAAUCc--- -3'
miRNA:   3'- gCACU---------------CGCUCUUGUCGuUUUAGcuua -5'
24865 5' -46.8 NC_005284.1 + 15130 0.68 0.969937
Target:  5'- uCGUGAagacCGAGAGCGGCGAGAUa---- -3'
miRNA:   3'- -GCACUc---GCUCUUGUCGUUUUAgcuua -5'
24865 5' -46.8 NC_005284.1 + 23885 0.68 0.958525
Target:  5'- -aUGAGCGAGcggGGCAGUgcuggGGGAUCGAGc -3'
miRNA:   3'- gcACUCGCUC---UUGUCG-----UUUUAGCUUa -5'
24865 5' -46.8 NC_005284.1 + 10065 0.69 0.949446
Target:  5'- uCGUGAGCGAGcggaacgcGCGGCGAccgCGAc- -3'
miRNA:   3'- -GCACUCGCUCu-------UGUCGUUuuaGCUua -5'
24865 5' -46.8 NC_005284.1 + 48499 0.69 0.933506
Target:  5'- uCGUGAGCGAgucGAAgGGCGGGcgUGGGa -3'
miRNA:   3'- -GCACUCGCU---CUUgUCGUUUuaGCUUa -5'
24865 5' -46.8 NC_005284.1 + 27034 0.7 0.92756
Target:  5'- --cGGGCGAaugGGGCGGCAcGAUCGAu- -3'
miRNA:   3'- gcaCUCGCU---CUUGUCGUuUUAGCUua -5'
24865 5' -46.8 NC_005284.1 + 21453 0.7 0.914713
Target:  5'- uGUGAGCGGGGGCuGUGAugcCGAAa -3'
miRNA:   3'- gCACUCGCUCUUGuCGUUuuaGCUUa -5'
24865 5' -46.8 NC_005284.1 + 20982 0.7 0.900602
Target:  5'- gCGUGcgGGCGAuuacGAACGGCGcGAUCGAc- -3'
miRNA:   3'- -GCAC--UCGCU----CUUGUCGUuUUAGCUua -5'
24865 5' -46.8 NC_005284.1 + 29221 0.71 0.87713
Target:  5'- ----cGCGcGGACGGCGGGAUCGAAUg -3'
miRNA:   3'- gcacuCGCuCUUGUCGUUUUAGCUUA- -5'
24865 5' -46.8 NC_005284.1 + 20127 0.72 0.830388
Target:  5'- aCGUGAGUGAGuacgucaucacuGCGGCAGAcgUGGAg -3'
miRNA:   3'- -GCACUCGCUCu-----------UGUCGUUUuaGCUUa -5'
24865 5' -46.8 NC_005284.1 + 50694 0.74 0.748719
Target:  5'- uGUGAGCGGaAGC-GCGAGAUCGAc- -3'
miRNA:   3'- gCACUCGCUcUUGuCGUUUUAGCUua -5'
24865 5' -46.8 NC_005284.1 + 23205 1.07 0.008895
Target:  5'- uCGUGAGCGAGAACAGCAAAAUCGAAUg -3'
miRNA:   3'- -GCACUCGCUCUUGUCGUUUUAGCUUA- -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.