miRNA display CGI


Results 1 - 13 of 13 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
12264 5' -53 NC_003309.1 + 1706 0.66 0.803953
Target:  5'- uCGAGCuUGCGcgCcauGUCGAGCgcgagcacgcaaucuUGCCCc -3'
miRNA:   3'- -GCUUG-ACGCuaGu--UAGCUCG---------------ACGGGc -5'
12264 5' -53 NC_003309.1 + 4252 0.72 0.496959
Target:  5'- -cGGCUGCGAUCAGgu-AGCcGCCCGa -3'
miRNA:   3'- gcUUGACGCUAGUUagcUCGaCGGGC- -5'
12264 5' -53 NC_003309.1 + 4625 0.72 0.507517
Target:  5'- gCGAACUucggcaGCGAUgCGAUUGAuuGCUGCCUGu -3'
miRNA:   3'- -GCUUGA------CGCUA-GUUAGCU--CGACGGGC- -5'
12264 5' -53 NC_003309.1 + 9534 0.72 0.496959
Target:  5'- uCGAACUGCGcgCcgcGUCGAGCgcgcGCaCCGu -3'
miRNA:   3'- -GCUUGACGCuaGu--UAGCUCGa---CG-GGC- -5'
12264 5' -53 NC_003309.1 + 12019 0.74 0.388453
Target:  5'- uGGAC-GCGAUCGucucGUCGAaagccuGCUGCCCGc -3'
miRNA:   3'- gCUUGaCGCUAGU----UAGCU------CGACGGGC- -5'
12264 5' -53 NC_003309.1 + 12835 0.74 0.388453
Target:  5'- gCGAucauGCUGuCGAUCAGUCcgcggaaauuGAGCUuGCCCGa -3'
miRNA:   3'- -GCU----UGAC-GCUAGUUAG----------CUCGA-CGGGC- -5'
12264 5' -53 NC_003309.1 + 23437 0.66 0.846492
Target:  5'- uCGAGCagGuCGccCAAUCGAGCcGCUCGa -3'
miRNA:   3'- -GCUUGa-C-GCuaGUUAGCUCGaCGGGC- -5'
12264 5' -53 NC_003309.1 + 26133 0.68 0.738487
Target:  5'- aGGACUGCGGUUAaguaGUUGAcGCagggaacGCCCGa -3'
miRNA:   3'- gCUUGACGCUAGU----UAGCU-CGa------CGGGC- -5'
12264 5' -53 NC_003309.1 + 35822 0.7 0.583676
Target:  5'- uCGAGCUGguCGGcgCAAUCGAcuuaCUGCCCGa -3'
miRNA:   3'- -GCUUGAC--GCUa-GUUAGCUc---GACGGGC- -5'
12264 5' -53 NC_003309.1 + 40232 0.67 0.790178
Target:  5'- aCGGaaGCUGcCGAccgugUCGGUCGAGUgGCUCGa -3'
miRNA:   3'- -GCU--UGAC-GCU-----AGUUAGCUCGaCGGGC- -5'
12264 5' -53 NC_003309.1 + 46484 0.67 0.780133
Target:  5'- gGAACUGCucgcgcauaGcgCGGUUGAGgUGCUCGa -3'
miRNA:   3'- gCUUGACG---------CuaGUUAGCUCgACGGGC- -5'
12264 5' -53 NC_003309.1 + 48008 0.66 0.828546
Target:  5'- cCGGA-UGCGAUUucgucgAAUCGAGUucgguugauUGCCCGu -3'
miRNA:   3'- -GCUUgACGCUAG------UUAGCUCG---------ACGGGC- -5'
12264 5' -53 NC_003309.1 + 48248 0.66 0.819248
Target:  5'- aCGuauCUGaCGGcucgcUCGAUCGAGCcGUCCGa -3'
miRNA:   3'- -GCuu-GAC-GCU-----AGUUAGCUCGaCGGGC- -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.