miRNA display CGI


Results 1 - 20 of 21 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
20608 3' -54.5 NC_004688.1 + 89202 0.66 0.916337
Target:  5'- --aUGCGaGCccAUUCCAGGGGGAUCUGg -3'
miRNA:   3'- cugAUGC-CGu-UGGGGUCCCUUUAGGC- -5'
20608 3' -54.5 NC_004688.1 + 71905 0.66 0.90963
Target:  5'- cGACggcccCGGCAACCCCGGaGGuGAcgcucgucaggcuUCCa -3'
miRNA:   3'- -CUGau---GCCGUUGGGGUC-CCuUU-------------AGGc -5'
20608 3' -54.5 NC_004688.1 + 64667 0.66 0.903917
Target:  5'- uACUGCaGCAGCCCCAccGGccagcuGUCCGc -3'
miRNA:   3'- cUGAUGcCGUUGGGGU--CCcuu---UAGGC- -5'
20608 3' -54.5 NC_004688.1 + 20318 0.66 0.901967
Target:  5'- gGAC-AUGGCcagugaaggcggaaAGCCCCAccGGAAGUCCGu -3'
miRNA:   3'- -CUGaUGCCG--------------UUGGGGUc-CCUUUAGGC- -5'
20608 3' -54.5 NC_004688.1 + 109394 0.66 0.897332
Target:  5'- uGGCggGCGG-AACCUCGGGGcucGGUCCa -3'
miRNA:   3'- -CUGa-UGCCgUUGGGGUCCCu--UUAGGc -5'
20608 3' -54.5 NC_004688.1 + 79239 0.66 0.890502
Target:  5'- -uCUugGGCGccuCCCCcgugguGGGGGGcgCCGa -3'
miRNA:   3'- cuGAugCCGUu--GGGG------UCCCUUuaGGC- -5'
20608 3' -54.5 NC_004688.1 + 84816 0.66 0.890502
Target:  5'- cACcgGgGGCAcgGCUCCGGGGAGGcCCGu -3'
miRNA:   3'- cUGa-UgCCGU--UGGGGUCCCUUUaGGC- -5'
20608 3' -54.5 NC_004688.1 + 63185 0.66 0.890502
Target:  5'- cGACUACGG--ACCCCGGcGAcggCCGg -3'
miRNA:   3'- -CUGAUGCCguUGGGGUCcCUuuaGGC- -5'
20608 3' -54.5 NC_004688.1 + 62388 0.67 0.868579
Target:  5'- uGACcaaACGGcCAGgCCCGGGGAaccugAAUCCc -3'
miRNA:   3'- -CUGa--UGCC-GUUgGGGUCCCU-----UUAGGc -5'
20608 3' -54.5 NC_004688.1 + 93170 0.67 0.860812
Target:  5'- cGGCaACGGCGcGCUCCAcGGGu--UCCGg -3'
miRNA:   3'- -CUGaUGCCGU-UGGGGU-CCCuuuAGGC- -5'
20608 3' -54.5 NC_004688.1 + 42670 0.67 0.860812
Target:  5'- ---aGCGGCGGagauguCCUgaCAGGGGAAUCCGc -3'
miRNA:   3'- cugaUGCCGUU------GGG--GUCCCUUUAGGC- -5'
20608 3' -54.5 NC_004688.1 + 31986 0.67 0.844625
Target:  5'- aGCcACGGgGAgCCCCAGGacGGAGUCCu -3'
miRNA:   3'- cUGaUGCCgUU-GGGGUCC--CUUUAGGc -5'
20608 3' -54.5 NC_004688.1 + 85034 0.68 0.828486
Target:  5'- uGGCUGCGGCguuggugcgcagcgAcgggucgaugccgccACCCCGGGcGAAGUCgGg -3'
miRNA:   3'- -CUGAUGCCG--------------U---------------UGGGGUCC-CUUUAGgC- -5'
20608 3' -54.5 NC_004688.1 + 31270 0.68 0.827617
Target:  5'- ---gACGG-GGCCCCcgugAGGGGAAUCCa -3'
miRNA:   3'- cugaUGCCgUUGGGG----UCCCUUUAGGc -5'
20608 3' -54.5 NC_004688.1 + 26785 0.68 0.827617
Target:  5'- cGCUGCGGUGGCCgCggagcuugAGGGcucuGAUCCGg -3'
miRNA:   3'- cUGAUGCCGUUGGgG--------UCCCu---UUAGGC- -5'
20608 3' -54.5 NC_004688.1 + 36009 0.68 0.800708
Target:  5'- -uUUACGGCuucGCCCCAGGu--GUCCc -3'
miRNA:   3'- cuGAUGCCGu--UGGGGUCCcuuUAGGc -5'
20608 3' -54.5 NC_004688.1 + 56575 0.68 0.800708
Target:  5'- ---cGCGGCGGCCggggaacaCCAGGGc-GUCCGg -3'
miRNA:   3'- cugaUGCCGUUGG--------GGUCCCuuUAGGC- -5'
20608 3' -54.5 NC_004688.1 + 49034 0.69 0.769432
Target:  5'- uGGCUGCGGCGguaguuGCCgCGGGGcucgucggagcugcGGGUCCa -3'
miRNA:   3'- -CUGAUGCCGU------UGGgGUCCC--------------UUUAGGc -5'
20608 3' -54.5 NC_004688.1 + 67408 0.69 0.752745
Target:  5'- gGGC-GCGGCAcuuaacccaAgCCCAGGGAcgcggaGAUCCGu -3'
miRNA:   3'- -CUGaUGCCGU---------UgGGGUCCCU------UUAGGC- -5'
20608 3' -54.5 NC_004688.1 + 19916 0.7 0.71228
Target:  5'- cACUGCGGCGuACagggCC-GGGAGAUCCa -3'
miRNA:   3'- cUGAUGCCGU-UGg---GGuCCCUUUAGGc -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.