miRNA display CGI


Results 1 - 20 of 36 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
23236 3' -56.1 NC_005259.1 + 57357 0.66 0.722797
Target:  5'- aGAUgaGagaACgGGCACCGugGGCagucUCGGg -3'
miRNA:   3'- -CUAgaCg--UGgUCGUGGCugUCG----AGCC- -5'
23236 3' -56.1 NC_005259.1 + 63697 0.7 0.479432
Target:  5'- gGAUCUGCGCCuGC-CCaGCGGggaUCGGg -3'
miRNA:   3'- -CUAGACGUGGuCGuGGcUGUCg--AGCC- -5'
23236 3' -56.1 NC_005259.1 + 8503 0.7 0.509817
Target:  5'- uGGUgUGCACCAGaCGCagcgagcaCGACAGCcaaUCGGc -3'
miRNA:   3'- -CUAgACGUGGUC-GUG--------GCUGUCG---AGCC- -5'
23236 3' -56.1 NC_005259.1 + 21995 0.7 0.509817
Target:  5'- ----gGCACCGGCAagUCGACGGUcaUCGGu -3'
miRNA:   3'- cuagaCGUGGUCGU--GGCUGUCG--AGCC- -5'
23236 3' -56.1 NC_005259.1 + 3118 0.69 0.54098
Target:  5'- --aUUGCG-CGGCACCGugGGCagCGGa -3'
miRNA:   3'- cuaGACGUgGUCGUGGCugUCGa-GCC- -5'
23236 3' -56.1 NC_005259.1 + 33254 0.68 0.58345
Target:  5'- aGAUCUGCcCgCAGCGCCGAU-GCUgCGc -3'
miRNA:   3'- -CUAGACGuG-GUCGUGGCUGuCGA-GCc -5'
23236 3' -56.1 NC_005259.1 + 16365 0.68 0.594184
Target:  5'- aGAUCgUGCguGCCGcuGCGCCGACgAGCUCc- -3'
miRNA:   3'- -CUAG-ACG--UGGU--CGUGGCUG-UCGAGcc -5'
23236 3' -56.1 NC_005259.1 + 61994 0.68 0.594184
Target:  5'- -cUCUGCACCaugGGCACCGuGCGguguacccGCUCGc -3'
miRNA:   3'- cuAGACGUGG---UCGUGGC-UGU--------CGAGCc -5'
23236 3' -56.1 NC_005259.1 + 35447 0.68 0.604949
Target:  5'- uAUCUGUccgcgcccACCGGCACCGcCAGCaccgccCGGu -3'
miRNA:   3'- cUAGACG--------UGGUCGUGGCuGUCGa-----GCC- -5'
23236 3' -56.1 NC_005259.1 + 58398 0.71 0.453832
Target:  5'- ----cGCACCAGcCACCGGCGGCgaucagagauccacCGGg -3'
miRNA:   3'- cuagaCGUGGUC-GUGGCUGUCGa-------------GCC- -5'
23236 3' -56.1 NC_005259.1 + 27399 0.71 0.44996
Target:  5'- ---gUGuCGgCAGCGgCGGCAGCUCGGu -3'
miRNA:   3'- cuagAC-GUgGUCGUgGCUGUCGAGCC- -5'
23236 3' -56.1 NC_005259.1 + 40157 0.71 0.412274
Target:  5'- uGUCgGUGCCcGCcCCGGCAGCUCGa -3'
miRNA:   3'- cUAGaCGUGGuCGuGGCUGUCGAGCc -5'
23236 3' -56.1 NC_005259.1 + 4674 0.9 0.024733
Target:  5'- uGUCUGCACUGGCucggGCCGACAGCUCGGc -3'
miRNA:   3'- cUAGACGUGGUCG----UGGCUGUCGAGCC- -5'
23236 3' -56.1 NC_005259.1 + 58734 0.82 0.08476
Target:  5'- uGUCguugGCACCGGCACCGGCgaAGUUCGGc -3'
miRNA:   3'- cUAGa---CGUGGUCGUGGCUG--UCGAGCC- -5'
23236 3' -56.1 NC_005259.1 + 11992 0.74 0.275712
Target:  5'- --gCUGCACCAGCACauCGAUAGagUCGGu -3'
miRNA:   3'- cuaGACGUGGUCGUG--GCUGUCg-AGCC- -5'
23236 3' -56.1 NC_005259.1 + 5434 0.73 0.35125
Target:  5'- aGGUCUGCGCCcGCugccGCCGACAGaUCGc -3'
miRNA:   3'- -CUAGACGUGGuCG----UGGCUGUCgAGCc -5'
23236 3' -56.1 NC_005259.1 + 46756 0.72 0.359565
Target:  5'- --gCUGCGCCGacaccuGCGCCGACAGC-CGc -3'
miRNA:   3'- cuaGACGUGGU------CGUGGCUGUCGaGCc -5'
23236 3' -56.1 NC_005259.1 + 32199 0.72 0.376603
Target:  5'- cGGUCUGCGacuuggccUCAGaCACCGACGcCUCGGc -3'
miRNA:   3'- -CUAGACGU--------GGUC-GUGGCUGUcGAGCC- -5'
23236 3' -56.1 NC_005259.1 + 60947 0.72 0.385324
Target:  5'- cGUCUGCACCAcaugcGCGuCCGGCGGCagaUCGa -3'
miRNA:   3'- cUAGACGUGGU-----CGU-GGCUGUCG---AGCc -5'
23236 3' -56.1 NC_005259.1 + 50412 0.72 0.394177
Target:  5'- ----cGCGCCGGUGCCuuGAcCGGCUCGGg -3'
miRNA:   3'- cuagaCGUGGUCGUGG--CU-GUCGAGCC- -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.