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
28137 5' -54.2 NC_005887.1 + 14031 0.66 0.674895
Target:  5'- --gGCGcGCCGCCG--GCGCagCCUGa -3'
miRNA:   3'- uaaCGUcUGGCGGCuaUGCGaaGGAC- -5'
28137 5' -54.2 NC_005887.1 + 41111 0.66 0.663495
Target:  5'- -cUGCAGACgGCCGAggaACGgaUCgaGu -3'
miRNA:   3'- uaACGUCUGgCGGCUa--UGCgaAGgaC- -5'
28137 5' -54.2 NC_005887.1 + 2756 0.66 0.663495
Target:  5'- --cGCuuGCCGCCcGUACGCUUCa-- -3'
miRNA:   3'- uaaCGucUGGCGGcUAUGCGAAGgac -5'
28137 5' -54.2 NC_005887.1 + 17369 0.66 0.663495
Target:  5'- --cGCGGugCGCCGAaccgGCGUUUgCg- -3'
miRNA:   3'- uaaCGUCugGCGGCUa---UGCGAAgGac -5'
28137 5' -54.2 NC_005887.1 + 13547 0.66 0.663495
Target:  5'- -aUGC-GAUCGgCGAUGCGCUgCCg- -3'
miRNA:   3'- uaACGuCUGGCgGCUAUGCGAaGGac -5'
28137 5' -54.2 NC_005887.1 + 4560 0.66 0.652062
Target:  5'- --aGCAGA-CGCgCGAUGCGCgcgCCg- -3'
miRNA:   3'- uaaCGUCUgGCG-GCUAUGCGaa-GGac -5'
28137 5' -54.2 NC_005887.1 + 8945 0.66 0.652062
Target:  5'- --cGCAGAgCGCCGAcACGauguaCCUGu -3'
miRNA:   3'- uaaCGUCUgGCGGCUaUGCgaa--GGAC- -5'
28137 5' -54.2 NC_005887.1 + 15932 0.66 0.62915
Target:  5'- --cGCGGGCCGgaaUCGAUGCGCcggCCa- -3'
miRNA:   3'- uaaCGUCUGGC---GGCUAUGCGaa-GGac -5'
28137 5' -54.2 NC_005887.1 + 4576 0.68 0.560813
Target:  5'- --cGCAGcaaGCCGCCGAgGCGCaggCCg- -3'
miRNA:   3'- uaaCGUC---UGGCGGCUaUGCGaa-GGac -5'
28137 5' -54.2 NC_005887.1 + 24956 0.68 0.516364
Target:  5'- --cGCGGGCCGCCu-UGCGCgcggCCg- -3'
miRNA:   3'- uaaCGUCUGGCGGcuAUGCGaa--GGac -5'
28137 5' -54.2 NC_005887.1 + 35743 0.69 0.494668
Target:  5'- --aGCcGGCCGCCGAUcgcGCGCUg-CUGu -3'
miRNA:   3'- uaaCGuCUGGCGGCUA---UGCGAagGAC- -5'
28137 5' -54.2 NC_005887.1 + 997 0.69 0.473398
Target:  5'- aAUUGCcGGCCGCCG-UGCGCgcgCUGu -3'
miRNA:   3'- -UAACGuCUGGCGGCuAUGCGaagGAC- -5'
28137 5' -54.2 NC_005887.1 + 20053 0.69 0.462936
Target:  5'- -aUGCAGucuCCgGUCGcAUGCGCUUCCa- -3'
miRNA:   3'- uaACGUCu--GG-CGGC-UAUGCGAAGGac -5'
28137 5' -54.2 NC_005887.1 + 18965 0.7 0.442385
Target:  5'- -cUGCGGGCUGCCGGUGCcggGCgaCCa- -3'
miRNA:   3'- uaACGUCUGGCGGCUAUG---CGaaGGac -5'
28137 5' -54.2 NC_005887.1 + 11337 0.7 0.440358
Target:  5'- --cGC-GACgGCCGGUACGCUgagcacacugagCCUGa -3'
miRNA:   3'- uaaCGuCUGgCGGCUAUGCGAa-----------GGAC- -5'
28137 5' -54.2 NC_005887.1 + 12135 0.71 0.393368
Target:  5'- --aGCAGGCCGCCGu--CGCgcgCCa- -3'
miRNA:   3'- uaaCGUCUGGCGGCuauGCGaa-GGac -5'
28137 5' -54.2 NC_005887.1 + 30845 0.71 0.393368
Target:  5'- -cUGCAuGCCGCgcauguUGAUGCGCUggUCCUGa -3'
miRNA:   3'- uaACGUcUGGCG------GCUAUGCGA--AGGAC- -5'
28137 5' -54.2 NC_005887.1 + 13196 0.72 0.32265
Target:  5'- --aGCAGGCCGCCGGccgACGUgugUCgCUGc -3'
miRNA:   3'- uaaCGUCUGGCGGCUa--UGCGa--AG-GAC- -5'
28137 5' -54.2 NC_005887.1 + 26138 0.72 0.314507
Target:  5'- --cGCGGGCCGCUGAcGCGCUgaCCa- -3'
miRNA:   3'- uaaCGUCUGGCGGCUaUGCGAa-GGac -5'
28137 5' -54.2 NC_005887.1 + 18688 0.78 0.122715
Target:  5'- --aGCGGGCCGCCGAUcGCGCUgCCg- -3'
miRNA:   3'- uaaCGUCUGGCGGCUA-UGCGAaGGac -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.