miRNA display CGI


Results 1 - 15 of 15 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
11896 3' -53.9 NC_003266.2 + 21134 0.66 0.672296
Target:  5'- gCACCUUCgauaagcgaUUCCCgggauuCAUGGCcccGCACAAg -3'
miRNA:   3'- gGUGGAAG---------AAGGG------GUACCG---CGUGUUg -5'
11896 3' -53.9 NC_003266.2 + 26293 0.66 0.649377
Target:  5'- cCCGCCUUUUUCCgUGUgugGGCGgGCGc- -3'
miRNA:   3'- -GGUGGAAGAAGGgGUA---CCGCgUGUug -5'
11896 3' -53.9 NC_003266.2 + 15639 0.66 0.626388
Target:  5'- aCCACCUggucgaucacgUCgUCgaCgGUGGUGCGCGACc -3'
miRNA:   3'- -GGUGGA-----------AGaAGg-GgUACCGCGUGUUG- -5'
11896 3' -53.9 NC_003266.2 + 5980 0.68 0.534359
Target:  5'- cCCGCCUUugagagggaauacCUaCCCCAacagcUGGCGCuccuggACAGCg -3'
miRNA:   3'- -GGUGGAA-------------GAaGGGGU-----ACCGCG------UGUUG- -5'
11896 3' -53.9 NC_003266.2 + 28405 0.69 0.459937
Target:  5'- aCACCUUUUUCagaCCAUGGCcucuguUACAGCc -3'
miRNA:   3'- gGUGGAAGAAGg--GGUACCGc-----GUGUUG- -5'
11896 3' -53.9 NC_003266.2 + 14056 0.7 0.439395
Target:  5'- -aACUUUCUgaCCaCCGUGGUGCAgAACa -3'
miRNA:   3'- ggUGGAAGAa-GG-GGUACCGCGUgUUG- -5'
11896 3' -53.9 NC_003266.2 + 18238 0.71 0.390436
Target:  5'- cCCAUCgaugCUgCCCCAgugGGCGUACAuGCa -3'
miRNA:   3'- -GGUGGaa--GAaGGGGUa--CCGCGUGU-UG- -5'
11896 3' -53.9 NC_003266.2 + 10121 0.71 0.375539
Target:  5'- gCCGCCgcaCUUCCUCAucggcuaccaguaccUGGUGCGCAccuGCa -3'
miRNA:   3'- -GGUGGaa-GAAGGGGU---------------ACCGCGUGU---UG- -5'
11896 3' -53.9 NC_003266.2 + 8868 0.72 0.336595
Target:  5'- aCCACCUgggCgagguugagCUCCAcgUGGCGCGCAAa -3'
miRNA:   3'- -GGUGGAa--Gaa-------GGGGU--ACCGCGUGUUg -5'
11896 3' -53.9 NC_003266.2 + 27606 0.72 0.328165
Target:  5'- aCCACC-UCUUCCCCA--GCGCcgcuccucacuaACAACc -3'
miRNA:   3'- -GGUGGaAGAAGGGGUacCGCG------------UGUUG- -5'
11896 3' -53.9 NC_003266.2 + 16468 0.72 0.319892
Target:  5'- aCCACC-UCUUCCuUCAggGGCGCAaGGCg -3'
miRNA:   3'- -GGUGGaAGAAGG-GGUa-CCGCGUgUUG- -5'
11896 3' -53.9 NC_003266.2 + 11961 0.72 0.311776
Target:  5'- gCCACCUcCUgaUCCCCAauGCGgGCGGCg -3'
miRNA:   3'- -GGUGGAaGA--AGGGGUacCGCgUGUUG- -5'
11896 3' -53.9 NC_003266.2 + 8558 0.72 0.303818
Target:  5'- aCGCCagUCUUCUCCG-GGCGCAguACc -3'
miRNA:   3'- gGUGGa-AGAAGGGGUaCCGCGUguUG- -5'
11896 3' -53.9 NC_003266.2 + 6261 0.86 0.03744
Target:  5'- aCCACCgUCUUCCCCgaauggaagugcGUGGCGCGCGAg -3'
miRNA:   3'- -GGUGGaAGAAGGGG------------UACCGCGUGUUg -5'
11896 3' -53.9 NC_003266.2 + 20028 1.12 0.000437
Target:  5'- gCCACCUUCUUCCCCAUGGCGCACAACa -3'
miRNA:   3'- -GGUGGAAGAAGGGGUACCGCGUGUUG- -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.