miRNA display CGI


Results 1 - 20 of 55 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
13997 3' -52.3 NC_003521.1 + 651 0.66 0.995658
Target:  5'- gACGggccccggGGGGACGCg-GaGGAGGGGGGCu -3'
miRNA:   3'- -UGCaa------CCUCUGUGgaC-CUUUCUCCUG- -5'
13997 3' -52.3 NC_003521.1 + 4233 0.68 0.974898
Target:  5'- cCGggaGGAGG-ACCgagacgGGGAGGAGGACg -3'
miRNA:   3'- uGCaa-CCUCUgUGGa-----CCUUUCUCCUG- -5'
13997 3' -52.3 NC_003521.1 + 7148 0.67 0.985515
Target:  5'- cGCGgaGGAcGACgACgaGGAA-GAGGACa -3'
miRNA:   3'- -UGCaaCCU-CUG-UGgaCCUUuCUCCUG- -5'
13997 3' -52.3 NC_003521.1 + 13651 0.66 0.9923
Target:  5'- gGCGgcGGAGGCgggagaagagGCUcGGAGAGGGuGGCg -3'
miRNA:   3'- -UGCaaCCUCUG----------UGGaCCUUUCUC-CUG- -5'
13997 3' -52.3 NC_003521.1 + 13831 0.69 0.967538
Target:  5'- cCGUcGGAaaGCACCUGGAAugugacgaccggaggGGAGGAUg -3'
miRNA:   3'- uGCAaCCUc-UGUGGACCUU---------------UCUCCUG- -5'
13997 3' -52.3 NC_003521.1 + 15529 0.69 0.962998
Target:  5'- gGCGgcaugUGGcGaACGCgCUGGGAAGAGGGg -3'
miRNA:   3'- -UGCa----ACCuC-UGUG-GACCUUUCUCCUg -5'
13997 3' -52.3 NC_003521.1 + 17861 0.73 0.840896
Target:  5'- aGCGUgUGGAGAaggcaGCCaaggGGGGAGAGGAa -3'
miRNA:   3'- -UGCA-ACCUCUg----UGGa---CCUUUCUCCUg -5'
13997 3' -52.3 NC_003521.1 + 28059 0.78 0.590104
Target:  5'- gGCGggGGAGAgACaggaGGggGGAGGACg -3'
miRNA:   3'- -UGCaaCCUCUgUGga--CCuuUCUCCUG- -5'
13997 3' -52.3 NC_003521.1 + 32923 0.71 0.917604
Target:  5'- gGCGUaGGuGGCGCC-GGAGAGcccaAGGGCg -3'
miRNA:   3'- -UGCAaCCuCUGUGGaCCUUUC----UCCUG- -5'
13997 3' -52.3 NC_003521.1 + 34330 0.66 0.994171
Target:  5'- aGCGUUGGAagcGGCGCa-GGgcGGAGGcCg -3'
miRNA:   3'- -UGCAACCU---CUGUGgaCCuuUCUCCuG- -5'
13997 3' -52.3 NC_003521.1 + 35922 0.66 0.995658
Target:  5'- ---cUGGuGGGCGCCUGGuccucaacGGGGACg -3'
miRNA:   3'- ugcaACC-UCUGUGGACCuuu-----CUCCUG- -5'
13997 3' -52.3 NC_003521.1 + 40972 0.66 0.995658
Target:  5'- gACGggccccggGGGGACGCg-GaGGAGGGGGGCu -3'
miRNA:   3'- -UGCaa------CCUCUGUGgaC-CUUUCUCCUG- -5'
13997 3' -52.3 NC_003521.1 + 47280 0.8 0.510276
Target:  5'- uACGUUGaAGACACCUGGAAGGAGc-- -3'
miRNA:   3'- -UGCAACcUCUGUGGACCUUUCUCcug -5'
13997 3' -52.3 NC_003521.1 + 48274 0.67 0.987146
Target:  5'- -aGagGGAGAagaCgGGAGAGAGGACg -3'
miRNA:   3'- ugCaaCCUCUgugGaCCUUUCUCCUG- -5'
13997 3' -52.3 NC_003521.1 + 48551 0.7 0.933693
Target:  5'- aACGgcgUGGAGACGCCgcUGGuGAAGGuGACg -3'
miRNA:   3'- -UGCa--ACCUCUGUGG--ACC-UUUCUcCUG- -5'
13997 3' -52.3 NC_003521.1 + 49642 0.72 0.892832
Target:  5'- gACGagGGAGACgaggaacaggAUCUGGAGAGGGGcCg -3'
miRNA:   3'- -UGCaaCCUCUG----------UGGACCUUUCUCCuG- -5'
13997 3' -52.3 NC_003521.1 + 59646 0.66 0.993003
Target:  5'- gGCGUUGGuGcggcagacgcuggcGCGCCUGG-AGGAGcucaGACg -3'
miRNA:   3'- -UGCAACCuC--------------UGUGGACCuUUCUC----CUG- -5'
13997 3' -52.3 NC_003521.1 + 65225 0.68 0.983731
Target:  5'- gACGcaGGAGAUacuggccgGCCUGGAuccgcgcgcgcAAGAGGAa -3'
miRNA:   3'- -UGCaaCCUCUG--------UGGACCU-----------UUCUCCUg -5'
13997 3' -52.3 NC_003521.1 + 65344 0.67 0.986989
Target:  5'- ---aUGGAGucauCAUCUGGAAAGAgaaagauGGACu -3'
miRNA:   3'- ugcaACCUCu---GUGGACCUUUCU-------CCUG- -5'
13997 3' -52.3 NC_003521.1 + 72121 0.71 0.905686
Target:  5'- gGCGgUGGAGAuuCACCU-GAccGAGGACg -3'
miRNA:   3'- -UGCaACCUCU--GUGGAcCUuuCUCCUG- -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.