miRNA display CGI


Results 1 - 20 of 35 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
2028 3' -60.6 NC_001347.2 + 31381 0.66 0.785884
Target:  5'- gAAGCCGCcaugagGCGGUggcuGCGCCU-CCUcgUCg -3'
miRNA:   3'- -UUCGGCGa-----CGCCG----CGUGGAuGGGa-AG- -5'
2028 3' -60.6 NC_001347.2 + 88356 0.66 0.785884
Target:  5'- -cGCCGCUgGCGGCGCugCcGCg---- -3'
miRNA:   3'- uuCGGCGA-CGCCGCGugGaUGggaag -5'
2028 3' -60.6 NC_001347.2 + 166068 0.66 0.785884
Target:  5'- gGAGUCGCgGCGGUugggGCGCCgauuCCCa-- -3'
miRNA:   3'- -UUCGGCGaCGCCG----CGUGGau--GGGaag -5'
2028 3' -60.6 NC_001347.2 + 136030 0.66 0.776963
Target:  5'- cGGGCCGCgccCGGUGC-CCgGCCCa-- -3'
miRNA:   3'- -UUCGGCGac-GCCGCGuGGaUGGGaag -5'
2028 3' -60.6 NC_001347.2 + 39131 0.66 0.776963
Target:  5'- cGGCCGUccgaGCGGCaGCAgCgUGCCCgcgUCg -3'
miRNA:   3'- uUCGGCGa---CGCCG-CGU-GgAUGGGa--AG- -5'
2028 3' -60.6 NC_001347.2 + 88041 0.66 0.776963
Target:  5'- uGAGCgGCUGCGGaauGCGgCCcggGCCCg-- -3'
miRNA:   3'- -UUCGgCGACGCCg--CGU-GGa--UGGGaag -5'
2028 3' -60.6 NC_001347.2 + 150329 0.66 0.767922
Target:  5'- -cGCUGCUGgaCGaGUGCGCCUGCCg--- -3'
miRNA:   3'- uuCGGCGAC--GC-CGCGUGGAUGGgaag -5'
2028 3' -60.6 NC_001347.2 + 198977 0.66 0.767922
Target:  5'- uGAGCCGCgGCgauucgGGCGUGCCgcgaugccgcaGCUCUUCg -3'
miRNA:   3'- -UUCGGCGaCG------CCGCGUGGa----------UGGGAAG- -5'
2028 3' -60.6 NC_001347.2 + 157595 0.66 0.758769
Target:  5'- -cGCCGuCUGCGGCucUACCcGCCCg-- -3'
miRNA:   3'- uuCGGC-GACGCCGc-GUGGaUGGGaag -5'
2028 3' -60.6 NC_001347.2 + 153483 0.66 0.749511
Target:  5'- aAAGuCCGCca-GGUGCACUUugCCUUUg -3'
miRNA:   3'- -UUC-GGCGacgCCGCGUGGAugGGAAG- -5'
2028 3' -60.6 NC_001347.2 + 102422 0.66 0.749511
Target:  5'- uGGgCGgUGCGGCGCGCCgcaUACCg--- -3'
miRNA:   3'- uUCgGCgACGCCGCGUGG---AUGGgaag -5'
2028 3' -60.6 NC_001347.2 + 187359 0.66 0.730716
Target:  5'- uGGCCGUggcgcgucGCGGCuaCACUUACCCgUUCg -3'
miRNA:   3'- uUCGGCGa-------CGCCGc-GUGGAUGGG-AAG- -5'
2028 3' -60.6 NC_001347.2 + 62779 0.66 0.730716
Target:  5'- -cGCCGUUGCGGC-CGCC-GCUCa-- -3'
miRNA:   3'- uuCGGCGACGCCGcGUGGaUGGGaag -5'
2028 3' -60.6 NC_001347.2 + 168356 0.67 0.721195
Target:  5'- -cGCCGCcGCGGUGCcGCCgcuCUgUUCg -3'
miRNA:   3'- uuCGGCGaCGCCGCG-UGGau-GGgAAG- -5'
2028 3' -60.6 NC_001347.2 + 77942 0.67 0.721195
Target:  5'- gGAGCgGCUGgaGGCGCAgCUGCgCggCa -3'
miRNA:   3'- -UUCGgCGACg-CCGCGUgGAUGgGaaG- -5'
2028 3' -60.6 NC_001347.2 + 119076 0.67 0.710641
Target:  5'- -cGCCGCUgaacccaGCGGCGCAgCCgcgcuaugcgGCCCg-- -3'
miRNA:   3'- uuCGGCGA-------CGCCGCGU-GGa---------UGGGaag -5'
2028 3' -60.6 NC_001347.2 + 86264 0.67 0.701948
Target:  5'- cGGCgCGCgaagcuucgGCGGCGUGCCgcugACCCa-- -3'
miRNA:   3'- uUCG-GCGa--------CGCCGCGUGGa---UGGGaag -5'
2028 3' -60.6 NC_001347.2 + 79382 0.67 0.701948
Target:  5'- cAGCgaGUUGCuGUGCACCUcgGCCUUUCu -3'
miRNA:   3'- uUCGg-CGACGcCGCGUGGA--UGGGAAG- -5'
2028 3' -60.6 NC_001347.2 + 187800 0.67 0.692239
Target:  5'- cAAGCUGCUggucaaggaGCuGCGCAUgUGCCUUUCc -3'
miRNA:   3'- -UUCGGCGA---------CGcCGCGUGgAUGGGAAG- -5'
2028 3' -60.6 NC_001347.2 + 201565 0.67 0.682483
Target:  5'- cGAGCCGCUGCguuucgucGGCaGCAUCUGCaCUa- -3'
miRNA:   3'- -UUCGGCGACG--------CCG-CGUGGAUGgGAag -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.