miRNA display CGI


Results 21 - 38 of 38 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
28176 3' -54.5 NC_005887.1 + 8405 0.68 0.554256
Target:  5'- -cGCGACGUgCUC-GCcGAGCGcCGUCg -3'
miRNA:   3'- gaUGCUGCGaGAGuCGuCUCGC-GUAG- -5'
28176 3' -54.5 NC_005887.1 + 39423 0.68 0.532087
Target:  5'- -cGCGGCGCUUgcgCAGCuuGGcGGCgGCGUCg -3'
miRNA:   3'- gaUGCUGCGAGa--GUCG--UC-UCG-CGUAG- -5'
28176 3' -54.5 NC_005887.1 + 1909 0.68 0.499466
Target:  5'- gCUACG-CGUUCuuUCGGCAGccgGGCgGCGUCa -3'
miRNA:   3'- -GAUGCuGCGAG--AGUCGUC---UCG-CGUAG- -5'
28176 3' -54.5 NC_005887.1 + 39343 0.69 0.488788
Target:  5'- -cGCGGCGCUggCcGCAG-GCGCGUUg -3'
miRNA:   3'- gaUGCUGCGAgaGuCGUCuCGCGUAG- -5'
28176 3' -54.5 NC_005887.1 + 11307 0.69 0.488788
Target:  5'- -aGCGGCcgGCUCggCAGC-GAGCGCcgCa -3'
miRNA:   3'- gaUGCUG--CGAGa-GUCGuCUCGCGuaG- -5'
28176 3' -54.5 NC_005887.1 + 28053 0.69 0.467763
Target:  5'- cCUGCGcuuGCGggUUCAGCGuGAGCGUGUCc -3'
miRNA:   3'- -GAUGC---UGCgaGAGUCGU-CUCGCGUAG- -5'
28176 3' -54.5 NC_005887.1 + 19380 0.69 0.457426
Target:  5'- -cGCGccAUGCUCgcgCAgcugccGCAGAGCGUAUCg -3'
miRNA:   3'- gaUGC--UGCGAGa--GU------CGUCUCGCGUAG- -5'
28176 3' -54.5 NC_005887.1 + 13438 0.69 0.446199
Target:  5'- -aGCGGCGCaccgCUCAGCAcguucauccugacGGGCGCGc- -3'
miRNA:   3'- gaUGCUGCGa---GAGUCGU-------------CUCGCGUag -5'
28176 3' -54.5 NC_005887.1 + 18312 0.7 0.427175
Target:  5'- -gGCGAUGaUCUCgcGGCacugGGGGCGCAUCg -3'
miRNA:   3'- gaUGCUGCgAGAG--UCG----UCUCGCGUAG- -5'
28176 3' -54.5 NC_005887.1 + 27404 0.7 0.398142
Target:  5'- uUGCGGCGCgUCguaCGGCAGcGCGCGg- -3'
miRNA:   3'- gAUGCUGCG-AGa--GUCGUCuCGCGUag -5'
28176 3' -54.5 NC_005887.1 + 13086 0.71 0.388749
Target:  5'- -cGCGGCGCUCgaucGCGGAGUGCu-- -3'
miRNA:   3'- gaUGCUGCGAGagu-CGUCUCGCGuag -5'
28176 3' -54.5 NC_005887.1 + 2562 0.71 0.379503
Target:  5'- -gACGACGCgcgcaacgaUCGGCGcGAGCGCcgCg -3'
miRNA:   3'- gaUGCUGCGag-------AGUCGU-CUCGCGuaG- -5'
28176 3' -54.5 NC_005887.1 + 26280 0.72 0.327192
Target:  5'- gUGCGGCGCaacacCAGCAGgaAGCGUAUCg -3'
miRNA:   3'- gAUGCUGCGaga--GUCGUC--UCGCGUAG- -5'
28176 3' -54.5 NC_005887.1 + 41103 0.73 0.266051
Target:  5'- aUGCGACGUUUUCGcguGCuGAGCGCcgCg -3'
miRNA:   3'- gAUGCUGCGAGAGU---CGuCUCGCGuaG- -5'
28176 3' -54.5 NC_005887.1 + 34241 0.75 0.192081
Target:  5'- -aGCGGCGC-CUCGGC-GAGCGCGg- -3'
miRNA:   3'- gaUGCUGCGaGAGUCGuCUCGCGUag -5'
28176 3' -54.5 NC_005887.1 + 21444 0.76 0.166974
Target:  5'- -gACGACGCUCUCAGCGucGAGCaCgGUCa -3'
miRNA:   3'- gaUGCUGCGAGAGUCGU--CUCGcG-UAG- -5'
28176 3' -54.5 NC_005887.1 + 7215 0.77 0.140759
Target:  5'- gUGCGcagGCGCUgUCGGCGucGGGCGCAUCg -3'
miRNA:   3'- gAUGC---UGCGAgAGUCGU--CUCGCGUAG- -5'
28176 3' -54.5 NC_005887.1 + 37984 1.1 0.000593
Target:  5'- gCUACGACGCUCUCAGCAGAGCGCAUCg -3'
miRNA:   3'- -GAUGCUGCGAGAGUCGUCUCGCGUAG- -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.