miRNA display CGI


Results 1 - 20 of 40 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
16312 3' -55.3 NC_004084.1 + 1323 0.66 0.745879
Target:  5'- aGCA-CGGcGCUCGACGUagGAGUACUc -3'
miRNA:   3'- gCGUcGCU-CGAGUUGCAg-CUCGUGAc -5'
16312 3' -55.3 NC_004084.1 + 41204 0.66 0.745879
Target:  5'- aGCGGUguuugaccGAGCgUCGAC-UCGAGgGCUGa -3'
miRNA:   3'- gCGUCG--------CUCG-AGUUGcAGCUCgUGAC- -5'
16312 3' -55.3 NC_004084.1 + 39854 0.66 0.735412
Target:  5'- gGCGGCc-GCggCGcCGUCGAGCACg- -3'
miRNA:   3'- gCGUCGcuCGa-GUuGCAGCUCGUGac -5'
16312 3' -55.3 NC_004084.1 + 3650 0.66 0.723779
Target:  5'- aGUAGCGcuggcggggguugGGCUUGGCGUCGAGgaACUc -3'
miRNA:   3'- gCGUCGC-------------UCGAGUUGCAGCUCg-UGAc -5'
16312 3' -55.3 NC_004084.1 + 13941 0.66 0.723779
Target:  5'- uCGUuuaGGCGAGcCUCAaacucgcuccggaACgGUCGAuGCACUGa -3'
miRNA:   3'- -GCG---UCGCUC-GAGU-------------UG-CAGCU-CGUGAC- -5'
16312 3' -55.3 NC_004084.1 + 27476 0.66 0.714178
Target:  5'- gGCGuccuCGAGCUCGACGUCGAcgagGCGa-- -3'
miRNA:   3'- gCGUc---GCUCGAGUUGCAGCU----CGUgac -5'
16312 3' -55.3 NC_004084.1 + 44406 0.66 0.696953
Target:  5'- gCGCGGCuGGCUCGGCaacccguuccgaacgGaCGAGCACg- -3'
miRNA:   3'- -GCGUCGcUCGAGUUG---------------CaGCUCGUGac -5'
16312 3' -55.3 NC_004084.1 + 31145 0.66 0.69262
Target:  5'- uCGuCAGCG-GUUCGGaccgcgagaucuCGUCGAGCGCg- -3'
miRNA:   3'- -GC-GUCGCuCGAGUU------------GCAGCUCGUGac -5'
16312 3' -55.3 NC_004084.1 + 29283 0.66 0.69262
Target:  5'- gGCAGCGccagguGUUCGGCGUCuguGGGUACg- -3'
miRNA:   3'- gCGUCGCu-----CGAGUUGCAG---CUCGUGac -5'
16312 3' -55.3 NC_004084.1 + 56682 0.66 0.69262
Target:  5'- gGCGGCGGGuCUCGGucacCGaUCGAGCAg-- -3'
miRNA:   3'- gCGUCGCUC-GAGUU----GC-AGCUCGUgac -5'
16312 3' -55.3 NC_004084.1 + 38676 0.67 0.681748
Target:  5'- uGCGGCGAGgUCAGCGagaAGUGCUa -3'
miRNA:   3'- gCGUCGCUCgAGUUGCagcUCGUGAc -5'
16312 3' -55.3 NC_004084.1 + 16940 0.67 0.670829
Target:  5'- gGCaucGGCGGGCgucgCGACGucgggucuUCGAGCGcCUGg -3'
miRNA:   3'- gCG---UCGCUCGa---GUUGC--------AGCUCGU-GAC- -5'
16312 3' -55.3 NC_004084.1 + 29427 0.67 0.659873
Target:  5'- uCGCGGUcaucaGGC-CGACGUCGGucgcGCGCUGg -3'
miRNA:   3'- -GCGUCGc----UCGaGUUGCAGCU----CGUGAC- -5'
16312 3' -55.3 NC_004084.1 + 18153 0.67 0.659873
Target:  5'- uCGcCGGCGAGUggaCGAUGgagaUCGAGCACg- -3'
miRNA:   3'- -GC-GUCGCUCGa--GUUGC----AGCUCGUGac -5'
16312 3' -55.3 NC_004084.1 + 48223 0.67 0.648892
Target:  5'- aGCGGUGuacccaCUCGugaACGUCGAGgACUGg -3'
miRNA:   3'- gCGUCGCuc----GAGU---UGCAGCUCgUGAC- -5'
16312 3' -55.3 NC_004084.1 + 50918 0.67 0.648892
Target:  5'- aGCAGCGgaucGGcCUCGACGUCGAcGaCcCUGa -3'
miRNA:   3'- gCGUCGC----UC-GAGUUGCAGCU-C-GuGAC- -5'
16312 3' -55.3 NC_004084.1 + 51756 0.67 0.648892
Target:  5'- uCGUGGCGucgucgGGCUCuuCGUCGGGUguguuGCUGu -3'
miRNA:   3'- -GCGUCGC------UCGAGuuGCAGCUCG-----UGAC- -5'
16312 3' -55.3 NC_004084.1 + 28987 0.68 0.615896
Target:  5'- uCGCGGUGaAGCUCGcCGUCGAcgGCAa-- -3'
miRNA:   3'- -GCGUCGC-UCGAGUuGCAGCU--CGUgac -5'
16312 3' -55.3 NC_004084.1 + 1653 0.68 0.614797
Target:  5'- gCGUGGgGuGCUCGuuccccgACGUCGAGUGCUu -3'
miRNA:   3'- -GCGUCgCuCGAGU-------UGCAGCUCGUGAc -5'
16312 3' -55.3 NC_004084.1 + 26291 0.68 0.604913
Target:  5'- aCGCAGuCGAccuccugguGCUCGACGaCGAGCuGCUc -3'
miRNA:   3'- -GCGUC-GCU---------CGAGUUGCaGCUCG-UGAc -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.