miRNA display CGI


Results 1 - 20 of 92 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
20398 3' -55.3 NC_004687.1 + 2561 0.67 0.888716
Target:  5'- -aCGGAGCagACCGAUGagugauuucccgucCGCUGAGCAg -3'
miRNA:   3'- gaGCUUUGg-UGGCUGC--------------GCGACUCGUa -5'
20398 3' -55.3 NC_004687.1 + 6001 0.71 0.676359
Target:  5'- uCUCGGcucGGCUGCCGAggcCGCGCUGcGCAUc -3'
miRNA:   3'- -GAGCU---UUGGUGGCU---GCGCGACuCGUA- -5'
20398 3' -55.3 NC_004687.1 + 7643 0.69 0.775554
Target:  5'- uCUgGAGACUcugGCCGACGCGCUucGuGCGc -3'
miRNA:   3'- -GAgCUUUGG---UGGCUGCGCGA--CuCGUa -5'
20398 3' -55.3 NC_004687.1 + 11395 0.67 0.869353
Target:  5'- -cCGAAGCUGCCGGUGUGgUGAGCc- -3'
miRNA:   3'- gaGCUUUGGUGGCUGCGCgACUCGua -5'
20398 3' -55.3 NC_004687.1 + 11712 0.84 0.135025
Target:  5'- gUCGgcGCCGCCGACGCGCUG-GCGa -3'
miRNA:   3'- gAGCuuUGGUGGCUGCGCGACuCGUa -5'
20398 3' -55.3 NC_004687.1 + 12721 0.66 0.932495
Target:  5'- -aCGAAAUCGCCGcCGCcaacgGCUGGGUc- -3'
miRNA:   3'- gaGCUUUGGUGGCuGCG-----CGACUCGua -5'
20398 3' -55.3 NC_004687.1 + 13366 0.7 0.717001
Target:  5'- aUCGgcGCCACgccauuggccaCGGCGCGCUGGGaCAc -3'
miRNA:   3'- gAGCuuUGGUG-----------GCUGCGCGACUC-GUa -5'
20398 3' -55.3 NC_004687.1 + 15602 0.68 0.853983
Target:  5'- -cCGuuGGCCACCGAgGaCGaCUGAGCGg -3'
miRNA:   3'- gaGCu-UUGGUGGCUgC-GC-GACUCGUa -5'
20398 3' -55.3 NC_004687.1 + 16356 0.68 0.853983
Target:  5'- aUCGGccuuGCCggucuccacggcGCCGACGCGCgaggUGAGCGc -3'
miRNA:   3'- gAGCUu---UGG------------UGGCUGCGCG----ACUCGUa -5'
20398 3' -55.3 NC_004687.1 + 16606 0.69 0.803192
Target:  5'- gUCGAGGCCuuGCCGucgacCGCcagGCUGAGCGc -3'
miRNA:   3'- gAGCUUUGG--UGGCu----GCG---CGACUCGUa -5'
20398 3' -55.3 NC_004687.1 + 17002 0.73 0.573343
Target:  5'- aUCGGucuaccauGCCGCCGAgguCGCGCUGaAGCAg -3'
miRNA:   3'- gAGCUu-------UGGUGGCU---GCGCGAC-UCGUa -5'
20398 3' -55.3 NC_004687.1 + 18816 0.67 0.883854
Target:  5'- aCUCGu--CgACCGGCagcucgcgaucGCGCUGGGCGa -3'
miRNA:   3'- -GAGCuuuGgUGGCUG-----------CGCGACUCGUa -5'
20398 3' -55.3 NC_004687.1 + 18901 0.69 0.775554
Target:  5'- uUCGcccuGGACCACUggGACGCGCUG-GCGc -3'
miRNA:   3'- gAGC----UUUGGUGG--CUGCGCGACuCGUa -5'
20398 3' -55.3 NC_004687.1 + 23684 0.66 0.903889
Target:  5'- -aUGAGACCgggcuugcGCCGGa-CGCUGAGCAg -3'
miRNA:   3'- gaGCUUUGG--------UGGCUgcGCGACUCGUa -5'
20398 3' -55.3 NC_004687.1 + 25346 0.67 0.890765
Target:  5'- cCUgGAcGAUC-CCGACGagGCUGAGCGUg -3'
miRNA:   3'- -GAgCU-UUGGuGGCUGCg-CGACUCGUA- -5'
20398 3' -55.3 NC_004687.1 + 26692 0.66 0.91606
Target:  5'- -aCGAGGCCACCGGCG-GCUacGAcGCc- -3'
miRNA:   3'- gaGCUUUGGUGGCUGCgCGA--CU-CGua -5'
20398 3' -55.3 NC_004687.1 + 27137 0.67 0.890765
Target:  5'- uUCGAGACCcugcucgucGCCGACGgGCcgGuGCGc -3'
miRNA:   3'- gAGCUUUGG---------UGGCUGCgCGa-CuCGUa -5'
20398 3' -55.3 NC_004687.1 + 27805 0.7 0.746739
Target:  5'- gCUCGA--CCACCGGCG-GCUuGGGCGc -3'
miRNA:   3'- -GAGCUuuGGUGGCUGCgCGA-CUCGUa -5'
20398 3' -55.3 NC_004687.1 + 29354 0.71 0.666082
Target:  5'- --gGGAGCUACCGGuaccugugUGCGCUGGGCGg -3'
miRNA:   3'- gagCUUUGGUGGCU--------GCGCGACUCGUa -5'
20398 3' -55.3 NC_004687.1 + 29902 0.71 0.676359
Target:  5'- cCUCGAcGCCuACCGACGaCGCccugaggggGAGCAa -3'
miRNA:   3'- -GAGCUuUGG-UGGCUGC-GCGa--------CUCGUa -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.