miRNA display CGI


Results 1 - 20 of 20 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
23482 3' -59.8 NC_005259.1 + 61068 0.78 0.10106
Target:  5'- uGCCggGCAUCGgcauaGGCGUCgUCGGCCUCGg -3'
miRNA:   3'- -UGG--UGUAGUa----CCGCAGgAGCCGGGGC- -5'
23482 3' -59.8 NC_005259.1 + 39929 0.71 0.29786
Target:  5'- gGCCGCGUCGaGGuCGUCCUUGGUgaCGa -3'
miRNA:   3'- -UGGUGUAGUaCC-GCAGGAGCCGggGC- -5'
23482 3' -59.8 NC_005259.1 + 57520 0.7 0.305018
Target:  5'- cACCGCAgcgCuugccgacggcgAUGGCGUCCUCGGUgaacaUCCGc -3'
miRNA:   3'- -UGGUGUa--G------------UACCGCAGGAGCCG-----GGGC- -5'
23482 3' -59.8 NC_005259.1 + 42631 0.7 0.312307
Target:  5'- gUCGCG-CGUaGGCa-CCUCGGCCCCGa -3'
miRNA:   3'- uGGUGUaGUA-CCGcaGGAGCCGGGGC- -5'
23482 3' -59.8 NC_005259.1 + 46299 0.69 0.367002
Target:  5'- gGCCGC--CGUGGCugcguuGUUCgCGGCCCCGa -3'
miRNA:   3'- -UGGUGuaGUACCG------CAGGaGCCGGGGC- -5'
23482 3' -59.8 NC_005259.1 + 31856 0.69 0.392378
Target:  5'- gACCGCGUCAuUGGCGaUCUugUCGGUCgUGa -3'
miRNA:   3'- -UGGUGUAGU-ACCGC-AGG--AGCCGGgGC- -5'
23482 3' -59.8 NC_005259.1 + 46362 0.68 0.427937
Target:  5'- gGCCGCG--AUGGCaccgCC-CGGCCCCa -3'
miRNA:   3'- -UGGUGUagUACCGca--GGaGCCGGGGc -5'
23482 3' -59.8 NC_005259.1 + 60132 0.67 0.455821
Target:  5'- gGCCuCGUCcUGcGCGgCCUUGGCCgCCGc -3'
miRNA:   3'- -UGGuGUAGuAC-CGCaGGAGCCGG-GGC- -5'
23482 3' -59.8 NC_005259.1 + 56385 0.67 0.462468
Target:  5'- gGCCGCGUCGgcugaucgucucgaUGGUG-CC-CGGCCCg- -3'
miRNA:   3'- -UGGUGUAGU--------------ACCGCaGGaGCCGGGgc -5'
23482 3' -59.8 NC_005259.1 + 49641 0.67 0.465332
Target:  5'- aGCCGCGUCGgcgaUGGCGgCCUCGauacGCgCCUGc -3'
miRNA:   3'- -UGGUGUAGU----ACCGCaGGAGC----CG-GGGC- -5'
23482 3' -59.8 NC_005259.1 + 68255 0.67 0.504354
Target:  5'- gACCGCAgccuugcgcucgUCGUaGGCaccGUCCUCG-CCCCa -3'
miRNA:   3'- -UGGUGU------------AGUA-CCG---CAGGAGCcGGGGc -5'
23482 3' -59.8 NC_005259.1 + 65844 0.66 0.534524
Target:  5'- cCCugAUCAgccaUGGUGgCCUCcgucuGCCCCGg -3'
miRNA:   3'- uGGugUAGU----ACCGCaGGAGc----CGGGGC- -5'
23482 3' -59.8 NC_005259.1 + 9699 0.66 0.534524
Target:  5'- cGCCGC-UCAcugGGCaccGUCCUCGGgCCgGu -3'
miRNA:   3'- -UGGUGuAGUa--CCG---CAGGAGCCgGGgC- -5'
23482 3' -59.8 NC_005259.1 + 16141 0.66 0.544725
Target:  5'- cGCCAUgcacgacgagGUUGUGGUGUCCacucccgUGGCCgCCGa -3'
miRNA:   3'- -UGGUG----------UAGUACCGCAGGa------GCCGG-GGC- -5'
23482 3' -59.8 NC_005259.1 + 41134 0.66 0.544725
Target:  5'- cCCGCGUC---GCGcagCCUCaGGCCCCa -3'
miRNA:   3'- uGGUGUAGuacCGCa--GGAG-CCGGGGc -5'
23482 3' -59.8 NC_005259.1 + 55769 0.66 0.544725
Target:  5'- aGCCGCGUac--GCGUCgagCUCGGCCCg- -3'
miRNA:   3'- -UGGUGUAguacCGCAG---GAGCCGGGgc -5'
23482 3' -59.8 NC_005259.1 + 64789 0.66 0.554988
Target:  5'- cGCUGCGaC-UGGCugugugCCUCGGCCUCGg -3'
miRNA:   3'- -UGGUGUaGuACCGca----GGAGCCGGGGC- -5'
23482 3' -59.8 NC_005259.1 + 50754 0.66 0.554988
Target:  5'- cGCCACGc---GGUGUcggacgacaCCUCGGCCUCGc -3'
miRNA:   3'- -UGGUGUaguaCCGCA---------GGAGCCGGGGC- -5'
23482 3' -59.8 NC_005259.1 + 25471 0.66 0.565307
Target:  5'- gACgACAUCAUGGUGUUCaacaaGGCgCUCGc -3'
miRNA:   3'- -UGgUGUAGUACCGCAGGag---CCG-GGGC- -5'
23482 3' -59.8 NC_005259.1 + 34068 0.66 0.565307
Target:  5'- gACCACggCGgcGGUGUCCacacguaGGCCCUGu -3'
miRNA:   3'- -UGGUGuaGUa-CCGCAGGag-----CCGGGGC- -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.