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
19576 3' -55 NC_004686.1 + 2386 0.68 0.632525
Target:  5'- uGGACGGGUaAGGCuguugaugcuuugGCCC-GCCG-CUGCa -3'
miRNA:   3'- -CCUGUCUA-UCUG-------------UGGGaCGGCuGGCG- -5'
19576 3' -55 NC_004686.1 + 4179 0.7 0.497838
Target:  5'- gGGACAGccucgcaGUAGcaaugcccaugacacGCgaACCUUGCCGACCGUu -3'
miRNA:   3'- -CCUGUC-------UAUC---------------UG--UGGGACGGCUGGCG- -5'
19576 3' -55 NC_004686.1 + 4713 0.66 0.775595
Target:  5'- aGGaACAGAUcagcgucuuccagugAGAUuCCgUGCgUGACCGCa -3'
miRNA:   3'- -CC-UGUCUA---------------UCUGuGGgACG-GCUGGCG- -5'
19576 3' -55 NC_004686.1 + 5265 0.66 0.775595
Target:  5'- cGGACAGGUccgccauggucugcaGGACGCCgaGuuGACg-- -3'
miRNA:   3'- -CCUGUCUA---------------UCUGUGGgaCggCUGgcg -5'
19576 3' -55 NC_004686.1 + 7182 0.66 0.760512
Target:  5'- uGGCcgccguGCACCCUGCCGgcucgacACCGCa -3'
miRNA:   3'- cCUGucuaucUGUGGGACGGC-------UGGCG- -5'
19576 3' -55 NC_004686.1 + 9892 0.69 0.596559
Target:  5'- cGGugAGAgacuguccaguggGGACGCCg-GCggCGACCGCa -3'
miRNA:   3'- -CCugUCUa------------UCUGUGGgaCG--GCUGGCG- -5'
19576 3' -55 NC_004686.1 + 11290 0.67 0.698723
Target:  5'- -cACGGAacGcCGCCCUGCUuGAUCGCa -3'
miRNA:   3'- ccUGUCUauCuGUGGGACGG-CUGGCG- -5'
19576 3' -55 NC_004686.1 + 11435 0.68 0.655431
Target:  5'- gGGACAuuUGGaaGCACCCauaUGACCGCa -3'
miRNA:   3'- -CCUGUcuAUC--UGUGGGacgGCUGGCG- -5'
19576 3' -55 NC_004686.1 + 11730 0.67 0.698723
Target:  5'- cGGucACAuGGcGGGCACCCUGCCcaACgGCa -3'
miRNA:   3'- -CC--UGU-CUaUCUGUGGGACGGc-UGgCG- -5'
19576 3' -55 NC_004686.1 + 12139 0.67 0.698723
Target:  5'- cGGGCAGuuucGGCGCCggcgGUCaGGCCGCg -3'
miRNA:   3'- -CCUGUCuau-CUGUGGga--CGG-CUGGCG- -5'
19576 3' -55 NC_004686.1 + 12844 0.66 0.769599
Target:  5'- cGGGCAGAacgaUGaACACCuCUGCgugcacggcgagGACCGCg -3'
miRNA:   3'- -CCUGUCU----AUcUGUGG-GACGg-----------CUGGCG- -5'
19576 3' -55 NC_004686.1 + 12966 1.15 0.000475
Target:  5'- cGGACAGAUAGACACCCUGCCGACCGCg -3'
miRNA:   3'- -CCUGUCUAUCUGUGGGACGGCUGGCG- -5'
19576 3' -55 NC_004686.1 + 13061 0.67 0.72003
Target:  5'- cGGAgCAGAacGAguCCCUGCUGAUCcagGCg -3'
miRNA:   3'- -CCU-GUCUauCUguGGGACGGCUGG---CG- -5'
19576 3' -55 NC_004686.1 + 13277 0.67 0.72003
Target:  5'- cGGACuGGUaugAGAagcCGCaCgUGUCGACCGCc -3'
miRNA:   3'- -CCUGuCUA---UCU---GUG-GgACGGCUGGCG- -5'
19576 3' -55 NC_004686.1 + 16969 0.68 0.629251
Target:  5'- uGGGCGGucauaccaGCCCucaauaguguUGCCGGCCGCc -3'
miRNA:   3'- -CCUGUCuaucug--UGGG----------ACGGCUGGCG- -5'
19576 3' -55 NC_004686.1 + 17443 0.67 0.72003
Target:  5'- aGGAUGGGaaugucuGACGCCCaGuuGGCCaGCg -3'
miRNA:   3'- -CCUGUCUau-----CUGUGGGaCggCUGG-CG- -5'
19576 3' -55 NC_004686.1 + 18764 0.71 0.478515
Target:  5'- gGGGCAGcgccucgucaagcugGUAGuACACCCaGCCGGuuGUg -3'
miRNA:   3'- -CCUGUC---------------UAUC-UGUGGGaCGGCUggCG- -5'
19576 3' -55 NC_004686.1 + 21299 0.68 0.666312
Target:  5'- uGGCcc--AGGCACCgCUGCUGACCGa -3'
miRNA:   3'- cCUGucuaUCUGUGG-GACGGCUGGCg -5'
19576 3' -55 NC_004686.1 + 22356 0.67 0.72003
Target:  5'- uGAUGGuguuguguUGGACAgCUUGCCGccGCCGCc -3'
miRNA:   3'- cCUGUCu-------AUCUGUgGGACGGC--UGGCG- -5'
19576 3' -55 NC_004686.1 + 23854 0.68 0.64453
Target:  5'- cGGACG---GGACACCUUcGCCGAUCu- -3'
miRNA:   3'- -CCUGUcuaUCUGUGGGA-CGGCUGGcg -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.