miRNA display CGI


Results 1 - 20 of 22 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
23156 3' -58.2 NC_005178.1 + 14314 0.66 0.431904
Target:  5'- aGGCC-GGGCaccucGGCGCgGAUgcgcucgaccaggAGCGUCUc -3'
miRNA:   3'- -CCGGaCCCG-----CCGUGgCUA-------------UCGUAGAu -5'
23156 3' -58.2 NC_005178.1 + 10952 0.66 0.417337
Target:  5'- uGGCCaguUGGGCGGCcccagcgaaucccuuGCUGAUcgagGGCggCUAu -3'
miRNA:   3'- -CCGG---ACCCGCCG---------------UGGCUA----UCGuaGAU- -5'
23156 3' -58.2 NC_005178.1 + 33840 0.66 0.412549
Target:  5'- uGGCCUGGcgguccauGuCGGCGCCGAUguagccgGGCAg--- -3'
miRNA:   3'- -CCGGACC--------C-GCCGUGGCUA-------UCGUagau -5'
23156 3' -58.2 NC_005178.1 + 32738 0.66 0.404015
Target:  5'- uGGCCUGGacguaguaggcGCGGCGgCGAUuGGCgAUCc- -3'
miRNA:   3'- -CCGGACC-----------CGCCGUgGCUA-UCG-UAGau -5'
23156 3' -58.2 NC_005178.1 + 14877 0.66 0.394666
Target:  5'- cGGCCUGGGCgaGGuCGCCcugGGCuUCg- -3'
miRNA:   3'- -CCGGACCCG--CC-GUGGcuaUCGuAGau -5'
23156 3' -58.2 NC_005178.1 + 3764 0.67 0.376392
Target:  5'- gGGCCaucgccaaGGGCGGCACCau--GCcgCUGa -3'
miRNA:   3'- -CCGGa-------CCCGCCGUGGcuauCGuaGAU- -5'
23156 3' -58.2 NC_005178.1 + 1451 0.67 0.357829
Target:  5'- -aCCUGGGCGGCAuguacucCCaGAUAGCcgugGUCg- -3'
miRNA:   3'- ccGGACCCGCCGU-------GG-CUAUCG----UAGau -5'
23156 3' -58.2 NC_005178.1 + 17176 0.67 0.341594
Target:  5'- gGGCCggcuucaGGGCGGUcaggGCCGcaAUGGCcUCUGc -3'
miRNA:   3'- -CCGGa------CCCGCCG----UGGC--UAUCGuAGAU- -5'
23156 3' -58.2 NC_005178.1 + 15958 0.68 0.333266
Target:  5'- cGCCUgGGGCGGUagauGCCGAUuuGGuCGUCc- -3'
miRNA:   3'- cCGGA-CCCGCCG----UGGCUA--UC-GUAGau -5'
23156 3' -58.2 NC_005178.1 + 344 0.68 0.333266
Target:  5'- cGGCgCUGuGcCGGUAgCGAUGGCGUCa- -3'
miRNA:   3'- -CCG-GACcC-GCCGUgGCUAUCGUAGau -5'
23156 3' -58.2 NC_005178.1 + 5550 0.68 0.317059
Target:  5'- cGCCUGGGCGGCuacgUCGA-GGCgAUCc- -3'
miRNA:   3'- cCGGACCCGCCGu---GGCUaUCG-UAGau -5'
23156 3' -58.2 NC_005178.1 + 25678 0.68 0.309181
Target:  5'- cGGCCUGGGCgaucugcucGGCGCUGuagGGCugCUGc -3'
miRNA:   3'- -CCGGACCCG---------CCGUGGCua-UCGuaGAU- -5'
23156 3' -58.2 NC_005178.1 + 15406 0.69 0.272034
Target:  5'- uGGCCgcaUGGGCGGCgACUGGUAGgAg--- -3'
miRNA:   3'- -CCGG---ACCCGCCG-UGGCUAUCgUagau -5'
23156 3' -58.2 NC_005178.1 + 23339 0.7 0.226163
Target:  5'- -aCCUGGGCgacgagaucGGCACCGG-GGCGUCg- -3'
miRNA:   3'- ccGGACCCG---------CCGUGGCUaUCGUAGau -5'
23156 3' -58.2 NC_005178.1 + 9324 0.71 0.187019
Target:  5'- cGGCCUGGauagcgGCGGCGCCGcucaggAGCGUg-- -3'
miRNA:   3'- -CCGGACC------CGCCGUGGCua----UCGUAgau -5'
23156 3' -58.2 NC_005178.1 + 17631 0.71 0.181941
Target:  5'- --aCUGcGGCGGCACUGGcGGCAUCg- -3'
miRNA:   3'- ccgGAC-CCGCCGUGGCUaUCGUAGau -5'
23156 3' -58.2 NC_005178.1 + 5333 0.72 0.176985
Target:  5'- cGGCCcaGGGCGGCGUCGAUGGCc---- -3'
miRNA:   3'- -CCGGa-CCCGCCGUGGCUAUCGuagau -5'
23156 3' -58.2 NC_005178.1 + 5544 0.75 0.100354
Target:  5'- cGGCgUGGGuCGGCACCcAUAGCGgcuUCUGc -3'
miRNA:   3'- -CCGgACCC-GCCGUGGcUAUCGU---AGAU- -5'
23156 3' -58.2 NC_005178.1 + 25194 0.76 0.08678
Target:  5'- uGGCCUGGGCGGCACguUGAcgGGCGg--- -3'
miRNA:   3'- -CCGGACCCGCCGUG--GCUa-UCGUagau -5'
23156 3' -58.2 NC_005178.1 + 33037 0.82 0.028902
Target:  5'- -uCCUGGGCGGCACCGAgGGCAUUc- -3'
miRNA:   3'- ccGGACCCGCCGUGGCUaUCGUAGau -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.