miRNA display CGI


Results 1 - 20 of 30 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
23428 3' -56.2 NC_005259.1 + 738 0.66 0.710881
Target:  5'- -cCGGcGGUGccuacgCCGccggugccuaccGCGUCcACCGCGCc -3'
miRNA:   3'- aaGCC-CCACa-----GGU------------UGCAGuUGGCGCG- -5'
23428 3' -56.2 NC_005259.1 + 909 0.67 0.636148
Target:  5'- --aGGuGGUGcCCGGCGaUCAccugcuGCUGCGCg -3'
miRNA:   3'- aagCC-CCACaGGUUGC-AGU------UGGCGCG- -5'
23428 3' -56.2 NC_005259.1 + 4481 0.7 0.488848
Target:  5'- aUCGGcGGUGgaCCAugGUgAucgccACCGCGCc -3'
miRNA:   3'- aAGCC-CCACa-GGUugCAgU-----UGGCGCG- -5'
23428 3' -56.2 NC_005259.1 + 5560 0.67 0.668393
Target:  5'- -gUGGGGUGgugaCGGCGa-GACCGUGCc -3'
miRNA:   3'- aaGCCCCACag--GUUGCagUUGGCGCG- -5'
23428 3' -56.2 NC_005259.1 + 6349 0.67 0.646913
Target:  5'- -aCGGGGUG-CCGuacgugcgcACGUUGucGCCGgGCg -3'
miRNA:   3'- aaGCCCCACaGGU---------UGCAGU--UGGCgCG- -5'
23428 3' -56.2 NC_005259.1 + 12561 0.71 0.411972
Target:  5'- -cCGGGGUGgcccgccagaUCCAugccgccccacGCGUCGACCcauGCGCc -3'
miRNA:   3'- aaGCCCCAC----------AGGU-----------UGCAGUUGG---CGCG- -5'
23428 3' -56.2 NC_005259.1 + 13422 0.66 0.721344
Target:  5'- -cCGGGGUcgCCGcCGg-GGCCGCGCu -3'
miRNA:   3'- aaGCCCCAcaGGUuGCagUUGGCGCG- -5'
23428 3' -56.2 NC_005259.1 + 15879 0.69 0.519383
Target:  5'- aUCGGGcacaCCGAagaGUCGACUGCGCa -3'
miRNA:   3'- aAGCCCcacaGGUUg--CAGUUGGCGCG- -5'
23428 3' -56.2 NC_005259.1 + 26983 0.67 0.66625
Target:  5'- cUCGGcGGUGUagacguUCGACGUUucggucuugaacGCCGCGCc -3'
miRNA:   3'- aAGCC-CCACA------GGUUGCAGu-----------UGGCGCG- -5'
23428 3' -56.2 NC_005259.1 + 32654 0.66 0.725506
Target:  5'- -cCGGGGUGgggaaaucgucggcaUCCGAcucgcaauCGUCGuaGCCGgGCg -3'
miRNA:   3'- aaGCCCCAC---------------AGGUU--------GCAGU--UGGCgCG- -5'
23428 3' -56.2 NC_005259.1 + 36952 0.66 0.752182
Target:  5'- -cCGGGGUG-CCcGCGagaccgccUCGGCC-CGCa -3'
miRNA:   3'- aaGCCCCACaGGuUGC--------AGUUGGcGCG- -5'
23428 3' -56.2 NC_005259.1 + 37066 0.67 0.646913
Target:  5'- -gCGGcGGUGUCC-ACGUCcacgcACCG-GCg -3'
miRNA:   3'- aaGCC-CCACAGGuUGCAGu----UGGCgCG- -5'
23428 3' -56.2 NC_005259.1 + 37553 0.74 0.30436
Target:  5'- -gCGuGuGGUGUCCGAUGUCGAcugcucgccgcCCGCGCc -3'
miRNA:   3'- aaGC-C-CCACAGGUUGCAGUU-----------GGCGCG- -5'
23428 3' -56.2 NC_005259.1 + 37905 0.69 0.540152
Target:  5'- aUCGGGGUGUuaCCGAUGUaacgcccACCGCu- -3'
miRNA:   3'- aAGCCCCACA--GGUUGCAgu-----UGGCGcg -5'
23428 3' -56.2 NC_005259.1 + 40706 0.7 0.488848
Target:  5'- aUCGGGGUGcCCGccaccACgGUCcACCGCaGCc -3'
miRNA:   3'- aAGCCCCACaGGU-----UG-CAGuUGGCG-CG- -5'
23428 3' -56.2 NC_005259.1 + 41412 0.67 0.636148
Target:  5'- cUCGGGGUGcCCAcgAUGUgCAcggGCCGC-Ca -3'
miRNA:   3'- aAGCCCCACaGGU--UGCA-GU---UGGCGcG- -5'
23428 3' -56.2 NC_005259.1 + 45461 0.66 0.710881
Target:  5'- aUCGGGGUGcCgAACGg--GCCGaGCu -3'
miRNA:   3'- aAGCCCCACaGgUUGCaguUGGCgCG- -5'
23428 3' -56.2 NC_005259.1 + 46533 0.69 0.550642
Target:  5'- gUCGGGGaucgCCGAgaucugguCGcCGACCGCGCc -3'
miRNA:   3'- aAGCCCCaca-GGUU--------GCaGUUGGCGCG- -5'
23428 3' -56.2 NC_005259.1 + 46572 0.67 0.67909
Target:  5'- -------gGUCgCGGCGUCGACCGCGCc -3'
miRNA:   3'- aagccccaCAG-GUUGCAGUUGGCGCG- -5'
23428 3' -56.2 NC_005259.1 + 47951 0.7 0.498936
Target:  5'- -aCGGcGGUG-CCGAUGgCcGCCGCGCc -3'
miRNA:   3'- aaGCC-CCACaGGUUGCaGuUGGCGCG- -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.