miRNA display CGI


Results 1 - 20 of 31 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
25989 3' -62.1 NC_005340.1 + 28907 0.66 0.273603
Target:  5'- aGCGCCAUCGCa-UCAGGCUaaaGCCa -3'
miRNA:   3'- -CGCGGUGGCGgcGGUCUGAcugCGGc -5'
25989 3' -62.1 NC_005340.1 + 12623 0.66 0.272914
Target:  5'- uCGCCGaacaugaaaaaucCCGUCGUCAucCUGAUGCCa -3'
miRNA:   3'- cGCGGU-------------GGCGGCGGUcuGACUGCGGc -5'
25989 3' -62.1 NC_005340.1 + 8245 0.66 0.266781
Target:  5'- cCGCCAgCCGUgCGCCAGACagUGACcaGCUu -3'
miRNA:   3'- cGCGGU-GGCG-GCGGUCUG--ACUG--CGGc -5'
25989 3' -62.1 NC_005340.1 + 1332 0.66 0.260098
Target:  5'- cGCGCUggcauGCUGCauCCAgugugaccGACUGGCGCCa -3'
miRNA:   3'- -CGCGG-----UGGCGgcGGU--------CUGACUGCGGc -5'
25989 3' -62.1 NC_005340.1 + 5968 0.66 0.260098
Target:  5'- uGCGCCAUgcaaCCGCCuauGGCaGAUGCUGg -3'
miRNA:   3'- -CGCGGUGgc--GGCGGu--CUGaCUGCGGC- -5'
25989 3' -62.1 NC_005340.1 + 1635 0.66 0.260098
Target:  5'- uCG-CACCGCUGUCAaGCUGuACGCUGu -3'
miRNA:   3'- cGCgGUGGCGGCGGUcUGAC-UGCGGC- -5'
25989 3' -62.1 NC_005340.1 + 18835 0.66 0.253551
Target:  5'- aCGCCAuuaUCGCCGCU--GCUGGCGUg- -3'
miRNA:   3'- cGCGGU---GGCGGCGGucUGACUGCGgc -5'
25989 3' -62.1 NC_005340.1 + 17492 0.66 0.247141
Target:  5'- aGCGCCAgCGCU-CCGaGCUGAUGCa- -3'
miRNA:   3'- -CGCGGUgGCGGcGGUcUGACUGCGgc -5'
25989 3' -62.1 NC_005340.1 + 27642 0.67 0.228713
Target:  5'- uGCGauaCGCCGCUGCgAG-CUGAUGaCCc -3'
miRNA:   3'- -CGCg--GUGGCGGCGgUCuGACUGC-GGc -5'
25989 3' -62.1 NC_005340.1 + 447 0.67 0.222834
Target:  5'- -aGCCAgUGCCGCC-GACcugaugGACGCUc -3'
miRNA:   3'- cgCGGUgGCGGCGGuCUGa-----CUGCGGc -5'
25989 3' -62.1 NC_005340.1 + 27484 0.67 0.211461
Target:  5'- cGCGCCAUgcaGCCGCaaugcgacgCAGACgaccACGCCa -3'
miRNA:   3'- -CGCGGUGg--CGGCG---------GUCUGac--UGCGGc -5'
25989 3' -62.1 NC_005340.1 + 27844 0.67 0.211461
Target:  5'- uGCGUguCCGa---CGGGCUGGCGCCGu -3'
miRNA:   3'- -CGCGguGGCggcgGUCUGACUGCGGC- -5'
25989 3' -62.1 NC_005340.1 + 17861 0.67 0.209799
Target:  5'- cGCGCCagcucggugacaauACCGCCGCUucuGCUGAUgaugcaGCCa -3'
miRNA:   3'- -CGCGG--------------UGGCGGCGGuc-UGACUG------CGGc -5'
25989 3' -62.1 NC_005340.1 + 6960 0.67 0.205964
Target:  5'- aCGaCUACCGgcugCGCCAGACUGcCGCgGg -3'
miRNA:   3'- cGC-GGUGGCg---GCGGUCUGACuGCGgC- -5'
25989 3' -62.1 NC_005340.1 + 22239 0.67 0.205964
Target:  5'- -aGCUACCGgCGCCAGAUggagUGAgGCa- -3'
miRNA:   3'- cgCGGUGGCgGCGGUCUG----ACUgCGgc -5'
25989 3' -62.1 NC_005340.1 + 17456 0.67 0.200591
Target:  5'- aGCGCCugCGCCugcgcgcggGUCGGACUgGugGUg- -3'
miRNA:   3'- -CGCGGugGCGG---------CGGUCUGA-CugCGgc -5'
25989 3' -62.1 NC_005340.1 + 16613 0.68 0.180304
Target:  5'- uGCGCgGCggUGCUGuuCCAGACggucGACGCCGu -3'
miRNA:   3'- -CGCGgUG--GCGGC--GGUCUGa---CUGCGGC- -5'
25989 3' -62.1 NC_005340.1 + 9377 0.69 0.162297
Target:  5'- gGUGCCuGCUGUCGCCugaugcgcugcugcuGACUGGCGCg- -3'
miRNA:   3'- -CGCGG-UGGCGGCGGu--------------CUGACUGCGgc -5'
25989 3' -62.1 NC_005340.1 + 8570 0.69 0.157519
Target:  5'- uGCGCCAgCGCCGgu-GAUUGugGUCa -3'
miRNA:   3'- -CGCGGUgGCGGCgguCUGACugCGGc -5'
25989 3' -62.1 NC_005340.1 + 11660 0.69 0.153286
Target:  5'- uUGCCGCCGCaagggcaugUGCCgAGAUUGAaagaaCGCCGg -3'
miRNA:   3'- cGCGGUGGCG---------GCGG-UCUGACU-----GCGGC- -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.