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
1437 3' -45.9 NC_001335.1 + 34273 0.66 0.996545
Target:  5'- gGCGGUgugcgccGGUCGGCGCGGaugUCGAUGAu- -3'
miRNA:   3'- -CGUCAa------CCAGUUGUGCU---AGUUGUUcc -5'
1437 3' -45.9 NC_001335.1 + 32319 0.66 0.995098
Target:  5'- -gAGUUGGUgGAacgaGGUCAGCcAGGg -3'
miRNA:   3'- cgUCAACCAgUUgug-CUAGUUGuUCC- -5'
1437 3' -45.9 NC_001335.1 + 17326 0.67 0.994209
Target:  5'- cGCAGgcucUGGUCAgcguugcugGCGCGGugauUCAGguGGGu -3'
miRNA:   3'- -CGUCa---ACCAGU---------UGUGCU----AGUUguUCC- -5'
1437 3' -45.9 NC_001335.1 + 13449 0.67 0.99074
Target:  5'- gGCGcg-GGUCGacuACACGAUCAA-GAGGu -3'
miRNA:   3'- -CGUcaaCCAGU---UGUGCUAGUUgUUCC- -5'
1437 3' -45.9 NC_001335.1 + 11887 0.68 0.985812
Target:  5'- cGCuGUUGGUCAAUGC---CGGCAAGa -3'
miRNA:   3'- -CGuCAACCAGUUGUGcuaGUUGUUCc -5'
1437 3' -45.9 NC_001335.1 + 2281 0.68 0.983573
Target:  5'- aGCGGgccagcgaGGUCGAggcugaacuucgcCGCGAggUCGGCAAGGa -3'
miRNA:   3'- -CGUCaa------CCAGUU-------------GUGCU--AGUUGUUCC- -5'
1437 3' -45.9 NC_001335.1 + 36009 0.69 0.979091
Target:  5'- -aGGUUGGUCucccAAC-CGAUCAGCGccuuccGGGu -3'
miRNA:   3'- cgUCAACCAG----UUGuGCUAGUUGU------UCC- -5'
1437 3' -45.9 NC_001335.1 + 39010 0.69 0.979091
Target:  5'- cGCcuGUcGGUCGAcCACGAUCA-CAAGa -3'
miRNA:   3'- -CGu-CAaCCAGUU-GUGCUAGUuGUUCc -5'
1437 3' -45.9 NC_001335.1 + 46908 0.69 0.979091
Target:  5'- -----aGGUCGAgGCGAgcaAGCAAGGg -3'
miRNA:   3'- cgucaaCCAGUUgUGCUag-UUGUUCC- -5'
1437 3' -45.9 NC_001335.1 + 5246 0.69 0.979091
Target:  5'- cCAGaucgcUGGUCGACGCGGUCugauugAACAGGc -3'
miRNA:   3'- cGUCa----ACCAGUUGUGCUAG------UUGUUCc -5'
1437 3' -45.9 NC_001335.1 + 38119 0.69 0.979091
Target:  5'- aCAGcaaGGaCAugGCGAUCuGCGAGGg -3'
miRNA:   3'- cGUCaa-CCaGUugUGCUAGuUGUUCC- -5'
1437 3' -45.9 NC_001335.1 + 29615 0.69 0.973454
Target:  5'- aGCGccaGGUCAACGCGGcucugcUCGACAAGc -3'
miRNA:   3'- -CGUcaaCCAGUUGUGCU------AGUUGUUCc -5'
1437 3' -45.9 NC_001335.1 + 1030 0.69 0.96679
Target:  5'- aGCAGUUgcGGUUGAgUGCGAUCGAUGAGu -3'
miRNA:   3'- -CGUCAA--CCAGUU-GUGCUAGUUGUUCc -5'
1437 3' -45.9 NC_001335.1 + 32704 0.7 0.963049
Target:  5'- gGCGGUguugaccuUGGcCAGCACG-UCGGCcGGGu -3'
miRNA:   3'- -CGUCA--------ACCaGUUGUGCuAGUUGuUCC- -5'
1437 3' -45.9 NC_001335.1 + 12567 0.7 0.963049
Target:  5'- aGCGGUcuUGGUCuugguguuGCGCGGUUucCGGGGc -3'
miRNA:   3'- -CGUCA--ACCAGu-------UGUGCUAGuuGUUCC- -5'
1437 3' -45.9 NC_001335.1 + 27298 0.7 0.954708
Target:  5'- -aGGUUGGccUCGGCGCGGUC-ACGGGc -3'
miRNA:   3'- cgUCAACC--AGUUGUGCUAGuUGUUCc -5'
1437 3' -45.9 NC_001335.1 + 12060 0.71 0.928569
Target:  5'- cGguGUaGGUCGACuCGAUgAACAGcGGg -3'
miRNA:   3'- -CguCAaCCAGUUGuGCUAgUUGUU-CC- -5'
1437 3' -45.9 NC_001335.1 + 16481 0.71 0.922408
Target:  5'- uGCAGguugggGGUgAuCGCGGUCAGCAucGGGc -3'
miRNA:   3'- -CGUCaa----CCAgUuGUGCUAGUUGU--UCC- -5'
1437 3' -45.9 NC_001335.1 + 8745 0.73 0.853273
Target:  5'- aCGGccGGUCGuucauCACGAUCAGCAAGc -3'
miRNA:   3'- cGUCaaCCAGUu----GUGCUAGUUGUUCc -5'
1437 3' -45.9 NC_001335.1 + 4064 0.77 0.672661
Target:  5'- gGCAGUUGGUUcACAugcCGAcCGGCGAGGc -3'
miRNA:   3'- -CGUCAACCAGuUGU---GCUaGUUGUUCC- -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.