miRNA display CGI


Results 21 - 37 of 37 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
30407 3' -57.9 NC_006548.1 + 20090 0.68 0.352074
Target:  5'- aGCCgcACCAGGUGgUgccGGAGUucgccgaGGCGGCg -3'
miRNA:   3'- gCGGa-UGGUCCACgA---CCUCG-------CUGUCG- -5'
30407 3' -57.9 NC_006548.1 + 17613 0.68 0.361533
Target:  5'- gGCCaugGCCgAGGgGCUGGAG--GCAGCu -3'
miRNA:   3'- gCGGa--UGG-UCCaCGACCUCgcUGUCG- -5'
30407 3' -57.9 NC_006548.1 + 15200 0.68 0.365016
Target:  5'- gGCCUGcgcguCCGGGuUGCUGGAcauacuguggauacgGCGGCcauuGGCg -3'
miRNA:   3'- gCGGAU-----GGUCC-ACGACCU---------------CGCUG----UCG- -5'
30407 3' -57.9 NC_006548.1 + 25793 0.68 0.369403
Target:  5'- uGCCUguucggcACCAGGUaCUGGAGUuGCcGCu -3'
miRNA:   3'- gCGGA-------UGGUCCAcGACCUCGcUGuCG- -5'
30407 3' -57.9 NC_006548.1 + 4765 0.67 0.388217
Target:  5'- gCGCU--UCAGGUGCUuGAGCGuggcgauCGGCa -3'
miRNA:   3'- -GCGGauGGUCCACGAcCUCGCu------GUCG- -5'
30407 3' -57.9 NC_006548.1 + 30417 0.67 0.401104
Target:  5'- gCGCCUGauGGGcggcacggcguucaaUGCUGGGGCGAUcccgcccgguGGCg -3'
miRNA:   3'- -GCGGAUggUCC---------------ACGACCUCGCUG----------UCG- -5'
30407 3' -57.9 NC_006548.1 + 35930 0.67 0.405773
Target:  5'- gGCCUACCGaccGGcgaGUUGGccggcagGGUGGCGGCg -3'
miRNA:   3'- gCGGAUGGU---CCa--CGACC-------UCGCUGUCG- -5'
30407 3' -57.9 NC_006548.1 + 15231 0.67 0.40671
Target:  5'- uGCCUAuCCGGGcaucacCUGGGGUGGC-GCu -3'
miRNA:   3'- gCGGAU-GGUCCac----GACCUCGCUGuCG- -5'
30407 3' -57.9 NC_006548.1 + 29609 0.67 0.425747
Target:  5'- cCGCCUGCgGuGGaaagcgcuccUGCggcGGAgGUGACAGCa -3'
miRNA:   3'- -GCGGAUGgU-CC----------ACGa--CCU-CGCUGUCG- -5'
30407 3' -57.9 NC_006548.1 + 12152 0.67 0.425747
Target:  5'- cCGCCgGCCAGcaGCaGGAGCauCAGCg -3'
miRNA:   3'- -GCGGaUGGUCcaCGaCCUCGcuGUCG- -5'
30407 3' -57.9 NC_006548.1 + 33122 0.66 0.445304
Target:  5'- uGCCcucgacaacaUACCGGG-GCUGGccGGUgcucgGGCAGCg -3'
miRNA:   3'- gCGG----------AUGGUCCaCGACC--UCG-----CUGUCG- -5'
30407 3' -57.9 NC_006548.1 + 37254 0.66 0.455269
Target:  5'- gGCCUGCCGGGaGaaGG-GCauuACAGCg -3'
miRNA:   3'- gCGGAUGGUCCaCgaCCuCGc--UGUCG- -5'
30407 3' -57.9 NC_006548.1 + 22299 0.66 0.455269
Target:  5'- uGCCgUugCGGGUGUcGGccaGGCGAUcGCg -3'
miRNA:   3'- gCGG-AugGUCCACGaCC---UCGCUGuCG- -5'
30407 3' -57.9 NC_006548.1 + 24018 0.66 0.455269
Target:  5'- gCGCCUGCCAGGccg-GGcGGUGucCAGCc -3'
miRNA:   3'- -GCGGAUGGUCCacgaCC-UCGCu-GUCG- -5'
30407 3' -57.9 NC_006548.1 + 3849 0.66 0.465354
Target:  5'- gGUCUACC---UGCaGGAGCGGCGcGCu -3'
miRNA:   3'- gCGGAUGGuccACGaCCUCGCUGU-CG- -5'
30407 3' -57.9 NC_006548.1 + 6083 0.66 0.475553
Target:  5'- uCGC--GCCAGGgGUUGcGGGUGAuCAGCa -3'
miRNA:   3'- -GCGgaUGGUCCaCGAC-CUCGCU-GUCG- -5'
30407 3' -57.9 NC_006548.1 + 1200 0.66 0.475553
Target:  5'- uCGCCgcaCAGGcguUGCUGGccgcGCaGACGGCc -3'
miRNA:   3'- -GCGGaugGUCC---ACGACCu---CG-CUGUCG- -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.