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
18737 3' -52.2 NC_004682.1 + 45444 0.66 0.864348
Target:  5'- gGGUCG--GUCACcaggCCGcGGUCgAAGCACc -3'
miRNA:   3'- -CCAGUagCAGUGa---GGU-CCAG-UUCGUG- -5'
18737 3' -52.2 NC_004682.1 + 12301 0.66 0.864348
Target:  5'- gGGUCGUcccaccuaCGUCGCggacaaCguGGUCAacGGCACc -3'
miRNA:   3'- -CCAGUA--------GCAGUGa-----GguCCAGU--UCGUG- -5'
18737 3' -52.2 NC_004682.1 + 32006 0.66 0.853301
Target:  5'- aGGUCGUCGuacUCACUgccggucgcggagaCCuGGUCGGuGUACu -3'
miRNA:   3'- -CCAGUAGC---AGUGA--------------GGuCCAGUU-CGUG- -5'
18737 3' -52.2 NC_004682.1 + 7551 0.66 0.847181
Target:  5'- cGGuUCAUCaUCuACUCCgAGGccggCGGGCGCa -3'
miRNA:   3'- -CC-AGUAGcAG-UGAGG-UCCa---GUUCGUG- -5'
18737 3' -52.2 NC_004682.1 + 12543 0.66 0.841841
Target:  5'- uGGUCAacgacaaggacgcguUCGUgaaGCUgaccgaCCAGGUCGcgGGCACg -3'
miRNA:   3'- -CCAGU---------------AGCAg--UGA------GGUCCAGU--UCGUG- -5'
18737 3' -52.2 NC_004682.1 + 9148 0.66 0.838235
Target:  5'- aGGUCc-CGaUCA-UCCGGGUCGAGcCACc -3'
miRNA:   3'- -CCAGuaGC-AGUgAGGUCCAGUUC-GUG- -5'
18737 3' -52.2 NC_004682.1 + 27932 0.66 0.835507
Target:  5'- aGGUUgaagagaacucgauGUCGUC-CUCCAGGggCAAGUc- -3'
miRNA:   3'- -CCAG--------------UAGCAGuGAGGUCCa-GUUCGug -5'
18737 3' -52.2 NC_004682.1 + 34071 0.66 0.829061
Target:  5'- cGUCAUCGgcguuguaCGuCUCCGGGUCGacguuGGCGg -3'
miRNA:   3'- cCAGUAGCa-------GU-GAGGUCCAGU-----UCGUg -5'
18737 3' -52.2 NC_004682.1 + 13589 0.66 0.829061
Target:  5'- cGGUUccCG-CGCUCCuGGgacgcCGAGCACg -3'
miRNA:   3'- -CCAGuaGCaGUGAGGuCCa----GUUCGUG- -5'
18737 3' -52.2 NC_004682.1 + 30371 0.67 0.819668
Target:  5'- cGGUUAgCGUC-CUCCAGcGUCGugauGGUGCc -3'
miRNA:   3'- -CCAGUaGCAGuGAGGUC-CAGU----UCGUG- -5'
18737 3' -52.2 NC_004682.1 + 28086 0.67 0.800268
Target:  5'- cGUCAUCGaacagcUCGCU-CAGGUCcAGCGg -3'
miRNA:   3'- cCAGUAGC------AGUGAgGUCCAGuUCGUg -5'
18737 3' -52.2 NC_004682.1 + 3247 0.67 0.790283
Target:  5'- cGGUCGccagcgCGUC-CUCCGGG---AGCGCa -3'
miRNA:   3'- -CCAGUa-----GCAGuGAGGUCCaguUCGUG- -5'
18737 3' -52.2 NC_004682.1 + 12357 0.67 0.778073
Target:  5'- uGGUCggCGUCAUgggcgacuucagCCAGGUCAucuGGgGCc -3'
miRNA:   3'- -CCAGuaGCAGUGa-----------GGUCCAGU---UCgUG- -5'
18737 3' -52.2 NC_004682.1 + 39427 0.68 0.769805
Target:  5'- uGUCGUCGUCGgUgcccuggaUCAGGgucacgacaUCGAGCACg -3'
miRNA:   3'- cCAGUAGCAGUgA--------GGUCC---------AGUUCGUG- -5'
18737 3' -52.2 NC_004682.1 + 41089 0.68 0.758279
Target:  5'- cGGUCGgcuUCGUCGCgaUCAGGUCGccgaggaucugcuGGUGCa -3'
miRNA:   3'- -CCAGU---AGCAGUGa-GGUCCAGU-------------UCGUG- -5'
18737 3' -52.2 NC_004682.1 + 19294 0.68 0.737993
Target:  5'- -cUCGUaCGaC-CUCCAGGUCAucgAGCGCa -3'
miRNA:   3'- ccAGUA-GCaGuGAGGUCCAGU---UCGUG- -5'
18737 3' -52.2 NC_004682.1 + 35512 0.68 0.727148
Target:  5'- cGG-CGUCGUCgccucccaGCUCCAGcuugaCAGGCGCg -3'
miRNA:   3'- -CCaGUAGCAG--------UGAGGUCca---GUUCGUG- -5'
18737 3' -52.2 NC_004682.1 + 36815 0.7 0.649111
Target:  5'- aGGUagagCGUCuGCUCCAGGUCGucAGCc- -3'
miRNA:   3'- -CCAgua-GCAG-UGAGGUCCAGU--UCGug -5'
18737 3' -52.2 NC_004682.1 + 42033 0.71 0.570211
Target:  5'- aGGUCuugCGUcCGCUCCgugaagAGGUUGAGCAUc -3'
miRNA:   3'- -CCAGua-GCA-GUGAGG------UCCAGUUCGUG- -5'
18737 3' -52.2 NC_004682.1 + 11265 0.72 0.493847
Target:  5'- aGGcCGUCGcaUCGCaaCCAGGaUCGAGCGCa -3'
miRNA:   3'- -CCaGUAGC--AGUGa-GGUCC-AGUUCGUG- -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.