miRNA display CGI


Results 1 - 18 of 18 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
12015 5' -51.7 NC_003278.1 + 27644 0.66 0.781337
Target:  5'- gGGCAGAUAgcgGGCcgggaucgggaAGcGGCAGUGAcUGCGg -3'
miRNA:   3'- -CCGUCUAU---UCG-----------UC-CCGUCAUUcGUGC- -5'
12015 5' -51.7 NC_003278.1 + 32858 0.66 0.778141
Target:  5'- uGCGGAacucguuagaguguUuGGCAGGGCcacGGU-GGCGCGg -3'
miRNA:   3'- cCGUCU--------------AuUCGUCCCG---UCAuUCGUGC- -5'
12015 5' -51.7 NC_003278.1 + 21637 0.66 0.74872
Target:  5'- uGGCGuGAUc-GCAGGGCGG-GAGCcuCGg -3'
miRNA:   3'- -CCGU-CUAuuCGUCCCGUCaUUCGu-GC- -5'
12015 5' -51.7 NC_003278.1 + 22849 0.66 0.737558
Target:  5'- cGGCuucAGGUuguuGCcgAGGGCgaugucGGUGAGCACGu -3'
miRNA:   3'- -CCG---UCUAuu--CG--UCCCG------UCAUUCGUGC- -5'
12015 5' -51.7 NC_003278.1 + 14505 0.67 0.726275
Target:  5'- uGGCcuugAAGCuGGGCGGgcAGUugGc -3'
miRNA:   3'- -CCGucuaUUCGuCCCGUCauUCGugC- -5'
12015 5' -51.7 NC_003278.1 + 8168 0.67 0.69184
Target:  5'- cGCAGGUcGGCAGGaucagcgaCAGcAGGCGCGa -3'
miRNA:   3'- cCGUCUAuUCGUCCc-------GUCaUUCGUGC- -5'
12015 5' -51.7 NC_003278.1 + 3980 0.68 0.645065
Target:  5'- cGCGGAUccAGCgcuaccAGGGCGGU-GGUACGg -3'
miRNA:   3'- cCGUCUAu-UCG------UCCCGUCAuUCGUGC- -5'
12015 5' -51.7 NC_003278.1 + 8612 0.68 0.621546
Target:  5'- uGCGGAUGgccucAGCAGGGCGGcgacguuGcCGCGg -3'
miRNA:   3'- cCGUCUAU-----UCGUCCCGUCauu----C-GUGC- -5'
12015 5' -51.7 NC_003278.1 + 27944 0.69 0.598069
Target:  5'- cGGCAGAUGccAGCAauguguGGGCGGUccucGAGgAUGc -3'
miRNA:   3'- -CCGUCUAU--UCGU------CCCGUCA----UUCgUGC- -5'
12015 5' -51.7 NC_003278.1 + 10632 0.7 0.517463
Target:  5'- cGCGGc-AAGCAGGGCcGUAuucGGCGCa -3'
miRNA:   3'- cCGUCuaUUCGUCCCGuCAU---UCGUGc -5'
12015 5' -51.7 NC_003278.1 + 7036 0.7 0.49298
Target:  5'- uGGCAGAUcggccccgagccGGCGGGGCGcgGGGUACGc -3'
miRNA:   3'- -CCGUCUAu-----------UCGUCCCGUcaUUCGUGC- -5'
12015 5' -51.7 NC_003278.1 + 34862 0.71 0.484208
Target:  5'- aGCAGGUuauauGGCGGaGGCGGUGAGauuCGa -3'
miRNA:   3'- cCGUCUAu----UCGUC-CCGUCAUUCgu-GC- -5'
12015 5' -51.7 NC_003278.1 + 6682 0.73 0.372337
Target:  5'- cGGC-GAUGAcGCAGccGGCGGUAcGCGCGa -3'
miRNA:   3'- -CCGuCUAUU-CGUC--CCGUCAUuCGUGC- -5'
12015 5' -51.7 NC_003278.1 + 18939 0.74 0.319177
Target:  5'- aGCAGGUcGAGCAGGuGCAGgccGCGCa -3'
miRNA:   3'- cCGUCUA-UUCGUCC-CGUCauuCGUGc -5'
12015 5' -51.7 NC_003278.1 + 22752 0.75 0.27192
Target:  5'- cGCAGGUccgcuGAGCGGGcGCGGaugcUGAGCACGu -3'
miRNA:   3'- cCGUCUA-----UUCGUCC-CGUC----AUUCGUGC- -5'
12015 5' -51.7 NC_003278.1 + 13747 0.75 0.27192
Target:  5'- cGGCAGAaGGGCGaccGGGCAGgu-GCugGg -3'
miRNA:   3'- -CCGUCUaUUCGU---CCCGUCauuCGugC- -5'
12015 5' -51.7 NC_003278.1 + 11413 0.76 0.236314
Target:  5'- uGGCGGGaucacaaUAGGCAGGGUGGUGAGUg-- -3'
miRNA:   3'- -CCGUCU-------AUUCGUCCCGUCAUUCGugc -5'
12015 5' -51.7 NC_003278.1 + 25663 1.12 0.000663
Target:  5'- aGGCAGAUAAGCAGGGCAGUAAGCACGa -3'
miRNA:   3'- -CCGUCUAUUCGUCCCGUCAUUCGUGC- -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.