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
16353 3' -56.2 NC_004084.1 + 51058 0.66 0.704042
Target:  5'- cCGUCgGAGCGaaccgcgcCUCCUGGGacgacCGGGCg -3'
miRNA:   3'- aGCGGgUUCGCau------GAGGAUCC-----GCUCG- -5'
16353 3' -56.2 NC_004084.1 + 13918 0.66 0.693324
Target:  5'- cCGCUUc-GCGgaACUCCUcgucaucguuuAGGCGAGCc -3'
miRNA:   3'- aGCGGGuuCGCa-UGAGGA-----------UCCGCUCG- -5'
16353 3' -56.2 NC_004084.1 + 28793 0.66 0.693324
Target:  5'- aCGUCCgGAGCcgacagccagGUGCcgUUgUGGGCGAGCa -3'
miRNA:   3'- aGCGGG-UUCG----------CAUG--AGgAUCCGCUCG- -5'
16353 3' -56.2 NC_004084.1 + 43949 0.66 0.671725
Target:  5'- aCGCUCAGGag-GCggCCUGGGaGGGCg -3'
miRNA:   3'- aGCGGGUUCgcaUGa-GGAUCCgCUCG- -5'
16353 3' -56.2 NC_004084.1 + 12887 0.66 0.671725
Target:  5'- aCGCCgGAcGUGUcauaUCCU-GGCGAGUa -3'
miRNA:   3'- aGCGGgUU-CGCAug--AGGAuCCGCUCG- -5'
16353 3' -56.2 NC_004084.1 + 29369 0.66 0.671725
Target:  5'- aCGCCCGGgaucccGCGUccCUCCUggaAGGUGAuGCc -3'
miRNA:   3'- aGCGGGUU------CGCAu-GAGGA---UCCGCU-CG- -5'
16353 3' -56.2 NC_004084.1 + 55991 0.66 0.671725
Target:  5'- aUCGCCgauGGCGaGCaUCgCU-GGCGAGCc -3'
miRNA:   3'- -AGCGGgu-UCGCaUG-AG-GAuCCGCUCG- -5'
16353 3' -56.2 NC_004084.1 + 47377 0.66 0.660865
Target:  5'- uUCGUCCGcgucgucgacGGCGaGCUCCaGGGCGcgacgacgaAGCc -3'
miRNA:   3'- -AGCGGGU----------UCGCaUGAGGaUCCGC---------UCG- -5'
16353 3' -56.2 NC_004084.1 + 13103 0.66 0.660865
Target:  5'- gUCGUgCCGGGCGUAgUcgaCCUGGaguuGCGGGCc -3'
miRNA:   3'- -AGCG-GGUUCGCAUgA---GGAUC----CGCUCG- -5'
16353 3' -56.2 NC_004084.1 + 49332 0.66 0.660865
Target:  5'- aUCGCCCGgucGGCGUA--CCgcGGCGAu- -3'
miRNA:   3'- -AGCGGGU---UCGCAUgaGGauCCGCUcg -5'
16353 3' -56.2 NC_004084.1 + 26150 0.66 0.64889
Target:  5'- aCGCCCAGGU-------UGGGCGGGCa -3'
miRNA:   3'- aGCGGGUUCGcaugaggAUCCGCUCG- -5'
16353 3' -56.2 NC_004084.1 + 54546 0.67 0.639077
Target:  5'- aUCGUCCGGcGCuGUAUcaCCgaGGGCGAGCu -3'
miRNA:   3'- -AGCGGGUU-CG-CAUGa-GGa-UCCGCUCG- -5'
16353 3' -56.2 NC_004084.1 + 10182 0.67 0.617264
Target:  5'- aCGCUCAacgcGGCGggagACUUCUcAGGCGAucGCc -3'
miRNA:   3'- aGCGGGU----UCGCa---UGAGGA-UCCGCU--CG- -5'
16353 3' -56.2 NC_004084.1 + 15885 0.67 0.606372
Target:  5'- gUCGaUCCGAGCGgcUUCCcgcaGCGGGCg -3'
miRNA:   3'- -AGC-GGGUUCGCauGAGGauc-CGCUCG- -5'
16353 3' -56.2 NC_004084.1 + 52623 0.67 0.606372
Target:  5'- aCGCCC-GGCGUcggAUaCCaGGGUGAGUg -3'
miRNA:   3'- aGCGGGuUCGCA---UGaGGaUCCGCUCG- -5'
16353 3' -56.2 NC_004084.1 + 29151 0.67 0.595502
Target:  5'- gCGCugCCGGGCGUACaaCCUGGuuCGAGCc -3'
miRNA:   3'- aGCG--GGUUCGCAUGa-GGAUCc-GCUCG- -5'
16353 3' -56.2 NC_004084.1 + 43185 0.67 0.593331
Target:  5'- gUCGCCCGAGgagguggacgaugccCGgugagacgccgauCUCCUGGuGCGAGUc -3'
miRNA:   3'- -AGCGGGUUC---------------GCau-----------GAGGAUC-CGCUCG- -5'
16353 3' -56.2 NC_004084.1 + 37559 0.68 0.552408
Target:  5'- aUCGCCgGcGCGgucgACgugccacCCUcGGCGAGCg -3'
miRNA:   3'- -AGCGGgUuCGCa---UGa------GGAuCCGCUCG- -5'
16353 3' -56.2 NC_004084.1 + 13757 0.68 0.541771
Target:  5'- cUCGCCCucGAG-GUcGCg-CUGGGCGGGCu -3'
miRNA:   3'- -AGCGGG--UUCgCA-UGagGAUCCGCUCG- -5'
16353 3' -56.2 NC_004084.1 + 29395 0.68 0.531203
Target:  5'- aCGgUCGGGCGgccACUCCUgGGGCGucGCg -3'
miRNA:   3'- aGCgGGUUCGCa--UGAGGA-UCCGCu-CG- -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.