miRNA display CGI


Results 1 - 20 of 53 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
11953 5' -55.5 NC_003278.1 + 20481 0.66 0.589693
Target:  5'- --aCAUCGCCGGgCaGUACgCGGUgACCAg -3'
miRNA:   3'- gugGUAGCGGUCgG-CAUG-GCUA-UGGU- -5'
11953 5' -55.5 NC_003278.1 + 13162 0.66 0.589693
Target:  5'- -cCCAUCGCCuGCCGUugUcguggugacGGUGCa- -3'
miRNA:   3'- guGGUAGCGGuCGGCAugG---------CUAUGgu -5'
11953 5' -55.5 NC_003278.1 + 34582 0.66 0.589693
Target:  5'- aCACCuUCGCCAGCCa----GAUGCuCAg -3'
miRNA:   3'- -GUGGuAGCGGUCGGcauggCUAUG-GU- -5'
11953 5' -55.5 NC_003278.1 + 22871 0.66 0.578427
Target:  5'- cCGCCAgCGCCGGCgCGagcACCGGcuucagguuguUGCCGa -3'
miRNA:   3'- -GUGGUaGCGGUCG-GCa--UGGCU-----------AUGGU- -5'
11953 5' -55.5 NC_003278.1 + 21990 0.66 0.578427
Target:  5'- aCGCCAgcaG-CAGCCGcAUCGGUGCCc -3'
miRNA:   3'- -GUGGUag-CgGUCGGCaUGGCUAUGGu -5'
11953 5' -55.5 NC_003278.1 + 10324 0.66 0.578427
Target:  5'- gGCCAUCGa-GGUCGauggGCCGAUGCa- -3'
miRNA:   3'- gUGGUAGCggUCGGCa---UGGCUAUGgu -5'
11953 5' -55.5 NC_003278.1 + 20340 0.66 0.578427
Target:  5'- gGCCAUgcugcccuggaCGCCAGCguUGCCGAgcaggGCCGu -3'
miRNA:   3'- gUGGUA-----------GCGGUCGgcAUGGCUa----UGGU- -5'
11953 5' -55.5 NC_003278.1 + 13265 0.66 0.567207
Target:  5'- gACCGUCGCC--CCGUcGCUGAUcGCCu -3'
miRNA:   3'- gUGGUAGCGGucGGCA-UGGCUA-UGGu -5'
11953 5' -55.5 NC_003278.1 + 16800 0.66 0.556044
Target:  5'- aCACCG--GCCGGCCGcACCGG-ACUg -3'
miRNA:   3'- -GUGGUagCGGUCGGCaUGGCUaUGGu -5'
11953 5' -55.5 NC_003278.1 + 23403 0.66 0.556044
Target:  5'- cCGCCGUCGgCgcugaGGCUGUGCUGcacauugccgccGUACCAg -3'
miRNA:   3'- -GUGGUAGCgG-----UCGGCAUGGC------------UAUGGU- -5'
11953 5' -55.5 NC_003278.1 + 17014 0.66 0.544946
Target:  5'- gCACCAUCGCCA-CCGcgaucaucgGCCuGGUAgCCAc -3'
miRNA:   3'- -GUGGUAGCGGUcGGCa--------UGG-CUAU-GGU- -5'
11953 5' -55.5 NC_003278.1 + 32258 0.67 0.533919
Target:  5'- gCGCCGUCGgcgacauccUCGGCCGcaUGCCGcUGCCc -3'
miRNA:   3'- -GUGGUAGC---------GGUCGGC--AUGGCuAUGGu -5'
11953 5' -55.5 NC_003278.1 + 3474 0.67 0.533919
Target:  5'- aCAagGUCGCCAGCgGUAUggCGAUGCa- -3'
miRNA:   3'- -GUggUAGCGGUCGgCAUG--GCUAUGgu -5'
11953 5' -55.5 NC_003278.1 + 12682 0.67 0.522974
Target:  5'- uCGCCAUCGaccuCAGCCaguUGCCGccACCAc -3'
miRNA:   3'- -GUGGUAGCg---GUCGGc--AUGGCuaUGGU- -5'
11953 5' -55.5 NC_003278.1 + 21056 0.67 0.522974
Target:  5'- cCGCCGUCguggcgguGCUGGCCGgcGCCGcGUACCu -3'
miRNA:   3'- -GUGGUAG--------CGGUCGGCa-UGGC-UAUGGu -5'
11953 5' -55.5 NC_003278.1 + 16728 0.67 0.512116
Target:  5'- gUACCAggCGCugCAGgCGUACCGccGCCAa -3'
miRNA:   3'- -GUGGUa-GCG--GUCgGCAUGGCuaUGGU- -5'
11953 5' -55.5 NC_003278.1 + 7355 0.67 0.512116
Target:  5'- uGCCAcCGCC-GCCGaagugGCCGAgcgcUACCGc -3'
miRNA:   3'- gUGGUaGCGGuCGGCa----UGGCU----AUGGU- -5'
11953 5' -55.5 NC_003278.1 + 33044 0.67 0.501351
Target:  5'- gACCGUUGUCGuGCCGcgcacugGCCGAcACCGc -3'
miRNA:   3'- gUGGUAGCGGU-CGGCa------UGGCUaUGGU- -5'
11953 5' -55.5 NC_003278.1 + 21446 0.67 0.501351
Target:  5'- uCACCAUgGCCGGCCugGCCcaggGCCu -3'
miRNA:   3'- -GUGGUAgCGGUCGGcaUGGcua-UGGu -5'
11953 5' -55.5 NC_003278.1 + 8501 0.67 0.480131
Target:  5'- cCAUCGUCGCCAcccuGCUGUGCC--UGCUg -3'
miRNA:   3'- -GUGGUAGCGGU----CGGCAUGGcuAUGGu -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.