miRNA display CGI


Results 1 - 20 of 25 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
12512 3' -54.4 NC_003345.1 + 7064 1.11 0.001209
Target:  5'- gGACUUGAGCCACACCGAGAGACAGCCu -3'
miRNA:   3'- -CUGAACUCGGUGUGGCUCUCUGUCGG- -5'
12512 3' -54.4 NC_003345.1 + 34391 0.76 0.317463
Target:  5'- uGACgUUGAcGCCGCgAUUGAGGGACAGUCg -3'
miRNA:   3'- -CUG-AACU-CGGUG-UGGCUCUCUGUCGG- -5'
12512 3' -54.4 NC_003345.1 + 4904 0.74 0.401338
Target:  5'- cGACgaGAGCgAUACCGAGAGuggaaGCGGCg -3'
miRNA:   3'- -CUGaaCUCGgUGUGGCUCUC-----UGUCGg -5'
12512 3' -54.4 NC_003345.1 + 59036 0.74 0.401338
Target:  5'- cGACaaaGAGCUACgACgCGAGGGACAGCa -3'
miRNA:   3'- -CUGaa-CUCGGUG-UG-GCUCUCUGUCGg -5'
12512 3' -54.4 NC_003345.1 + 19755 0.72 0.487856
Target:  5'- -cCUUGAGCCGCGCC-AGcGGCGGUUa -3'
miRNA:   3'- cuGAACUCGGUGUGGcUCuCUGUCGG- -5'
12512 3' -54.4 NC_003345.1 + 34010 0.71 0.53955
Target:  5'- cGACaUucGCCGCAucauCCGAGAGGgAGCCg -3'
miRNA:   3'- -CUGaAcuCGGUGU----GGCUCUCUgUCGG- -5'
12512 3' -54.4 NC_003345.1 + 6390 0.71 0.529047
Target:  5'- -cUUUGAGCCGC-CaCGAGAGGCGuGCUu -3'
miRNA:   3'- cuGAACUCGGUGuG-GCUCUCUGU-CGG- -5'
12512 3' -54.4 NC_003345.1 + 288 0.7 0.603784
Target:  5'- gGGCagGGGCCGaccggcCCGAGAGACGGgCa -3'
miRNA:   3'- -CUGaaCUCGGUgu----GGCUCUCUGUCgG- -5'
12512 3' -54.4 NC_003345.1 + 77575 0.7 0.603784
Target:  5'- gGGCagGGGCCGaccggcCCGAGAGACGGgCa -3'
miRNA:   3'- -CUGaaCUCGGUgu----GGCUCUCUGUCgG- -5'
12512 3' -54.4 NC_003345.1 + 33062 0.69 0.67962
Target:  5'- ----aGGGCUACGCCGGGccGACcGCCa -3'
miRNA:   3'- cugaaCUCGGUGUGGCUCu-CUGuCGG- -5'
12512 3' -54.4 NC_003345.1 + 77175 0.68 0.699977
Target:  5'- gGGCUUGAGUgccugaaCGCAUCGAGGGugGuGUCc -3'
miRNA:   3'- -CUGAACUCG-------GUGUGGCUCUCugU-CGG- -5'
12512 3' -54.4 NC_003345.1 + 63205 0.68 0.711662
Target:  5'- gGGgUUGAcguagaccucGCCAgCGCCGGGAGuCAGCUc -3'
miRNA:   3'- -CUgAACU----------CGGU-GUGGCUCUCuGUCGG- -5'
12512 3' -54.4 NC_003345.1 + 50403 0.67 0.763397
Target:  5'- -uCUUcGAGCCACACgGGGAGuaGGUCu -3'
miRNA:   3'- cuGAA-CUCGGUGUGgCUCUCugUCGG- -5'
12512 3' -54.4 NC_003345.1 + 30700 0.67 0.784227
Target:  5'- -uCUUGAGCCGggaguccgacucggaACCGAGAGggaacGCGGUCg -3'
miRNA:   3'- cuGAACUCGGUg--------------UGGCUCUC-----UGUCGG- -5'
12512 3' -54.4 NC_003345.1 + 26298 0.67 0.802492
Target:  5'- ----aGAGCCACGucagCGGGAGACuGUCa -3'
miRNA:   3'- cugaaCUCGGUGUg---GCUCUCUGuCGG- -5'
12512 3' -54.4 NC_003345.1 + 364 0.66 0.811859
Target:  5'- -----cGGCC-CAuuagaaucCCGAGAGACGGCCc -3'
miRNA:   3'- cugaacUCGGuGU--------GGCUCUCUGUCGG- -5'
12512 3' -54.4 NC_003345.1 + 22022 0.66 0.838817
Target:  5'- ----cGAGUCuuuACACCGAGguAGAgAGCCu -3'
miRNA:   3'- cugaaCUCGG---UGUGGCUC--UCUgUCGG- -5'
12512 3' -54.4 NC_003345.1 + 38537 0.66 0.838817
Target:  5'- aACUUGGuaaucgaCGCAUCGAGGGuuuCGGCCa -3'
miRNA:   3'- cUGAACUcg-----GUGUGGCUCUCu--GUCGG- -5'
12512 3' -54.4 NC_003345.1 + 33636 0.66 0.847393
Target:  5'- cGACUcGAaCUAUAUCGAGuuuGACAGCUc -3'
miRNA:   3'- -CUGAaCUcGGUGUGGCUCu--CUGUCGG- -5'
12512 3' -54.4 NC_003345.1 + 32479 0.66 0.829141
Target:  5'- cGAUgcggUGAGCCAC-CCGAGcGACcucggacucgauaAGCUc -3'
miRNA:   3'- -CUGa---ACUCGGUGuGGCUCuCUG-------------UCGG- -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.