miRNA display CGI


Results 1 - 11 of 11 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
21125 3' -57.9 NC_004775.1 + 39263 0.66 0.482679
Target:  5'- aGCAGCGCagcGUGCgCgGCAguacgCCGCCGGu -3'
miRNA:   3'- -CGUCGCGgguCAUG-G-CGUa----GGUGGUC- -5'
21125 3' -57.9 NC_004775.1 + 16383 0.66 0.46227
Target:  5'- gGCGGCGCgCGaUAUgGCGaCCACCAa -3'
miRNA:   3'- -CGUCGCGgGUcAUGgCGUaGGUGGUc -5'
21125 3' -57.9 NC_004775.1 + 1657 0.67 0.432536
Target:  5'- uGCAGCcccuGCCgCAGguauauaACCGCAUCauccaCGCCGGa -3'
miRNA:   3'- -CGUCG----CGG-GUCa------UGGCGUAG-----GUGGUC- -5'
21125 3' -57.9 NC_004775.1 + 33576 0.68 0.33383
Target:  5'- uGCGGCGCCCGGUcaGgUGCGUCUggauguaaugACUGGu -3'
miRNA:   3'- -CGUCGCGGGUCA--UgGCGUAGG----------UGGUC- -5'
21125 3' -57.9 NC_004775.1 + 3043 0.69 0.302266
Target:  5'- gGCAGCaaGCCauCAGUGCCaGCAg-CGCCAGa -3'
miRNA:   3'- -CGUCG--CGG--GUCAUGG-CGUagGUGGUC- -5'
21125 3' -57.9 NC_004775.1 + 26440 0.7 0.280137
Target:  5'- uCGGCGCUgGGUcgucaGCCGCAgaCACCGGa -3'
miRNA:   3'- cGUCGCGGgUCA-----UGGCGUagGUGGUC- -5'
21125 3' -57.9 NC_004775.1 + 27849 0.7 0.259315
Target:  5'- aGUAGCGCCCAG-GCaaaagGUAuucacuUCCACCAGc -3'
miRNA:   3'- -CGUCGCGGGUCaUGg----CGU------AGGUGGUC- -5'
21125 3' -57.9 NC_004775.1 + 29569 0.73 0.164307
Target:  5'- -gAGCGUgaaucgaaaggCCAGUACCGCAUCgCgGCCAGa -3'
miRNA:   3'- cgUCGCG-----------GGUCAUGGCGUAG-G-UGGUC- -5'
21125 3' -57.9 NC_004775.1 + 9618 0.75 0.120753
Target:  5'- aGCAGCGCCUguacuuUGCUGCGUCUACCGc -3'
miRNA:   3'- -CGUCGCGGGuc----AUGGCGUAGGUGGUc -5'
21125 3' -57.9 NC_004775.1 + 1523 0.76 0.104726
Target:  5'- cGCGGCGCa-GGUAgCGCAUgCACCAGu -3'
miRNA:   3'- -CGUCGCGggUCAUgGCGUAgGUGGUC- -5'
21125 3' -57.9 NC_004775.1 + 15442 1.09 0.000322
Target:  5'- gGCAGCGCCCAGUACCGCAUCCACCAGc -3'
miRNA:   3'- -CGUCGCGGGUCAUGGCGUAGGUGGUC- -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.