miRNA display CGI


Results 1 - 20 of 24 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
23611 3' -55.7 NC_005261.1 + 59755 0.66 0.901111
Target:  5'- cUCcaCCAGGcaggccUCCAUGUGCUCgGcCGCa -3'
miRNA:   3'- cAGcaGGUCC------AGGUACACGAGgU-GUG- -5'
23611 3' -55.7 NC_005261.1 + 4176 0.66 0.894525
Target:  5'- --gGUCCGGGcCCGcGaGCUUCGCGCu -3'
miRNA:   3'- cagCAGGUCCaGGUaCaCGAGGUGUG- -5'
23611 3' -55.7 NC_005261.1 + 81695 0.66 0.893853
Target:  5'- -cCGUCCGGG-CCcgGcGCcguucggUCCGCGCg -3'
miRNA:   3'- caGCAGGUCCaGGuaCaCG-------AGGUGUG- -5'
23611 3' -55.7 NC_005261.1 + 33284 0.66 0.887702
Target:  5'- -cCGUCCcGGUCCGUGgGCaccCCGuCGCg -3'
miRNA:   3'- caGCAGGuCCAGGUACaCGa--GGU-GUG- -5'
23611 3' -55.7 NC_005261.1 + 84328 0.66 0.887702
Target:  5'- -gCGUCCGGGgCCGc--GCUCgCGCACg -3'
miRNA:   3'- caGCAGGUCCaGGUacaCGAG-GUGUG- -5'
23611 3' -55.7 NC_005261.1 + 57829 0.66 0.873364
Target:  5'- ------gGGGUCCAcGUGCUCCGCGg -3'
miRNA:   3'- cagcaggUCCAGGUaCACGAGGUGUg -5'
23611 3' -55.7 NC_005261.1 + 80840 0.66 0.873364
Target:  5'- cUCGUCCG---UCGUGUGCcagCCGCGCa -3'
miRNA:   3'- cAGCAGGUccaGGUACACGa--GGUGUG- -5'
23611 3' -55.7 NC_005261.1 + 85639 0.67 0.858134
Target:  5'- cGUUGagCAGGUCCAUGaaGCgccgCCGCAg -3'
miRNA:   3'- -CAGCagGUCCAGGUACa-CGa---GGUGUg -5'
23611 3' -55.7 NC_005261.1 + 92062 0.67 0.825202
Target:  5'- --aGUCCAGGUCCcgGUagaacagcacacGCgcgUCGCGCa -3'
miRNA:   3'- cagCAGGUCCAGGuaCA------------CGa--GGUGUG- -5'
23611 3' -55.7 NC_005261.1 + 63714 0.68 0.798576
Target:  5'- uGUUGcCCAGGUCCGUGagcgGCgUgCGCAUg -3'
miRNA:   3'- -CAGCaGGUCCAGGUACa---CG-AgGUGUG- -5'
23611 3' -55.7 NC_005261.1 + 89316 0.68 0.789379
Target:  5'- cGUCGUCCAGaUCuCGUGUcugacguacucGCUgCGCACu -3'
miRNA:   3'- -CAGCAGGUCcAG-GUACA-----------CGAgGUGUG- -5'
23611 3' -55.7 NC_005261.1 + 24419 0.68 0.774362
Target:  5'- cUCGgaUCCucgguugcGGUCCgcggcgauggacgagGUGUGCUCCGCGCu -3'
miRNA:   3'- cAGC--AGGu-------CCAGG---------------UACACGAGGUGUG- -5'
23611 3' -55.7 NC_005261.1 + 125009 0.69 0.751221
Target:  5'- --gGUCCGGG-CCGUGcGCUCCAgCAg -3'
miRNA:   3'- cagCAGGUCCaGGUACaCGAGGU-GUg -5'
23611 3' -55.7 NC_005261.1 + 116353 0.69 0.741387
Target:  5'- -cCGUgCGGGUUCGUccGUGCcgCCGCGCg -3'
miRNA:   3'- caGCAgGUCCAGGUA--CACGa-GGUGUG- -5'
23611 3' -55.7 NC_005261.1 + 79410 0.69 0.731454
Target:  5'- aGUCGagCAGGcCCGUGUcggcgaGCUCgGCGCg -3'
miRNA:   3'- -CAGCagGUCCaGGUACA------CGAGgUGUG- -5'
23611 3' -55.7 NC_005261.1 + 37502 0.69 0.729457
Target:  5'- -cCGUCCAGGUCCuUGagaacgccuucgGCcugCCGCACg -3'
miRNA:   3'- caGCAGGUCCAGGuACa-----------CGa--GGUGUG- -5'
23611 3' -55.7 NC_005261.1 + 18065 0.71 0.628815
Target:  5'- aGUCGUCCAGGcCCA---GCUCUGCGg -3'
miRNA:   3'- -CAGCAGGUCCaGGUacaCGAGGUGUg -5'
23611 3' -55.7 NC_005261.1 + 115554 0.71 0.597674
Target:  5'- --gGUgCAGGUCCGUGUgGCagCACACg -3'
miRNA:   3'- cagCAgGUCCAGGUACA-CGagGUGUG- -5'
23611 3' -55.7 NC_005261.1 + 119688 0.72 0.577031
Target:  5'- cGUCGg-CAGGUCCc---GCUCCACGCg -3'
miRNA:   3'- -CAGCagGUCCAGGuacaCGAGGUGUG- -5'
23611 3' -55.7 NC_005261.1 + 103334 0.74 0.467697
Target:  5'- -gCGUCCAGGcgCCGguacaGCUCCGCGCg -3'
miRNA:   3'- caGCAGGUCCa-GGUaca--CGAGGUGUG- -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.