miRNA display CGI


Results 1 - 20 of 22 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
23457 3' -56.4 NC_005259.1 + 54483 0.66 0.724593
Target:  5'- cAUCCCGcCGAgGGUCAucGGCGGGcaugGCg -3'
miRNA:   3'- -UGGGGCaGCU-CCAGU--UCGUCCaga-UG- -5'
23457 3' -56.4 NC_005259.1 + 10650 0.66 0.724593
Target:  5'- gGCCUCGc---GGUCGAGCGccuugaggauGGUCUGCg -3'
miRNA:   3'- -UGGGGCagcuCCAGUUCGU----------CCAGAUG- -5'
23457 3' -56.4 NC_005259.1 + 55885 0.66 0.714125
Target:  5'- cGCCCCGaccUCgGGGGUCGcGCcgGGGUCgcugGCc -3'
miRNA:   3'- -UGGGGC---AG-CUCCAGUuCG--UCCAGa---UG- -5'
23457 3' -56.4 NC_005259.1 + 40888 0.66 0.70358
Target:  5'- gGCCaCCGUggCGGGGUCG-GCAGcGUCccACg -3'
miRNA:   3'- -UGG-GGCA--GCUCCAGUuCGUC-CAGa-UG- -5'
23457 3' -56.4 NC_005259.1 + 58545 0.66 0.702522
Target:  5'- -gCCCGUCGAGGUUAcggcucgGGC-GGUUggGCc -3'
miRNA:   3'- ugGGGCAGCUCCAGU-------UCGuCCAGa-UG- -5'
23457 3' -56.4 NC_005259.1 + 27529 0.66 0.692968
Target:  5'- cACgCCGUCGAGGcCccacGGCGGGaugUUGCg -3'
miRNA:   3'- -UGgGGCAGCUCCaGu---UCGUCCa--GAUG- -5'
23457 3' -56.4 NC_005259.1 + 52146 0.66 0.682298
Target:  5'- cACCUCGcCGAGG-CAGGCAGcGcCgagGCg -3'
miRNA:   3'- -UGGGGCaGCUCCaGUUCGUC-CaGa--UG- -5'
23457 3' -56.4 NC_005259.1 + 32559 0.67 0.660833
Target:  5'- cGCCCCGgCGAGcgcggggauagcGUUggGCAgcGGUUUACg -3'
miRNA:   3'- -UGGGGCaGCUC------------CAGuuCGU--CCAGAUG- -5'
23457 3' -56.4 NC_005259.1 + 68755 0.67 0.650057
Target:  5'- gACCCCGgCGAccucgccaucGGUguacuUGAGCAGGUCgUACg -3'
miRNA:   3'- -UGGGGCaGCU----------CCA-----GUUCGUCCAG-AUG- -5'
23457 3' -56.4 NC_005259.1 + 16692 0.67 0.628466
Target:  5'- gAUCCUGggcacCGAGGUgaccgcCGAGCAGGUCg-- -3'
miRNA:   3'- -UGGGGCa----GCUCCA------GUUCGUCCAGaug -5'
23457 3' -56.4 NC_005259.1 + 17350 0.67 0.628466
Target:  5'- uCgCCGUCGAGGUCG-GCGGcUCgGCg -3'
miRNA:   3'- uGgGGCAGCUCCAGUuCGUCcAGaUG- -5'
23457 3' -56.4 NC_005259.1 + 2172 0.68 0.606887
Target:  5'- aGCCgCCGguugcCGAGGUCAugggccgcuacGGCAaGGUgCUGCg -3'
miRNA:   3'- -UGG-GGCa----GCUCCAGU-----------UCGU-CCA-GAUG- -5'
23457 3' -56.4 NC_005259.1 + 53606 0.68 0.564047
Target:  5'- -gCUCGUCGGGGUC-AGCAGG-Cg-- -3'
miRNA:   3'- ugGGGCAGCUCCAGuUCGUCCaGaug -5'
23457 3' -56.4 NC_005259.1 + 28229 0.68 0.55345
Target:  5'- cGCCaCCGUCGGcGG-CGGGguGGUCg-- -3'
miRNA:   3'- -UGG-GGCAGCU-CCaGUUCguCCAGaug -5'
23457 3' -56.4 NC_005259.1 + 24899 0.69 0.542913
Target:  5'- --gCCGagGAcGG-CGAGCGGGUCUACa -3'
miRNA:   3'- uggGGCagCU-CCaGUUCGUCCAGAUG- -5'
23457 3' -56.4 NC_005259.1 + 8750 0.69 0.532443
Target:  5'- -gCCCGUCGAGGUCGAGgCccuuGGcCaGCg -3'
miRNA:   3'- ugGGGCAGCUCCAGUUC-Gu---CCaGaUG- -5'
23457 3' -56.4 NC_005259.1 + 29881 0.69 0.51173
Target:  5'- cGCCCgaUGUCGAGGUCGgcaagcacaagGGguGG-CUGCc -3'
miRNA:   3'- -UGGG--GCAGCUCCAGU-----------UCguCCaGAUG- -5'
23457 3' -56.4 NC_005259.1 + 67911 0.7 0.491358
Target:  5'- gUCUCGgCGAGGUCAAGCgcguAGGUCg-- -3'
miRNA:   3'- uGGGGCaGCUCCAGUUCG----UCCAGaug -5'
23457 3' -56.4 NC_005259.1 + 6612 0.71 0.41405
Target:  5'- cACCCCGUCGA--UCAagauugccAGCGGGUCcGCc -3'
miRNA:   3'- -UGGGGCAGCUccAGU--------UCGUCCAGaUG- -5'
23457 3' -56.4 NC_005259.1 + 62832 0.71 0.41405
Target:  5'- -gCCCG-CGAGGUCGAGCGcgcGGUUgACg -3'
miRNA:   3'- ugGGGCaGCUCCAGUUCGU---CCAGaUG- -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.