miRNA display CGI


Results 1 - 20 of 64 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
1537 3' -62.9 NC_001347.2 + 229257 1.1 0.000985
Target:  5'- cACCCCCCGUCUCCGCAACACCCCGGCa -3'
miRNA:   3'- -UGGGGGGCAGAGGCGUUGUGGGGCCG- -5'
1537 3' -62.9 NC_001347.2 + 190651 0.75 0.249878
Target:  5'- aACUCCaCCGUCUgCCGCGguuGCACCCCGa- -3'
miRNA:   3'- -UGGGG-GGCAGA-GGCGU---UGUGGGGCcg -5'
1537 3' -62.9 NC_001347.2 + 85994 0.74 0.284966
Target:  5'- cACCCgaaCCGUCcgccgCCGCGGCG-CCCGGCa -3'
miRNA:   3'- -UGGGg--GGCAGa----GGCGUUGUgGGGCCG- -5'
1537 3' -62.9 NC_001347.2 + 189756 0.74 0.284966
Target:  5'- cCCCCCCGUCUCCGguGaaagGCCggGGCa -3'
miRNA:   3'- uGGGGGGCAGAGGCguUg---UGGggCCG- -5'
1537 3' -62.9 NC_001347.2 + 40314 0.74 0.287438
Target:  5'- cACCCCCgacacacccaacacaCG-C-CCGCGACACaCCCGGCa -3'
miRNA:   3'- -UGGGGG---------------GCaGaGGCGUUGUG-GGGCCG- -5'
1537 3' -62.9 NC_001347.2 + 40233 0.73 0.323831
Target:  5'- cACCCgCCacacgC-CCGCGACACaCCCGGCa -3'
miRNA:   3'- -UGGGgGGca---GaGGCGUUGUG-GGGCCG- -5'
1537 3' -62.9 NC_001347.2 + 38401 0.73 0.323831
Target:  5'- -gCCUCCGUCUCCGUgccgcuCGCCgCUGGCg -3'
miRNA:   3'- ugGGGGGCAGAGGCGuu----GUGG-GGCCG- -5'
1537 3' -62.9 NC_001347.2 + 178843 0.73 0.33068
Target:  5'- cCCCCCCGUcCUCUGU--CGUCCCGGCc -3'
miRNA:   3'- uGGGGGGCA-GAGGCGuuGUGGGGCCG- -5'
1537 3' -62.9 NC_001347.2 + 197140 0.72 0.389257
Target:  5'- gGCCCgCCGUCgUCGC--CGCCCCGGg -3'
miRNA:   3'- -UGGGgGGCAGaGGCGuuGUGGGGCCg -5'
1537 3' -62.9 NC_001347.2 + 34187 0.72 0.412909
Target:  5'- cACCUgUCGUCgacaugUCGCGACACCCgGGUc -3'
miRNA:   3'- -UGGGgGGCAGa-----GGCGUUGUGGGgCCG- -5'
1537 3' -62.9 NC_001347.2 + 192467 0.71 0.445784
Target:  5'- cGCCUCCCG-CUCacaacgcgUGCAACACcugcgcgaggCCCGGCg -3'
miRNA:   3'- -UGGGGGGCaGAG--------GCGUUGUG----------GGGCCG- -5'
1537 3' -62.9 NC_001347.2 + 109460 0.71 0.462761
Target:  5'- cGCCCCgCGUCaccggCgGCGGCGCCauGGCg -3'
miRNA:   3'- -UGGGGgGCAGa----GgCGUUGUGGggCCG- -5'
1537 3' -62.9 NC_001347.2 + 116872 0.7 0.488844
Target:  5'- aGCCCUCC-UCUUCGCcgcccgcGCGCCCCccgGGCa -3'
miRNA:   3'- -UGGGGGGcAGAGGCGu------UGUGGGG---CCG- -5'
1537 3' -62.9 NC_001347.2 + 136480 0.69 0.533753
Target:  5'- gACCCuCCCG-CgggcccuggcCCGCGcauGCGCCCCGGg -3'
miRNA:   3'- -UGGG-GGGCaGa---------GGCGU---UGUGGGGCCg -5'
1537 3' -62.9 NC_001347.2 + 156898 0.69 0.533753
Target:  5'- cAUCCgCCGUCUCCGCcguGCGCgCCGu- -3'
miRNA:   3'- -UGGGgGGCAGAGGCGu--UGUGgGGCcg -5'
1537 3' -62.9 NC_001347.2 + 192173 0.69 0.542918
Target:  5'- uUCCgCCGUCUCCGgAugaGCGgCCgCGGCg -3'
miRNA:   3'- uGGGgGGCAGAGGCgU---UGUgGG-GCCG- -5'
1537 3' -62.9 NC_001347.2 + 24653 0.69 0.552134
Target:  5'- gGCCUCCUGg---CGC-ACAUCCCGGCg -3'
miRNA:   3'- -UGGGGGGCagagGCGuUGUGGGGCCG- -5'
1537 3' -62.9 NC_001347.2 + 136529 0.69 0.552134
Target:  5'- cACCCCUCcuuauauauagGUUUUCcauGCGGCAuCCCCGGCg -3'
miRNA:   3'- -UGGGGGG-----------CAGAGG---CGUUGU-GGGGCCG- -5'
1537 3' -62.9 NC_001347.2 + 66202 0.69 0.552134
Target:  5'- uGCCaCCCGUCgCCGCGcaACACCaCCcGCg -3'
miRNA:   3'- -UGGgGGGCAGaGGCGU--UGUGG-GGcCG- -5'
1537 3' -62.9 NC_001347.2 + 2080 0.69 0.552134
Target:  5'- -aCCUgUGcCUCCGCAgccguacgGCGCCgCCGGCg -3'
miRNA:   3'- ugGGGgGCaGAGGCGU--------UGUGG-GGCCG- -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.