miRNA display CGI


Results 1 - 20 of 34 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
11478 3' -56.3 NC_003085.1 + 21252 0.66 0.641811
Target:  5'- -gGCCgacaCUGGCGCcaaCUCCGCgaagUCg -3'
miRNA:   3'- ugCGGaa--GACCGCGuuaGAGGCGa---GG- -5'
11478 3' -56.3 NC_003085.1 + 690 0.66 0.630759
Target:  5'- aGCGCCgccagUCgccacGGgGCAA-CUCCGCguggcgCCu -3'
miRNA:   3'- -UGCGGa----AGa----CCgCGUUaGAGGCGa-----GG- -5'
11478 3' -56.3 NC_003085.1 + 9792 0.66 0.630759
Target:  5'- aGCGCCUgcugCUGcucaCGCGcgCgCCGCUCg -3'
miRNA:   3'- -UGCGGAa---GACc---GCGUuaGaGGCGAGg -5'
11478 3' -56.3 NC_003085.1 + 36971 0.66 0.630759
Target:  5'- -gGCCaugUUGGCGCcg-CUUCGaCUCCa -3'
miRNA:   3'- ugCGGaa-GACCGCGuuaGAGGC-GAGG- -5'
11478 3' -56.3 NC_003085.1 + 21408 0.66 0.619708
Target:  5'- cUGCa--CUGGCGUGAaggcgCUCgGCUCCg -3'
miRNA:   3'- uGCGgaaGACCGCGUUa----GAGgCGAGG- -5'
11478 3' -56.3 NC_003085.1 + 11379 0.66 0.619708
Target:  5'- gGCGCCggacacCUGcGCuGCcGUCUCCGCgacgcaCCa -3'
miRNA:   3'- -UGCGGaa----GAC-CG-CGuUAGAGGCGa-----GG- -5'
11478 3' -56.3 NC_003085.1 + 8743 0.66 0.619708
Target:  5'- cGCGCCUUCgUGGC-CAAg--CgGCUCg -3'
miRNA:   3'- -UGCGGAAG-ACCGcGUUagaGgCGAGg -5'
11478 3' -56.3 NC_003085.1 + 404 0.66 0.619708
Target:  5'- aGCGCCUgcgcuccCUGGaCGcCAGUCUcggCCGCgUCUa -3'
miRNA:   3'- -UGCGGAa------GACC-GC-GUUAGA---GGCG-AGG- -5'
11478 3' -56.3 NC_003085.1 + 27747 0.66 0.619708
Target:  5'- cCGCCUUCaGGCGCugGAUgUCCGaggCg -3'
miRNA:   3'- uGCGGAAGaCCGCG--UUAgAGGCga-Gg -5'
11478 3' -56.3 NC_003085.1 + 18989 0.66 0.618604
Target:  5'- aACGCCUUCguccGGUGCAucGUCgggcCCGUugguagcggcaagUCCu -3'
miRNA:   3'- -UGCGGAAGa---CCGCGU--UAGa---GGCG-------------AGG- -5'
11478 3' -56.3 NC_003085.1 + 35503 0.66 0.608668
Target:  5'- gGCG-CUUCgGGCcCAGUCcgaCGCUCCg -3'
miRNA:   3'- -UGCgGAAGaCCGcGUUAGag-GCGAGG- -5'
11478 3' -56.3 NC_003085.1 + 11118 0.66 0.608668
Target:  5'- cCGCCUUCguuggGGCGCGcgucGUCUCuCGgaugugCCg -3'
miRNA:   3'- uGCGGAAGa----CCGCGU----UAGAG-GCga----GG- -5'
11478 3' -56.3 NC_003085.1 + 31539 0.66 0.607565
Target:  5'- aGCGCCgcgCUgGGCGCAggcacccGUCUacgaCGCagUCCa -3'
miRNA:   3'- -UGCGGaa-GA-CCGCGU-------UAGAg---GCG--AGG- -5'
11478 3' -56.3 NC_003085.1 + 20056 0.66 0.597648
Target:  5'- cGCGCCcucCUGGaGCGGgacaUCCGCUuCCa -3'
miRNA:   3'- -UGCGGaa-GACCgCGUUag--AGGCGA-GG- -5'
11478 3' -56.3 NC_003085.1 + 17287 0.66 0.586658
Target:  5'- cGCGCCaccaCUGGCGCAGcCUggCCGacgCCg -3'
miRNA:   3'- -UGCGGaa--GACCGCGUUaGA--GGCga-GG- -5'
11478 3' -56.3 NC_003085.1 + 46732 0.66 0.586658
Target:  5'- aGCGCCUUC--GCGCGcgCUgccagCCGC-CCg -3'
miRNA:   3'- -UGCGGAAGacCGCGUuaGA-----GGCGaGG- -5'
11478 3' -56.3 NC_003085.1 + 11676 0.67 0.564802
Target:  5'- cGCGCCga-UGGCGaggauguugaCGGUCUUCGCUguaCCa -3'
miRNA:   3'- -UGCGGaagACCGC----------GUUAGAGGCGA---GG- -5'
11478 3' -56.3 NC_003085.1 + 44958 0.67 0.553952
Target:  5'- aACGCCUcgUUGGCcCAGUCgccagCgCGCUUCg -3'
miRNA:   3'- -UGCGGAa-GACCGcGUUAGa----G-GCGAGG- -5'
11478 3' -56.3 NC_003085.1 + 27418 0.67 0.536725
Target:  5'- cACGCCUUCgaUGGUGCug-CUgCCacgcaggccagagacGCUCCa -3'
miRNA:   3'- -UGCGGAAG--ACCGCGuuaGA-GG---------------CGAGG- -5'
11478 3' -56.3 NC_003085.1 + 5940 0.68 0.500782
Target:  5'- cCGCCUUC-GGCGCcGUUcCCG-UCCa -3'
miRNA:   3'- uGCGGAAGaCCGCGuUAGaGGCgAGG- -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.