miRNA display CGI


Results 1 - 20 of 60 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
26838 3' -50.2 NC_005809.1 + 1460 0.78 0.291214
Target:  5'- gACGGCGCgg-UCGGcGGCCUccugGCAGGCCg -3'
miRNA:   3'- -UGCUGCGauaAGUU-CUGGA----CGUUCGG- -5'
26838 3' -50.2 NC_005809.1 + 2051 0.71 0.636809
Target:  5'- gGCGACGauggAUUCAAgGGCCUGU-AGCUu -3'
miRNA:   3'- -UGCUGCga--UAAGUU-CUGGACGuUCGG- -5'
26838 3' -50.2 NC_005809.1 + 2113 0.67 0.860906
Target:  5'- aAUGACGCUGcUUCAAuucauCgUGCAgcAGCCg -3'
miRNA:   3'- -UGCUGCGAU-AAGUUcu---GgACGU--UCGG- -5'
26838 3' -50.2 NC_005809.1 + 6224 0.67 0.842961
Target:  5'- uGCGuuuUGCcuucggcCAGGGCCUGCAcGCCg -3'
miRNA:   3'- -UGCu--GCGauaa---GUUCUGGACGUuCGG- -5'
26838 3' -50.2 NC_005809.1 + 7194 0.67 0.851165
Target:  5'- gGCGACGCUGggcuugccaUCGgacugcgugaugaAGcCCUGCAacuucGGCCa -3'
miRNA:   3'- -UGCUGCGAUa--------AGU-------------UCuGGACGU-----UCGG- -5'
26838 3' -50.2 NC_005809.1 + 7545 0.68 0.793936
Target:  5'- gGCGGCGUg---CucGAUCUGCGGcGCCa -3'
miRNA:   3'- -UGCUGCGauaaGuuCUGGACGUU-CGG- -5'
26838 3' -50.2 NC_005809.1 + 8452 0.72 0.555597
Target:  5'- cGCGAUGUcggcgUCGAGgugGCCUGCGAuGCCg -3'
miRNA:   3'- -UGCUGCGaua--AGUUC---UGGACGUU-CGG- -5'
26838 3' -50.2 NC_005809.1 + 9455 0.66 0.877776
Target:  5'- cACGGCGacAUUCAGGGCCUuggguucauggGCGaggauguaGGCCg -3'
miRNA:   3'- -UGCUGCgaUAAGUUCUGGA-----------CGU--------UCGG- -5'
26838 3' -50.2 NC_005809.1 + 9537 0.69 0.727876
Target:  5'- uGCGGCcCUGUUCGGccagugcGAUCUGCucGCCg -3'
miRNA:   3'- -UGCUGcGAUAAGUU-------CUGGACGuuCGG- -5'
26838 3' -50.2 NC_005809.1 + 9617 0.71 0.648481
Target:  5'- uCGACGU---UCAGGGCCUuCAAGUCg -3'
miRNA:   3'- uGCUGCGauaAGUUCUGGAcGUUCGG- -5'
26838 3' -50.2 NC_005809.1 + 11040 0.66 0.881015
Target:  5'- -aGGCGCUGUUuccacggcaacacagCGAGGCCcagcaGCAcGCCg -3'
miRNA:   3'- ugCUGCGAUAA---------------GUUCUGGa----CGUuCGG- -5'
26838 3' -50.2 NC_005809.1 + 11273 0.67 0.82402
Target:  5'- uGCGGCGCUGggacgCucGGCCagGUAGGCg -3'
miRNA:   3'- -UGCUGCGAUaa---GuuCUGGa-CGUUCGg -5'
26838 3' -50.2 NC_005809.1 + 11514 0.72 0.590187
Target:  5'- aGCGccuGCGCUGgcgUGAGGcCCUGCGAGCg -3'
miRNA:   3'- -UGC---UGCGAUaa-GUUCU-GGACGUUCGg -5'
26838 3' -50.2 NC_005809.1 + 12682 0.69 0.717716
Target:  5'- -aGGCGCgugUCGAGGCCcGCcuugauAGCCu -3'
miRNA:   3'- ugCUGCGauaAGUUCUGGaCGu-----UCGG- -5'
26838 3' -50.2 NC_005809.1 + 13228 0.69 0.729
Target:  5'- cCGGCGCgugGUUCGAGgacuugGCCgGCGAccGCCa -3'
miRNA:   3'- uGCUGCGa--UAAGUUC------UGGaCGUU--CGG- -5'
26838 3' -50.2 NC_005809.1 + 13766 0.67 0.83361
Target:  5'- gACGGCGCgcuggcugcUCAAGAUCggcaaccaggGCAAGCg -3'
miRNA:   3'- -UGCUGCGaua------AGUUCUGGa---------CGUUCGg -5'
26838 3' -50.2 NC_005809.1 + 14414 0.7 0.683347
Target:  5'- aACGGCGUgg-UCGAucuGACCaccgGCAAGCUg -3'
miRNA:   3'- -UGCUGCGauaAGUU---CUGGa---CGUUCGG- -5'
26838 3' -50.2 NC_005809.1 + 15115 0.73 0.532863
Target:  5'- cGCGGCGCgcuggCAuaccagcgccaGGGCCUGC-GGCCg -3'
miRNA:   3'- -UGCUGCGauaa-GU-----------UCUGGACGuUCGG- -5'
26838 3' -50.2 NC_005809.1 + 15209 0.66 0.893506
Target:  5'- cCGAaugGCUGgaCGAGugCUGCGaggucGGCCc -3'
miRNA:   3'- uGCUg--CGAUaaGUUCugGACGU-----UCGG- -5'
26838 3' -50.2 NC_005809.1 + 16253 0.67 0.860906
Target:  5'- cGCGguGCGCg--UCAAGACCgUGCcuGUCc -3'
miRNA:   3'- -UGC--UGCGauaAGUUCUGG-ACGuuCGG- -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.