miRNA display CGI


Results 1 - 18 of 18 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
28349 5' -54.4 NC_005946.1 + 35938 0.66 0.928203
Target:  5'- gCCGcCGcCAGGGCCCUCGcaGCGggaCGUUu -3'
miRNA:   3'- -GGCuGCcGUUCUGGGAGU--UGCa--GCAG- -5'
28349 5' -54.4 NC_005946.1 + 100931 0.66 0.922711
Target:  5'- gCCGcCGGCAgAGACCCagcagaggaCAGCGU-GUCc -3'
miRNA:   3'- -GGCuGCCGU-UCUGGGa--------GUUGCAgCAG- -5'
28349 5' -54.4 NC_005946.1 + 62876 0.66 0.916969
Target:  5'- aCCucAUGGCucGACCCUgAACGU-GUCa -3'
miRNA:   3'- -GGc-UGCCGuuCUGGGAgUUGCAgCAG- -5'
28349 5' -54.4 NC_005946.1 + 45997 0.66 0.916969
Target:  5'- cCCGACaGCcuugucaaagaAGGGCaCCUUGGCGUCGg- -3'
miRNA:   3'- -GGCUGcCG-----------UUCUG-GGAGUUGCAGCag -5'
28349 5' -54.4 NC_005946.1 + 65016 0.66 0.916969
Target:  5'- uUGACGccGCugagacuGGACCCg--GCGUCGUCa -3'
miRNA:   3'- gGCUGC--CGu------UCUGGGaguUGCAGCAG- -5'
28349 5' -54.4 NC_005946.1 + 51757 0.67 0.891547
Target:  5'- aCCGuCGG--AGGCCCUCcAACGUgacaGUCa -3'
miRNA:   3'- -GGCuGCCguUCUGGGAG-UUGCAg---CAG- -5'
28349 5' -54.4 NC_005946.1 + 22144 0.67 0.869984
Target:  5'- gCCGcaGCGGgaAAGACUCUugCAGCGcCGUCa -3'
miRNA:   3'- -GGC--UGCCg-UUCUGGGA--GUUGCaGCAG- -5'
28349 5' -54.4 NC_005946.1 + 23863 0.68 0.862345
Target:  5'- uCCG--GGCGGGACCCUCuugacaagGAUGUUGUg -3'
miRNA:   3'- -GGCugCCGUUCUGGGAG--------UUGCAGCAg -5'
28349 5' -54.4 NC_005946.1 + 43415 0.68 0.846424
Target:  5'- aUGAUGGCGAgggaagcgguGACCCUCuuuAGC-UCGUCa -3'
miRNA:   3'- gGCUGCCGUU----------CUGGGAG---UUGcAGCAG- -5'
28349 5' -54.4 NC_005946.1 + 98112 0.68 0.846424
Target:  5'- gCGACGGUcauguAGACguuggCCUCGACGgUGUCg -3'
miRNA:   3'- gGCUGCCGu----UCUG-----GGAGUUGCaGCAG- -5'
28349 5' -54.4 NC_005946.1 + 73498 0.68 0.838157
Target:  5'- cCCGACGGCAGGuCCgUCuAC-UCGa- -3'
miRNA:   3'- -GGCUGCCGUUCuGGgAGuUGcAGCag -5'
28349 5' -54.4 NC_005946.1 + 99033 0.68 0.838157
Target:  5'- uCCGGCGGgAGGAgCCUC-GCGgugaaUGUCu -3'
miRNA:   3'- -GGCUGCCgUUCUgGGAGuUGCa----GCAG- -5'
28349 5' -54.4 NC_005946.1 + 43847 0.69 0.794058
Target:  5'- gUCGACG---AGACCCUCGAUGgUGUCg -3'
miRNA:   3'- -GGCUGCcguUCUGGGAGUUGCaGCAG- -5'
28349 5' -54.4 NC_005946.1 + 21241 0.73 0.581299
Target:  5'- -aGACGGC-AGACUCUC-ACGgCGUCa -3'
miRNA:   3'- ggCUGCCGuUCUGGGAGuUGCaGCAG- -5'
28349 5' -54.4 NC_005946.1 + 10540 0.73 0.56069
Target:  5'- cCCGAagGGCAcGGACCC-CG-CGUCGUCc -3'
miRNA:   3'- -GGCUg-CCGU-UCUGGGaGUuGCAGCAG- -5'
28349 5' -54.4 NC_005946.1 + 96285 0.76 0.395513
Target:  5'- aCGAUGGgAccguGGACCCUCucgggcuccucaaaGACGUCGUCg -3'
miRNA:   3'- gGCUGCCgU----UCUGGGAG--------------UUGCAGCAG- -5'
28349 5' -54.4 NC_005946.1 + 59818 0.78 0.33272
Target:  5'- uUGACGGCcguGGuACCCUUGACGUCGUa -3'
miRNA:   3'- gGCUGCCGu--UC-UGGGAGUUGCAGCAg -5'
28349 5' -54.4 NC_005946.1 + 12484 1.12 0.002001
Target:  5'- gCCGACGGCAAGACCCUCAACGUCGUCa -3'
miRNA:   3'- -GGCUGCCGUUCUGGGAGUUGCAGCAG- -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.