miRNA display CGI


Results 1 - 20 of 24 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
24923 3' -58.8 NC_005284.1 + 26015 0.66 0.525387
Target:  5'- uCGcGCAaauuauGCCGG-GGCUCGAugUCGGCGa -3'
miRNA:   3'- -GCaCGUc-----CGGCUaCCGAGCU--AGCCGU- -5'
24923 3' -58.8 NC_005284.1 + 14244 0.66 0.525387
Target:  5'- uGUGCuguuGGCCGGguuGCUUGAgacggaugCGGCGu -3'
miRNA:   3'- gCACGu---CCGGCUac-CGAGCUa-------GCCGU- -5'
24923 3' -58.8 NC_005284.1 + 30371 0.66 0.52228
Target:  5'- --cGCgAGGgCGAUGcGCUCGGcccgcgugugcuggUCGGCAu -3'
miRNA:   3'- gcaCG-UCCgGCUAC-CGAGCU--------------AGCCGU- -5'
24923 3' -58.8 NC_005284.1 + 38340 0.66 0.514031
Target:  5'- uGUGcCGGGCgCGcUGGCggcaccaggacaaUCGAUCGaGCAa -3'
miRNA:   3'- gCAC-GUCCG-GCuACCG-------------AGCUAGC-CGU- -5'
24923 3' -58.8 NC_005284.1 + 9651 0.66 0.504816
Target:  5'- --cGCAGGCCGA--GCUCGcg-GGCAu -3'
miRNA:   3'- gcaCGUCCGGCUacCGAGCuagCCGU- -5'
24923 3' -58.8 NC_005284.1 + 16298 0.66 0.504816
Target:  5'- --cGCAGggcgaGCCGGUGccGCUCGucAUCGGCGa -3'
miRNA:   3'- gcaCGUC-----CGGCUAC--CGAGC--UAGCCGU- -5'
24923 3' -58.8 NC_005284.1 + 3324 0.66 0.49466
Target:  5'- aGUGCAGGCCGAgcGGCguucuauucaaCGAUgacccaaaaCGGCc -3'
miRNA:   3'- gCACGUCCGGCUa-CCGa----------GCUA---------GCCGu -5'
24923 3' -58.8 NC_005284.1 + 36934 0.67 0.484599
Target:  5'- gCGUGCA-GCCGA-GGCg-GAcgCGGCAa -3'
miRNA:   3'- -GCACGUcCGGCUaCCGagCUa-GCCGU- -5'
24923 3' -58.8 NC_005284.1 + 47722 0.67 0.484599
Target:  5'- gCGUGCgcagaAGGCCGu--GCUCGG-CGGUAc -3'
miRNA:   3'- -GCACG-----UCCGGCuacCGAGCUaGCCGU- -5'
24923 3' -58.8 NC_005284.1 + 19479 0.67 0.474636
Target:  5'- gGUGCGGGCUGGaucacgaacGCgauGAUCGGCAa -3'
miRNA:   3'- gCACGUCCGGCUac-------CGag-CUAGCCGU- -5'
24923 3' -58.8 NC_005284.1 + 47461 0.67 0.474636
Target:  5'- ---cCGGGCCGAgaagaUGGCUCGcaugcucgacGUCGGCc -3'
miRNA:   3'- gcacGUCCGGCU-----ACCGAGC----------UAGCCGu -5'
24923 3' -58.8 NC_005284.1 + 47217 0.67 0.455026
Target:  5'- gCGUGCAGGgCGu--GCUCGAgcCGGUg -3'
miRNA:   3'- -GCACGUCCgGCuacCGAGCUa-GCCGu -5'
24923 3' -58.8 NC_005284.1 + 40016 0.67 0.445387
Target:  5'- cCGUGUcGGUCGAgUGGCUCGAaaacgCaGCAg -3'
miRNA:   3'- -GCACGuCCGGCU-ACCGAGCUa----GcCGU- -5'
24923 3' -58.8 NC_005284.1 + 21564 0.67 0.445387
Target:  5'- aCGaGCAGGCCGcgcgGGCguUCGAcgcgcagCGGCAu -3'
miRNA:   3'- -GCaCGUCCGGCua--CCG--AGCUa------GCCGU- -5'
24923 3' -58.8 NC_005284.1 + 10155 0.67 0.445387
Target:  5'- gCGUaCGGGCaCGAUGaugcGCUCGGUUGGUu -3'
miRNA:   3'- -GCAcGUCCG-GCUAC----CGAGCUAGCCGu -5'
24923 3' -58.8 NC_005284.1 + 10671 0.68 0.408013
Target:  5'- gGUGCGcGCCGcgGGCgCGAUcgacaCGGCGg -3'
miRNA:   3'- gCACGUcCGGCuaCCGaGCUA-----GCCGU- -5'
24923 3' -58.8 NC_005284.1 + 30964 0.7 0.31599
Target:  5'- -aUGUAGGCCGccgucGGCU-GGUCGGCGu -3'
miRNA:   3'- gcACGUCCGGCua---CCGAgCUAGCCGU- -5'
24923 3' -58.8 NC_005284.1 + 19283 0.7 0.291616
Target:  5'- gGUGCAGacgaccGUCGAcggacgcaaguacaUGGCaUCGAUCGGCGu -3'
miRNA:   3'- gCACGUC------CGGCU--------------ACCG-AGCUAGCCGU- -5'
24923 3' -58.8 NC_005284.1 + 4463 0.71 0.272788
Target:  5'- -cUGgAGGCCGAgcaaaagcUGGCUCGcggCGGCGg -3'
miRNA:   3'- gcACgUCCGGCU--------ACCGAGCua-GCCGU- -5'
24923 3' -58.8 NC_005284.1 + 8698 0.73 0.195562
Target:  5'- gCGUGCAGGUcaCGGUGcgcgcGCUCGAcgCGGCGc -3'
miRNA:   3'- -GCACGUCCG--GCUAC-----CGAGCUa-GCCGU- -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.