miRNA display CGI


Results 1 - 20 of 28 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
28727 3' -53.1 NC_006146.1 + 156928 0.67 0.963296
Target:  5'- -gGGUGGCGGCGCUGaCG--GGCUCc -3'
miRNA:   3'- cgUCGCCGCUGUGAUaGUagUCGAGc -5'
28727 3' -53.1 NC_006146.1 + 128282 0.7 0.855578
Target:  5'- aCGGCGGCGGCcgagccccagGCUucgGUCAGCUCu -3'
miRNA:   3'- cGUCGCCGCUG----------UGAuagUAGUCGAGc -5'
28727 3' -53.1 NC_006146.1 + 152896 0.7 0.855578
Target:  5'- -gGGUGGCGAUGCcGUC--CAGCUCGa -3'
miRNA:   3'- cgUCGCCGCUGUGaUAGuaGUCGAGC- -5'
28727 3' -53.1 NC_006146.1 + 170111 0.7 0.877512
Target:  5'- cGCAGggggggcCGGCGGgGCgucccGUCGUCAcGCUCGg -3'
miRNA:   3'- -CGUC-------GCCGCUgUGa----UAGUAGU-CGAGC- -5'
28727 3' -53.1 NC_006146.1 + 167316 0.69 0.898218
Target:  5'- uGCAGggggggcCGGCGGgGCgucccGUCGUCAcGCUCGg -3'
miRNA:   3'- -CGUC-------GCCGCUgUGa----UAGUAGU-CGAGC- -5'
28727 3' -53.1 NC_006146.1 + 168248 0.69 0.898218
Target:  5'- uGCAGggggggcCGGCGGgGCgucccGUCGUCAcGCUCGg -3'
miRNA:   3'- -CGUC-------GCCGCUgUGa----UAGUAGU-CGAGC- -5'
28727 3' -53.1 NC_006146.1 + 169180 0.69 0.898218
Target:  5'- uGCAGggggggcCGGCGGgGCgucccGUCGUCAcGCUCGg -3'
miRNA:   3'- -CGUC-------GCCGCUgUGa----UAGUAGU-CGAGC- -5'
28727 3' -53.1 NC_006146.1 + 53859 0.69 0.917376
Target:  5'- gGCGGUaGGCGACGCUGgcccUCAGCg-- -3'
miRNA:   3'- -CGUCG-CCGCUGUGAUagu-AGUCGagc -5'
28727 3' -53.1 NC_006146.1 + 80099 0.67 0.959767
Target:  5'- -gGGUGGCGACACUGggu---GCUCa -3'
miRNA:   3'- cgUCGCCGCUGUGAUaguaguCGAGc -5'
28727 3' -53.1 NC_006146.1 + 107909 0.72 0.777236
Target:  5'- -aAGUGGCGAaaaCAUgggagGUCGUCAGCUCc -3'
miRNA:   3'- cgUCGCCGCU---GUGa----UAGUAGUCGAGc -5'
28727 3' -53.1 NC_006146.1 + 130297 0.75 0.636587
Target:  5'- aGCAGCGGCGGCAUg--CGgaGGUUCGg -3'
miRNA:   3'- -CGUCGCCGCUGUGauaGUagUCGAGC- -5'
28727 3' -53.1 NC_006146.1 + 81586 0.77 0.524069
Target:  5'- -aAGCGGcCGACACUAcauUCAgagCAGCUCa -3'
miRNA:   3'- cgUCGCC-GCUGUGAU---AGUa--GUCGAGc -5'
28727 3' -53.1 NC_006146.1 + 46292 0.67 0.966603
Target:  5'- cCGGUGGCGGCG--GUCG--AGCUCGa -3'
miRNA:   3'- cGUCGCCGCUGUgaUAGUagUCGAGC- -5'
28727 3' -53.1 NC_006146.1 + 162431 0.66 0.982142
Target:  5'- gGUAGCGGgaGAgaaaGCUAUCcaucuguuuUCAGCUCGc -3'
miRNA:   3'- -CGUCGCCg-CUg---UGAUAGu--------AGUCGAGC- -5'
28727 3' -53.1 NC_006146.1 + 45180 0.67 0.969694
Target:  5'- uCGGCGGCGGCGCUccccuccUCAUCuucCUCc -3'
miRNA:   3'- cGUCGCCGCUGUGAu------AGUAGuc-GAGc -5'
28727 3' -53.1 NC_006146.1 + 53166 0.66 0.982142
Target:  5'- uGCGGCGGUGGC-Cggaa---GGCUCGg -3'
miRNA:   3'- -CGUCGCCGCUGuGauaguagUCGAGC- -5'
28727 3' -53.1 NC_006146.1 + 57373 0.66 0.977736
Target:  5'- uGCGGCGGUGGCGCcg--GUgGGCUgGc -3'
miRNA:   3'- -CGUCGCCGCUGUGauagUAgUCGAgC- -5'
28727 3' -53.1 NC_006146.1 + 49499 0.66 0.982142
Target:  5'- aGgGGCGGCGugGC-AUCuggAUCGGCg-- -3'
miRNA:   3'- -CgUCGCCGCugUGaUAG---UAGUCGagc -5'
28727 3' -53.1 NC_006146.1 + 126264 0.67 0.963296
Target:  5'- uCGGCGGgGGCAaaGUCGUCAauCUCGg -3'
miRNA:   3'- cGUCGCCgCUGUgaUAGUAGUc-GAGC- -5'
28727 3' -53.1 NC_006146.1 + 104447 0.68 0.947799
Target:  5'- aCAGgGGCGGCGCccUCGgcaggCAGCUgCGg -3'
miRNA:   3'- cGUCgCCGCUGUGauAGUa----GUCGA-GC- -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.