miRNA display CGI


Results 1 - 20 of 21 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
24635 3' -47.5 NC_005264.1 + 138568 0.66 0.999779
Target:  5'- cGCGAACAUgCUCUgggaAGCCAg------ -3'
miRNA:   3'- -CGCUUGUAgGAGAg---UCGGUacuuuuu -5'
24635 3' -47.5 NC_005264.1 + 44623 0.66 0.999716
Target:  5'- gGCGGACAUCaccgCGGCCGaGGGAGu -3'
miRNA:   3'- -CGCUUGUAGgagaGUCGGUaCUUUUu -5'
24635 3' -47.5 NC_005264.1 + 130472 0.66 0.999716
Target:  5'- cGCcGGCAUCCUCgccagaaCAGCCccGAAGc- -3'
miRNA:   3'- -CGcUUGUAGGAGa------GUCGGuaCUUUuu -5'
24635 3' -47.5 NC_005264.1 + 11445 0.66 0.999716
Target:  5'- cGCcGGCAUCCUCgccagaaCAGCCccGAAGc- -3'
miRNA:   3'- -CGcUUGUAGGAGa------GUCGGuaCUUUuu -5'
24635 3' -47.5 NC_005264.1 + 74457 0.66 0.999716
Target:  5'- cGCGGGCAUgCggCU-GGCCGUGAAu-- -3'
miRNA:   3'- -CGCUUGUAgGa-GAgUCGGUACUUuuu -5'
24635 3' -47.5 NC_005264.1 + 160611 0.66 0.999429
Target:  5'- cGCGucuuGCGUCgUCUCGGUUagGGGAAAc -3'
miRNA:   3'- -CGCu---UGUAGgAGAGUCGGuaCUUUUU- -5'
24635 3' -47.5 NC_005264.1 + 71395 0.66 0.999429
Target:  5'- cGCgGAGCGUcaucgCCUCUagGGCCAUGGAc-- -3'
miRNA:   3'- -CG-CUUGUA-----GGAGAg-UCGGUACUUuuu -5'
24635 3' -47.5 NC_005264.1 + 36303 0.66 0.999429
Target:  5'- gGCGGACGUCgUCgcuaucgCuGCCGUaGAGGAAc -3'
miRNA:   3'- -CGCUUGUAGgAGa------GuCGGUA-CUUUUU- -5'
24635 3' -47.5 NC_005264.1 + 155330 0.66 0.999429
Target:  5'- gGCGGACGUCgUCgcuaucgCuGCCGUaGAGGAAc -3'
miRNA:   3'- -CGCUUGUAGgAGa------GuCGGUA-CUUUUU- -5'
24635 3' -47.5 NC_005264.1 + 142969 0.67 0.99912
Target:  5'- cGCGGccGCGgcggUCUCUCGGgCAUGAGGc- -3'
miRNA:   3'- -CGCU--UGUa---GGAGAGUCgGUACUUUuu -5'
24635 3' -47.5 NC_005264.1 + 98487 0.67 0.998918
Target:  5'- cGCGAggGCAUCUcCUCAGCgcuacaGUGGGAAu -3'
miRNA:   3'- -CGCU--UGUAGGaGAGUCGg-----UACUUUUu -5'
24635 3' -47.5 NC_005264.1 + 49331 0.68 0.997668
Target:  5'- cGCGGcUGUUCgcgCUCGGCCcgGAGGAAc -3'
miRNA:   3'- -CGCUuGUAGGa--GAGUCGGuaCUUUUU- -5'
24635 3' -47.5 NC_005264.1 + 69020 0.68 0.996687
Target:  5'- cCGAACcgCCacCUCGGCCAcagGAAAAGg -3'
miRNA:   3'- cGCUUGuaGGa-GAGUCGGUa--CUUUUU- -5'
24635 3' -47.5 NC_005264.1 + 66201 0.7 0.991553
Target:  5'- gGCGGGCGgugcgCCUCcgCGGCCAgcGAAGGAc -3'
miRNA:   3'- -CGCUUGUa----GGAGa-GUCGGUa-CUUUUU- -5'
24635 3' -47.5 NC_005264.1 + 136686 0.7 0.99028
Target:  5'- cGCGAAaGUCCUCgccgCGGCC-UGGGAc- -3'
miRNA:   3'- -CGCUUgUAGGAGa---GUCGGuACUUUuu -5'
24635 3' -47.5 NC_005264.1 + 112941 0.7 0.990145
Target:  5'- aGCGGcgGCAUCCUCUCcuucacuAGCCAaacUGAc--- -3'
miRNA:   3'- -CGCU--UGUAGGAGAG-------UCGGU---ACUuuuu -5'
24635 3' -47.5 NC_005264.1 + 120229 0.7 0.985546
Target:  5'- cCGGGCGUCCg--CGGCCAUGGc--- -3'
miRNA:   3'- cGCUUGUAGGagaGUCGGUACUuuuu -5'
24635 3' -47.5 NC_005264.1 + 1202 0.7 0.985546
Target:  5'- cCGGGCGUCCg--CGGCCAUGGc--- -3'
miRNA:   3'- cGCUUGUAGGagaGUCGGUACUuuuu -5'
24635 3' -47.5 NC_005264.1 + 65164 0.71 0.983629
Target:  5'- cGCGGcgGCGcCCUCUCuGGCCAUGGc--- -3'
miRNA:   3'- -CGCU--UGUaGGAGAG-UCGGUACUuuuu -5'
24635 3' -47.5 NC_005264.1 + 52118 0.72 0.973999
Target:  5'- aGCGAGCAggaggCCUC-CGGUgAUGGAGAc -3'
miRNA:   3'- -CGCUUGUa----GGAGaGUCGgUACUUUUu -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.