miRNA display CGI


Results 1 - 13 of 13 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
30508 3' -57.9 NC_006548.1 + 4254 0.66 0.478284
Target:  5'- cGGUGcucGAUCGCCGGC-UGUucAUUCGuGCg -3'
miRNA:   3'- cUCAC---CUAGCGGCCGgACA--UAGGC-CG- -5'
30508 3' -57.9 NC_006548.1 + 1468 0.66 0.468104
Target:  5'- cGAGgcGGAUCGCCGGCa-GUGgagUGGUa -3'
miRNA:   3'- -CUCa-CCUAGCGGCCGgaCAUag-GCCG- -5'
30508 3' -57.9 NC_006548.1 + 31044 0.66 0.458038
Target:  5'- gGAGUGGAccaCGuuGuuuuccaaaccGCCUGgcgcUCCGGCa -3'
miRNA:   3'- -CUCACCUa--GCggC-----------CGGACau--AGGCCG- -5'
30508 3' -57.9 NC_006548.1 + 37785 0.66 0.458038
Target:  5'- cGAGUaGA-CGCCGGUCg----CCGGCa -3'
miRNA:   3'- -CUCAcCUaGCGGCCGGacauaGGCCG- -5'
30508 3' -57.9 NC_006548.1 + 11220 0.67 0.428555
Target:  5'- -uGUGGAUCGCCGaGCaa----CCGGUg -3'
miRNA:   3'- cuCACCUAGCGGC-CGgacauaGGCCG- -5'
30508 3' -57.9 NC_006548.1 + 6386 0.67 0.425668
Target:  5'- aAGUGGcgCGCCcacuucaaugcgacGGCC-GUAcacagCCGGCa -3'
miRNA:   3'- cUCACCuaGCGG--------------CCGGaCAUa----GGCCG- -5'
30508 3' -57.9 NC_006548.1 + 27984 0.67 0.418978
Target:  5'- cGAGUGGcUgGaaaagGGCCUGauUCCGGCg -3'
miRNA:   3'- -CUCACCuAgCgg---CCGGACauAGGCCG- -5'
30508 3' -57.9 NC_006548.1 + 2431 0.67 0.409533
Target:  5'- cGGaUGGAaaacCGCCGGCCUGg--CgGGUg -3'
miRNA:   3'- cUC-ACCUa---GCGGCCGGACauaGgCCG- -5'
30508 3' -57.9 NC_006548.1 + 15223 0.68 0.361759
Target:  5'- ---aGGAugcguccgccgcgcUUGCCGGCCUGcgcGUCCGGg -3'
miRNA:   3'- cucaCCU--------------AGCGGCCGGACa--UAGGCCg -5'
30508 3' -57.9 NC_006548.1 + 19959 0.7 0.28479
Target:  5'- uGAG-GaGAUCGCCGcGaCCUacgAUCCGGCg -3'
miRNA:   3'- -CUCaC-CUAGCGGC-C-GGAca-UAGGCCG- -5'
30508 3' -57.9 NC_006548.1 + 32656 0.7 0.270624
Target:  5'- cGAGcaacgGcGAUCGCUGcGCCUGUcaccCCGGCg -3'
miRNA:   3'- -CUCa----C-CUAGCGGC-CGGACAua--GGCCG- -5'
30508 3' -57.9 NC_006548.1 + 12493 0.73 0.1727
Target:  5'- aGGGUGGGUaaaucgcgaccguaaGCUGGCCUcgGcAUCCGGCg -3'
miRNA:   3'- -CUCACCUAg--------------CGGCCGGA--CaUAGGCCG- -5'
30508 3' -57.9 NC_006548.1 + 12322 1.1 0.000298
Target:  5'- uGAGUGGAUCGCCGGCCUGUAUCCGGCc -3'
miRNA:   3'- -CUCACCUAGCGGCCGGACAUAGGCCG- -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.