miRNA display CGI


Results 1 - 20 of 29 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
26221 5' -56 NC_005342.2 + 47752 0.66 0.654881
Target:  5'- ---cAUCGGCGCGuucuGGCuugcccgcGCGCUCu- -3'
miRNA:   3'- cucaUAGCCGCGCu---CCGu-------UGCGAGcu -5'
26221 5' -56 NC_005342.2 + 10618 0.66 0.640494
Target:  5'- cGGGaUGUCGcGCGUGAcaucaugcagcaccGGCGACGaUUCGAa -3'
miRNA:   3'- -CUC-AUAGC-CGCGCU--------------CCGUUGC-GAGCU- -5'
26221 5' -56 NC_005342.2 + 5570 0.66 0.610597
Target:  5'- gGAGacgAUCGGCGCuGuuGCGGgcUGCUCGAc -3'
miRNA:   3'- -CUCa--UAGCCGCG-CucCGUU--GCGAGCU- -5'
26221 5' -56 NC_005342.2 + 36815 0.66 0.610597
Target:  5'- cGAGgacGUCGGgcagcUGCGGGGCGugcucgaaGCGCUCa- -3'
miRNA:   3'- -CUCa--UAGCC-----GCGCUCCGU--------UGCGAGcu -5'
26221 5' -56 NC_005342.2 + 4211 0.66 0.610597
Target:  5'- cGAGaacAUCGGCGUGAGGaugccgcgcACGUUCGu -3'
miRNA:   3'- -CUCa--UAGCCGCGCUCCgu-------UGCGAGCu -5'
26221 5' -56 NC_005342.2 + 34118 0.66 0.599549
Target:  5'- -----gCGGCGCGGcGCGcucaauGCGCUCGAc -3'
miRNA:   3'- cucauaGCCGCGCUcCGU------UGCGAGCU- -5'
26221 5' -56 NC_005342.2 + 22866 0.66 0.599549
Target:  5'- cGGcgAUCGGCGCGAucGUAcugGCGCUCGu -3'
miRNA:   3'- cUCa-UAGCCGCGCUc-CGU---UGCGAGCu -5'
26221 5' -56 NC_005342.2 + 37029 0.67 0.588528
Target:  5'- ---aGUCGGuCGCGGcGGUGcucgacGCGCUCGAa -3'
miRNA:   3'- cucaUAGCC-GCGCU-CCGU------UGCGAGCU- -5'
26221 5' -56 NC_005342.2 + 47419 0.67 0.588528
Target:  5'- cGAGUucAUCGGUGCGcucGGCAAgGCgaaguaCGAc -3'
miRNA:   3'- -CUCA--UAGCCGCGCu--CCGUUgCGa-----GCU- -5'
26221 5' -56 NC_005342.2 + 17118 0.67 0.577545
Target:  5'- cGGgcUCGcGCGCGA-GCAGCaGCUCGc -3'
miRNA:   3'- cUCauAGC-CGCGCUcCGUUG-CGAGCu -5'
26221 5' -56 NC_005342.2 + 44764 0.67 0.566608
Target:  5'- -cGUcAUCGGgGCG-GGCGGCGCgcCGGg -3'
miRNA:   3'- cuCA-UAGCCgCGCuCCGUUGCGa-GCU- -5'
26221 5' -56 NC_005342.2 + 9362 0.67 0.566608
Target:  5'- -----gCGGCGCGggugcgcggacGGGCGGCGUUCGu -3'
miRNA:   3'- cucauaGCCGCGC-----------UCCGUUGCGAGCu -5'
26221 5' -56 NC_005342.2 + 18264 0.67 0.566608
Target:  5'- ----uUCGGCGCuGGcGGCAgcgcggccGCGCUCGGc -3'
miRNA:   3'- cucauAGCCGCG-CU-CCGU--------UGCGAGCU- -5'
26221 5' -56 NC_005342.2 + 22000 0.67 0.555725
Target:  5'- ---cGUCGGCGCGAauCAGCGCgCGGg -3'
miRNA:   3'- cucaUAGCCGCGCUccGUUGCGaGCU- -5'
26221 5' -56 NC_005342.2 + 29535 0.67 0.555725
Target:  5'- cGGUGUCGacgccgccgauCGCGAGGCGuuGCGCUuCGGa -3'
miRNA:   3'- cUCAUAGCc----------GCGCUCCGU--UGCGA-GCU- -5'
26221 5' -56 NC_005342.2 + 41227 0.68 0.53415
Target:  5'- cGAGg--CGcGCGacCGGGGCGccgugGCGCUCGAa -3'
miRNA:   3'- -CUCauaGC-CGC--GCUCCGU-----UGCGAGCU- -5'
26221 5' -56 NC_005342.2 + 38935 0.68 0.512879
Target:  5'- ---cGUCGGC-CGAGcugcguGCAAUGCUCGAc -3'
miRNA:   3'- cucaUAGCCGcGCUC------CGUUGCGAGCU- -5'
26221 5' -56 NC_005342.2 + 37410 0.69 0.451384
Target:  5'- -----cCGGCGCGuGGCGGCucaauggccuGCUCGAu -3'
miRNA:   3'- cucauaGCCGCGCuCCGUUG----------CGAGCU- -5'
26221 5' -56 NC_005342.2 + 4324 0.69 0.451384
Target:  5'- uGGGUAUCGGUGCGcuacGUGGCGUUUGGu -3'
miRNA:   3'- -CUCAUAGCCGCGCuc--CGUUGCGAGCU- -5'
26221 5' -56 NC_005342.2 + 13226 0.69 0.441527
Target:  5'- uGGUGuUCGGCGCGAccGGCAAUGgUaCGGc -3'
miRNA:   3'- cUCAU-AGCCGCGCU--CCGUUGCgA-GCU- -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.