miRNA display CGI


Results 1 - 20 of 55 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
28105 3' -57.8 NC_005887.1 + 24590 0.66 0.523716
Target:  5'- cGGCCGCGCG-UGAUgcuuaccgucgaGGAaCUGGCGa-- -3'
miRNA:   3'- -UCGGCGCGCuGCUG------------CCU-GACUGCaua -5'
28105 3' -57.8 NC_005887.1 + 34523 0.66 0.523716
Target:  5'- gAGCCGCGCGAacgaaGAC-GACUucgaGGCGa-- -3'
miRNA:   3'- -UCGGCGCGCUg----CUGcCUGA----CUGCaua -5'
28105 3' -57.8 NC_005887.1 + 15693 0.66 0.521599
Target:  5'- cGCCGCGCGGC--CGGAUgauuccgccgccGGCGUGa -3'
miRNA:   3'- uCGGCGCGCUGcuGCCUGa-----------CUGCAUa -5'
28105 3' -57.8 NC_005887.1 + 16201 0.66 0.513168
Target:  5'- aGGCCGCGCuGCGAcCGGAC--ACGc-- -3'
miRNA:   3'- -UCGGCGCGcUGCU-GCCUGacUGCaua -5'
28105 3' -57.8 NC_005887.1 + 34775 0.66 0.502707
Target:  5'- cGCCgcgcaccgcaaGCGCGACGACGGccgcccGCUGcugcucgacaACGUGg -3'
miRNA:   3'- uCGG-----------CGCGCUGCUGCC------UGAC----------UGCAUa -5'
28105 3' -57.8 NC_005887.1 + 37171 0.66 0.502707
Target:  5'- cGGCCGCGCGAuCGcCGaGGCUGugcuCGc-- -3'
miRNA:   3'- -UCGGCGCGCU-GCuGC-CUGACu---GCaua -5'
28105 3' -57.8 NC_005887.1 + 34691 0.66 0.492341
Target:  5'- cGUCGaCGCGaACGGCGaauGGCUGGCGg-- -3'
miRNA:   3'- uCGGC-GCGC-UGCUGC---CUGACUGCaua -5'
28105 3' -57.8 NC_005887.1 + 31560 0.66 0.48925
Target:  5'- cGCCGCGCGcGCGGCaaucGGugacuacgaacuguGCUGACGa-- -3'
miRNA:   3'- uCGGCGCGC-UGCUG----CC--------------UGACUGCaua -5'
28105 3' -57.8 NC_005887.1 + 33021 0.66 0.482075
Target:  5'- cGCCGCGCGAgaacguauuCGcGCGGuCguugaGACGUAUg -3'
miRNA:   3'- uCGGCGCGCU---------GC-UGCCuGa----CUGCAUA- -5'
28105 3' -57.8 NC_005887.1 + 14696 0.66 0.482075
Target:  5'- gGGCuCGuCGCGGCgGGCGGGCcgGGCGc-- -3'
miRNA:   3'- -UCG-GC-GCGCUG-CUGCCUGa-CUGCaua -5'
28105 3' -57.8 NC_005887.1 + 19185 0.66 0.482075
Target:  5'- gAGCgGCGCgGGCGugGaGACaGGCGg-- -3'
miRNA:   3'- -UCGgCGCG-CUGCugC-CUGaCUGCaua -5'
28105 3' -57.8 NC_005887.1 + 10101 0.66 0.471913
Target:  5'- cGGCC-CGCGcCGACGGccagcugaucgGCUGcACGUAc -3'
miRNA:   3'- -UCGGcGCGCuGCUGCC-----------UGAC-UGCAUa -5'
28105 3' -57.8 NC_005887.1 + 25071 0.66 0.471913
Target:  5'- cGGCCGC-CGGCG-CGaGCUGACGc-- -3'
miRNA:   3'- -UCGGCGcGCUGCuGCcUGACUGCaua -5'
28105 3' -57.8 NC_005887.1 + 28498 0.67 0.461861
Target:  5'- uAGaCGCGCGcCGGCGGGaagaUGACGa-- -3'
miRNA:   3'- -UCgGCGCGCuGCUGCCUg---ACUGCaua -5'
28105 3' -57.8 NC_005887.1 + 1453 0.67 0.461861
Target:  5'- gGGCCcaugaugaacgaGCGCGACGcGCGGGacagGAUGUAg -3'
miRNA:   3'- -UCGG------------CGCGCUGC-UGCCUga--CUGCAUa -5'
28105 3' -57.8 NC_005887.1 + 23621 0.67 0.461861
Target:  5'- cGGCCG-GCGAUG-CGGGC-GGCGUc- -3'
miRNA:   3'- -UCGGCgCGCUGCuGCCUGaCUGCAua -5'
28105 3' -57.8 NC_005887.1 + 37030 0.67 0.451922
Target:  5'- -cCCGCGCGACGcCGaGAC-GACGg-- -3'
miRNA:   3'- ucGGCGCGCUGCuGC-CUGaCUGCaua -5'
28105 3' -57.8 NC_005887.1 + 5391 0.67 0.451922
Target:  5'- aAGCCaGCGCGAccggugaacCGGCGGGC-GGCGc-- -3'
miRNA:   3'- -UCGG-CGCGCU---------GCUGCCUGaCUGCaua -5'
28105 3' -57.8 NC_005887.1 + 2244 0.67 0.442102
Target:  5'- aAGUCGuCGCGACGAgcaUGGGCgcGCGUAa -3'
miRNA:   3'- -UCGGC-GCGCUGCU---GCCUGacUGCAUa -5'
28105 3' -57.8 NC_005887.1 + 4676 0.67 0.432404
Target:  5'- cGCUGCGCaGACGGCgaGGGuCUGAUGg-- -3'
miRNA:   3'- uCGGCGCG-CUGCUG--CCU-GACUGCaua -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.