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 + 5391 0.67 0.451922
Target:  5'- aAGCCaGCGCGAccggugaacCGGCGGGC-GGCGc-- -3'
miRNA:   3'- -UCGG-CGCGCU---------GCUGCCUGaCUGCaua -5'
28105 3' -57.8 NC_005887.1 + 40870 0.69 0.354442
Target:  5'- cGCCGCGCGcgucgaagaagaaacGCGACGG--UGACGa-- -3'
miRNA:   3'- uCGGCGCGC---------------UGCUGCCugACUGCaua -5'
28105 3' -57.8 NC_005887.1 + 21267 0.69 0.359549
Target:  5'- gGGCaC-CGCGGCGGCGGcguaugcgcuGCUGGCGUc- -3'
miRNA:   3'- -UCG-GcGCGCUGCUGCC----------UGACUGCAua -5'
28105 3' -57.8 NC_005887.1 + 12600 0.69 0.359549
Target:  5'- cGGCCGCGaCGcuCGGCGuGCUGACGc-- -3'
miRNA:   3'- -UCGGCGC-GCu-GCUGCcUGACUGCaua -5'
28105 3' -57.8 NC_005887.1 + 32422 0.68 0.376941
Target:  5'- uGGCCG-GCGGCGAUGuGGCcGGCGg-- -3'
miRNA:   3'- -UCGGCgCGCUGCUGC-CUGaCUGCaua -5'
28105 3' -57.8 NC_005887.1 + 23515 0.68 0.385847
Target:  5'- cGGCCGCGCuGACGaacgcGCGGgugaGCUGgcaGCGUAc -3'
miRNA:   3'- -UCGGCGCG-CUGC-----UGCC----UGAC---UGCAUa -5'
28105 3' -57.8 NC_005887.1 + 32713 0.68 0.404072
Target:  5'- uAGCCGCGCGguucacccACGGCGGgguagcgcggcGCUcGCGUGc -3'
miRNA:   3'- -UCGGCGCGC--------UGCUGCC-----------UGAcUGCAUa -5'
28105 3' -57.8 NC_005887.1 + 4676 0.67 0.432404
Target:  5'- cGCUGCGCaGACGGCgaGGGuCUGAUGg-- -3'
miRNA:   3'- uCGGCGCG-CUGCUG--CCU-GACUGCaua -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 + 13394 0.69 0.342725
Target:  5'- aGGCCG-GCG-CGGCGGACgucGGCGg-- -3'
miRNA:   3'- -UCGGCgCGCuGCUGCCUGa--CUGCaua -5'
28105 3' -57.8 NC_005887.1 + 16474 0.69 0.341899
Target:  5'- cGaCCGCGCGGCaggauccGGCGGGCUGGuCGg-- -3'
miRNA:   3'- uC-GGCGCGCUG-------CUGCCUGACU-GCaua -5'
28105 3' -57.8 NC_005887.1 + 14823 0.7 0.295714
Target:  5'- cGGCCGCGacgcuGAUGGCGGGCacguucgcgGGCGUGc -3'
miRNA:   3'- -UCGGCGCg----CUGCUGCCUGa--------CUGCAUa -5'
28105 3' -57.8 NC_005887.1 + 18022 0.79 0.072971
Target:  5'- cGCCGCGCGcuuacgcGCGcCGGACUGACGg-- -3'
miRNA:   3'- uCGGCGCGC-------UGCuGCCUGACUGCaua -5'
28105 3' -57.8 NC_005887.1 + 40536 0.75 0.140531
Target:  5'- cGCgGCaGCGACGACGGuCUGGCGc-- -3'
miRNA:   3'- uCGgCG-CGCUGCUGCCuGACUGCaua -5'
28105 3' -57.8 NC_005887.1 + 7901 0.73 0.189899
Target:  5'- aGGCCG-GCGACGAucugcaguaaCGGACUGACa--- -3'
miRNA:   3'- -UCGGCgCGCUGCU----------GCCUGACUGcaua -5'
28105 3' -57.8 NC_005887.1 + 26969 0.73 0.200373
Target:  5'- aGGCCGUuCGGCGACGGugUGcCGg-- -3'
miRNA:   3'- -UCGGCGcGCUGCUGCCugACuGCaua -5'
28105 3' -57.8 NC_005887.1 + 29540 0.72 0.211345
Target:  5'- cGUCGCGCG-CGACGGcCUGGCa--- -3'
miRNA:   3'- uCGGCGCGCuGCUGCCuGACUGcaua -5'
28105 3' -57.8 NC_005887.1 + 15494 0.71 0.241678
Target:  5'- uGGCCGCGCGucaGAUGGACgccggccaguuuccgGACGUc- -3'
miRNA:   3'- -UCGGCGCGCug-CUGCCUGa--------------CUGCAua -5'
28105 3' -57.8 NC_005887.1 + 1140 0.71 0.267254
Target:  5'- aAGCCGCGCGugcGCGugaaGGAuCUGACGg-- -3'
miRNA:   3'- -UCGGCGCGC---UGCug--CCU-GACUGCaua -5'
28105 3' -57.8 NC_005887.1 + 42105 0.71 0.267254
Target:  5'- uGCCGCGuCGACGAacgaGGACUuguGGCGa-- -3'
miRNA:   3'- uCGGCGC-GCUGCUg---CCUGA---CUGCaua -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.