miRNA display CGI


Results 1 - 20 of 66 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
30254 3' -57 NC_006273.1 + 234755 1.07 0.004868
Target:  5'- gAACCCGGAGGAACACGCGCAACAGGGc -3'
miRNA:   3'- -UUGGGCCUCCUUGUGCGCGUUGUCCC- -5'
30254 3' -57 NC_006273.1 + 39863 1.07 0.004868
Target:  5'- gAACCCGGAGGAACACGCGCAACAGGGc -3'
miRNA:   3'- -UUGGGCCUCCUUGUGCGCGUUGUCCC- -5'
30254 3' -57 NC_006273.1 + 140618 0.77 0.391417
Target:  5'- aAGCCCGGAGGGGCccaaaaGC-CAGCGGGGc -3'
miRNA:   3'- -UUGGGCCUCCUUGug----CGcGUUGUCCC- -5'
30254 3' -57 NC_006273.1 + 113522 0.77 0.394675
Target:  5'- uGCCCGGGGGGcGCGCGgGCGgcgaagagaagggcuACGGGGg -3'
miRNA:   3'- uUGGGCCUCCU-UGUGCgCGU---------------UGUCCC- -5'
30254 3' -57 NC_006273.1 + 117972 0.77 0.407881
Target:  5'- cACCUGGAGGAGC-CGUaGCGGCGGGa -3'
miRNA:   3'- uUGGGCCUCCUUGuGCG-CGUUGUCCc -5'
30254 3' -57 NC_006273.1 + 148667 0.74 0.543536
Target:  5'- cGGCCUGGAGGucUGCGCGCAGCugcuGGa -3'
miRNA:   3'- -UUGGGCCUCCuuGUGCGCGUUGu---CCc -5'
30254 3' -57 NC_006273.1 + 112216 0.74 0.572626
Target:  5'- --gCUGGAGGAcgcggcggugGCaAUGCGCGGCGGGGg -3'
miRNA:   3'- uugGGCCUCCU----------UG-UGCGCGUUGUCCC- -5'
30254 3' -57 NC_006273.1 + 94516 0.73 0.592226
Target:  5'- cGGCCCGGGGGGAC-C-CG-AGCGGGGg -3'
miRNA:   3'- -UUGGGCCUCCUUGuGcGCgUUGUCCC- -5'
30254 3' -57 NC_006273.1 + 189367 0.73 0.60207
Target:  5'- uGCUCGuGAGGcGGCACGCGUGuGCGGGGa -3'
miRNA:   3'- uUGGGC-CUCC-UUGUGCGCGU-UGUCCC- -5'
30254 3' -57 NC_006273.1 + 204197 0.73 0.608973
Target:  5'- cAGCCUGGAcgccggccggcaauGGAGCACGCuccgguuacagGCAcuGCAGGGg -3'
miRNA:   3'- -UUGGGCCU--------------CCUUGUGCG-----------CGU--UGUCCC- -5'
30254 3' -57 NC_006273.1 + 161839 0.72 0.651463
Target:  5'- cGGCCUcuGGAGGAGCACGUGagucguCGGCgAGGGg -3'
miRNA:   3'- -UUGGG--CCUCCUUGUGCGC------GUUG-UCCC- -5'
30254 3' -57 NC_006273.1 + 121470 0.72 0.661328
Target:  5'- gAGCCCaGAGuGGACACacggugaCGCGGCAGGGu -3'
miRNA:   3'- -UUGGGcCUC-CUUGUGc------GCGUUGUCCC- -5'
30254 3' -57 NC_006273.1 + 217429 0.72 0.671171
Target:  5'- cAGCgCCGGAGGAucguACugGCGCAgAUAGaGGc -3'
miRNA:   3'- -UUG-GGCCUCCU----UGugCGCGU-UGUC-CC- -5'
30254 3' -57 NC_006273.1 + 234305 0.71 0.729326
Target:  5'- uACUCGGAGGGGCGCcCGgCGgcccGCGGGGu -3'
miRNA:   3'- uUGGGCCUCCUUGUGcGC-GU----UGUCCC- -5'
30254 3' -57 NC_006273.1 + 39412 0.71 0.729326
Target:  5'- uACUCGGAGGGGCGCcCGgCGgcccGCGGGGu -3'
miRNA:   3'- uUGGGCCUCCUUGUGcGC-GU----UGUCCC- -5'
30254 3' -57 NC_006273.1 + 200307 0.7 0.748172
Target:  5'- cACCUGG-GGAACACaCGCGGCAuauuucuuGGGg -3'
miRNA:   3'- uUGGGCCuCCUUGUGcGCGUUGU--------CCC- -5'
30254 3' -57 NC_006273.1 + 150634 0.7 0.766637
Target:  5'- -uCCCGGAGGGuC-CGCGCAACAc-- -3'
miRNA:   3'- uuGGGCCUCCUuGuGCGCGUUGUccc -5'
30254 3' -57 NC_006273.1 + 172796 0.7 0.766637
Target:  5'- aGACCCGGGuGGAaaaacAUACGUucggGCGACAGGu -3'
miRNA:   3'- -UUGGGCCU-CCU-----UGUGCG----CGUUGUCCc -5'
30254 3' -57 NC_006273.1 + 213631 0.7 0.775706
Target:  5'- cAACCUGGAGGGAuCGgGCGUccACAGGu -3'
miRNA:   3'- -UUGGGCCUCCUU-GUgCGCGu-UGUCCc -5'
30254 3' -57 NC_006273.1 + 83469 0.7 0.793478
Target:  5'- uGCCUGGAGGAGCAgauccaGuCGCAGguGGa -3'
miRNA:   3'- uUGGGCCUCCUUGUg-----C-GCGUUguCCc -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.