miRNA display CGI


Results 1 - 19 of 19 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
12721 3' -55.6 NC_003356.1 + 37691 0.66 0.618151
Target:  5'- uUCAGGAucguuUGuCGCCaCCAuCACGCCAa -3'
miRNA:   3'- uGGUCUUuu---AC-GCGGcGGU-GUGCGGU- -5'
12721 3' -55.6 NC_003356.1 + 20738 0.66 0.606849
Target:  5'- uCCuGGugGGAUGCGUCaGCCuggauaaaGCGCGCCAg -3'
miRNA:   3'- uGGuCU--UUUACGCGG-CGG--------UGUGCGGU- -5'
12721 3' -55.6 NC_003356.1 + 17972 0.66 0.606849
Target:  5'- uCCGGAAcGUuccaGCGCUGCgACACGUUg -3'
miRNA:   3'- uGGUCUUuUA----CGCGGCGgUGUGCGGu -5'
12721 3' -55.6 NC_003356.1 + 24727 0.66 0.603463
Target:  5'- cAUCAGGAAAcGUcaccugauaaaccgGCUGCCACugGCUg -3'
miRNA:   3'- -UGGUCUUUUaCG--------------CGGCGGUGugCGGu -5'
12721 3' -55.6 NC_003356.1 + 40694 0.66 0.595571
Target:  5'- gUCAGGcaGGAUGCugaaGCCGCCaaACAgGCCGc -3'
miRNA:   3'- uGGUCU--UUUACG----CGGCGG--UGUgCGGU- -5'
12721 3' -55.6 NC_003356.1 + 7667 0.66 0.584324
Target:  5'- cGCCAGucauUGCGaagauuUGCCACAUGCUg -3'
miRNA:   3'- -UGGUCuuuuACGCg-----GCGGUGUGCGGu -5'
12721 3' -55.6 NC_003356.1 + 28694 0.67 0.550875
Target:  5'- uGCCGGAAAAcUGCGaCUGCCuGC-UGCCu -3'
miRNA:   3'- -UGGUCUUUU-ACGC-GGCGG-UGuGCGGu -5'
12721 3' -55.6 NC_003356.1 + 24173 0.67 0.5289
Target:  5'- aGCCGGggGAUaaaucaGCCaggcaCCAUACGCCAg -3'
miRNA:   3'- -UGGUCuuUUAcg----CGGc----GGUGUGCGGU- -5'
12721 3' -55.6 NC_003356.1 + 26868 0.67 0.527809
Target:  5'- aGCCAGAAAAccuuuugguuuuuUGCugccGUCGCCACugGUa- -3'
miRNA:   3'- -UGGUCUUUU-------------ACG----CGGCGGUGugCGgu -5'
12721 3' -55.6 NC_003356.1 + 12161 0.68 0.475529
Target:  5'- gACCuGGAAG-GCGCUGUCAUugGCg- -3'
miRNA:   3'- -UGGuCUUUUaCGCGGCGGUGugCGgu -5'
12721 3' -55.6 NC_003356.1 + 39533 0.68 0.475529
Target:  5'- gACCuGAugGUGCauucCCGCCACGC-CCAa -3'
miRNA:   3'- -UGGuCUuuUACGc---GGCGGUGUGcGGU- -5'
12721 3' -55.6 NC_003356.1 + 11481 0.68 0.444821
Target:  5'- cACCAGAAuAUGCGCaUGgUAUuCGCCAu -3'
miRNA:   3'- -UGGUCUUuUACGCG-GCgGUGuGCGGU- -5'
12721 3' -55.6 NC_003356.1 + 19967 0.69 0.405673
Target:  5'- aGCCAGAccAUGaacaGCCGCCACcUGaCCGg -3'
miRNA:   3'- -UGGUCUuuUACg---CGGCGGUGuGC-GGU- -5'
12721 3' -55.6 NC_003356.1 + 11628 0.7 0.377773
Target:  5'- aGCCAGAAAucuUGCggccugucGCCGCUaugcggagaACugGCCAg -3'
miRNA:   3'- -UGGUCUUUu--ACG--------CGGCGG---------UGugCGGU- -5'
12721 3' -55.6 NC_003356.1 + 35543 0.71 0.334224
Target:  5'- cCCAGAAccaGCGCCGUCGC-CGCUu -3'
miRNA:   3'- uGGUCUUuuaCGCGGCGGUGuGCGGu -5'
12721 3' -55.6 NC_003356.1 + 2992 0.71 0.325967
Target:  5'- cGCCAGAAGAU-CGCCGaCGCACucaaccgacugGCCAg -3'
miRNA:   3'- -UGGUCUUUUAcGCGGCgGUGUG-----------CGGU- -5'
12721 3' -55.6 NC_003356.1 + 22899 0.71 0.325967
Target:  5'- cCCGGAGAcgGCGCguCGCCGaguuGCGCCc -3'
miRNA:   3'- uGGUCUUUuaCGCG--GCGGUg---UGCGGu -5'
12721 3' -55.6 NC_003356.1 + 19394 0.73 0.251741
Target:  5'- uGCCAGAAccucUGCGCC-CaGCACGCCGa -3'
miRNA:   3'- -UGGUCUUuu--ACGCGGcGgUGUGCGGU- -5'
12721 3' -55.6 NC_003356.1 + 19355 1.08 0.000636
Target:  5'- cACCAGAAAAUGCGCCGCCACACGCCAg -3'
miRNA:   3'- -UGGUCUUUUACGCGGCGGUGUGCGGU- -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.