miRNA display CGI


Results 1 - 18 of 18 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
7165 5' -56.9 NC_001900.1 + 44861 0.66 0.609381
Target:  5'- uCUCCaCCGUCGAGcccacgaccuCUCGGAUCUCAu -3'
miRNA:   3'- cGAGG-GGCGGUUCcu--------GAGCUUGGAGU- -5'
7165 5' -56.9 NC_001900.1 + 14281 0.66 0.598454
Target:  5'- gGCgUCaCCCGCCGu--GCUCGAACCa-- -3'
miRNA:   3'- -CG-AG-GGGCGGUuccUGAGCUUGGagu -5'
7165 5' -56.9 NC_001900.1 + 44298 0.66 0.598454
Target:  5'- gGUUCCCgGUCuuguagucccGGACUCGAAgCUCc -3'
miRNA:   3'- -CGAGGGgCGGuu--------CCUGAGCUUgGAGu -5'
7165 5' -56.9 NC_001900.1 + 39128 0.66 0.597363
Target:  5'- cGCUCCCCgaugaccuggacgGCCGGGGGCuuacgcagguagUCGAuCgCUCGc -3'
miRNA:   3'- -CGAGGGG-------------CGGUUCCUG------------AGCUuG-GAGU- -5'
7165 5' -56.9 NC_001900.1 + 40898 0.66 0.576694
Target:  5'- uGCagCCCGuCCucGGACUCGccAACUUCGc -3'
miRNA:   3'- -CGagGGGC-GGuuCCUGAGC--UUGGAGU- -5'
7165 5' -56.9 NC_001900.1 + 43798 0.66 0.576694
Target:  5'- cGCUCCUCGCUguGAGcGCgagCGAACCg-- -3'
miRNA:   3'- -CGAGGGGCGG--UUCcUGa--GCUUGGagu -5'
7165 5' -56.9 NC_001900.1 + 42966 0.66 0.565878
Target:  5'- cGC-CUCCGUCGaggGGGACgCGAaGCCUCGc -3'
miRNA:   3'- -CGaGGGGCGGU---UCCUGaGCU-UGGAGU- -5'
7165 5' -56.9 NC_001900.1 + 6389 0.68 0.501315
Target:  5'- cCUCCCCGguggaucaggucaCCAGGGGCgUCGAGCaggugCUCGc -3'
miRNA:   3'- cGAGGGGC-------------GGUUCCUG-AGCUUG-----GAGU- -5'
7165 5' -56.9 NC_001900.1 + 33000 0.7 0.363477
Target:  5'- cGCUCUucgCCGCCAGGGGCUUccugcgccugcugcgGAGCC-CGa -3'
miRNA:   3'- -CGAGG---GGCGGUUCCUGAG---------------CUUGGaGU- -5'
7165 5' -56.9 NC_001900.1 + 3586 0.7 0.360062
Target:  5'- uGUUCCCCGCgu-GGACgcuGAACUUCAa -3'
miRNA:   3'- -CGAGGGGCGguuCCUGag-CUUGGAGU- -5'
7165 5' -56.9 NC_001900.1 + 32944 0.73 0.253542
Target:  5'- uGUUCCCCGCCuuggagacaccGGACUUGAACUcCAu -3'
miRNA:   3'- -CGAGGGGCGGuu---------CCUGAGCUUGGaGU- -5'
7165 5' -56.9 NC_001900.1 + 3192 0.73 0.223886
Target:  5'- uGCUcCCCCGCCGGGGG-UUGAcCCUCc -3'
miRNA:   3'- -CGA-GGGGCGGUUCCUgAGCUuGGAGu -5'
7165 5' -56.9 NC_001900.1 + 44604 1.1 0.000501
Target:  5'- uGCUCCCCGCCAAGGACUCGAACCUCAa -3'
miRNA:   3'- -CGAGGGGCGGUUCCUGAGCUUGGAGU- -5'
7165 5' -56.9 NC_001900.1 + 44780 0.75 0.176219
Target:  5'- cGCUCuggggaaccgCCCGCUuggcugacgaggAAGGACUCGAACCUUc -3'
miRNA:   3'- -CGAG----------GGGCGG------------UUCCUGAGCUUGGAGu -5'
7165 5' -56.9 NC_001900.1 + 30570 0.69 0.395209
Target:  5'- aGCUCagCCGCCAGGGcCUUG-GCCUUc -3'
miRNA:   3'- -CGAGg-GGCGGUUCCuGAGCuUGGAGu -5'
7165 5' -56.9 NC_001900.1 + 44500 0.68 0.461768
Target:  5'- -gUCCCUGC--GGGAUUCGAACCcgCGa -3'
miRNA:   3'- cgAGGGGCGguUCCUGAGCUUGGa-GU- -5'
7165 5' -56.9 NC_001900.1 + 39170 0.66 0.58538
Target:  5'- aGCUCCgcagUCGCCugcaucagcaucAGGAUUCGAGCCg-- -3'
miRNA:   3'- -CGAGG----GGCGGu-----------UCCUGAGCUUGGagu -5'
7165 5' -56.9 NC_001900.1 + 46491 0.66 0.609381
Target:  5'- -gUUCCCGCCGucGGGCUaCGc-CCUCAg -3'
miRNA:   3'- cgAGGGGCGGUu-CCUGA-GCuuGGAGU- -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.