miRNA display CGI


Results 1 - 20 of 82 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
19737 3' -63.6 NC_004687.1 + 31658 0.66 0.573717
Target:  5'- uCCAGGaaGCCCAUCgCggucagcaGCGUCCCGGAg -3'
miRNA:   3'- uGGUCC--UGGGUGGgG--------UGCGGGGUCUa -5'
19737 3' -63.6 NC_004687.1 + 139847 0.66 0.573717
Target:  5'- aACCGGGGCgCCAUgCUCGCGCUgaccaCCGGAc -3'
miRNA:   3'- -UGGUCCUG-GGUG-GGGUGCGG-----GGUCUa -5'
19737 3' -63.6 NC_004687.1 + 42081 0.66 0.570808
Target:  5'- gGCCAGGACCCgacggagcuggucgACUuccuguacuaCCugGCCCCGc-- -3'
miRNA:   3'- -UGGUCCUGGG--------------UGG----------GGugCGGGGUcua -5'
19737 3' -63.6 NC_004687.1 + 27407 0.66 0.554392
Target:  5'- gACgAGGACCUcaaGCCCaACGCCuuuCCGGAg -3'
miRNA:   3'- -UGgUCCUGGG---UGGGgUGCGG---GGUCUa -5'
19737 3' -63.6 NC_004687.1 + 88841 0.66 0.554392
Target:  5'- uCCAGGGCgUCACCgaagAUGCCCCAGGc -3'
miRNA:   3'- uGGUCCUG-GGUGGgg--UGCGGGGUCUa -5'
19737 3' -63.6 NC_004687.1 + 78415 0.66 0.554392
Target:  5'- gACCuGGACCCAUUCgaCACGCUUgAGGUa -3'
miRNA:   3'- -UGGuCCUGGGUGGG--GUGCGGGgUCUA- -5'
19737 3' -63.6 NC_004687.1 + 15163 0.66 0.5448
Target:  5'- cACCAGGACCgcguCACCCgAgGCCUugucaCGGAa -3'
miRNA:   3'- -UGGUCCUGG----GUGGGgUgCGGG-----GUCUa -5'
19737 3' -63.6 NC_004687.1 + 119111 0.66 0.5448
Target:  5'- cGCCGGGACaugaucaCugCCCAUGgCCCAc-- -3'
miRNA:   3'- -UGGUCCUGg------GugGGGUGCgGGGUcua -5'
19737 3' -63.6 NC_004687.1 + 134567 0.66 0.5448
Target:  5'- gGCU-GGGCCaCGCCCgaaugGCGCUCCAGAUc -3'
miRNA:   3'- -UGGuCCUGG-GUGGGg----UGCGGGGUCUA- -5'
19737 3' -63.6 NC_004687.1 + 92837 0.66 0.539071
Target:  5'- -gCAGGGCCUcgaugucugaccugcGCgCCCGCGUCCUGGAc -3'
miRNA:   3'- ugGUCCUGGG---------------UG-GGGUGCGGGGUCUa -5'
19737 3' -63.6 NC_004687.1 + 102348 0.66 0.535263
Target:  5'- -aCAGGACCCGCUugCCGCGCaCCAu-- -3'
miRNA:   3'- ugGUCCUGGGUGG--GGUGCGgGGUcua -5'
19737 3' -63.6 NC_004687.1 + 61728 0.66 0.535263
Target:  5'- cGCCGGG-CgCCACgCCCACGUuggCCUGGAa -3'
miRNA:   3'- -UGGUCCuG-GGUG-GGGUGCG---GGGUCUa -5'
19737 3' -63.6 NC_004687.1 + 96821 0.66 0.535263
Target:  5'- --gAGGACCUguGCCagCCACGCCCUAGc- -3'
miRNA:   3'- uggUCCUGGG--UGG--GGUGCGGGGUCua -5'
19737 3' -63.6 NC_004687.1 + 133566 0.66 0.535263
Target:  5'- uUCAGGGgUCGCCUCACGCCCg---- -3'
miRNA:   3'- uGGUCCUgGGUGGGGUGCGGGgucua -5'
19737 3' -63.6 NC_004687.1 + 93597 0.66 0.535263
Target:  5'- cACCGGuGugCCGaagcugCCCACGCCCUuGAg -3'
miRNA:   3'- -UGGUC-CugGGUg-----GGGUGCGGGGuCUa -5'
19737 3' -63.6 NC_004687.1 + 8630 0.66 0.529568
Target:  5'- cACCGGGucgACCCucACCCgcagaccgacgacaaCACGCCCCAaGAc -3'
miRNA:   3'- -UGGUCC---UGGG--UGGG---------------GUGCGGGGU-CUa -5'
19737 3' -63.6 NC_004687.1 + 139140 0.66 0.525784
Target:  5'- gACCGacACCCAgUCCuCGCCCCGGGg -3'
miRNA:   3'- -UGGUccUGGGUgGGGuGCGGGGUCUa -5'
19737 3' -63.6 NC_004687.1 + 27289 0.66 0.525784
Target:  5'- cGCCgAGGACaagcacuaUCGCCCCgACGUCCCGGc- -3'
miRNA:   3'- -UGG-UCCUG--------GGUGGGG-UGCGGGGUCua -5'
19737 3' -63.6 NC_004687.1 + 117312 0.66 0.51637
Target:  5'- gACCGGGGCCagACCgCAgGCCuguuCCAGGUg -3'
miRNA:   3'- -UGGUCCUGGg-UGGgGUgCGG----GGUCUA- -5'
19737 3' -63.6 NC_004687.1 + 40673 0.66 0.51637
Target:  5'- uCCAGcACCCACCgCAC-CCCCGGc- -3'
miRNA:   3'- uGGUCcUGGGUGGgGUGcGGGGUCua -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.