miRNA display CGI


Results 1 - 20 of 29 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
9184 3' -52.6 NC_002512.2 + 225902 0.65 0.994969
Target:  5'- uCCUUCaGGUGGUgguaacccugccagUCCAUCcUACCCa- -3'
miRNA:   3'- cGGAGG-CCACUA--------------AGGUAGaAUGGGag -5'
9184 3' -52.6 NC_002512.2 + 124071 0.66 0.994431
Target:  5'- gGCCcugcCCGG-GGgcuucuccgCCGUCUUcGCCCUCg -3'
miRNA:   3'- -CGGa---GGCCaCUaa-------GGUAGAA-UGGGAG- -5'
9184 3' -52.6 NC_002512.2 + 68270 0.66 0.993581
Target:  5'- uCCUCCcgggucGGUGcgUCuCGUCgcuCCCUCu -3'
miRNA:   3'- cGGAGG------CCACuaAG-GUAGaauGGGAG- -5'
9184 3' -52.6 NC_002512.2 + 1315 0.66 0.992632
Target:  5'- gGCCgCCGGUGcugCCGUCUUAUagUCc -3'
miRNA:   3'- -CGGaGGCCACuaaGGUAGAAUGggAG- -5'
9184 3' -52.6 NC_002512.2 + 75164 0.66 0.991573
Target:  5'- cGCCUCCGGgccuccGcgUCCGUCgcgacgaggAUCCgUCg -3'
miRNA:   3'- -CGGAGGCCa-----CuaAGGUAGaa-------UGGG-AG- -5'
9184 3' -52.6 NC_002512.2 + 14633 0.66 0.991573
Target:  5'- cGCCUCC-GUGGUcggucccaaccUCgAUCccGCCCUCc -3'
miRNA:   3'- -CGGAGGcCACUA-----------AGgUAGaaUGGGAG- -5'
9184 3' -52.6 NC_002512.2 + 188247 0.66 0.991573
Target:  5'- cGUCUCCGGUc--UCCAUaaCUcGCUCUCg -3'
miRNA:   3'- -CGGAGGCCAcuaAGGUA--GAaUGGGAG- -5'
9184 3' -52.6 NC_002512.2 + 122257 0.66 0.990882
Target:  5'- cGCCUCCGGccccUCCGggcgccgauaaaggCUUGCCCg- -3'
miRNA:   3'- -CGGAGGCCacuaAGGUa-------------GAAUGGGag -5'
9184 3' -52.6 NC_002512.2 + 11329 0.66 0.990398
Target:  5'- cGCCgUCCGc----UCCGUCUcGCCCUCc -3'
miRNA:   3'- -CGG-AGGCcacuaAGGUAGAaUGGGAG- -5'
9184 3' -52.6 NC_002512.2 + 33925 0.67 0.987664
Target:  5'- aGCCUCCGGcgcgUGAg-CC-UCUgagACCCUg -3'
miRNA:   3'- -CGGAGGCC----ACUaaGGuAGAa--UGGGAg -5'
9184 3' -52.6 NC_002512.2 + 57277 0.67 0.987664
Target:  5'- aGCCUCCGGUGAUagaCCgggagGUCgcaGCCgguCUCg -3'
miRNA:   3'- -CGGAGGCCACUAa--GG-----UAGaa-UGG---GAG- -5'
9184 3' -52.6 NC_002512.2 + 79687 0.67 0.986089
Target:  5'- gGCCUCCGG--GUUCCcggau-CCCUCu -3'
miRNA:   3'- -CGGAGGCCacUAAGGuagaauGGGAG- -5'
9184 3' -52.6 NC_002512.2 + 75291 0.67 0.984364
Target:  5'- cCCUCCGucGUGcgUCCccucGUCcccgGCCCUCg -3'
miRNA:   3'- cGGAGGC--CACuaAGG----UAGaa--UGGGAG- -5'
9184 3' -52.6 NC_002512.2 + 37908 0.67 0.984183
Target:  5'- uCCUCucccaguCGGUGugcCCcgCUUGCCCUCc -3'
miRNA:   3'- cGGAG-------GCCACuaaGGuaGAAUGGGAG- -5'
9184 3' -52.6 NC_002512.2 + 96516 0.68 0.980434
Target:  5'- cGCCUgCCGGUGAU-CCA-CUacacCCCUUu -3'
miRNA:   3'- -CGGA-GGCCACUAaGGUaGAau--GGGAG- -5'
9184 3' -52.6 NC_002512.2 + 108185 0.68 0.980434
Target:  5'- cGCC-CCGGUGGcgaggcguUUCCA-CU--CCCUCa -3'
miRNA:   3'- -CGGaGGCCACU--------AAGGUaGAauGGGAG- -5'
9184 3' -52.6 NC_002512.2 + 141444 0.68 0.98022
Target:  5'- cGCCUgCUGGUccgggacgccugcGGUUUCGUCUUcGCCCUg -3'
miRNA:   3'- -CGGA-GGCCA-------------CUAAGGUAGAA-UGGGAg -5'
9184 3' -52.6 NC_002512.2 + 57482 0.68 0.978212
Target:  5'- gGCCUgCGGgGAcgCCcgcGUCUcgGCCCUCg -3'
miRNA:   3'- -CGGAgGCCaCUaaGG---UAGAa-UGGGAG- -5'
9184 3' -52.6 NC_002512.2 + 197502 0.68 0.973219
Target:  5'- uCgUCCGGUGGUcgaaagagaUCCGggucCUUugCCUCa -3'
miRNA:   3'- cGgAGGCCACUA---------AGGUa---GAAugGGAG- -5'
9184 3' -52.6 NC_002512.2 + 34884 0.69 0.967446
Target:  5'- cGCCgCCGG-GAccgCCGUC--GCCCUCu -3'
miRNA:   3'- -CGGaGGCCaCUaa-GGUAGaaUGGGAG- -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.