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
11306 3' -51.7 NC_003083.1 + 58092 0.65 0.980054
Target:  5'- aAUAAGCGCCGuugugcAGCGCCUccaacucugacgacGGCACCa- -3'
miRNA:   3'- gUGUUUGCGGC------UUGUGGG--------------UUGUGGac -5'
11306 3' -51.7 NC_003083.1 + 53829 0.66 0.978411
Target:  5'- uUugAAACGCCGGAaACUCGGC-CCg- -3'
miRNA:   3'- -GugUUUGCGGCUUgUGGGUUGuGGac -5'
11306 3' -51.7 NC_003083.1 + 58394 0.66 0.978411
Target:  5'- aAUAAugGCC-AACACUaaCAACACCa- -3'
miRNA:   3'- gUGUUugCGGcUUGUGG--GUUGUGGac -5'
11306 3' -51.7 NC_003083.1 + 92887 0.66 0.978411
Target:  5'- uGCAAACGCCcaacaAGCGCCgCAcauGC-CCUGg -3'
miRNA:   3'- gUGUUUGCGGc----UUGUGG-GU---UGuGGAC- -5'
11306 3' -51.7 NC_003083.1 + 94641 0.66 0.975893
Target:  5'- uUACAAGCucuuuaCCGcGCACCCAaACGCCg- -3'
miRNA:   3'- -GUGUUUGc-----GGCuUGUGGGU-UGUGGac -5'
11306 3' -51.7 NC_003083.1 + 55284 0.66 0.975893
Target:  5'- aCACAAACGCUauGAACuuGCCCGaauacaagAUACCg- -3'
miRNA:   3'- -GUGUUUGCGG--CUUG--UGGGU--------UGUGGac -5'
11306 3' -51.7 NC_003083.1 + 44909 0.66 0.970224
Target:  5'- aGCAAAUGCCGAcgaGCCgGcCACCa- -3'
miRNA:   3'- gUGUUUGCGGCUug-UGGgUuGUGGac -5'
11306 3' -51.7 NC_003083.1 + 44231 0.66 0.970224
Target:  5'- uGCGGGCGCacugcaGGCGCCC-ACACCa- -3'
miRNA:   3'- gUGUUUGCGgc----UUGUGGGuUGUGGac -5'
11306 3' -51.7 NC_003083.1 + 24162 0.66 0.970224
Target:  5'- gCGCAAACGCCGAcgagaGCugCgu-CGCCa- -3'
miRNA:   3'- -GUGUUUGCGGCU-----UGugGguuGUGGac -5'
11306 3' -51.7 NC_003083.1 + 58555 0.66 0.967058
Target:  5'- aACAGugGCgcaaCGuguuGCGCCUAGCGCCa- -3'
miRNA:   3'- gUGUUugCG----GCu---UGUGGGUUGUGGac -5'
11306 3' -51.7 NC_003083.1 + 71459 0.67 0.96366
Target:  5'- uCGCGAcUGCCGuACgACCaCAACACCa- -3'
miRNA:   3'- -GUGUUuGCGGCuUG-UGG-GUUGUGGac -5'
11306 3' -51.7 NC_003083.1 + 38046 0.67 0.960026
Target:  5'- gCACGucgcuCGCCGAggauGCAUCCAACAUUg- -3'
miRNA:   3'- -GUGUuu---GCGGCU----UGUGGGUUGUGGac -5'
11306 3' -51.7 NC_003083.1 + 105191 0.67 0.960026
Target:  5'- gCACAacauccAACGCaCG-ACGCCCAGCuGCCa- -3'
miRNA:   3'- -GUGU------UUGCG-GCuUGUGGGUUG-UGGac -5'
11306 3' -51.7 NC_003083.1 + 64562 0.67 0.956148
Target:  5'- uCACcAACGCCGucgccAACACcgucgCCAACGCCg- -3'
miRNA:   3'- -GUGuUUGCGGC-----UUGUG-----GGUUGUGGac -5'
11306 3' -51.7 NC_003083.1 + 12372 0.67 0.956148
Target:  5'- aCAUAAACGCCGucagcaacgaAAUAUUUAGCACCg- -3'
miRNA:   3'- -GUGUUUGCGGC----------UUGUGGGUUGUGGac -5'
11306 3' -51.7 NC_003083.1 + 33521 0.67 0.953702
Target:  5'- uUAUAAAUGCUGuuccgcgucguuugaAACACCCAACACa-- -3'
miRNA:   3'- -GUGUUUGCGGC---------------UUGUGGGUUGUGgac -5'
11306 3' -51.7 NC_003083.1 + 58016 0.67 0.952021
Target:  5'- aUACGuuguCGCCGAACGCCUuggGGCAgaaUCUGg -3'
miRNA:   3'- -GUGUuu--GCGGCUUGUGGG---UUGU---GGAC- -5'
11306 3' -51.7 NC_003083.1 + 11694 0.67 0.947642
Target:  5'- gGCuuGCGCgGAACACUauACACCg- -3'
miRNA:   3'- gUGuuUGCGgCUUGUGGguUGUGGac -5'
11306 3' -51.7 NC_003083.1 + 105882 0.68 0.943007
Target:  5'- aACAAACGCU--GCACCCcGCACa-- -3'
miRNA:   3'- gUGUUUGCGGcuUGUGGGuUGUGgac -5'
11306 3' -51.7 NC_003083.1 + 17499 0.68 0.932957
Target:  5'- cCGCAGAC-CCGaAugGCCCAACAgCCc- -3'
miRNA:   3'- -GUGUUUGcGGC-UugUGGGUUGU-GGac -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.