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 + 58377 1.09 0.005545
Target:  5'- gCACAAACGCCGAACACCCAACACCUGa -3'
miRNA:   3'- -GUGUUUGCGGCUUGUGGGUUGUGGAC- -5'
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 + 94641 0.66 0.975893
Target:  5'- uUACAAGCucuuuaCCGcGCACCCAaACGCCg- -3'
miRNA:   3'- -GUGUUUGc-----GGCuUGUGGGU-UGUGGac -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 + 44231 0.66 0.970224
Target:  5'- uGCGGGCGCacugcaGGCGCCC-ACACCa- -3'
miRNA:   3'- gUGUUUGCGgc----UUGUGGGuUGUGGac -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 + 12372 0.67 0.956148
Target:  5'- aCAUAAACGCCGucagcaacgaAAUAUUUAGCACCg- -3'
miRNA:   3'- -GUGUUUGCGGC----------UUGUGGGUUGUGGac -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 + 17499 0.68 0.932957
Target:  5'- cCGCAGAC-CCGaAugGCCCAACAgCCc- -3'
miRNA:   3'- -GUGUUUGcGGC-UugUGGGUUGU-GGac -5'
11306 3' -51.7 NC_003083.1 + 62609 0.68 0.927538
Target:  5'- cCGCGAcgacACGCCGGGgGCCacgAGCGCCa- -3'
miRNA:   3'- -GUGUU----UGCGGCUUgUGGg--UUGUGGac -5'
11306 3' -51.7 NC_003083.1 + 19892 0.7 0.882319
Target:  5'- uUACAGACGCCGcACAUuuGGCACa-- -3'
miRNA:   3'- -GUGUUUGCGGCuUGUGggUUGUGgac -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 + 105882 0.68 0.943007
Target:  5'- aACAAACGCU--GCACCCcGCACa-- -3'
miRNA:   3'- gUGUUUGCGGcuUGUGGGuUGUGgac -5'
11306 3' -51.7 NC_003083.1 + 64496 0.68 0.927539
Target:  5'- uCGCcAACGCCGucgccAACACuauggCCAACACCUu -3'
miRNA:   3'- -GUGuUUGCGGC-----UUGUG-----GGUUGUGGAc -5'
11306 3' -51.7 NC_003083.1 + 99179 0.68 0.921857
Target:  5'- aGCAAGCGCaGcGCGCCCuAUACCg- -3'
miRNA:   3'- gUGUUUGCGgCuUGUGGGuUGUGGac -5'
11306 3' -51.7 NC_003083.1 + 72975 0.69 0.903242
Target:  5'- cCGCAGACgGCaCGuACACCCGucgACGCCg- -3'
miRNA:   3'- -GUGUUUG-CG-GCuUGUGGGU---UGUGGac -5'
11306 3' -51.7 NC_003083.1 + 54317 0.69 0.899239
Target:  5'- aGCAAGCGCUGGACGCaauuuuaaacaaaAACACCa- -3'
miRNA:   3'- gUGUUUGCGGCUUGUGgg-----------UUGUGGac -5'
11306 3' -51.7 NC_003083.1 + 114383 0.73 0.717895
Target:  5'- aCAC-GACGCCGGugcaGCGCCgCAGC-CCUGg -3'
miRNA:   3'- -GUGuUUGCGGCU----UGUGG-GUUGuGGAC- -5'
11306 3' -51.7 NC_003083.1 + 53829 0.66 0.978411
Target:  5'- uUugAAACGCCGGAaACUCGGC-CCg- -3'
miRNA:   3'- -GugUUUGCGGCUUgUGGGUUGuGGac -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.