miRNA display CGI


Results 1 - 20 of 30 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
1842 3' -54.4 NC_001347.2 + 27976 0.68 0.940427
Target:  5'- -cGCGUgugUUUugACGGGGCUgGGUGg -3'
miRNA:   3'- ccUGCGga-AAAugUGCCCCGAgUCGC- -5'
1842 3' -54.4 NC_001347.2 + 34035 0.66 0.98392
Target:  5'- aGGACcucuacgcgGCCUUUUGCgagugcggcgACGGGcGCgacaaCGGCGg -3'
miRNA:   3'- -CCUG---------CGGAAAAUG----------UGCCC-CGa----GUCGC- -5'
1842 3' -54.4 NC_001347.2 + 38103 0.7 0.87634
Target:  5'- cGGAUgagcgGCCgcg-GCGC-GGGCUCGGCGu -3'
miRNA:   3'- -CCUG-----CGGaaaaUGUGcCCCGAGUCGC- -5'
1842 3' -54.4 NC_001347.2 + 46466 0.69 0.908848
Target:  5'- -aGCGCg---UAUACGGGGCUgGGCa -3'
miRNA:   3'- ccUGCGgaaaAUGUGCCCCGAgUCGc -5'
1842 3' -54.4 NC_001347.2 + 46719 0.66 0.978673
Target:  5'- cGGCGCCUaggUGCACGcugauguccucGGGCUugacgccgguuugcgCAGCGc -3'
miRNA:   3'- cCUGCGGAaa-AUGUGC-----------CCCGA---------------GUCGC- -5'
1842 3' -54.4 NC_001347.2 + 54171 0.71 0.854297
Target:  5'- cGGGCGCCUUUUucuuCGCcucGGGCUCuGUc -3'
miRNA:   3'- -CCUGCGGAAAAu---GUGc--CCCGAGuCGc -5'
1842 3' -54.4 NC_001347.2 + 72196 0.67 0.960527
Target:  5'- -aGCGCCgcgcUGCGCGGcGGCcucaUCGGCa -3'
miRNA:   3'- ccUGCGGaaa-AUGUGCC-CCG----AGUCGc -5'
1842 3' -54.4 NC_001347.2 + 73648 0.67 0.972792
Target:  5'- cGGCGCCgc-UGC-CGGGcCUCGGCc -3'
miRNA:   3'- cCUGCGGaaaAUGuGCCCcGAGUCGc -5'
1842 3' -54.4 NC_001347.2 + 78952 0.67 0.962908
Target:  5'- uGACGCCgcaggcucuggugGCGCGuGGGCcCAGCc -3'
miRNA:   3'- cCUGCGGaaaa---------UGUGC-CCCGaGUCGc -5'
1842 3' -54.4 NC_001347.2 + 89962 0.75 0.662787
Target:  5'- uGGugGgCUgcgcCGCGGGGCUguGCGa -3'
miRNA:   3'- -CCugCgGAaaauGUGCCCCGAguCGC- -5'
1842 3' -54.4 NC_001347.2 + 90727 0.67 0.965188
Target:  5'- -aGCGCUUUUguggagGCGCGaGGGCUCuacgugccggccguaAGCGa -3'
miRNA:   3'- ccUGCGGAAAa-----UGUGC-CCCGAG---------------UCGC- -5'
1842 3' -54.4 NC_001347.2 + 91217 0.67 0.972792
Target:  5'- -cGCuCCUUUgUugGCGGGGCUCacGGUGg -3'
miRNA:   3'- ccUGcGGAAA-AugUGCCCCGAG--UCGC- -5'
1842 3' -54.4 NC_001347.2 + 93992 0.72 0.796435
Target:  5'- -cAUGCCcg--GCACGGGGCUC-GCGc -3'
miRNA:   3'- ccUGCGGaaaaUGUGCCCCGAGuCGC- -5'
1842 3' -54.4 NC_001347.2 + 96813 0.72 0.778508
Target:  5'- cGGACGCCggcUACGucccagucCGGGGCUUagAGCa -3'
miRNA:   3'- -CCUGCGGaaaAUGU--------GCCCCGAG--UCGc -5'
1842 3' -54.4 NC_001347.2 + 105260 0.66 0.979983
Target:  5'- cGGCGgCUgcugUUGCACGGG-CUCGGg- -3'
miRNA:   3'- cCUGCgGAa---AAUGUGCCCcGAGUCgc -5'
1842 3' -54.4 NC_001347.2 + 112407 0.69 0.925667
Target:  5'- gGGGCGaCCacgucAgACGGGGCggCGGCGg -3'
miRNA:   3'- -CCUGC-GGaaaa-UgUGCCCCGa-GUCGC- -5'
1842 3' -54.4 NC_001347.2 + 117503 0.7 0.896504
Target:  5'- gGGGCGCCguaggACGCGGgauaagacGGCaaaggCAGCGg -3'
miRNA:   3'- -CCUGCGGaaaa-UGUGCC--------CCGa----GUCGC- -5'
1842 3' -54.4 NC_001347.2 + 119873 0.67 0.960527
Target:  5'- cGACGCCUg--ACGCcaGGCUCAGa- -3'
miRNA:   3'- cCUGCGGAaaaUGUGccCCGAGUCgc -5'
1842 3' -54.4 NC_001347.2 + 142140 0.66 0.98392
Target:  5'- cGACGUCggcacaGCGGGGUgcgggcCAGCGa -3'
miRNA:   3'- cCUGCGGaaaaugUGCCCCGa-----GUCGC- -5'
1842 3' -54.4 NC_001347.2 + 147569 0.67 0.960527
Target:  5'- uGGugGCggUggUGCAgCGGcGGCUgAGCGg -3'
miRNA:   3'- -CCugCGgaAa-AUGU-GCC-CCGAgUCGC- -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.