miRNA display CGI


Results 1 - 20 of 35 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
1389 3' -56.6 NC_001335.1 + 28934 0.71 0.345223
Target:  5'- cGAGCUGUcaccgGCAGCCgcCGGCC-CAUCGc -3'
miRNA:   3'- cCUCGGCA-----CGUUGGa-GCCGGuGUAGU- -5'
1389 3' -56.6 NC_001335.1 + 47640 0.66 0.634193
Target:  5'- uGGAGCCG---AGCCUCGGUCucgGCGUa- -3'
miRNA:   3'- -CCUCGGCacgUUGGAGCCGG---UGUAgu -5'
1389 3' -56.6 NC_001335.1 + 50762 0.66 0.634193
Target:  5'- gGGGGCgGcGC-ACCUUGGgCGCGUUg -3'
miRNA:   3'- -CCUCGgCaCGuUGGAGCCgGUGUAGu -5'
1389 3' -56.6 NC_001335.1 + 2450 0.66 0.645162
Target:  5'- aGGGCC--GCAACCgaugUCGaCCACAUCAa -3'
miRNA:   3'- cCUCGGcaCGUUGG----AGCcGGUGUAGU- -5'
1389 3' -56.6 NC_001335.1 + 5543 0.75 0.177166
Target:  5'- uGAGUCGgcgGCuGACCUCGGUgACAUCAu -3'
miRNA:   3'- cCUCGGCa--CG-UUGGAGCCGgUGUAGU- -5'
1389 3' -56.6 NC_001335.1 + 7203 0.73 0.249758
Target:  5'- cGGuGGCCGUauugaggcaGCGACCUCGaGCCccGCGUCGa -3'
miRNA:   3'- -CC-UCGGCA---------CGUUGGAGC-CGG--UGUAGU- -5'
1389 3' -56.6 NC_001335.1 + 24317 0.73 0.262893
Target:  5'- aGGAGUCGUGUGACCgagaCGGgC-CAUCAg -3'
miRNA:   3'- -CCUCGGCACGUUGGa---GCCgGuGUAGU- -5'
1389 3' -56.6 NC_001335.1 + 4091 0.72 0.290838
Target:  5'- aGGcAGCCGgcgGCGAUgcaaagcagCUCGGCCGCGUUu -3'
miRNA:   3'- -CC-UCGGCa--CGUUG---------GAGCCGGUGUAGu -5'
1389 3' -56.6 NC_001335.1 + 42201 0.72 0.298178
Target:  5'- -cAGCgCGUGCAGcuCCUCuGCCGCGUCGu -3'
miRNA:   3'- ccUCG-GCACGUU--GGAGcCGGUGUAGU- -5'
1389 3' -56.6 NC_001335.1 + 32703 0.67 0.547143
Target:  5'- -cGGCgGUGuUGACCUUGGCCagcACGUCGg -3'
miRNA:   3'- ccUCGgCAC-GUUGGAGCCGG---UGUAGU- -5'
1389 3' -56.6 NC_001335.1 + 7878 0.67 0.536478
Target:  5'- cGGcuGCCGUGuCAGCgaCGGCCugcuguuCGUCAu -3'
miRNA:   3'- -CCu-CGGCAC-GUUGgaGCCGGu------GUAGU- -5'
1389 3' -56.6 NC_001335.1 + 28446 0.69 0.415834
Target:  5'- aGGA-CCGUGaacuuCCUCGGCUcCAUCAg -3'
miRNA:   3'- -CCUcGGCACguu--GGAGCCGGuGUAGU- -5'
1389 3' -56.6 NC_001335.1 + 26596 0.67 0.547143
Target:  5'- cGAGCCGaaCGGCCUUGaGCCGgcCGUCGg -3'
miRNA:   3'- cCUCGGCacGUUGGAGC-CGGU--GUAGU- -5'
1389 3' -56.6 NC_001335.1 + 16254 0.69 0.434821
Target:  5'- cGGAGCCGgcgcugGCGuagucGCgCUCGGCauggacgGCAUCAa -3'
miRNA:   3'- -CCUCGGCa-----CGU-----UG-GAGCCGg------UGUAGU- -5'
1389 3' -56.6 NC_001335.1 + 34377 0.67 0.536478
Target:  5'- -uGGCCccuUGCGGCCggaugCGGCuCACGUCGu -3'
miRNA:   3'- ccUCGGc--ACGUUGGa----GCCG-GUGUAGU- -5'
1389 3' -56.6 NC_001335.1 + 19422 0.66 0.623221
Target:  5'- aGAGCUGcGCGauggcgacuuccGCCUgcgCGGCCugGUCGc -3'
miRNA:   3'- cCUCGGCaCGU------------UGGA---GCCGGugUAGU- -5'
1389 3' -56.6 NC_001335.1 + 13349 0.66 0.645162
Target:  5'- aGGAGCaCG-GCAuCCUCGGggcccagucCCAgAUCGa -3'
miRNA:   3'- -CCUCG-GCaCGUuGGAGCC---------GGUgUAGU- -5'
1389 3' -56.6 NC_001335.1 + 23176 0.69 0.4543
Target:  5'- -aGGCuCGUaaccGCAACCUCGGCCAgGgCAc -3'
miRNA:   3'- ccUCG-GCA----CGUUGGAGCCGGUgUaGU- -5'
1389 3' -56.6 NC_001335.1 + 10170 0.67 0.536478
Target:  5'- --cGCCGagUGCGACCUCuaaguuggcucuGGCCGCAguUCGc -3'
miRNA:   3'- ccuCGGC--ACGUUGGAG------------CCGGUGU--AGU- -5'
1389 3' -56.6 NC_001335.1 + 17146 0.71 0.337024
Target:  5'- cGGcGCUG-GCGAcggcCCUCGGCCAgGUCGc -3'
miRNA:   3'- -CCuCGGCaCGUU----GGAGCCGGUgUAGU- -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.