miRNA display CGI


Results 1 - 20 of 26 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
12140 5' -55.7 NC_003309.1 + 10411 0.69 0.470135
Target:  5'- uUCGcCGCAGCaGCAGCUcgAUCGCccugcgcuuugGCGAg -3'
miRNA:   3'- -AGCuGCGUCGaCGUCGG--UAGUG-----------UGCU- -5'
12140 5' -55.7 NC_003309.1 + 24007 1.1 0.000723
Target:  5'- gUCGACGCAGCUGCAGCCAUCACACGAg -3'
miRNA:   3'- -AGCUGCGUCGACGUCGGUAGUGUGCU- -5'
12140 5' -55.7 NC_003309.1 + 45318 0.77 0.164088
Target:  5'- gUUGAUGCauGGCaUGCAGCCAaCGCGCGAc -3'
miRNA:   3'- -AGCUGCG--UCG-ACGUCGGUaGUGUGCU- -5'
12140 5' -55.7 NC_003309.1 + 22473 0.76 0.173339
Target:  5'- cCGACGCGGCggcaucgugcGCGGCgAUCGCACGc -3'
miRNA:   3'- aGCUGCGUCGa---------CGUCGgUAGUGUGCu -5'
12140 5' -55.7 NC_003309.1 + 3952 0.76 0.173339
Target:  5'- gUCGGCGCuccgauGCgGCAGCCAUCuGCGCGc -3'
miRNA:   3'- -AGCUGCGu-----CGaCGUCGGUAG-UGUGCu -5'
12140 5' -55.7 NC_003309.1 + 16124 0.76 0.178138
Target:  5'- gCGAUGCcGCUGCGcucGCaCAUCGCGCGAu -3'
miRNA:   3'- aGCUGCGuCGACGU---CG-GUAGUGUGCU- -5'
12140 5' -55.7 NC_003309.1 + 10705 0.73 0.270073
Target:  5'- cUCGGCGCGcucgagcuccugcuGCgcgGCGGCCGUCuCGCGGg -3'
miRNA:   3'- -AGCUGCGU--------------CGa--CGUCGGUAGuGUGCU- -5'
12140 5' -55.7 NC_003309.1 + 43537 0.73 0.279193
Target:  5'- aCG-CGCAcGCcgucgGCGGCCAUCGCGCGc -3'
miRNA:   3'- aGCuGCGU-CGa----CGUCGGUAGUGUGCu -5'
12140 5' -55.7 NC_003309.1 + 2843 0.73 0.301169
Target:  5'- aUCGAUGaAGCUGUAGCUGUUGcCACGAa -3'
miRNA:   3'- -AGCUGCgUCGACGUCGGUAGU-GUGCU- -5'
12140 5' -55.7 NC_003309.1 + 27206 0.71 0.366183
Target:  5'- gCGGCGCAGCcacGCuGCCGuugauUCGCGCGu -3'
miRNA:   3'- aGCUGCGUCGa--CGuCGGU-----AGUGUGCu -5'
12140 5' -55.7 NC_003309.1 + 47948 0.7 0.420928
Target:  5'- cUCGGCGaAGCUGCgaccgauaguucGGUCGUCGCGCa- -3'
miRNA:   3'- -AGCUGCgUCGACG------------UCGGUAGUGUGcu -5'
12140 5' -55.7 NC_003309.1 + 33994 0.7 0.430522
Target:  5'- gUGGCGCAGUUcGCGGUaagcguguUCGCACGAc -3'
miRNA:   3'- aGCUGCGUCGA-CGUCGgu------AGUGUGCU- -5'
12140 5' -55.7 NC_003309.1 + 15983 0.7 0.449099
Target:  5'- gUCGGCGCGGCUGCGagguuucGgCAggGCACGu -3'
miRNA:   3'- -AGCUGCGUCGACGU-------CgGUagUGUGCu -5'
12140 5' -55.7 NC_003309.1 + 20117 0.66 0.653506
Target:  5'- aUCGACGCcauGUauuUGUGGCCGUCG-ACGGu -3'
miRNA:   3'- -AGCUGCGu--CG---ACGUCGGUAGUgUGCU- -5'
12140 5' -55.7 NC_003309.1 + 18578 0.68 0.511523
Target:  5'- gCGACGuCAGCaGCAGCCAcCgAC-CGAg -3'
miRNA:   3'- aGCUGC-GUCGaCGUCGGUaG-UGuGCU- -5'
12140 5' -55.7 NC_003309.1 + 9734 0.68 0.522109
Target:  5'- cUGAUaCAGCU-CGGCCGUCGCGuCGAg -3'
miRNA:   3'- aGCUGcGUCGAcGUCGGUAGUGU-GCU- -5'
12140 5' -55.7 NC_003309.1 + 46786 0.68 0.554343
Target:  5'- gCGugGCcGCUGCgcgAGCUGUCACcgcaACGGg -3'
miRNA:   3'- aGCugCGuCGACG---UCGGUAGUG----UGCU- -5'
12140 5' -55.7 NC_003309.1 + 45869 0.68 0.554343
Target:  5'- aUC-ACGCGGC-GaCGGCCGUCGauCACGAg -3'
miRNA:   3'- -AGcUGCGUCGaC-GUCGGUAGU--GUGCU- -5'
12140 5' -55.7 NC_003309.1 + 5164 0.68 0.565223
Target:  5'- uUCGAgGCgAGCUGCGcGUCGcCGCGCGc -3'
miRNA:   3'- -AGCUgCG-UCGACGU-CGGUaGUGUGCu -5'
12140 5' -55.7 NC_003309.1 + 44179 0.67 0.576157
Target:  5'- gCGGCGC-GCUGCcGCuCGgcgUACGCGAc -3'
miRNA:   3'- aGCUGCGuCGACGuCG-GUa--GUGUGCU- -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.