miRNA display CGI


Results 1 - 15 of 15 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
13021 5' -56.1 NC_003390.1 + 332 0.68 0.491538
Target:  5'- gGGCGagGGAGGCUCggaugccaugcaacCGGGCgAGCUCCu -3'
miRNA:   3'- gCUGCa-UCUCCGGGa-------------GUCUG-UCGAGG- -5'
13021 5' -56.1 NC_003390.1 + 1144 0.68 0.51862
Target:  5'- cCGAagccCGUacAGAGGCUCUCAGAgccCAGCacauugaaUCCa -3'
miRNA:   3'- -GCU----GCA--UCUCCGGGAGUCU---GUCG--------AGG- -5'
13021 5' -56.1 NC_003390.1 + 9946 1.13 0.000412
Target:  5'- gCGACGUAGAGGCCCUCAGACAGCUCCg -3'
miRNA:   3'- -GCUGCAUCUCCGGGAGUCUGUCGAGG- -5'
13021 5' -56.1 NC_003390.1 + 10076 0.68 0.51862
Target:  5'- uGGCGgccAGGCCCUCugGGAUcaGGCUCg -3'
miRNA:   3'- gCUGCaucUCCGGGAG--UCUG--UCGAGg -5'
13021 5' -56.1 NC_003390.1 + 10804 0.68 0.539846
Target:  5'- uCGACGUAGccaAGcGCCgUCGGgGCcaggGGCUCCu -3'
miRNA:   3'- -GCUGCAUC---UC-CGGgAGUC-UG----UCGAGG- -5'
13021 5' -56.1 NC_003390.1 + 17861 0.67 0.572204
Target:  5'- uGugGUAGAgcgGGCCUcaUCAGGCcuuGCUgCa -3'
miRNA:   3'- gCugCAUCU---CCGGG--AGUCUGu--CGAgG- -5'
13021 5' -56.1 NC_003390.1 + 20272 0.66 0.615993
Target:  5'- cCGGCGguggaGGGGGCUcgggCUUAGGCAcacuagguGCUCCu -3'
miRNA:   3'- -GCUGCa----UCUCCGG----GAGUCUGU--------CGAGG- -5'
13021 5' -56.1 NC_003390.1 + 21856 0.67 0.55057
Target:  5'- ----aUGGuGGCCC-CAGACGGgUCCa -3'
miRNA:   3'- gcugcAUCuCCGGGaGUCUGUCgAGG- -5'
13021 5' -56.1 NC_003390.1 + 22871 0.68 0.50813
Target:  5'- uCGAUcacUGGAGuGCCCUUagcggacucuguAGACAGCUCg -3'
miRNA:   3'- -GCUGc--AUCUC-CGGGAG------------UCUGUCGAGg -5'
13021 5' -56.1 NC_003390.1 + 29518 0.66 0.615993
Target:  5'- cCGGCGguggaGGGGGCUcgggCUUAGGCAcacuagguGCUCCu -3'
miRNA:   3'- -GCUGCa----UCUCCGG----GAGUCUGU--------CGAGG- -5'
13021 5' -56.1 NC_003390.1 + 33929 0.7 0.390707
Target:  5'- gCGACGUGGccugccuGGCCCUguGAgGccguucacccggGCUCCa -3'
miRNA:   3'- -GCUGCAUCu------CCGGGAguCUgU------------CGAGG- -5'
13021 5' -56.1 NC_003390.1 + 34325 0.66 0.649012
Target:  5'- gCGGCuuGUAG-GGCCCUUAGAaGGCgUUCu -3'
miRNA:   3'- -GCUG--CAUCuCCGGGAGUCUgUCG-AGG- -5'
13021 5' -56.1 NC_003390.1 + 39392 0.75 0.19815
Target:  5'- uGAUGUcGAGGCcagggaCCUCAGAgGGCUCUg -3'
miRNA:   3'- gCUGCAuCUCCG------GGAGUCUgUCGAGG- -5'
13021 5' -56.1 NC_003390.1 + 42483 0.7 0.409046
Target:  5'- aGACGUucAGAGGCaUCUCuaAUGGCUCCu -3'
miRNA:   3'- gCUGCA--UCUCCG-GGAGucUGUCGAGG- -5'
13021 5' -56.1 NC_003390.1 + 43803 0.66 0.638008
Target:  5'- aCGugGUAGAugaguuccuacaGGCCUaUAGAagcGCUCCu -3'
miRNA:   3'- -GCugCAUCU------------CCGGGaGUCUgu-CGAGG- -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.