miRNA display CGI


Results 1 - 13 of 13 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
18658 5' -59.4 NC_004682.1 + 21224 0.66 0.45296
Target:  5'- gAGCUGcgCGUCCuGGaGCGuCUUCUugGCCa -3'
miRNA:   3'- -UCGACuaGCGGG-UC-CGC-GAAGA--CGGc -5'
18658 5' -59.4 NC_004682.1 + 46208 0.66 0.45296
Target:  5'- uGCUGcuGUCGCUC-GGCGCU---GCCGa -3'
miRNA:   3'- uCGAC--UAGCGGGuCCGCGAagaCGGC- -5'
18658 5' -59.4 NC_004682.1 + 46340 0.66 0.443253
Target:  5'- cGCgu-UCGCUCGGGCGCUggCgaGCUGa -3'
miRNA:   3'- uCGacuAGCGGGUCCGCGAa-Ga-CGGC- -5'
18658 5' -59.4 NC_004682.1 + 27667 0.67 0.414857
Target:  5'- gAGCUGAgcaccagcaaGCuCCAGGCGaaccagcggcUCUGCCGc -3'
miRNA:   3'- -UCGACUag--------CG-GGUCCGCga--------AGACGGC- -5'
18658 5' -59.4 NC_004682.1 + 12744 0.67 0.405643
Target:  5'- aAGUUGAUCGCCCuuggcauaugggAGcGCGCUgacGCCc -3'
miRNA:   3'- -UCGACUAGCGGG------------UC-CGCGAagaCGGc -5'
18658 5' -59.4 NC_004682.1 + 46971 0.67 0.405643
Target:  5'- gAGCUGAUCGCCaaguaCGGGCucgacauggccaGCaUCcagGCCGa -3'
miRNA:   3'- -UCGACUAGCGG-----GUCCG------------CGaAGa--CGGC- -5'
18658 5' -59.4 NC_004682.1 + 32691 0.68 0.328767
Target:  5'- cGGCagGAcCGCCCuGGcCGCUUCgcggGCCu -3'
miRNA:   3'- -UCGa-CUaGCGGGuCC-GCGAAGa---CGGc -5'
18658 5' -59.4 NC_004682.1 + 10215 0.69 0.290942
Target:  5'- aGGCUGGg-GCUCAGGCGUUUCcggguUGuCCGg -3'
miRNA:   3'- -UCGACUagCGGGUCCGCGAAG-----AC-GGC- -5'
18658 5' -59.4 NC_004682.1 + 48380 0.69 0.290941
Target:  5'- -uCUGGUCGCCCAGGaGCaUCgcccccauUGCCGu -3'
miRNA:   3'- ucGACUAGCGGGUCCgCGaAG--------ACGGC- -5'
18658 5' -59.4 NC_004682.1 + 16877 0.7 0.262536
Target:  5'- uGGCUGGucuccccUCGCUCAucGGCGCgUUCggUGCCGg -3'
miRNA:   3'- -UCGACU-------AGCGGGU--CCGCG-AAG--ACGGC- -5'
18658 5' -59.4 NC_004682.1 + 31087 0.7 0.250156
Target:  5'- ---aGGUCGCCgAGGCGCUgaugcGCCGg -3'
miRNA:   3'- ucgaCUAGCGGgUCCGCGAaga--CGGC- -5'
18658 5' -59.4 NC_004682.1 + 18248 0.75 0.114903
Target:  5'- gAGCccaGAUCGCCCAGaGCGCUcuugaccaUGCCGg -3'
miRNA:   3'- -UCGa--CUAGCGGGUC-CGCGAag------ACGGC- -5'
18658 5' -59.4 NC_004682.1 + 4275 1.09 0.000328
Target:  5'- aAGCUGAUCGCCCAGGCGCUUCUGCCGa -3'
miRNA:   3'- -UCGACUAGCGGGUCCGCGAAGACGGC- -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.