miRNA display CGI


Results 1 - 20 of 24 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
18052 5' -56.3 NC_004680.1 + 16937 0.66 0.710729
Target:  5'- uCCCCA---GUCGCGGgGCAgGUGCCGg -3'
miRNA:   3'- -GGGGUgccUAGCGUCaUGUaCGCGGU- -5'
18052 5' -56.3 NC_004680.1 + 15281 0.66 0.710729
Target:  5'- -gUCGCGGAUaccgCGCAGUuCAgcgGUGCCGg -3'
miRNA:   3'- ggGGUGCCUA----GCGUCAuGUa--CGCGGU- -5'
18052 5' -56.3 NC_004680.1 + 42934 0.66 0.710729
Target:  5'- aCCCgcaaaGCGGAUCuGCGGUAUuUGCGaCGu -3'
miRNA:   3'- gGGG-----UGCCUAG-CGUCAUGuACGCgGU- -5'
18052 5' -56.3 NC_004680.1 + 21494 0.66 0.700118
Target:  5'- cCCCCAuucgcCGGAUCGUcGU-CGUGCGaaaCGg -3'
miRNA:   3'- -GGGGU-----GCCUAGCGuCAuGUACGCg--GU- -5'
18052 5' -56.3 NC_004680.1 + 59311 0.66 0.700118
Target:  5'- gCCCGCGuucGAUCaGguGUucgaccCAUGCGCCu -3'
miRNA:   3'- gGGGUGC---CUAG-CguCAu-----GUACGCGGu -5'
18052 5' -56.3 NC_004680.1 + 39640 0.66 0.667943
Target:  5'- gCCgCACGGAgcgcCGCAGgga--GCGCCGc -3'
miRNA:   3'- -GGgGUGCCUa---GCGUCauguaCGCGGU- -5'
18052 5' -56.3 NC_004680.1 + 39844 0.66 0.667943
Target:  5'- gCCgCACGGAgcgcCGCAGgga--GCGCCGc -3'
miRNA:   3'- -GGgGUGCCUa---GCGUCauguaCGCGGU- -5'
18052 5' -56.3 NC_004680.1 + 36003 0.66 0.657139
Target:  5'- cCCCgGCGGccagauucgAUCGCGG-ACAagGUGCCGc -3'
miRNA:   3'- -GGGgUGCC---------UAGCGUCaUGUa-CGCGGU- -5'
18052 5' -56.3 NC_004680.1 + 21314 0.67 0.646313
Target:  5'- -gCCACGGuguUCGCGGUggugGCGUGgGaCCGc -3'
miRNA:   3'- ggGGUGCCu--AGCGUCA----UGUACgC-GGU- -5'
18052 5' -56.3 NC_004680.1 + 4209 0.67 0.646313
Target:  5'- gUUCGCGGAcaUCGCAGaccgcgGCGgacGCGCCGu -3'
miRNA:   3'- gGGGUGCCU--AGCGUCa-----UGUa--CGCGGU- -5'
18052 5' -56.3 NC_004680.1 + 8105 0.67 0.61813
Target:  5'- aCUCCAgccggugaaucagaGGAUCaGCAGUACcgaGCGCCAc -3'
miRNA:   3'- -GGGGUg-------------CCUAG-CGUCAUGua-CGCGGU- -5'
18052 5' -56.3 NC_004680.1 + 23113 0.67 0.602977
Target:  5'- -gCCACGGGUgGUGG-AUAUGCGCgGg -3'
miRNA:   3'- ggGGUGCCUAgCGUCaUGUACGCGgU- -5'
18052 5' -56.3 NC_004680.1 + 16672 0.68 0.596496
Target:  5'- cCUCCaguugcggccgcaggGCGGuAUCGguGUugGUGUGCCc -3'
miRNA:   3'- -GGGG---------------UGCC-UAGCguCAugUACGCGGu -5'
18052 5' -56.3 NC_004680.1 + 29089 0.68 0.581419
Target:  5'- gCCCGCGccgaguguggcGAUCGCGGUuugggcgaACGUGCggGCCGc -3'
miRNA:   3'- gGGGUGC-----------CUAGCGUCA--------UGUACG--CGGU- -5'
18052 5' -56.3 NC_004680.1 + 44863 0.68 0.581419
Target:  5'- uCCCCACGGuggCGgAGUACcgaaaacaaGCGCUg -3'
miRNA:   3'- -GGGGUGCCua-GCgUCAUGua-------CGCGGu -5'
18052 5' -56.3 NC_004680.1 + 59065 0.68 0.569627
Target:  5'- gCCCCAgCGGugugUGguGUguuggggGCAUGUGCCGg -3'
miRNA:   3'- -GGGGU-GCCua--GCguCA-------UGUACGCGGU- -5'
18052 5' -56.3 NC_004680.1 + 47833 0.69 0.507635
Target:  5'- aUCCCGCcGGAUCGCAcGUGCA-GCaUCAa -3'
miRNA:   3'- -GGGGUG-CCUAGCGU-CAUGUaCGcGGU- -5'
18052 5' -56.3 NC_004680.1 + 38110 0.69 0.507635
Target:  5'- -aUCGCGGAU-GUAGUcCGUGUGCCAa -3'
miRNA:   3'- ggGGUGCCUAgCGUCAuGUACGCGGU- -5'
18052 5' -56.3 NC_004680.1 + 27741 0.69 0.481216
Target:  5'- gUCCCACGGGaaccagucaccaacaUCGguGUGgGUGCcCCAc -3'
miRNA:   3'- -GGGGUGCCU---------------AGCguCAUgUACGcGGU- -5'
18052 5' -56.3 NC_004680.1 + 968 0.7 0.438111
Target:  5'- gCCCCAcCGGAUUGCcg-GCA-GCGUCAa -3'
miRNA:   3'- -GGGGU-GCCUAGCGucaUGUaCGCGGU- -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.