miRNA display CGI


Results 1 - 20 of 20 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
28486 3' -56.5 NC_005946.1 + 3362 0.66 0.845111
Target:  5'- aCUGccuCCAGGCacgACAUGG-ACGGGGc- -3'
miRNA:   3'- -GGCu--GGUCCGg--UGUACCuUGUCCCac -5'
28486 3' -56.5 NC_005946.1 + 8039 0.66 0.836841
Target:  5'- uCCGuCCuGGCCuguggccGGGGCGGGGUu -3'
miRNA:   3'- -GGCuGGuCCGGugua---CCUUGUCCCAc -5'
28486 3' -56.5 NC_005946.1 + 2794 0.66 0.828379
Target:  5'- uCCGG-CAGGaCCGCcgGGAccCAGGGg- -3'
miRNA:   3'- -GGCUgGUCC-GGUGuaCCUu-GUCCCac -5'
28486 3' -56.5 NC_005946.1 + 2069 0.66 0.810909
Target:  5'- gCGACCgucgaGGGCgGCAgagucUGGGugGaGGGUGg -3'
miRNA:   3'- gGCUGG-----UCCGgUGU-----ACCUugU-CCCAC- -5'
28486 3' -56.5 NC_005946.1 + 38950 0.66 0.805534
Target:  5'- uCCGACCAGGCCgugucgaccuGCAUGGccugguucaagAucguggucaucaccaAgAGGGUGu -3'
miRNA:   3'- -GGCUGGUCCGG----------UGUACC-----------U---------------UgUCCCAC- -5'
28486 3' -56.5 NC_005946.1 + 49817 0.66 0.801918
Target:  5'- uUGACCAuGGCCcuCAggcucuccaGGGugAGGGUGg -3'
miRNA:   3'- gGCUGGU-CCGGu-GUa--------CCUugUCCCAC- -5'
28486 3' -56.5 NC_005946.1 + 38356 0.67 0.792769
Target:  5'- aCCGGCUGGGCCcuGCAcUGGuGGCAGGcGa- -3'
miRNA:   3'- -GGCUGGUCCGG--UGU-ACC-UUGUCC-Cac -5'
28486 3' -56.5 NC_005946.1 + 92553 0.67 0.792769
Target:  5'- -gGACgGGGCCuACAuaucccugcugcUGGGGucCAGGGUGg -3'
miRNA:   3'- ggCUGgUCCGG-UGU------------ACCUU--GUCCCAC- -5'
28486 3' -56.5 NC_005946.1 + 89468 0.67 0.764459
Target:  5'- gCGACaucaAGGCCGCc-GGAGCAGaGGa- -3'
miRNA:   3'- gGCUGg---UCCGGUGuaCCUUGUC-CCac -5'
28486 3' -56.5 NC_005946.1 + 62115 0.67 0.754767
Target:  5'- cCCGACCcGGUgACAgaagucaGGAugGGGGa- -3'
miRNA:   3'- -GGCUGGuCCGgUGUa------CCUugUCCCac -5'
28486 3' -56.5 NC_005946.1 + 32260 0.68 0.735057
Target:  5'- -aGGCCGuGGCCAUGUGuGGGCuGGGGUc -3'
miRNA:   3'- ggCUGGU-CCGGUGUAC-CUUG-UCCCAc -5'
28486 3' -56.5 NC_005946.1 + 29330 0.69 0.684333
Target:  5'- uCCGGUCGGGCC-CGUGGGAgcggcugggccuCAGGGg- -3'
miRNA:   3'- -GGCUGGUCCGGuGUACCUU------------GUCCCac -5'
28486 3' -56.5 NC_005946.1 + 33155 0.69 0.632487
Target:  5'- cCCG-CCAGGCUgGCGUGGuccggcgcuGCGGGGUc -3'
miRNA:   3'- -GGCuGGUCCGG-UGUACCu--------UGUCCCAc -5'
28486 3' -56.5 NC_005946.1 + 33940 0.7 0.611685
Target:  5'- cCCGACUgGGGCCugA-GGAACAGaGaGUGg -3'
miRNA:   3'- -GGCUGG-UCCGGugUaCCUUGUC-C-CAC- -5'
28486 3' -56.5 NC_005946.1 + 92665 0.7 0.611685
Target:  5'- aCCGcCCAGGCCAUAgccagguccUGGAGgGcGGGUu -3'
miRNA:   3'- -GGCuGGUCCGGUGU---------ACCUUgU-CCCAc -5'
28486 3' -56.5 NC_005946.1 + 103583 0.7 0.611685
Target:  5'- aCGGCCGGGgaGCucguGAGCAGGGUGu -3'
miRNA:   3'- gGCUGGUCCggUGuac-CUUGUCCCAC- -5'
28486 3' -56.5 NC_005946.1 + 7285 0.7 0.590947
Target:  5'- gCGGCCGugguGGCCuCAgcGGACAGGGUGa -3'
miRNA:   3'- gGCUGGU----CCGGuGUacCUUGUCCCAC- -5'
28486 3' -56.5 NC_005946.1 + 34216 0.7 0.570333
Target:  5'- uCCGAagaGGGCUACcUGGA-CAGGGUa -3'
miRNA:   3'- -GGCUgg-UCCGGUGuACCUuGUCCCAc -5'
28486 3' -56.5 NC_005946.1 + 21885 0.71 0.519697
Target:  5'- aCCGACguGGCgGCG-GGAAgGaGGGUGg -3'
miRNA:   3'- -GGCUGguCCGgUGUaCCUUgU-CCCAC- -5'
28486 3' -56.5 NC_005946.1 + 52529 0.71 0.519697
Target:  5'- cCCGGCCcGGCCAaauguUGGAcCAGGGc- -3'
miRNA:   3'- -GGCUGGuCCGGUgu---ACCUuGUCCCac -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.