miRNA display CGI


Results 1 - 16 of 16 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
28448 3' -56.3 NC_005946.1 + 23353 0.66 0.775396
Target:  5'- -cAGCCACCCUCccuugucCGUGGCGCAGa-- -3'
miRNA:   3'- acUUGGUGGGAGu------GCGUCGUGUCgag -5'
28448 3' -56.3 NC_005946.1 + 54248 0.67 0.75974
Target:  5'- -aGGCCGCUCUaguccaACGCcucauagaggcagacGGCAUAGCUCa -3'
miRNA:   3'- acUUGGUGGGAg-----UGCG---------------UCGUGUCGAG- -5'
28448 3' -56.3 NC_005946.1 + 72988 0.67 0.745785
Target:  5'- gUGAGCCA-CCUCAgGC-GCACAuGCa- -3'
miRNA:   3'- -ACUUGGUgGGAGUgCGuCGUGU-CGag -5'
28448 3' -56.3 NC_005946.1 + 8968 0.68 0.662863
Target:  5'- gGAGCCucuugACCCUCAUGCccAGCAUAGa-- -3'
miRNA:   3'- aCUUGG-----UGGGAGUGCG--UCGUGUCgag -5'
28448 3' -56.3 NC_005946.1 + 34383 0.68 0.652274
Target:  5'- aGGGCC-CCCUCuCGCc-CACGGUUCg -3'
miRNA:   3'- aCUUGGuGGGAGuGCGucGUGUCGAG- -5'
28448 3' -56.3 NC_005946.1 + 14800 0.68 0.652274
Target:  5'- aGAGCCagggcACCCUCACccuugaagGCgAGCACGGUUa -3'
miRNA:   3'- aCUUGG-----UGGGAGUG--------CG-UCGUGUCGAg -5'
28448 3' -56.3 NC_005946.1 + 63293 0.69 0.598195
Target:  5'- gUGGACCACCCcCACagagugaGCGGCgGCGGC-Cg -3'
miRNA:   3'- -ACUUGGUGGGaGUG-------CGUCG-UGUCGaG- -5'
28448 3' -56.3 NC_005946.1 + 79419 0.7 0.546869
Target:  5'- -cGACCGCCCUgGCGCuGGCGuCGGC-Ca -3'
miRNA:   3'- acUUGGUGGGAgUGCG-UCGU-GUCGaG- -5'
28448 3' -56.3 NC_005946.1 + 27944 0.71 0.496024
Target:  5'- cGAGCC-UCCUCGCGUGGUccuGCAcGCUCu -3'
miRNA:   3'- aCUUGGuGGGAGUGCGUCG---UGU-CGAG- -5'
28448 3' -56.3 NC_005946.1 + 67320 0.71 0.476282
Target:  5'- cUGAAgcccgUCACCCUCACGCAG-ACGGUa- -3'
miRNA:   3'- -ACUU-----GGUGGGAGUGCGUCgUGUCGag -5'
28448 3' -56.3 NC_005946.1 + 11142 0.72 0.466558
Target:  5'- gUGAGCCGgguacagguuguCCCcCACGCAGCuaaacauUAGCUCg -3'
miRNA:   3'- -ACUUGGU------------GGGaGUGCGUCGu------GUCGAG- -5'
28448 3' -56.3 NC_005946.1 + 15523 0.72 0.456938
Target:  5'- aGGGCCGCCacaaUCAC-CAGCAUAGC-Ca -3'
miRNA:   3'- aCUUGGUGGg---AGUGcGUCGUGUCGaG- -5'
28448 3' -56.3 NC_005946.1 + 4332 0.73 0.401588
Target:  5'- aGGGCCACCC-CGCGUGGUAguuUAGUUCg -3'
miRNA:   3'- aCUUGGUGGGaGUGCGUCGU---GUCGAG- -5'
28448 3' -56.3 NC_005946.1 + 11328 0.8 0.145167
Target:  5'- --cGCCACCCUCGCGCcggcuccGGCACAguGCUCa -3'
miRNA:   3'- acuUGGUGGGAGUGCG-------UCGUGU--CGAG- -5'
28448 3' -56.3 NC_005946.1 + 97492 0.8 0.137984
Target:  5'- gUGAACCACCC-CACGgGGUAguGCUCc -3'
miRNA:   3'- -ACUUGGUGGGaGUGCgUCGUguCGAG- -5'
28448 3' -56.3 NC_005946.1 + 102234 1.1 0.001234
Target:  5'- cUGAACCACCCUCACGCAGCACAGCUCg -3'
miRNA:   3'- -ACUUGGUGGGAGUGCGUCGUGUCGAG- -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.