miRNA display CGI


Results 1 - 18 of 18 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
23471 3' -60.3 NC_005259.1 + 1233 0.66 0.48768
Target:  5'- -aCGAGGaCGGCugcaagACCGGCcucGGCAUCAc -3'
miRNA:   3'- caGCUCCcGCCG------UGGCCG---CUGUAGUa -5'
23471 3' -60.3 NC_005259.1 + 5079 0.68 0.360608
Target:  5'- gGUCGAcGGGcCGGUgucACCGGCGAUcugCGUa -3'
miRNA:   3'- -CAGCU-CCC-GCCG---UGGCCGCUGua-GUA- -5'
23471 3' -60.3 NC_005259.1 + 9049 0.68 0.385849
Target:  5'- -gCG-GGGCGGUaACCGGCucgGugGUCAUg -3'
miRNA:   3'- caGCuCCCGCCG-UGGCCG---CugUAGUA- -5'
23471 3' -60.3 NC_005259.1 + 9339 0.67 0.412229
Target:  5'- uGUCGAGGuCGGCACCGaUGAcCGUCu- -3'
miRNA:   3'- -CAGCUCCcGCCGUGGCcGCU-GUAGua -5'
23471 3' -60.3 NC_005259.1 + 10339 0.67 0.412229
Target:  5'- -aCGGGcucGGCGGCAgCGGgcuCGACAUCGg -3'
miRNA:   3'- caGCUC---CCGCCGUgGCC---GCUGUAGUa -5'
23471 3' -60.3 NC_005259.1 + 16431 0.72 0.195877
Target:  5'- cGUCGAGcGGCccaaaccgGGCACCGuCGGCAUCGg -3'
miRNA:   3'- -CAGCUC-CCG--------CCGUGGCcGCUGUAGUa -5'
23471 3' -60.3 NC_005259.1 + 17354 0.69 0.336541
Target:  5'- cGUCGAGGucggcggcuCGGCGCUGGuCGugGUCGa -3'
miRNA:   3'- -CAGCUCCc--------GCCGUGGCC-GCugUAGUa -5'
23471 3' -60.3 NC_005259.1 + 27139 0.69 0.306308
Target:  5'- uUUGAGGGCGGCugCGGUGuuGg--- -3'
miRNA:   3'- cAGCUCCCGCCGugGCCGCugUagua -5'
23471 3' -60.3 NC_005259.1 + 38627 0.67 0.403312
Target:  5'- aUCGAGGGCGGUgacGCCgaguuGGCGAacUCGc -3'
miRNA:   3'- cAGCUCCCGCCG---UGG-----CCGCUguAGUa -5'
23471 3' -60.3 NC_005259.1 + 51101 0.68 0.385849
Target:  5'- -aCGAGGGCGGgAucuguCCGGCaGGcCAUCAg -3'
miRNA:   3'- caGCUCCCGCCgU-----GGCCG-CU-GUAGUa -5'
23471 3' -60.3 NC_005259.1 + 53010 0.7 0.285028
Target:  5'- cUCGAcuGGGC-GCugCGGUGGCGUCGa -3'
miRNA:   3'- cAGCU--CCCGcCGugGCCGCUGUAGUa -5'
23471 3' -60.3 NC_005259.1 + 57311 0.69 0.313667
Target:  5'- aUCGAGcaccGGCGGUGUCGGUGugGUCAUg -3'
miRNA:   3'- cAGCUC----CCGCCGUGGCCGCugUAGUA- -5'
23471 3' -60.3 NC_005259.1 + 58727 0.7 0.264933
Target:  5'- -cCGGGGGUgucguuggcaccGGCACCGGCGAaguUCGg -3'
miRNA:   3'- caGCUCCCG------------CCGUGGCCGCUgu-AGUa -5'
23471 3' -60.3 NC_005259.1 + 59306 0.69 0.344431
Target:  5'- uGUCGu-GGCGGCAgCGGCGAgcUCAg -3'
miRNA:   3'- -CAGCucCCGCCGUgGCCGCUguAGUa -5'
23471 3' -60.3 NC_005259.1 + 61579 0.67 0.429503
Target:  5'- aGUUGAGGaucucauGCGGUggGCCGGUGGgGUCGg -3'
miRNA:   3'- -CAGCUCC-------CGCCG--UGGCCGCUgUAGUa -5'
23471 3' -60.3 NC_005259.1 + 61732 0.68 0.385849
Target:  5'- uGUCGAGcaGGUGuGCGuCCGGCGAgAUCu- -3'
miRNA:   3'- -CAGCUC--CCGC-CGU-GGCCGCUgUAGua -5'
23471 3' -60.3 NC_005259.1 + 63842 0.68 0.377306
Target:  5'- uUCGAGGcaaGCGcGUACCGGCGAgGUgGc -3'
miRNA:   3'- cAGCUCC---CGC-CGUGGCCGCUgUAgUa -5'
23471 3' -60.3 NC_005259.1 + 64024 0.69 0.328783
Target:  5'- -cCGAGGcGCGGCgagGCCGGUGACcggAUCu- -3'
miRNA:   3'- caGCUCC-CGCCG---UGGCCGCUG---UAGua -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.