miRNA display CGI


Results 1 - 20 of 26 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
18944 5' -55.6 NC_004683.1 + 37053 0.66 0.728771
Target:  5'- gGUAC--CCCGGCgggGCGGuucgggcGGCGAUGc -3'
miRNA:   3'- aCGUGauGGGCUGa--UGCCu------CCGCUAC- -5'
18944 5' -55.6 NC_004683.1 + 31296 0.66 0.728771
Target:  5'- cGCuCUGCCC-ACccGCGGGGGCaGUGu -3'
miRNA:   3'- aCGuGAUGGGcUGa-UGCCUCCGcUAC- -5'
18944 5' -55.6 NC_004683.1 + 52315 0.66 0.728771
Target:  5'- cGCGCcgGCCCGGgUcGCcGAGGCGGa- -3'
miRNA:   3'- aCGUGa-UGGGCUgA-UGcCUCCGCUac -5'
18944 5' -55.6 NC_004683.1 + 24585 0.66 0.718168
Target:  5'- gGCgGCUACCuCGGCcucaugGGAGGCGAc- -3'
miRNA:   3'- aCG-UGAUGG-GCUGaug---CCUCCGCUac -5'
18944 5' -55.6 NC_004683.1 + 18871 0.66 0.717102
Target:  5'- -uCACggcGCCCGACUucgauccGCaGGAGGCGGc- -3'
miRNA:   3'- acGUGa--UGGGCUGA-------UG-CCUCCGCUac -5'
18944 5' -55.6 NC_004683.1 + 28028 0.66 0.707479
Target:  5'- gGCGCcGCCCGGCgagGCaGGGGCc--- -3'
miRNA:   3'- aCGUGaUGGGCUGa--UGcCUCCGcuac -5'
18944 5' -55.6 NC_004683.1 + 25638 0.66 0.696718
Target:  5'- cGCgaGCUGCcgCCGAUcGCGGuGGCGGUc -3'
miRNA:   3'- aCG--UGAUG--GGCUGaUGCCuCCGCUAc -5'
18944 5' -55.6 NC_004683.1 + 40994 0.66 0.694557
Target:  5'- cGCuGCUACCCgcgucugGACUGCGGAccccaagGGCaGUGa -3'
miRNA:   3'- aCG-UGAUGGG-------CUGAUGCCU-------CCGcUAC- -5'
18944 5' -55.6 NC_004683.1 + 21540 0.66 0.692395
Target:  5'- gUGcCGCUACaUCGACgugauccugcuggGCGGcGGCGGUGg -3'
miRNA:   3'- -AC-GUGAUG-GGCUGa------------UGCCuCCGCUAC- -5'
18944 5' -55.6 NC_004683.1 + 55273 0.66 0.675019
Target:  5'- aGUACaACUCGGCauUGCGGGcGGCGAc- -3'
miRNA:   3'- aCGUGaUGGGCUG--AUGCCU-CCGCUac -5'
18944 5' -55.6 NC_004683.1 + 3021 0.66 0.675019
Target:  5'- aGCACaACCCGAUggccgaccCGGccGCGGUGa -3'
miRNA:   3'- aCGUGaUGGGCUGau------GCCucCGCUAC- -5'
18944 5' -55.6 NC_004683.1 + 26516 0.67 0.667382
Target:  5'- gUGCACUgcggccaACUCGGCggcaccgGCGGgcaccagcgggaucaGGGCGGUGa -3'
miRNA:   3'- -ACGUGA-------UGGGCUGa------UGCC---------------UCCGCUAC- -5'
18944 5' -55.6 NC_004683.1 + 51710 0.67 0.653158
Target:  5'- aGCGCgACCgCgGGCU-CGGGGGCGGg- -3'
miRNA:   3'- aCGUGaUGG-G-CUGAuGCCUCCGCUac -5'
18944 5' -55.6 NC_004683.1 + 33317 0.67 0.653158
Target:  5'- uUGUGCgACCUGGCcGCGGAucugGGCGAg- -3'
miRNA:   3'- -ACGUGaUGGGCUGaUGCCU----CCGCUac -5'
18944 5' -55.6 NC_004683.1 + 42133 0.67 0.642194
Target:  5'- cGC-CUGCCCGugUGCccGGucugcuGGCGGUc -3'
miRNA:   3'- aCGuGAUGGGCugAUG--CCu-----CCGCUAc -5'
18944 5' -55.6 NC_004683.1 + 48626 0.67 0.642194
Target:  5'- aGUGCaGCCCGACguuugugACGGugccGGCGAg- -3'
miRNA:   3'- aCGUGaUGGGCUGa------UGCCu---CCGCUac -5'
18944 5' -55.6 NC_004683.1 + 7394 0.67 0.642194
Target:  5'- aGCACcGCCgCGG-UugGGGGcGCGGUGa -3'
miRNA:   3'- aCGUGaUGG-GCUgAugCCUC-CGCUAC- -5'
18944 5' -55.6 NC_004683.1 + 47689 0.67 0.609286
Target:  5'- cGUAUcggguUGCCCGAUUGCGGGGuGUGcuGUGa -3'
miRNA:   3'- aCGUG-----AUGGGCUGAUGCCUC-CGC--UAC- -5'
18944 5' -55.6 NC_004683.1 + 48479 0.69 0.512513
Target:  5'- cGCACcGCUCGACagccccaagaaGCGGuGGCGGUGc -3'
miRNA:   3'- aCGUGaUGGGCUGa----------UGCCuCCGCUAC- -5'
18944 5' -55.6 NC_004683.1 + 13262 0.7 0.481587
Target:  5'- aUGCAg-GCCCGGCaaccGCGG-GGCGAUa -3'
miRNA:   3'- -ACGUgaUGGGCUGa---UGCCuCCGCUAc -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.