miRNA display CGI


Results 1 - 20 of 107 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
19219 3' -55.8 NC_004684.1 + 21533 0.66 0.721764
Target:  5'- cACCAcCGAGCuggcggugguggaagAGGUCAAGGACguGGC-Cg -3'
miRNA:   3'- -UGGUcGCUCG---------------UCCAGUUCUUG--CCGuG- -5'
19219 3' -55.8 NC_004684.1 + 31075 0.66 0.717517
Target:  5'- cACCGGCGAGUuguuGGUCcaccGggUGGacaGCg -3'
miRNA:   3'- -UGGUCGCUCGu---CCAGuu--CuuGCCg--UG- -5'
19219 3' -55.8 NC_004684.1 + 66279 0.66 0.717517
Target:  5'- cCCAGCGGacggccacguuGCGGGUgccCGacGGcAGCGGCGCg -3'
miRNA:   3'- uGGUCGCU-----------CGUCCA---GU--UC-UUGCCGUG- -5'
19219 3' -55.8 NC_004684.1 + 43481 0.66 0.717517
Target:  5'- -gCAGCGAGCuguugcucGGUCGAGc-CGGgGCg -3'
miRNA:   3'- ugGUCGCUCGu-------CCAGUUCuuGCCgUG- -5'
19219 3' -55.8 NC_004684.1 + 44247 0.66 0.716453
Target:  5'- uCCAGCGugaccauGGCGcaGUCGAcGGCGGCACa -3'
miRNA:   3'- uGGUCGC-------UCGUc-CAGUUcUUGCCGUG- -5'
19219 3' -55.8 NC_004684.1 + 56869 0.66 0.706843
Target:  5'- uACCGGCGAGCGGugcgccugaccGUCG---GCGGCcCa -3'
miRNA:   3'- -UGGUCGCUCGUC-----------CAGUucuUGCCGuG- -5'
19219 3' -55.8 NC_004684.1 + 30666 0.66 0.706843
Target:  5'- -aCGGCGAaCAGGUCGAu-GCGGUAa -3'
miRNA:   3'- ugGUCGCUcGUCCAGUUcuUGCCGUg -5'
19219 3' -55.8 NC_004684.1 + 52275 0.66 0.706843
Target:  5'- cCCAGCGucccggugacGGCaAGGUCGgccuccAGGGCGGcCACc -3'
miRNA:   3'- uGGUCGC----------UCG-UCCAGU------UCUUGCC-GUG- -5'
19219 3' -55.8 NC_004684.1 + 47876 0.66 0.706842
Target:  5'- uGCCGGUGAGCGucuGGaUCAGGucguaGGCAg -3'
miRNA:   3'- -UGGUCGCUCGU---CC-AGUUCuug--CCGUg -5'
19219 3' -55.8 NC_004684.1 + 67183 0.66 0.706842
Target:  5'- uGCCGGaCGuGCGGGUCAcGGucucgccguuCGGCAg -3'
miRNA:   3'- -UGGUC-GCuCGUCCAGUuCUu---------GCCGUg -5'
19219 3' -55.8 NC_004684.1 + 57867 0.66 0.696095
Target:  5'- cACCAGCucGC-GGUCGGaAGCuGGCGCa -3'
miRNA:   3'- -UGGUCGcuCGuCCAGUUcUUG-CCGUG- -5'
19219 3' -55.8 NC_004684.1 + 55341 0.66 0.696095
Target:  5'- gGCCAGgCGAGCcgccuccugcuGGUCGAGcAUGGCc- -3'
miRNA:   3'- -UGGUC-GCUCGu----------CCAGUUCuUGCCGug -5'
19219 3' -55.8 NC_004684.1 + 54372 0.66 0.696095
Target:  5'- uGCCGG-GGGCgGGGUCGAGGccauGCgGGCAa -3'
miRNA:   3'- -UGGUCgCUCG-UCCAGUUCU----UG-CCGUg -5'
19219 3' -55.8 NC_004684.1 + 10832 0.66 0.696095
Target:  5'- cACCgAGUGAGCAGGagauGGcAAUGGCAg -3'
miRNA:   3'- -UGG-UCGCUCGUCCagu-UC-UUGCCGUg -5'
19219 3' -55.8 NC_004684.1 + 45002 0.66 0.696095
Target:  5'- cGCUcaGGCGGGCcuuGGUCAugccguCGGCACc -3'
miRNA:   3'- -UGG--UCGCUCGu--CCAGUucuu--GCCGUG- -5'
19219 3' -55.8 NC_004684.1 + 58154 0.66 0.696095
Target:  5'- cGCCAGCGucggcAGCAGGuUCGGGuccUGGCcCa -3'
miRNA:   3'- -UGGUCGC-----UCGUCC-AGUUCuu-GCCGuG- -5'
19219 3' -55.8 NC_004684.1 + 18887 0.66 0.689617
Target:  5'- cACCAGCGcGGCuccuccacgucggcgGGGUC----GCGGCGCa -3'
miRNA:   3'- -UGGUCGC-UCG---------------UCCAGuucuUGCCGUG- -5'
19219 3' -55.8 NC_004684.1 + 6962 0.66 0.689617
Target:  5'- cCCGGCGAGUcguuccagguguaccAGG-CAAGGACGGa-- -3'
miRNA:   3'- uGGUCGCUCG---------------UCCaGUUCUUGCCgug -5'
19219 3' -55.8 NC_004684.1 + 42150 0.66 0.685287
Target:  5'- cACCAcGCacGGCcuauGGGUCGAGAGCGccGCACu -3'
miRNA:   3'- -UGGU-CGc-UCG----UCCAGUUCUUGC--CGUG- -5'
19219 3' -55.8 NC_004684.1 + 19536 0.66 0.685287
Target:  5'- cGCCAGCu-GCGGGUgCGccGGGCGGUGCc -3'
miRNA:   3'- -UGGUCGcuCGUCCA-GUu-CUUGCCGUG- -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.