miRNA display CGI


Results 1 - 20 of 22 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
28394 3' -54.3 NC_005946.1 + 35163 0.66 0.912753
Target:  5'- -aCGGGGgcauguCAUAgCCUCCAGG-GCa -3'
miRNA:   3'- gaGUCUCauu---GUGUgGGAGGUCCgCG- -5'
28394 3' -54.3 NC_005946.1 + 68695 0.66 0.912753
Target:  5'- --uGGAGUAGCACACgUUCUuGGCu- -3'
miRNA:   3'- gagUCUCAUUGUGUGgGAGGuCCGcg -5'
28394 3' -54.3 NC_005946.1 + 14802 0.66 0.906485
Target:  5'- -cCAGAGccAGgGCACCCUCacccuugaAGGCGa -3'
miRNA:   3'- gaGUCUCa-UUgUGUGGGAGg-------UCCGCg -5'
28394 3' -54.3 NC_005946.1 + 35451 0.66 0.899966
Target:  5'- aCUCuGGGUcaGACGCuGCCaCUCCaaAGGUGUa -3'
miRNA:   3'- -GAGuCUCA--UUGUG-UGG-GAGG--UCCGCG- -5'
28394 3' -54.3 NC_005946.1 + 45101 0.66 0.899966
Target:  5'- --aAGAGguugaggGACugGCCCUggcaCAGGUGCc -3'
miRNA:   3'- gagUCUCa------UUGugUGGGAg---GUCCGCG- -5'
28394 3' -54.3 NC_005946.1 + 74800 0.66 0.893196
Target:  5'- uUCGGGGUu-CACcaggcCCCUCUuggAGGCGUa -3'
miRNA:   3'- gAGUCUCAuuGUGu----GGGAGG---UCCGCG- -5'
28394 3' -54.3 NC_005946.1 + 50115 0.66 0.886181
Target:  5'- cCUUGGccGGUuuCAUACCCUUgacaCAGGCGUa -3'
miRNA:   3'- -GAGUC--UCAuuGUGUGGGAG----GUCCGCG- -5'
28394 3' -54.3 NC_005946.1 + 71912 0.67 0.878923
Target:  5'- -aCGGGGUGAUAgACCCgUCGuGCGCg -3'
miRNA:   3'- gaGUCUCAUUGUgUGGGaGGUcCGCG- -5'
28394 3' -54.3 NC_005946.1 + 2302 0.67 0.84759
Target:  5'- -gCAGGGUGuccucggacGCGgACCCcgCCGGGgGCu -3'
miRNA:   3'- gaGUCUCAU---------UGUgUGGGa-GGUCCgCG- -5'
28394 3' -54.3 NC_005946.1 + 90478 0.67 0.846762
Target:  5'- -cCAGGuccacuGUGACGCacgaccaACCCUCUcucuGGGCGCa -3'
miRNA:   3'- gaGUCU------CAUUGUG-------UGGGAGG----UCCGCG- -5'
28394 3' -54.3 NC_005946.1 + 72993 0.68 0.830635
Target:  5'- -cCAGGGUGAgcCACCU--CAGGCGCa -3'
miRNA:   3'- gaGUCUCAUUguGUGGGagGUCCGCG- -5'
28394 3' -54.3 NC_005946.1 + 83225 0.68 0.821861
Target:  5'- -aCAGGGgauggGGCGCACaCCUCgAGGCc- -3'
miRNA:   3'- gaGUCUCa----UUGUGUG-GGAGgUCCGcg -5'
28394 3' -54.3 NC_005946.1 + 23374 0.68 0.812902
Target:  5'- gUCAGAGacGGCGgcugaccccagcCACCCUCCcuuguccguGGCGCa -3'
miRNA:   3'- gAGUCUCa-UUGU------------GUGGGAGGu--------CCGCG- -5'
28394 3' -54.3 NC_005946.1 + 63687 0.68 0.812902
Target:  5'- --aGGGGUAguggucuacaaAC-CACCCUCCcuugcuagGGGCGCa -3'
miRNA:   3'- gagUCUCAU-----------UGuGUGGGAGG--------UCCGCG- -5'
28394 3' -54.3 NC_005946.1 + 29988 0.68 0.803767
Target:  5'- gUCAGGGUgGGCGucaucuccugguCGCCCUCCAuGGCa- -3'
miRNA:   3'- gAGUCUCA-UUGU------------GUGGGAGGU-CCGcg -5'
28394 3' -54.3 NC_005946.1 + 91833 0.68 0.794464
Target:  5'- gUgAGAGUAAacgguuuaccCGCcCCCUCUGGGUGCc -3'
miRNA:   3'- gAgUCUCAUU----------GUGuGGGAGGUCCGCG- -5'
28394 3' -54.3 NC_005946.1 + 43758 0.68 0.794464
Target:  5'- --aAGAGUAACcgaaccaGCCCUUgCAGGCGUa -3'
miRNA:   3'- gagUCUCAUUGug-----UGGGAG-GUCCGCG- -5'
28394 3' -54.3 NC_005946.1 + 47957 0.69 0.775396
Target:  5'- cCUC-GAGUAGauggccauCACCCUCCcGGCGg -3'
miRNA:   3'- -GAGuCUCAUUgu------GUGGGAGGuCCGCg -5'
28394 3' -54.3 NC_005946.1 + 49695 0.7 0.704854
Target:  5'- cCUCAGGGcguACAcCAgCCUCCuGGCGg -3'
miRNA:   3'- -GAGUCUCau-UGU-GUgGGAGGuCCGCg -5'
28394 3' -54.3 NC_005946.1 + 97617 0.71 0.641668
Target:  5'- cCUCGGGGgucuugaGCACCaaCCAGGCGUu -3'
miRNA:   3'- -GAGUCUCauug---UGUGGgaGGUCCGCG- -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.