miRNA display CGI


Results 1 - 20 of 50 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
12785 3' -58.5 NC_003387.1 + 43708 0.67 0.473203
Target:  5'- --gGCGCCCGCcaggugcucgACGGCGGcauGCGGGa-- -3'
miRNA:   3'- ccaUGCGGGCG----------UGUCGCC---CGCUCaac -5'
12785 3' -58.5 NC_003387.1 + 49576 0.74 0.175432
Target:  5'- aGGUGCGCCCGCu--GcCGGGCG-GUg- -3'
miRNA:   3'- -CCAUGCGGGCGuguC-GCCCGCuCAac -5'
12785 3' -58.5 NC_003387.1 + 5523 0.73 0.194965
Target:  5'- cGGcuCGCCCGCG-AGCGGGCGaAGUUc -3'
miRNA:   3'- -CCauGCGGGCGUgUCGCCCGC-UCAAc -5'
12785 3' -58.5 NC_003387.1 + 49492 0.69 0.380111
Target:  5'- cGGUGCGCCCGCcCGGCGu-CGAcGUg- -3'
miRNA:   3'- -CCAUGCGGGCGuGUCGCccGCU-CAac -5'
12785 3' -58.5 NC_003387.1 + 45983 0.68 0.415882
Target:  5'- uGUGgGCCUGUAUgucgAGCGGGgCGAGUc- -3'
miRNA:   3'- cCAUgCGGGCGUG----UCGCCC-GCUCAac -5'
12785 3' -58.5 NC_003387.1 + 30573 0.71 0.271931
Target:  5'- cGGUACGCgCCGUGCcGCGaGuGCGGGUa- -3'
miRNA:   3'- -CCAUGCG-GGCGUGuCGC-C-CGCUCAac -5'
12785 3' -58.5 NC_003387.1 + 5298 0.7 0.314994
Target:  5'- --cACGCCCaacCugGGCGGGUGAGcgUGg -3'
miRNA:   3'- ccaUGCGGGc--GugUCGCCCGCUCa-AC- -5'
12785 3' -58.5 NC_003387.1 + 37143 0.69 0.380111
Target:  5'- uGGUugGgcaCUCGCugGGCGGGCGcauGGUc- -3'
miRNA:   3'- -CCAugC---GGGCGugUCGCCCGC---UCAac -5'
12785 3' -58.5 NC_003387.1 + 34501 0.67 0.453639
Target:  5'- aGUACGCCCGcCGCuGCGGcgccGCGAu--- -3'
miRNA:   3'- cCAUGCGGGC-GUGuCGCC----CGCUcaac -5'
12785 3' -58.5 NC_003387.1 + 28902 0.67 0.5023
Target:  5'- cGGcgcgGCGCCCucacguaucugcuGCGCGGCG-GCGAGg-- -3'
miRNA:   3'- -CCa---UGCGGG-------------CGUGUCGCcCGCUCaac -5'
12785 3' -58.5 NC_003387.1 + 504 0.66 0.555215
Target:  5'- --cGCGCCCGCGUGGCGaccGCG-GUUGa -3'
miRNA:   3'- ccaUGCGGGCGUGUCGCc--CGCuCAAC- -5'
12785 3' -58.5 NC_003387.1 + 46713 0.71 0.278766
Target:  5'- uGG-ACGCCaaGCA-GGCGGGCGAGUg- -3'
miRNA:   3'- -CCaUGCGGg-CGUgUCGCCCGCUCAac -5'
12785 3' -58.5 NC_003387.1 + 39400 0.71 0.271931
Target:  5'- cGUGCGCCuggCGCGCgAGUGGGuCGAGgUGa -3'
miRNA:   3'- cCAUGCGG---GCGUG-UCGCCC-GCUCaAC- -5'
12785 3' -58.5 NC_003387.1 + 45954 0.68 0.425142
Target:  5'- --gACgGCCCGCGCAa-GGGCGAGg-- -3'
miRNA:   3'- ccaUG-CGGGCGUGUcgCCCGCUCaac -5'
12785 3' -58.5 NC_003387.1 + 1288 0.68 0.425142
Target:  5'- cGGUgauGCGCCuCGaCGCccuGGCGGGCGAcGUc- -3'
miRNA:   3'- -CCA---UGCGG-GC-GUG---UCGCCCGCU-CAac -5'
12785 3' -58.5 NC_003387.1 + 32831 0.71 0.278766
Target:  5'- --cGCaGCCCGCACcGCgGGGCGGGgcGg -3'
miRNA:   3'- ccaUG-CGGGCGUGuCG-CCCGCUCaaC- -5'
12785 3' -58.5 NC_003387.1 + 29716 0.67 0.493183
Target:  5'- cGGcgGCGCCCaggccgacgacgGCAgCuacGCGGGCGAGcUGg -3'
miRNA:   3'- -CCa-UGCGGG------------CGU-Gu--CGCCCGCUCaAC- -5'
12785 3' -58.5 NC_003387.1 + 21471 0.67 0.503317
Target:  5'- uGGcGCaGCCCGCGcCGGuCGGGcCGGGcUGg -3'
miRNA:   3'- -CCaUG-CGGGCGU-GUC-GCCC-GCUCaAC- -5'
12785 3' -58.5 NC_003387.1 + 45874 0.69 0.371496
Target:  5'- cGGcUGCGCgCCGCGgccgAGCGGGCGAu--- -3'
miRNA:   3'- -CC-AUGCG-GGCGUg---UCGCCCGCUcaac -5'
12785 3' -58.5 NC_003387.1 + 30709 0.68 0.42421
Target:  5'- cGUGCGCCUGCGgggcgcuCAGcCGGGCaGGUg- -3'
miRNA:   3'- cCAUGCGGGCGU-------GUC-GCCCGcUCAac -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.