miRNA display CGI


Results 1 - 16 of 16 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
18608 3' -52.5 NC_004682.1 + 19767 0.66 0.857539
Target:  5'- aCUACUGGGCGAgcaaggccgacauccUCUacGGGCUGGagAACGu -3'
miRNA:   3'- -GAUGGUCUGCU---------------AGA--CCCGACUg-UUGC- -5'
18608 3' -52.5 NC_004682.1 + 49072 0.66 0.854117
Target:  5'- -gAUCAGGCuGAaggCUGGGCgUGACccGACGa -3'
miRNA:   3'- gaUGGUCUG-CUa--GACCCG-ACUG--UUGC- -5'
18608 3' -52.5 NC_004682.1 + 34852 0.66 0.854117
Target:  5'- ---gCAGACGAccucgUUGGGCUccccgacguugGACAGCGa -3'
miRNA:   3'- gaugGUCUGCUa----GACCCGA-----------CUGUUGC- -5'
18608 3' -52.5 NC_004682.1 + 15878 0.66 0.836433
Target:  5'- -gGCC-GugGAggaaggCUGGGCUGGCccgAACa -3'
miRNA:   3'- gaUGGuCugCUa-----GACCCGACUG---UUGc -5'
18608 3' -52.5 NC_004682.1 + 4968 0.66 0.827248
Target:  5'- gUGCuCGGGCGGUCUGGaucGCc-ACAGCGg -3'
miRNA:   3'- gAUG-GUCUGCUAGACC---CGacUGUUGC- -5'
18608 3' -52.5 NC_004682.1 + 8970 0.66 0.827248
Target:  5'- -gGCCAGcucgcGCGGUCUGuGCUGGCccCGg -3'
miRNA:   3'- gaUGGUC-----UGCUAGACcCGACUGuuGC- -5'
18608 3' -52.5 NC_004682.1 + 29730 0.67 0.812109
Target:  5'- gCUuCCGGGCGugguagucgacuccgGUCUGGGCUuGGCGAa- -3'
miRNA:   3'- -GAuGGUCUGC---------------UAGACCCGA-CUGUUgc -5'
18608 3' -52.5 NC_004682.1 + 9892 0.67 0.778313
Target:  5'- aCUACCGGAuggaguCGAUCUGGcGCgauccGuCGACGc -3'
miRNA:   3'- -GAUGGUCU------GCUAGACC-CGa----CuGUUGC- -5'
18608 3' -52.5 NC_004682.1 + 47242 0.67 0.778313
Target:  5'- uCUuCCGGGuCGAUCUGGGUccaGGCcACGg -3'
miRNA:   3'- -GAuGGUCU-GCUAGACCCGa--CUGuUGC- -5'
18608 3' -52.5 NC_004682.1 + 19690 0.68 0.757546
Target:  5'- -gACCAGcCGAUCU-GGCUGAaGugGa -3'
miRNA:   3'- gaUGGUCuGCUAGAcCCGACUgUugC- -5'
18608 3' -52.5 NC_004682.1 + 10038 0.68 0.725418
Target:  5'- ---aCGGugGcgCUcgggGGGCUGACGACa -3'
miRNA:   3'- gaugGUCugCuaGA----CCCGACUGUUGc -5'
18608 3' -52.5 NC_004682.1 + 24335 0.68 0.703492
Target:  5'- aCUuCCGGGCaGAgCUGGGCUGcgugguCGACGg -3'
miRNA:   3'- -GAuGGUCUG-CUaGACCCGACu-----GUUGC- -5'
18608 3' -52.5 NC_004682.1 + 17327 0.69 0.66672
Target:  5'- -gGCCAGGCGuucgcgaagCUGGccccgcagcaggccGCUGGCGGCGg -3'
miRNA:   3'- gaUGGUCUGCua-------GACC--------------CGACUGUUGC- -5'
18608 3' -52.5 NC_004682.1 + 22642 0.71 0.557921
Target:  5'- -cGCCAGuacCGAgagCUGGGCcUGAuCAACGa -3'
miRNA:   3'- gaUGGUCu--GCUa--GACCCG-ACU-GUUGC- -5'
18608 3' -52.5 NC_004682.1 + 6568 0.72 0.492974
Target:  5'- uCUugCAG-CGGUCacggguUGGGCUGAUAGCc -3'
miRNA:   3'- -GAugGUCuGCUAG------ACCCGACUGUUGc -5'
18608 3' -52.5 NC_004682.1 + 16716 1.08 0.00201
Target:  5'- uCUACCAGACGAUCUGGGCUGACAACGc -3'
miRNA:   3'- -GAUGGUCUGCUAGACCCGACUGUUGC- -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.