miRNA display CGI


Results 1 - 20 of 23 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
27059 5' -57.1 NC_005832.1 + 31520 0.66 0.802595
Target:  5'- cACCgcucagUGuAGaGAGGCGGUGGggAGGAc -3'
miRNA:   3'- cUGGa-----ACuUC-CUCCGCCGCCa-UCCUc -5'
27059 5' -57.1 NC_005832.1 + 3409 0.66 0.802595
Target:  5'- ----cUGggGGAGGCGGUguggaacgaGGUuccGGAGg -3'
miRNA:   3'- cuggaACuuCCUCCGCCG---------CCAu--CCUC- -5'
27059 5' -57.1 NC_005832.1 + 12858 0.66 0.802595
Target:  5'- cGGCCUcGucGGGGGCGucuGCG-UAGGGGa -3'
miRNA:   3'- -CUGGAaCuuCCUCCGC---CGCcAUCCUC- -5'
27059 5' -57.1 NC_005832.1 + 75846 0.66 0.793421
Target:  5'- cGAUCU--GAGGAGGCGGUGaGgcugacgGGGAu -3'
miRNA:   3'- -CUGGAacUUCCUCCGCCGC-Ca------UCCUc -5'
27059 5' -57.1 NC_005832.1 + 98126 0.66 0.793421
Target:  5'- gGACaUUGGAGuGAGGaCGGCcGUAGGcAGg -3'
miRNA:   3'- -CUGgAACUUC-CUCC-GCCGcCAUCC-UC- -5'
27059 5' -57.1 NC_005832.1 + 68033 0.66 0.793421
Target:  5'- aGGCCUuugccuccgaggUGGAGGAGaGgGGCGG-AGGc- -3'
miRNA:   3'- -CUGGA------------ACUUCCUC-CgCCGCCaUCCuc -5'
27059 5' -57.1 NC_005832.1 + 41571 0.66 0.784095
Target:  5'- aGGCCgaGGAGGAGGCcgccGCcGUcaGGGAGg -3'
miRNA:   3'- -CUGGaaCUUCCUCCGc---CGcCA--UCCUC- -5'
27059 5' -57.1 NC_005832.1 + 79968 0.66 0.784094
Target:  5'- gGACaggUGGAGGAGGgaGGUGG-GGGAc -3'
miRNA:   3'- -CUGga-ACUUCCUCCg-CCGCCaUCCUc -5'
27059 5' -57.1 NC_005832.1 + 28087 0.66 0.774626
Target:  5'- aGGCCcuUUGccguGGAGGuuGCGGgcGGAGa -3'
miRNA:   3'- -CUGG--AACuu--CCUCCgcCGCCauCCUC- -5'
27059 5' -57.1 NC_005832.1 + 91784 0.69 0.626294
Target:  5'- aGGCCaaucugcuccaaggUGuGGGAGGCGGUGGcgGGGAc -3'
miRNA:   3'- -CUGGa-------------ACuUCCUCCGCCGCCa-UCCUc -5'
27059 5' -57.1 NC_005832.1 + 7841 0.69 0.622116
Target:  5'- gGACg--GAGGGuGGGUGGCGGUgacaaAGGGGa -3'
miRNA:   3'- -CUGgaaCUUCC-UCCGCCGCCA-----UCCUC- -5'
27059 5' -57.1 NC_005832.1 + 46065 0.7 0.54965
Target:  5'- cGCCUUuauaGAgcaGGGAGccgacucuauuGUGGCGGUGGGAGa -3'
miRNA:   3'- cUGGAA----CU---UCCUC-----------CGCCGCCAUCCUC- -5'
27059 5' -57.1 NC_005832.1 + 6476 0.7 0.519333
Target:  5'- aGAUCcUGGAggcGGAGGCGGCGGaugacgAGGAc -3'
miRNA:   3'- -CUGGaACUU---CCUCCGCCGCCa-----UCCUc -5'
27059 5' -57.1 NC_005832.1 + 1455 0.71 0.499493
Target:  5'- gGACCaaGAGGGGGGCcuGUGGcugGGGAGg -3'
miRNA:   3'- -CUGGaaCUUCCUCCGc-CGCCa--UCCUC- -5'
27059 5' -57.1 NC_005832.1 + 12107 0.72 0.451471
Target:  5'- cGACCccaugUUGGAGGGGGCGG-GGUAGa-- -3'
miRNA:   3'- -CUGG-----AACUUCCUCCGCCgCCAUCcuc -5'
27059 5' -57.1 NC_005832.1 + 65989 0.72 0.442171
Target:  5'- uGGgCUUGGAGucGGCGG-GGUAGGGGg -3'
miRNA:   3'- -CUgGAACUUCcuCCGCCgCCAUCCUC- -5'
27059 5' -57.1 NC_005832.1 + 23600 0.73 0.400837
Target:  5'- uGGCCUUGAAGGAcuuuaggucgggcagGGCGGCGuaAGGcAGg -3'
miRNA:   3'- -CUGGAACUUCCU---------------CCGCCGCcaUCC-UC- -5'
27059 5' -57.1 NC_005832.1 + 19627 0.73 0.380272
Target:  5'- aGACCcgUUGAagguGGGAGacgaGCGGCgGGUGGGAGa -3'
miRNA:   3'- -CUGG--AACU----UCCUC----CGCCG-CCAUCCUC- -5'
27059 5' -57.1 NC_005832.1 + 66379 0.74 0.355577
Target:  5'- gGACCUUGAGGGgauggGGGCuGGCGGccucccUGGGAu -3'
miRNA:   3'- -CUGGAACUUCC-----UCCG-CCGCC------AUCCUc -5'
27059 5' -57.1 NC_005832.1 + 152 0.76 0.274286
Target:  5'- gGAUCUgguuUGGgaggaguggguuuGGGAGGCGGCGG-AGGAGg -3'
miRNA:   3'- -CUGGA----ACU-------------UCCUCCGCCGCCaUCCUC- -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.