miRNA display CGI


Results 1 - 20 of 28 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
24966 5' -52.8 NC_005284.1 + 19774 0.66 0.833909
Target:  5'- gCAGCGUauucaaGAGGgcauggACGgcaGCGCGGCGGc -3'
miRNA:   3'- -GUCGUAg-----CUCU------UGCau-UGCGCCGCUa -5'
24966 5' -52.8 NC_005284.1 + 45061 0.66 0.824666
Target:  5'- aAGCGUgGGcGGGCG-AGCGCGGCu-- -3'
miRNA:   3'- gUCGUAgCU-CUUGCaUUGCGCCGcua -5'
24966 5' -52.8 NC_005284.1 + 6061 0.66 0.82373
Target:  5'- gGGCGUcCGcGAGCGUcaccgaacuuccgAGCGgGGCGAa -3'
miRNA:   3'- gUCGUA-GCuCUUGCA-------------UUGCgCCGCUa -5'
24966 5' -52.8 NC_005284.1 + 7491 0.66 0.81521
Target:  5'- uCAGC-UCGcGcGCGUugaucACGCGGCGAc -3'
miRNA:   3'- -GUCGuAGCuCuUGCAu----UGCGCCGCUa -5'
24966 5' -52.8 NC_005284.1 + 9836 0.66 0.805553
Target:  5'- -cGCAUcaCGGGcACGcccuACGCGGCGAUc -3'
miRNA:   3'- guCGUA--GCUCuUGCau--UGCGCCGCUA- -5'
24966 5' -52.8 NC_005284.1 + 36507 0.66 0.805553
Target:  5'- gAGUauGUCGAGAggcggACGUucGACGgCGGCGGc -3'
miRNA:   3'- gUCG--UAGCUCU-----UGCA--UUGC-GCCGCUa -5'
24966 5' -52.8 NC_005284.1 + 50323 0.67 0.795705
Target:  5'- aAGUAUUuGGcGGCGUGcCGCGGCGAa -3'
miRNA:   3'- gUCGUAGcUC-UUGCAUuGCGCCGCUa -5'
24966 5' -52.8 NC_005284.1 + 9213 0.67 0.79471
Target:  5'- aGGCGUCGAuagccgagugcgcGGGCGacgcgccACGCGGCGGc -3'
miRNA:   3'- gUCGUAGCU-------------CUUGCau-----UGCGCCGCUa -5'
24966 5' -52.8 NC_005284.1 + 47725 0.67 0.785678
Target:  5'- uCGGCGUCGGuGAACGUcGGCGCGuaGCa-- -3'
miRNA:   3'- -GUCGUAGCU-CUUGCA-UUGCGC--CGcua -5'
24966 5' -52.8 NC_005284.1 + 37684 0.67 0.785678
Target:  5'- uGGCAcgcUCGAGAACG-AACGUGcGuCGAa -3'
miRNA:   3'- gUCGU---AGCUCUUGCaUUGCGC-C-GCUa -5'
24966 5' -52.8 NC_005284.1 + 48003 0.67 0.785678
Target:  5'- gCGGaauUCGcGGGCGUGACGCGcGUGAc -3'
miRNA:   3'- -GUCgu-AGCuCUUGCAUUGCGC-CGCUa -5'
24966 5' -52.8 NC_005284.1 + 17727 0.67 0.784666
Target:  5'- uGGCgGUCGAGGACGUcuacggcaggggcAAgGCGGCa-- -3'
miRNA:   3'- gUCG-UAGCUCUUGCA-------------UUgCGCCGcua -5'
24966 5' -52.8 NC_005284.1 + 45889 0.67 0.775484
Target:  5'- -cGCGUCGAGcgguugcCGUGGuCGCGcGCGAUg -3'
miRNA:   3'- guCGUAGCUCuu-----GCAUU-GCGC-CGCUA- -5'
24966 5' -52.8 NC_005284.1 + 53866 0.67 0.754641
Target:  5'- uCAGCAUCGAGcacAGCGgccggGAUG-GGCGGc -3'
miRNA:   3'- -GUCGUAGCUC---UUGCa----UUGCgCCGCUa -5'
24966 5' -52.8 NC_005284.1 + 9417 0.67 0.754641
Target:  5'- aCGGCAUCGuGAaacucgGCGUGucgcuCGCGGcCGGg -3'
miRNA:   3'- -GUCGUAGCuCU------UGCAUu----GCGCC-GCUa -5'
24966 5' -52.8 NC_005284.1 + 54686 0.68 0.733274
Target:  5'- aCGGCGcgCGAGcgguuGCgGUGACGUGGUGGUg -3'
miRNA:   3'- -GUCGUa-GCUCu----UG-CAUUGCGCCGCUA- -5'
24966 5' -52.8 NC_005284.1 + 28262 0.68 0.733274
Target:  5'- -----aCGGGAGCG--GCGCGGCGAa -3'
miRNA:   3'- gucguaGCUCUUGCauUGCGCCGCUa -5'
24966 5' -52.8 NC_005284.1 + 10061 0.68 0.711482
Target:  5'- aGGC-UCGuGAGCGagcggaacGCGCGGCGAc -3'
miRNA:   3'- gUCGuAGCuCUUGCau------UGCGCCGCUa -5'
24966 5' -52.8 NC_005284.1 + 38069 0.68 0.710383
Target:  5'- aCAGCAUCGuGccGAUGUGgcucgucGCGCGGaCGAa -3'
miRNA:   3'- -GUCGUAGCuC--UUGCAU-------UGCGCC-GCUa -5'
24966 5' -52.8 NC_005284.1 + 33167 0.68 0.689363
Target:  5'- uCGGCGUCGAGcGCGgcGCGCGa-GAUc -3'
miRNA:   3'- -GUCGUAGCUCuUGCauUGCGCcgCUA- -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.