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 + 50098 1.06 0.002882
Target:  5'- aCAGCAUCGAGAACGUAACGCGGCGAUc -3'
miRNA:   3'- -GUCGUAGCUCUUGCAUUGCGCCGCUA- -5'
24966 5' -52.8 NC_005284.1 + 49717 0.75 0.346514
Target:  5'- gAGCuugugGUCGAGGACGUGAaaucaGCGGUGAc -3'
miRNA:   3'- gUCG-----UAGCUCUUGCAUUg----CGCCGCUa -5'
24966 5' -52.8 NC_005284.1 + 23570 0.74 0.400271
Target:  5'- -cGCAUCGGcAACGU--CGCGGCGAUg -3'
miRNA:   3'- guCGUAGCUcUUGCAuuGCGCCGCUA- -5'
24966 5' -52.8 NC_005284.1 + 17774 0.69 0.644525
Target:  5'- -cGCGUCGAGGACGagguaaaggcgAACGCcGCGAa -3'
miRNA:   3'- guCGUAGCUCUUGCa----------UUGCGcCGCUa -5'
24966 5' -52.8 NC_005284.1 + 27654 0.69 0.65578
Target:  5'- -uGCAUCGcAGAuGCGU--CGCGGCGGg -3'
miRNA:   3'- guCGUAGC-UCU-UGCAuuGCGCCGCUa -5'
24966 5' -52.8 NC_005284.1 + 40162 0.69 0.667013
Target:  5'- aCGGCGUCGAG---GUAGCGC-GCGAg -3'
miRNA:   3'- -GUCGUAGCUCuugCAUUGCGcCGCUa -5'
24966 5' -52.8 NC_005284.1 + 38583 0.69 0.678211
Target:  5'- aCGGCcguUCGGccGAGCGc-ACGCGGCGAg -3'
miRNA:   3'- -GUCGu--AGCU--CUUGCauUGCGCCGCUa -5'
24966 5' -52.8 NC_005284.1 + 24149 0.69 0.678211
Target:  5'- -cGCAUgGGGGGCGUGugGuCGGCu-- -3'
miRNA:   3'- guCGUAgCUCUUGCAUugC-GCCGcua -5'
24966 5' -52.8 NC_005284.1 + 33167 0.68 0.689363
Target:  5'- uCGGCGUCGAGcGCGgcGCGCGa-GAUc -3'
miRNA:   3'- -GUCGUAGCUCuUGCauUGCGCcgCUA- -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 + 10061 0.68 0.711482
Target:  5'- aGGC-UCGuGAGCGagcggaacGCGCGGCGAc -3'
miRNA:   3'- gUCGuAGCuCUUGCau------UGCGCCGCUa -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 + 9417 0.67 0.754641
Target:  5'- aCGGCAUCGuGAaacucgGCGUGucgcuCGCGGcCGGg -3'
miRNA:   3'- -GUCGUAGCuCU------UGCAUu----GCGCC-GCUa -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 + 45889 0.67 0.775484
Target:  5'- -cGCGUCGAGcgguugcCGUGGuCGCGcGCGAUg -3'
miRNA:   3'- guCGUAGCUCuu-----GCAUU-GCGC-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 + 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' 
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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.