miRNA display CGI


Results 1 - 18 of 18 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
23942 3' -54.8 NC_005262.1 + 35835 0.66 0.772103
Target:  5'- gGAGCg-GCgu-CGGcgccGCGACCGCCc -3'
miRNA:   3'- -CUCGaaCGauuGCCaa--CGCUGGCGGa -5'
23942 3' -54.8 NC_005262.1 + 43473 0.66 0.761899
Target:  5'- cGAGCc-GCUucgUGGcgGCGACCGUCUa -3'
miRNA:   3'- -CUCGaaCGAuu-GCCaaCGCUGGCGGA- -5'
23942 3' -54.8 NC_005262.1 + 38058 0.66 0.75156
Target:  5'- cGGCUUGCcGGCcugcGCGAUCGCCUc -3'
miRNA:   3'- cUCGAACGaUUGccaaCGCUGGCGGA- -5'
23942 3' -54.8 NC_005262.1 + 14489 0.66 0.738992
Target:  5'- cGAGCcugcUGCUGACGGUccgcgcuacaagGCGAUCGgCa -3'
miRNA:   3'- -CUCGa---ACGAUUGCCAa-----------CGCUGGCgGa -5'
23942 3' -54.8 NC_005262.1 + 39298 0.66 0.719853
Target:  5'- cAGUccGCauACGGUUGCGAUCGCg- -3'
miRNA:   3'- cUCGaaCGauUGCCAACGCUGGCGga -5'
23942 3' -54.8 NC_005262.1 + 39788 0.67 0.709093
Target:  5'- aGGCUcgGC--ACGGUUGCuuGGCCGUCUu -3'
miRNA:   3'- cUCGAa-CGauUGCCAACG--CUGGCGGA- -5'
23942 3' -54.8 NC_005262.1 + 14296 0.67 0.709093
Target:  5'- uAGCgUUGCgugGACGGgaggGCGgcggaACCGCCg -3'
miRNA:   3'- cUCG-AACGa--UUGCCaa--CGC-----UGGCGGa -5'
23942 3' -54.8 NC_005262.1 + 28401 0.67 0.665405
Target:  5'- gGAGCgUGCgcGCGGUauugagcgccGCGugCGCCa -3'
miRNA:   3'- -CUCGaACGauUGCCAa---------CGCugGCGGa -5'
23942 3' -54.8 NC_005262.1 + 61169 0.68 0.643327
Target:  5'- cGGGCgaGCUGACGGgcGCGcGgCGCUa -3'
miRNA:   3'- -CUCGaaCGAUUGCCaaCGC-UgGCGGa -5'
23942 3' -54.8 NC_005262.1 + 4789 0.68 0.632268
Target:  5'- cGGCUUGCaGACGGUcgaagcGCGACgGCg- -3'
miRNA:   3'- cUCGAACGaUUGCCAa-----CGCUGgCGga -5'
23942 3' -54.8 NC_005262.1 + 35165 0.68 0.627844
Target:  5'- cGGGCgacGCUGGCGGcaaugaggucaCGACCGCCg -3'
miRNA:   3'- -CUCGaa-CGAUUGCCaac--------GCUGGCGGa -5'
23942 3' -54.8 NC_005262.1 + 52759 0.68 0.621208
Target:  5'- cGGCcugUUGCUGcgcGCGGUcuUGCGcgacaGCCGCCUc -3'
miRNA:   3'- cUCG---AACGAU---UGCCA--ACGC-----UGGCGGA- -5'
23942 3' -54.8 NC_005262.1 + 10199 0.69 0.566242
Target:  5'- cGAGCg-GCgacGCGGUUGCGAacauCCGUCUc -3'
miRNA:   3'- -CUCGaaCGau-UGCCAACGCU----GGCGGA- -5'
23942 3' -54.8 NC_005262.1 + 61121 0.7 0.481436
Target:  5'- uGAGCUUGCU-ACGGcgGCcaggacGCCGCCc -3'
miRNA:   3'- -CUCGAACGAuUGCCaaCGc-----UGGCGGa -5'
23942 3' -54.8 NC_005262.1 + 21767 0.71 0.451216
Target:  5'- cGGCUUGCgguACGGggUGaGGCCGCCc -3'
miRNA:   3'- cUCGAACGau-UGCCa-ACgCUGGCGGa -5'
23942 3' -54.8 NC_005262.1 + 32060 0.72 0.422065
Target:  5'- -cGCUUGC--GCGacaUGCGACCGCCg -3'
miRNA:   3'- cuCGAACGauUGCca-ACGCUGGCGGa -5'
23942 3' -54.8 NC_005262.1 + 37197 0.72 0.394077
Target:  5'- cGGGCUUGCgGAC-GUUGaugaGGCCGCCa -3'
miRNA:   3'- -CUCGAACGaUUGcCAACg---CUGGCGGa -5'
23942 3' -54.8 NC_005262.1 + 20282 1.07 0.001654
Target:  5'- uGAGCUUGCUAACGGUUGCGACCGCCUu -3'
miRNA:   3'- -CUCGAACGAUUGCCAACGCUGGCGGA- -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.