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
12794 3' -53.4 NC_003387.1 + 50599 0.66 0.79447
Target:  5'- cCACGUcgGCCgcugGGGCGUCggcGAUCa -3'
miRNA:   3'- aGUGCAa-CGGgua-UCCGCGGaa-CUAG- -5'
12794 3' -53.4 NC_003387.1 + 19077 0.66 0.79447
Target:  5'- cCACGgugaUGCCCugcagcguGUAGGCGUCcaucUGAUUg -3'
miRNA:   3'- aGUGCa---ACGGG--------UAUCCGCGGa---ACUAG- -5'
12794 3' -53.4 NC_003387.1 + 9392 0.66 0.79447
Target:  5'- cCGCGagcaggaaaUUGCCC---GGCGCUgUGAUCg -3'
miRNA:   3'- aGUGC---------AACGGGuauCCGCGGaACUAG- -5'
12794 3' -53.4 NC_003387.1 + 13806 0.66 0.784386
Target:  5'- cCACGUUGCgCCAUAGcuggcaaacucaGCGCCa----- -3'
miRNA:   3'- aGUGCAACG-GGUAUC------------CGCGGaacuag -5'
12794 3' -53.4 NC_003387.1 + 32775 0.66 0.783369
Target:  5'- aCGCGguaccucUUGCCCGacgucgAGGUGCCagccUGGUCg -3'
miRNA:   3'- aGUGC-------AACGGGUa-----UCCGCGGa---ACUAG- -5'
12794 3' -53.4 NC_003387.1 + 36635 0.66 0.774136
Target:  5'- cCGCGaUGCCCGacGGCGCCcccgagUGGcaUCa -3'
miRNA:   3'- aGUGCaACGGGUauCCGCGGa-----ACU--AG- -5'
12794 3' -53.4 NC_003387.1 + 25569 0.66 0.763731
Target:  5'- aCACGUUcCCCGgcGGCGCCg----- -3'
miRNA:   3'- aGUGCAAcGGGUauCCGCGGaacuag -5'
12794 3' -53.4 NC_003387.1 + 50544 0.66 0.753183
Target:  5'- cCGCGgugGCUCGggGGGCGCUUUGuGUUg -3'
miRNA:   3'- aGUGCaa-CGGGUa-UCCGCGGAAC-UAG- -5'
12794 3' -53.4 NC_003387.1 + 48935 0.66 0.753183
Target:  5'- gCGCGUucgUGCUCAgcuucgAGGCGCUgcgUGAg- -3'
miRNA:   3'- aGUGCA---ACGGGUa-----UCCGCGGa--ACUag -5'
12794 3' -53.4 NC_003387.1 + 27907 0.67 0.709814
Target:  5'- aCACGcgGCCUugaccggcggcGUGGGCGCCUcGGg- -3'
miRNA:   3'- aGUGCaaCGGG-----------UAUCCGCGGAaCUag -5'
12794 3' -53.4 NC_003387.1 + 18559 0.67 0.687597
Target:  5'- -gGCGUgUGCCCAcAGGUGCg--GGUCg -3'
miRNA:   3'- agUGCA-ACGGGUaUCCGCGgaaCUAG- -5'
12794 3' -53.4 NC_003387.1 + 29469 0.68 0.631276
Target:  5'- gCACGUcauagagccagUGCCCGaGGGCGCCg----- -3'
miRNA:   3'- aGUGCA-----------ACGGGUaUCCGCGGaacuag -5'
12794 3' -53.4 NC_003387.1 + 2170 0.68 0.631276
Target:  5'- cCGCGagcaGCUC---GGCGCCUUGGUCg -3'
miRNA:   3'- aGUGCaa--CGGGuauCCGCGGAACUAG- -5'
12794 3' -53.4 NC_003387.1 + 18068 0.69 0.61997
Target:  5'- -gGCGUUGCCCAgcGGCaCCc-GAUCc -3'
miRNA:   3'- agUGCAACGGGUauCCGcGGaaCUAG- -5'
12794 3' -53.4 NC_003387.1 + 2383 0.69 0.586159
Target:  5'- gUCACGUUGCCgc-GGGCgGCCUgaaUGAagUCg -3'
miRNA:   3'- -AGUGCAACGGguaUCCG-CGGA---ACU--AG- -5'
12794 3' -53.4 NC_003387.1 + 23245 0.7 0.552712
Target:  5'- cUCGCGggccgUGCCCugcucgcuGGCGCCguucucGAUCg -3'
miRNA:   3'- -AGUGCa----ACGGGuau-----CCGCGGaa----CUAG- -5'
12794 3' -53.4 NC_003387.1 + 34777 0.75 0.295903
Target:  5'- cCGgGgucUGCCCGUccucGGGCGCCUUGGUg -3'
miRNA:   3'- aGUgCa--ACGGGUA----UCCGCGGAACUAg -5'
12794 3' -53.4 NC_003387.1 + 41570 1.11 0.000902
Target:  5'- gUCACGUUGCCCAUAGGCGCCUUGAUCg -3'
miRNA:   3'- -AGUGCAACGGGUAUCCGCGGAACUAG- -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.