miRNA display CGI


Results 1 - 20 of 43 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
12329 3' -55.6 NC_003324.1 + 32094 0.73 0.323497
Target:  5'- cUGCGCCucggcucGUCGCCGGuGAggccGAGUGCc -3'
miRNA:   3'- -ACGCGGua-----UAGCGGCCuCU----UUCGCGc -5'
12329 3' -55.6 NC_003324.1 + 42316 0.66 0.682088
Target:  5'- cGUGCCGgg-CGCCGGuGAcagacuuaGAGCGa- -3'
miRNA:   3'- aCGCGGUauaGCGGCCuCU--------UUCGCgc -5'
12329 3' -55.6 NC_003324.1 + 35127 0.67 0.660233
Target:  5'- aGCGCC--GUCGCCGuuGAccucAGCGCc -3'
miRNA:   3'- aCGCGGuaUAGCGGCcuCUu---UCGCGc -5'
12329 3' -55.6 NC_003324.1 + 20471 0.67 0.660233
Target:  5'- cGCGCUcgAUCGCCGcaucgcGGAGCGgGa -3'
miRNA:   3'- aCGCGGuaUAGCGGCcuc---UUUCGCgC- -5'
12329 3' -55.6 NC_003324.1 + 11589 0.67 0.649262
Target:  5'- cGCGgCucc-UGCCGGAGAcuGGUGCGa -3'
miRNA:   3'- aCGCgGuauaGCGGCCUCUu-UCGCGC- -5'
12329 3' -55.6 NC_003324.1 + 48444 0.67 0.649262
Target:  5'- aGCGCCg---CGCCGaGAaGAuGGUGCGc -3'
miRNA:   3'- aCGCGGuauaGCGGC-CU-CUuUCGCGC- -5'
12329 3' -55.6 NC_003324.1 + 37994 0.67 0.623985
Target:  5'- gGCgGCCA---UGCCGGAGcgguugcggcgcacGGGGCGCGu -3'
miRNA:   3'- aCG-CGGUauaGCGGCCUC--------------UUUCGCGC- -5'
12329 3' -55.6 NC_003324.1 + 42419 0.67 0.616293
Target:  5'- aGCGCCAg--CGCCaGAcaGGAAGCGa- -3'
miRNA:   3'- aCGCGGUauaGCGGcCU--CUUUCGCgc -5'
12329 3' -55.6 NC_003324.1 + 2827 0.67 0.605319
Target:  5'- cUGCGgUAUuuUCGCCGGgcgagGGGGAGCGUc -3'
miRNA:   3'- -ACGCgGUAu-AGCGGCC-----UCUUUCGCGc -5'
12329 3' -55.6 NC_003324.1 + 4271 0.67 0.604222
Target:  5'- aUGCGCCAcggcguuucCGCCGGuGGcaagaugucccgcAAGCGCa -3'
miRNA:   3'- -ACGCGGUaua------GCGGCCuCU-------------UUCGCGc -5'
12329 3' -55.6 NC_003324.1 + 27709 0.67 0.604222
Target:  5'- gUGCGCCucggccuUAUCGCgGGcaccGAAccacuucGGCGCGa -3'
miRNA:   3'- -ACGCGGu------AUAGCGgCCu---CUU-------UCGCGC- -5'
12329 3' -55.6 NC_003324.1 + 38247 0.71 0.409585
Target:  5'- aGCGCCGgaaugccgAUCGCCaucaggucgGGAGu--GCGCGg -3'
miRNA:   3'- aCGCGGUa-------UAGCGG---------CCUCuuuCGCGC- -5'
12329 3' -55.6 NC_003324.1 + 50281 0.71 0.409585
Target:  5'- aUGCGCCGccgGUCGaCGGcaAGAAGGCGUu -3'
miRNA:   3'- -ACGCGGUa--UAGCgGCC--UCUUUCGCGc -5'
12329 3' -55.6 NC_003324.1 + 43795 0.71 0.428438
Target:  5'- gGUGCCGggaaCGCCGGc-AAGGCGCGu -3'
miRNA:   3'- aCGCGGUaua-GCGGCCucUUUCGCGC- -5'
12329 3' -55.6 NC_003324.1 + 38368 0.7 0.457651
Target:  5'- gGuCGCCGUcgUGCgGGAGGAAGUGg- -3'
miRNA:   3'- aC-GCGGUAuaGCGgCCUCUUUCGCgc -5'
12329 3' -55.6 NC_003324.1 + 16155 0.7 0.467624
Target:  5'- cGCGCCAggcAUCGCUGGcaccGAGGCGgGc -3'
miRNA:   3'- aCGCGGUa--UAGCGGCCuc--UUUCGCgC- -5'
12329 3' -55.6 NC_003324.1 + 31239 0.69 0.498188
Target:  5'- aGCGCCAgcgcCGCCGGccgcacuGCGCGu -3'
miRNA:   3'- aCGCGGUaua-GCGGCCucuuu--CGCGC- -5'
12329 3' -55.6 NC_003324.1 + 23169 0.69 0.540253
Target:  5'- gGCGCCcacgGUAUgGUCGGc--GAGCGCGg -3'
miRNA:   3'- aCGCGG----UAUAgCGGCCucuUUCGCGC- -5'
12329 3' -55.6 NC_003324.1 + 10758 1.1 0.000854
Target:  5'- cUGCGCCAUAUCGCCGGAGAAAGCGCGg -3'
miRNA:   3'- -ACGCGGUAUAGCGGCCUCUUUCGCGC- -5'
12329 3' -55.6 NC_003324.1 + 23494 0.66 0.725137
Target:  5'- gGCGCCAccgCGCgGccaacGAGAaagccGAGCGCGu -3'
miRNA:   3'- aCGCGGUauaGCGgC-----CUCU-----UUCGCGC- -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.