miRNA display CGI


Results 1 - 20 of 27 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
16364 3' -57.3 NC_004084.1 + 28942 0.66 0.642136
Target:  5'- --cACCGccgCACCCUCGAGcGCGUc- -3'
miRNA:   3'- aguUGGCucaGUGGGAGCUC-CGCGac -5'
16364 3' -57.3 NC_004084.1 + 2610 0.66 0.631328
Target:  5'- gUCGACCGAuUC-CUCUCGuuccGGUGUUGg -3'
miRNA:   3'- -AGUUGGCUcAGuGGGAGCu---CCGCGAC- -5'
16364 3' -57.3 NC_004084.1 + 48374 0.66 0.631328
Target:  5'- aUCGACCGugauaGGUCACCgUCGAcGCGg-- -3'
miRNA:   3'- -AGUUGGC-----UCAGUGGgAGCUcCGCgac -5'
16364 3' -57.3 NC_004084.1 + 47899 0.66 0.631328
Target:  5'- gCAACgCGAcgGUCGCUCcgCGAGGUGCc- -3'
miRNA:   3'- aGUUG-GCU--CAGUGGGa-GCUCCGCGac -5'
16364 3' -57.3 NC_004084.1 + 48481 0.66 0.630247
Target:  5'- -uGACCGAGcaacUCGCugaggcuCgUCGAGGCGCUc -3'
miRNA:   3'- agUUGGCUC----AGUG-------GgAGCUCCGCGAc -5'
16364 3' -57.3 NC_004084.1 + 17257 0.66 0.620521
Target:  5'- gCGGCCGgugcAGUCggcgauGCCCUCggugGAGGCGgUGg -3'
miRNA:   3'- aGUUGGC----UCAG------UGGGAG----CUCCGCgAC- -5'
16364 3' -57.3 NC_004084.1 + 21006 0.67 0.566804
Target:  5'- --uAUCGcgcaGGcCAUCCUCGAGGCGCg- -3'
miRNA:   3'- aguUGGC----UCaGUGGGAGCUCCGCGac -5'
16364 3' -57.3 NC_004084.1 + 17030 0.67 0.556183
Target:  5'- gCGACCGAGcgucugCGCCCgUCGAugcGGUGaCUGa -3'
miRNA:   3'- aGUUGGCUCa-----GUGGG-AGCU---CCGC-GAC- -5'
16364 3' -57.3 NC_004084.1 + 6996 0.67 0.556183
Target:  5'- aUCAG-CGuGUCGCCCUCGAaggccucgacGGCGUc- -3'
miRNA:   3'- -AGUUgGCuCAGUGGGAGCU----------CCGCGac -5'
16364 3' -57.3 NC_004084.1 + 725 0.67 0.544567
Target:  5'- uUCGuccCCGAGgagcaACUCUCGAcgucggaGGCGCUGg -3'
miRNA:   3'- -AGUu--GGCUCag---UGGGAGCU-------CCGCGAC- -5'
16364 3' -57.3 NC_004084.1 + 26191 0.68 0.524697
Target:  5'- aCGACCGucggcgucGUCGaggagcaUCUCGAGGCGCUc -3'
miRNA:   3'- aGUUGGCu-------CAGUg------GGAGCUCCGCGAc -5'
16364 3' -57.3 NC_004084.1 + 5781 0.68 0.504085
Target:  5'- gCAGCCGAGgcacUCACCCUgGuauccgacgccGGGCGUg- -3'
miRNA:   3'- aGUUGGCUC----AGUGGGAgC-----------UCCGCGac -5'
16364 3' -57.3 NC_004084.1 + 5148 0.68 0.483832
Target:  5'- gCGACCGAcGUCGuCCCU-GAGGCaGCa- -3'
miRNA:   3'- aGUUGGCU-CAGU-GGGAgCUCCG-CGac -5'
16364 3' -57.3 NC_004084.1 + 51405 0.68 0.483832
Target:  5'- gCGGCCGAcgccGUCgagGCCUUCGAGGgcgacaCGCUGa -3'
miRNA:   3'- aGUUGGCU----CAG---UGGGAGCUCC------GCGAC- -5'
16364 3' -57.3 NC_004084.1 + 15424 0.68 0.483832
Target:  5'- cUCGAUCGcGUCGaguuCCUcaUCGAGGCGCUc -3'
miRNA:   3'- -AGUUGGCuCAGU----GGG--AGCUCCGCGAc -5'
16364 3' -57.3 NC_004084.1 + 45018 0.69 0.463978
Target:  5'- aCGAUCGAGUCGCgguucagCUCGAacuGGCGCUc -3'
miRNA:   3'- aGUUGGCUCAGUGg------GAGCU---CCGCGAc -5'
16364 3' -57.3 NC_004084.1 + 43560 0.69 0.463978
Target:  5'- -aGACCGGcggccGUCAUCCcgaCGAGGCGCg- -3'
miRNA:   3'- agUUGGCU-----CAGUGGGa--GCUCCGCGac -5'
16364 3' -57.3 NC_004084.1 + 36880 0.69 0.461037
Target:  5'- -aAGCCGAcggaagaugcgaucGcCAUCCUCGAGGCGUUc -3'
miRNA:   3'- agUUGGCU--------------CaGUGGGAGCUCCGCGAc -5'
16364 3' -57.3 NC_004084.1 + 7340 0.7 0.389181
Target:  5'- uUCGAUCGcccGGUCGuCCCagGAGGCGCg- -3'
miRNA:   3'- -AGUUGGC---UCAGU-GGGagCUCCGCGac -5'
16364 3' -57.3 NC_004084.1 + 36241 0.71 0.346624
Target:  5'- cUCGccuACCGGGUCGacgUCCUCGAGuGCGCc- -3'
miRNA:   3'- -AGU---UGGCUCAGU---GGGAGCUC-CGCGac -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.