miRNA display CGI


Results 1 - 20 of 23 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
13018 3' -54.6 NC_003390.1 + 19397 0.66 0.701557
Target:  5'- cAGGUUGAacGGUUGUguagcggUugGGCAUCUucaGCCc -3'
miRNA:   3'- -UCCGAUU--UCGACG-------AugCCGUAGG---CGG- -5'
13018 3' -54.6 NC_003390.1 + 19352 0.66 0.701557
Target:  5'- uGGUacUAAGucGCUGCUaaccgggGCauccccuggcuGGCAUCCGCCu -3'
miRNA:   3'- uCCG--AUUU--CGACGA-------UG-----------CCGUAGGCGG- -5'
13018 3' -54.6 NC_003390.1 + 35343 0.66 0.691556
Target:  5'- -cGCUAAAGCUGCUACagauaGGCucguuUUagGCCu -3'
miRNA:   3'- ucCGAUUUCGACGAUG-----CCGu----AGg-CGG- -5'
13018 3' -54.6 NC_003390.1 + 3440 0.66 0.680387
Target:  5'- uGGuGCUAAgcagaccagugGGCUGCcaauCGGCAUUgaUGCCa -3'
miRNA:   3'- -UC-CGAUU-----------UCGACGau--GCCGUAG--GCGG- -5'
13018 3' -54.6 NC_003390.1 + 32888 0.66 0.657917
Target:  5'- cAGGCUGGAGgaGCgaagGuuguagaaacccCGGCugCCGCCu -3'
miRNA:   3'- -UCCGAUUUCgaCGa---U------------GCCGuaGGCGG- -5'
13018 3' -54.6 NC_003390.1 + 32440 0.66 0.657917
Target:  5'- -aGCUGAAGCcGU--CGGCAUCaauGCCg -3'
miRNA:   3'- ucCGAUUUCGaCGauGCCGUAGg--CGG- -5'
13018 3' -54.6 NC_003390.1 + 27348 0.67 0.624049
Target:  5'- cAGGCUGAGGCUGa---GGCuga-GCCc -3'
miRNA:   3'- -UCCGAUUUCGACgaugCCGuaggCGG- -5'
13018 3' -54.6 NC_003390.1 + 25910 0.67 0.624049
Target:  5'- cGGCUucuucGAAGCUGCUgcugugcucgACGaGCGuUCUGCUc -3'
miRNA:   3'- uCCGA-----UUUCGACGA----------UGC-CGU-AGGCGG- -5'
13018 3' -54.6 NC_003390.1 + 33904 0.67 0.612761
Target:  5'- -aGCcc-AGCUGCUGC-GCGUcCCGCCc -3'
miRNA:   3'- ucCGauuUCGACGAUGcCGUA-GGCGG- -5'
13018 3' -54.6 NC_003390.1 + 7742 0.67 0.60149
Target:  5'- gGGGCaGGAGCUGCU--GGCugcUCCaCCa -3'
miRNA:   3'- -UCCGaUUUCGACGAugCCGu--AGGcGG- -5'
13018 3' -54.6 NC_003390.1 + 27382 0.67 0.60149
Target:  5'- -cGCUGAAGCUGaagACaaGC-UCCGCCg -3'
miRNA:   3'- ucCGAUUUCGACga-UGc-CGuAGGCGG- -5'
13018 3' -54.6 NC_003390.1 + 46100 0.68 0.579041
Target:  5'- -uGCUGAucaGGCUGCUGCGGacucuagcgCUGCUg -3'
miRNA:   3'- ucCGAUU---UCGACGAUGCCgua------GGCGG- -5'
13018 3' -54.6 NC_003390.1 + 21098 0.68 0.556776
Target:  5'- uGGUUAAGuCUGCUGCuagAUCCGCCg -3'
miRNA:   3'- uCCGAUUUcGACGAUGccgUAGGCGG- -5'
13018 3' -54.6 NC_003390.1 + 30992 0.68 0.556776
Target:  5'- -aGCcaccuGGCUGCUGCaGGCuauggCCGCCc -3'
miRNA:   3'- ucCGauu--UCGACGAUG-CCGua---GGCGG- -5'
13018 3' -54.6 NC_003390.1 + 27426 0.69 0.503422
Target:  5'- gAGGCUGAgaaGGCUGCacuagaGGCuggugagaagaucgCCGCCg -3'
miRNA:   3'- -UCCGAUU---UCGACGaug---CCGua------------GGCGG- -5'
13018 3' -54.6 NC_003390.1 + 6716 0.69 0.470833
Target:  5'- aGGGCUGGGGC-GCUGCa-CAUCaGCCa -3'
miRNA:   3'- -UCCGAUUUCGaCGAUGccGUAGgCGG- -5'
13018 3' -54.6 NC_003390.1 + 33502 0.7 0.420659
Target:  5'- gGGGUUGAGGCaGcCUACGaGC--CCGCCa -3'
miRNA:   3'- -UCCGAUUUCGaC-GAUGC-CGuaGGCGG- -5'
13018 3' -54.6 NC_003390.1 + 16608 0.71 0.373853
Target:  5'- uGGCUAuAGCgGCUGuccUGGCAUCgGUCc -3'
miRNA:   3'- uCCGAUuUCGaCGAU---GCCGUAGgCGG- -5'
13018 3' -54.6 NC_003390.1 + 26964 0.72 0.347516
Target:  5'- uGGuGCUGAAGCUuaucaggaGCUGguCGGCugggCCGCCa -3'
miRNA:   3'- -UC-CGAUUUCGA--------CGAU--GCCGua--GGCGG- -5'
13018 3' -54.6 NC_003390.1 + 39003 0.73 0.306634
Target:  5'- -uGCUGAAGCUGCUAaGGCcuucacaggAUCUGCUg -3'
miRNA:   3'- ucCGAUUUCGACGAUgCCG---------UAGGCGG- -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.