miRNA display CGI


Results 1 - 20 of 37 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
30731 3' -65.6 NC_006552.1 + 52303 0.66 0.315136
Target:  5'- cGCGAaagCGGCCUGAcuaGCCaccuCGCGCCg -3'
miRNA:   3'- -CGCUcg-GCCGGACU---CGGgc--GCGCGGg -5'
30731 3' -65.6 NC_006552.1 + 18287 0.66 0.315136
Target:  5'- aGC-AGCCGGCaacacCUGGccucGCCCGgGCGCa- -3'
miRNA:   3'- -CGcUCGGCCG-----GACU----CGGGCgCGCGgg -5'
30731 3' -65.6 NC_006552.1 + 61464 0.66 0.300413
Target:  5'- aCGAguGCCGGgaaaccgaucuacCCUG-GCCggucgacuacgUGCGCGCCCg -3'
miRNA:   3'- cGCU--CGGCC-------------GGACuCGG-----------GCGCGCGGG- -5'
30731 3' -65.6 NC_006552.1 + 53289 0.66 0.294268
Target:  5'- uGCGAucaaCGGCCgcgcAGCCCGCcGCGCg- -3'
miRNA:   3'- -CGCUcg--GCCGGac--UCGGGCG-CGCGgg -5'
30731 3' -65.6 NC_006552.1 + 60797 0.66 0.287556
Target:  5'- uUGAuGCCGGCCUGca--CGCGCGCa- -3'
miRNA:   3'- cGCU-CGGCCGGACucggGCGCGCGgg -5'
30731 3' -65.6 NC_006552.1 + 32315 0.66 0.286891
Target:  5'- aCGGcGUCGGCCUGgcucucguggaucAGCCUGCcGCGCa- -3'
miRNA:   3'- cGCU-CGGCCGGAC-------------UCGGGCG-CGCGgg -5'
30731 3' -65.6 NC_006552.1 + 4762 0.66 0.280964
Target:  5'- gGCGGuGCCGGCUgcgucaCCUGCGgCGCCa -3'
miRNA:   3'- -CGCU-CGGCCGGacuc--GGGCGC-GCGGg -5'
30731 3' -65.6 NC_006552.1 + 3877 0.66 0.274494
Target:  5'- aGCGAGCaCGGCaagUGAGgCCGU-UGCUCg -3'
miRNA:   3'- -CGCUCG-GCCGg--ACUCgGGCGcGCGGG- -5'
30731 3' -65.6 NC_006552.1 + 12281 0.66 0.273853
Target:  5'- aGCGcuucaucGGCCcgcucguugagGGCCUGAGCCauggugcguaguCGCucggcgGCGCCCu -3'
miRNA:   3'- -CGC-------UCGG-----------CCGGACUCGG------------GCG------CGCGGG- -5'
30731 3' -65.6 NC_006552.1 + 61369 0.67 0.261911
Target:  5'- cGgGAGCCgGGCCaUGuuUUgGCGCGCCg -3'
miRNA:   3'- -CgCUCGG-CCGG-ACucGGgCGCGCGGg -5'
30731 3' -65.6 NC_006552.1 + 26550 0.67 0.255797
Target:  5'- aGCGuca-GGCgCUcGGCCUGCGCGCCa -3'
miRNA:   3'- -CGCucggCCG-GAcUCGGGCGCGCGGg -5'
30731 3' -65.6 NC_006552.1 + 12651 0.67 0.255797
Target:  5'- cGCGGGUCuuGGCCUGuGCCUugGCcUGCUCa -3'
miRNA:   3'- -CGCUCGG--CCGGACuCGGG--CGcGCGGG- -5'
30731 3' -65.6 NC_006552.1 + 10649 0.67 0.255797
Target:  5'- gGCGAuGCUGGCCUGAugaUCGCugauuucgaaGCGCCa -3'
miRNA:   3'- -CGCU-CGGCCGGACUcg-GGCG----------CGCGGg -5'
30731 3' -65.6 NC_006552.1 + 14308 0.67 0.255192
Target:  5'- cGCGGGCCugggccucGGCCUGuaaccucuuugccAGCacgCCGCGCGgCUu -3'
miRNA:   3'- -CGCUCGG--------CCGGAC-------------UCG---GGCGCGCgGG- -5'
30731 3' -65.6 NC_006552.1 + 44588 0.67 0.249208
Target:  5'- aGUGAGCaggcgcucguaggCGGCaaUGAacGCCaugCGCGCGCCCa -3'
miRNA:   3'- -CGCUCG-------------GCCGg-ACU--CGG---GCGCGCGGG- -5'
30731 3' -65.6 NC_006552.1 + 6983 0.67 0.248025
Target:  5'- aGCGAuuuuGCUGGCCUugGAGUauacgaacugcgucUCGCGCacgGCCCg -3'
miRNA:   3'- -CGCU----CGGCCGGA--CUCG--------------GGCGCG---CGGG- -5'
30731 3' -65.6 NC_006552.1 + 17962 0.67 0.243922
Target:  5'- cCGAGuuaCCGGCguuguaCUGAGCCaaCGCGUCCg -3'
miRNA:   3'- cGCUC---GGCCG------GACUCGGgcGCGCGGG- -5'
30731 3' -65.6 NC_006552.1 + 12848 0.67 0.243922
Target:  5'- uGCGcugcccGGCgGGCCUGGauuuCCUGCuGCGCCUc -3'
miRNA:   3'- -CGC------UCGgCCGGACUc---GGGCG-CGCGGG- -5'
30731 3' -65.6 NC_006552.1 + 60420 0.67 0.238158
Target:  5'- ---cGCCGGCacucGCCCGCGCacuggaccagGCCCg -3'
miRNA:   3'- cgcuCGGCCGgacuCGGGCGCG----------CGGG- -5'
30731 3' -65.6 NC_006552.1 + 18747 0.67 0.238158
Target:  5'- aGUGGuCCGGCCUGugcaauGGCCUGUugcugccgugccGCGUCCg -3'
miRNA:   3'- -CGCUcGGCCGGAC------UCGGGCG------------CGCGGG- -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.