miRNA display CGI


Results 1 - 20 of 22 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
12244 5' -57 NC_003309.1 + 12482 0.66 0.579648
Target:  5'- gAUGGCCugAUUCA-GCUCG-CGCGCGUu -3'
miRNA:   3'- -UGCCGG--UGAGUgCGAGUaGCGCGUAc -5'
12244 5' -57 NC_003309.1 + 24590 0.66 0.579648
Target:  5'- uGCGGCUAaUC-UGCUCGUCuuGCGCAg- -3'
miRNA:   3'- -UGCCGGUgAGuGCGAGUAG--CGCGUac -5'
12244 5' -57 NC_003309.1 + 39849 0.66 0.568799
Target:  5'- uUGGCCcugcugaucCUCugGCUCGUCGUcgagguuacGCGUGc -3'
miRNA:   3'- uGCCGGu--------GAGugCGAGUAGCG---------CGUAC- -5'
12244 5' -57 NC_003309.1 + 43460 0.66 0.568799
Target:  5'- uCGGCUACUCA-GC-CAUgcCGCGCAg- -3'
miRNA:   3'- uGCCGGUGAGUgCGaGUA--GCGCGUac -5'
12244 5' -57 NC_003309.1 + 10485 0.67 0.558
Target:  5'- -aGGCU-UUCGCGCaUCG-CGCGCAUGc -3'
miRNA:   3'- ugCCGGuGAGUGCG-AGUaGCGCGUAC- -5'
12244 5' -57 NC_003309.1 + 22749 0.67 0.556923
Target:  5'- -gGGCCGucaguuugucgauCUCGCGCUgAUCGuCGCcgGc -3'
miRNA:   3'- ugCCGGU-------------GAGUGCGAgUAGC-GCGuaC- -5'
12244 5' -57 NC_003309.1 + 27207 0.67 0.547261
Target:  5'- aGCGGCgcaGC-CACGCUgccguugauUCGCGCGUGu -3'
miRNA:   3'- -UGCCGg--UGaGUGCGAgu-------AGCGCGUAC- -5'
12244 5' -57 NC_003309.1 + 47964 0.67 0.536587
Target:  5'- gGCGcGCCAgCUCGCGCUCGgcgaaGCuGCGa- -3'
miRNA:   3'- -UGC-CGGU-GAGUGCGAGUag---CG-CGUac -5'
12244 5' -57 NC_003309.1 + 10845 0.67 0.536587
Target:  5'- -aGcGCgACaUCACGCUCGgcUCGCGCGa- -3'
miRNA:   3'- ugC-CGgUG-AGUGCGAGU--AGCGCGUac -5'
12244 5' -57 NC_003309.1 + 31715 0.67 0.525987
Target:  5'- gUGGCCGCaugUCugGCUCggCGCGaCGa- -3'
miRNA:   3'- uGCCGGUG---AGugCGAGuaGCGC-GUac -5'
12244 5' -57 NC_003309.1 + 11547 0.67 0.525987
Target:  5'- uGCGGCC----ACGUUCAUCGC-CGUGa -3'
miRNA:   3'- -UGCCGGugagUGCGAGUAGCGcGUAC- -5'
12244 5' -57 NC_003309.1 + 10678 0.68 0.484447
Target:  5'- gGCGGCCGuCUCGCGggCGaugaUCGcCGCGUa -3'
miRNA:   3'- -UGCCGGU-GAGUGCgaGU----AGC-GCGUAc -5'
12244 5' -57 NC_003309.1 + 9185 0.68 0.46427
Target:  5'- cGCcGCCGC-CGCGaUCAUCGcCGCAUGc -3'
miRNA:   3'- -UGcCGGUGaGUGCgAGUAGC-GCGUAC- -5'
12244 5' -57 NC_003309.1 + 10888 0.68 0.453362
Target:  5'- cGCGGUCGCcgcgcguUC-CGCUCGcUCGCGCGc- -3'
miRNA:   3'- -UGCCGGUG-------AGuGCGAGU-AGCGCGUac -5'
12244 5' -57 NC_003309.1 + 16125 0.69 0.434855
Target:  5'- cGCGauGCCGCU-GCGCUCGcacaUCGCGCGa- -3'
miRNA:   3'- -UGC--CGGUGAgUGCGAGU----AGCGCGUac -5'
12244 5' -57 NC_003309.1 + 47869 0.69 0.433893
Target:  5'- aGCGGCCAUgaagCGCGCuucgUCAcgucgccuccugaUCGCGCGg- -3'
miRNA:   3'- -UGCCGGUGa---GUGCG----AGU-------------AGCGCGUac -5'
12244 5' -57 NC_003309.1 + 4688 0.7 0.379424
Target:  5'- cGCGGCCGCgcgagccgaaACGCUaCggCGCGCAUu -3'
miRNA:   3'- -UGCCGGUGag--------UGCGA-GuaGCGCGUAc -5'
12244 5' -57 NC_003309.1 + 46305 0.7 0.370657
Target:  5'- cACGGCCuucuGCgCACGCgag-CGCGCGUGc -3'
miRNA:   3'- -UGCCGG----UGaGUGCGaguaGCGCGUAC- -5'
12244 5' -57 NC_003309.1 + 43523 0.71 0.336992
Target:  5'- gGCGGCCAUcgCGCGCaUCAggUCGCgGCAg- -3'
miRNA:   3'- -UGCCGGUGa-GUGCG-AGU--AGCG-CGUac -5'
12244 5' -57 NC_003309.1 + 12650 0.71 0.328931
Target:  5'- uGCGaGCCGCUgcucgagauagcCGCGCUCG-CGCGCGa- -3'
miRNA:   3'- -UGC-CGGUGA------------GUGCGAGUaGCGCGUac -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.