miRNA display CGI


Results 1 - 20 of 28 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
2350 3' -59.2 NC_001416.1 + 2079 0.66 0.41655
Target:  5'- cACA-CGCAGCAGCGucuguuCAUCGUCgUGGCg -3'
miRNA:   3'- -UGUcGUGUCGUCGU------GUAGCGG-GCCGa -5'
2350 3' -59.2 NC_001416.1 + 3455 0.68 0.321254
Target:  5'- cCGGCACGGCAGUuccgGCuGUCG-CCGGUa -3'
miRNA:   3'- uGUCGUGUCGUCG----UG-UAGCgGGCCGa -5'
2350 3' -59.2 NC_001416.1 + 3896 0.68 0.313445
Target:  5'- aGCAGuCACugcuGCGGUAUAUCgcuGCCgGGCUg -3'
miRNA:   3'- -UGUC-GUGu---CGUCGUGUAG---CGGgCCGA- -5'
2350 3' -59.2 NC_001416.1 + 4762 0.74 0.130559
Target:  5'- uACGGCu--GCAGCGCccgCGUCCGGCUg -3'
miRNA:   3'- -UGUCGuguCGUCGUGua-GCGGGCCGA- -5'
2350 3' -59.2 NC_001416.1 + 4783 0.66 0.435646
Target:  5'- gACGGCAUucuGCucgauauGgACA-CGCCCGGCg -3'
miRNA:   3'- -UGUCGUGu--CGu------CgUGUaGCGGGCCGa -5'
2350 3' -59.2 NC_001416.1 + 8575 0.66 0.397975
Target:  5'- uCAGUugauGCuGCAGCGCAUaGCCCaGCUc -3'
miRNA:   3'- uGUCG----UGuCGUCGUGUAgCGGGcCGA- -5'
2350 3' -59.2 NC_001416.1 + 10338 0.69 0.283654
Target:  5'- -gAGCACGGU-GUACGUCaGCCCGGa- -3'
miRNA:   3'- ugUCGUGUCGuCGUGUAG-CGGGCCga -5'
2350 3' -59.2 NC_001416.1 + 11679 0.67 0.387088
Target:  5'- --uGCGCAGCAGCAgAgcgauaccgaagCGUCaCGGCUg -3'
miRNA:   3'- uguCGUGUCGUCGUgUa-----------GCGG-GCCGA- -5'
2350 3' -59.2 NC_001416.1 + 12004 0.66 0.42508
Target:  5'- aGCAGgGCAGCaugAGCACugucuuccugacgAUCGCCCG-Ca -3'
miRNA:   3'- -UGUCgUGUCG---UCGUG-------------UAGCGGGCcGa -5'
2350 3' -59.2 NC_001416.1 + 12056 0.67 0.387988
Target:  5'- cGCGGUACuggaggaGGCGGCGCAacgUCGCCa-GCUg -3'
miRNA:   3'- -UGUCGUG-------UCGUCGUGU---AGCGGgcCGA- -5'
2350 3' -59.2 NC_001416.1 + 12891 0.68 0.337305
Target:  5'- gGCAGCAUGGCAGacagccgguCGCAggCGUCCGGg- -3'
miRNA:   3'- -UGUCGUGUCGUC---------GUGUa-GCGGGCCga -5'
2350 3' -59.2 NC_001416.1 + 12914 0.66 0.407196
Target:  5'- -uGGCAUAGCcGCGCAUCaG-CCGGUa -3'
miRNA:   3'- ugUCGUGUCGuCGUGUAG-CgGGCCGa -5'
2350 3' -59.2 NC_001416.1 + 12963 0.67 0.345547
Target:  5'- gACGGCACGaaCGGCAgAUagGUCCGGCUg -3'
miRNA:   3'- -UGUCGUGUc-GUCGUgUAg-CGGGCCGA- -5'
2350 3' -59.2 NC_001416.1 + 14127 0.72 0.167408
Target:  5'- gACAGaauCAGCgauucuGGCGCA-CGCCCGGCg -3'
miRNA:   3'- -UGUCgu-GUCG------UCGUGUaGCGGGCCGa -5'
2350 3' -59.2 NC_001416.1 + 14233 0.7 0.219031
Target:  5'- aGCcGCACgacuccgcuGGC-GCACAUCGCCgGGCg -3'
miRNA:   3'- -UGuCGUG---------UCGuCGUGUAGCGGgCCGa -5'
2350 3' -59.2 NC_001416.1 + 14488 0.68 0.305781
Target:  5'- uGCGGCACA-CAGCGgaacuuaugaauCGUCcCCCGGCa -3'
miRNA:   3'- -UGUCGUGUcGUCGU------------GUAGcGGGCCGa -5'
2350 3' -59.2 NC_001416.1 + 14702 1.07 0.00036
Target:  5'- aACAGCACAGCAGCACAUCGCCCGGCUg -3'
miRNA:   3'- -UGUCGUGUCGUCGUGUAGCGGGCCGA- -5'
2350 3' -59.2 NC_001416.1 + 14765 0.7 0.243233
Target:  5'- uAUGGUGCAGCAGCucgcCGUCGCCgcaguaaauugCGGCg -3'
miRNA:   3'- -UGUCGUGUCGUCGu---GUAGCGG-----------GCCGa -5'
2350 3' -59.2 NC_001416.1 + 16586 0.7 0.243233
Target:  5'- cCGGCAUA-CAGCGCAUCGCCa-GCa -3'
miRNA:   3'- uGUCGUGUcGUCGUGUAGCGGgcCGa -5'
2350 3' -59.2 NC_001416.1 + 16804 0.67 0.345547
Target:  5'- cCAGCcgGgGGCAgGCACAccgCGCCgGGCUg -3'
miRNA:   3'- uGUCG--UgUCGU-CGUGUa--GCGGgCCGA- -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.