miRNA display CGI


Results 1 - 16 of 16 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
30894 3' -57.3 NC_006552.1 + 55287 0.66 0.663652
Target:  5'- aGGGCGAGU--CCGggGCCU---ACCCGu -3'
miRNA:   3'- aCCCGCUCGucGGC--UGGAuauUGGGC- -5'
30894 3' -57.3 NC_006552.1 + 34511 0.66 0.652915
Target:  5'- cGGGCGgcggcGGCAGCuCGAUCUGg--UCCa -3'
miRNA:   3'- aCCCGC-----UCGUCG-GCUGGAUauuGGGc -5'
30894 3' -57.3 NC_006552.1 + 45353 0.66 0.631395
Target:  5'- cGGGCcuGGCAuGUCGGCCgGUAucuggcagcgcgGCCCGg -3'
miRNA:   3'- aCCCGc-UCGU-CGGCUGGaUAU------------UGGGC- -5'
30894 3' -57.3 NC_006552.1 + 9480 0.67 0.609878
Target:  5'- aUGGGCGAGCAuccacuGUCGcACCac--ACCCa -3'
miRNA:   3'- -ACCCGCUCGU------CGGC-UGGauauUGGGc -5'
30894 3' -57.3 NC_006552.1 + 31110 0.67 0.577761
Target:  5'- gGGGCGuucaAGCGGCCGGCau---GCCaCGc -3'
miRNA:   3'- aCCCGC----UCGUCGGCUGgauauUGG-GC- -5'
30894 3' -57.3 NC_006552.1 + 20690 0.67 0.55655
Target:  5'- aUGGGCGccGGCAGU---CCUGUGccGCCCGc -3'
miRNA:   3'- -ACCCGC--UCGUCGgcuGGAUAU--UGGGC- -5'
30894 3' -57.3 NC_006552.1 + 18278 0.68 0.53557
Target:  5'- -uGGCGcaccAGCAGCCGgcaacACCUGgccucGCCCGg -3'
miRNA:   3'- acCCGC----UCGUCGGC-----UGGAUau---UGGGC- -5'
30894 3' -57.3 NC_006552.1 + 39390 0.68 0.514874
Target:  5'- cGGGUccGAcucGCGGCUGACCUcu-ACCCa -3'
miRNA:   3'- aCCCG--CU---CGUCGGCUGGAuauUGGGc -5'
30894 3' -57.3 NC_006552.1 + 50418 0.68 0.514874
Target:  5'- cUGGGUGGGCGGCCuGAUUggcGGCCUc -3'
miRNA:   3'- -ACCCGCUCGUCGG-CUGGauaUUGGGc -5'
30894 3' -57.3 NC_006552.1 + 11814 0.68 0.504647
Target:  5'- cGGGUGaAGCGGCUGACggacagaagauuCUGcuUGGCCCa -3'
miRNA:   3'- aCCCGC-UCGUCGGCUG------------GAU--AUUGGGc -5'
30894 3' -57.3 NC_006552.1 + 3638 0.68 0.494509
Target:  5'- cGGGCaggGGGCuccucaccGCCGACgacgGUGACCCGa -3'
miRNA:   3'- aCCCG---CUCGu-------CGGCUGga--UAUUGGGC- -5'
30894 3' -57.3 NC_006552.1 + 62753 0.7 0.398989
Target:  5'- aGGGCGGGCGcuGCCGcGCCUGcgagcgacGCCUGg -3'
miRNA:   3'- aCCCGCUCGU--CGGC-UGGAUau------UGGGC- -5'
30894 3' -57.3 NC_006552.1 + 18742 0.71 0.38134
Target:  5'- cGGGC-AGUGGuCCGGCCUGUGcaaugGCCUGu -3'
miRNA:   3'- aCCCGcUCGUC-GGCUGGAUAU-----UGGGC- -5'
30894 3' -57.3 NC_006552.1 + 25327 0.71 0.347638
Target:  5'- cUGGGCGGGUAGC--GCUggUGUAACCCu -3'
miRNA:   3'- -ACCCGCUCGUCGgcUGG--AUAUUGGGc -5'
30894 3' -57.3 NC_006552.1 + 44894 0.72 0.316119
Target:  5'- uUGGGC-AGCGGCCGGCggAguugcUGACCCa -3'
miRNA:   3'- -ACCCGcUCGUCGGCUGgaU-----AUUGGGc -5'
30894 3' -57.3 NC_006552.1 + 14305 0.73 0.253225
Target:  5'- cGGcGCGGGCcugGGCCucGGCCUGUAACCUc -3'
miRNA:   3'- aCC-CGCUCG---UCGG--CUGGAUAUUGGGc -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.