miRNA display CGI


Results 1 - 20 of 21 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
22311 3' -57.2 NC_005045.1 + 30056 0.66 0.513521
Target:  5'- cAGGCuuGAGCCguUGGCCgcCUGCAu- -3'
miRNA:   3'- uUCUGggCUCGG--ACUGGauGGCGUug -5'
22311 3' -57.2 NC_005045.1 + 2124 0.66 0.502852
Target:  5'- aAAGGCgCCGAcuGCCcGAUCUuCCGCAAg -3'
miRNA:   3'- -UUCUG-GGCU--CGGaCUGGAuGGCGUUg -5'
22311 3' -57.2 NC_005045.1 + 23490 0.66 0.49228
Target:  5'- --cACCCGcAGCCggcgGAgCUACCGgGGCc -3'
miRNA:   3'- uucUGGGC-UCGGa---CUgGAUGGCgUUG- -5'
22311 3' -57.2 NC_005045.1 + 28744 0.66 0.49228
Target:  5'- --aGCCUGAGCCUGgauggagugcGCCUGCUcgGCGAg -3'
miRNA:   3'- uucUGGGCUCGGAC----------UGGAUGG--CGUUg -5'
22311 3' -57.2 NC_005045.1 + 16722 0.66 0.478692
Target:  5'- aAGGugCUGAGCCUGgacaucgagaccucGCCUAUCGagGGCu -3'
miRNA:   3'- -UUCugGGCUCGGAC--------------UGGAUGGCg-UUG- -5'
22311 3' -57.2 NC_005045.1 + 14599 0.67 0.451081
Target:  5'- --uACCgGAacuGCCgcugGACCUGCUGCAAUa -3'
miRNA:   3'- uucUGGgCU---CGGa---CUGGAUGGCGUUG- -5'
22311 3' -57.2 NC_005045.1 + 39556 0.67 0.451081
Target:  5'- cAAG-CCCGAGCUguACCUGCCgGCGc- -3'
miRNA:   3'- -UUCuGGGCUCGGacUGGAUGG-CGUug -5'
22311 3' -57.2 NC_005045.1 + 5083 0.67 0.431202
Target:  5'- cGAGGgUUGcAGCCUGGgCUGCCGaCGACu -3'
miRNA:   3'- -UUCUgGGC-UCGGACUgGAUGGC-GUUG- -5'
22311 3' -57.2 NC_005045.1 + 17308 0.68 0.406144
Target:  5'- -cGACgCCGAGCC-GACCauccgcugcccgaagUGCgGCGACa -3'
miRNA:   3'- uuCUG-GGCUCGGaCUGG---------------AUGgCGUUG- -5'
22311 3' -57.2 NC_005045.1 + 42442 0.68 0.393035
Target:  5'- aGAGGCgagCGAGCCUGGCaCcAgCGCGACg -3'
miRNA:   3'- -UUCUGg--GCUCGGACUG-GaUgGCGUUG- -5'
22311 3' -57.2 NC_005045.1 + 379 0.68 0.393035
Target:  5'- aGAGGCgagCGAGCCUGGCaCcAgCGCGACg -3'
miRNA:   3'- -UUCUGg--GCUCGGACUG-GaUgGCGUUG- -5'
22311 3' -57.2 NC_005045.1 + 28595 0.68 0.365889
Target:  5'- -cGGCCUGAGCCUcGGCgCUuCCGcCGGCu -3'
miRNA:   3'- uuCUGGGCUCGGA-CUG-GAuGGC-GUUG- -5'
22311 3' -57.2 NC_005045.1 + 6977 0.69 0.340063
Target:  5'- uGGugCCGAGaUCUGACCUGCUuCGAg -3'
miRNA:   3'- uUCugGGCUC-GGACUGGAUGGcGUUg -5'
22311 3' -57.2 NC_005045.1 + 32613 0.69 0.331753
Target:  5'- cAAGACCCuggaGGGCCUGgggcaGCgUACCGCGu- -3'
miRNA:   3'- -UUCUGGG----CUCGGAC-----UGgAUGGCGUug -5'
22311 3' -57.2 NC_005045.1 + 24628 0.69 0.323593
Target:  5'- uGGACCUGAccgGCCUGACC-GCCaaGCAAg -3'
miRNA:   3'- uUCUGGGCU---CGGACUGGaUGG--CGUUg -5'
22311 3' -57.2 NC_005045.1 + 2839 0.69 0.315584
Target:  5'- aAGGACCCG-GCg-GGCC-GCUGCAACg -3'
miRNA:   3'- -UUCUGGGCuCGgaCUGGaUGGCGUUG- -5'
22311 3' -57.2 NC_005045.1 + 23115 0.69 0.307725
Target:  5'- -cGGCCUGGGCCUGcgcgGCCUGCUGaCGcuGCu -3'
miRNA:   3'- uuCUGGGCUCGGAC----UGGAUGGC-GU--UG- -5'
22311 3' -57.2 NC_005045.1 + 27120 0.7 0.292459
Target:  5'- -cGGCCCaaggGAGCCUGACUgaGCCGUAcgaGCa -3'
miRNA:   3'- uuCUGGG----CUCGGACUGGa-UGGCGU---UG- -5'
22311 3' -57.2 NC_005045.1 + 5081 0.7 0.263715
Target:  5'- uAGGCCCG-GCCcuccgGGCCUAUUGCGAg -3'
miRNA:   3'- uUCUGGGCuCGGa----CUGGAUGGCGUUg -5'
22311 3' -57.2 NC_005045.1 + 35106 0.75 0.136693
Target:  5'- aAAG-CCCGAGuUCUGACCUACCcgaccauacaGCAGCg -3'
miRNA:   3'- -UUCuGGGCUC-GGACUGGAUGG----------CGUUG- -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.