miRNA display CGI


Results 1 - 19 of 19 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
30656 5' -65.7 NC_006549.1 + 7430 0.66 0.487097
Target:  5'- aCCgUUCCUGGcuacccggGCCCgCCCGGCCCcuCg- -3'
miRNA:   3'- -GG-GAGGACC--------UGGG-GGGCCGGGucGac -5'
30656 5' -65.7 NC_006549.1 + 41584 0.66 0.451897
Target:  5'- uCCCggUCCccaaGGACUUCCCGGCCUcacuGGCa- -3'
miRNA:   3'- -GGG--AGGa---CCUGGGGGGCCGGG----UCGac -5'
30656 5' -65.7 NC_006549.1 + 40953 0.66 0.443316
Target:  5'- cUCC-CCUGGgcucacggGCCCCCCGgGCCCgauggGGCc- -3'
miRNA:   3'- -GGGaGGACC--------UGGGGGGC-CGGG-----UCGac -5'
30656 5' -65.7 NC_006549.1 + 50823 0.67 0.426432
Target:  5'- cCCCuugggUCCUGGcaGCCCCUUggguccuggcgGGCCC-GCUGg -3'
miRNA:   3'- -GGG-----AGGACC--UGGGGGG-----------CCGGGuCGAC- -5'
30656 5' -65.7 NC_006549.1 + 7053 0.67 0.418135
Target:  5'- gCCCgCC-GGACCCCgCGGaCCCcGCg- -3'
miRNA:   3'- -GGGaGGaCCUGGGGgGCC-GGGuCGac -5'
30656 5' -65.7 NC_006549.1 + 49781 0.67 0.393844
Target:  5'- cCCCuuugUCCgGGugCgCCCauuGGCCCAGCg- -3'
miRNA:   3'- -GGG----AGGaCCugG-GGGg--CCGGGUCGac -5'
30656 5' -65.7 NC_006549.1 + 7173 0.67 0.385952
Target:  5'- gCCC-CgaGGACCUCCCGGgCCCAaggGCc- -3'
miRNA:   3'- -GGGaGgaCCUGGGGGGCC-GGGU---CGac -5'
30656 5' -65.7 NC_006549.1 + 7384 0.69 0.326682
Target:  5'- gCC-CCaGGGCCCgCCCGGCCCuccagGGCc- -3'
miRNA:   3'- gGGaGGaCCUGGG-GGGCCGGG-----UCGac -5'
30656 5' -65.7 NC_006549.1 + 102483 0.69 0.326682
Target:  5'- uCUCUCCUuucuggccugGGACUCCUgGgGCgCCAGCUGg -3'
miRNA:   3'- -GGGAGGA----------CCUGGGGGgC-CG-GGUCGAC- -5'
30656 5' -65.7 NC_006549.1 + 41715 0.69 0.31296
Target:  5'- gCCCgc--GGGCCCCCCGGCCCc---- -3'
miRNA:   3'- -GGGaggaCCUGGGGGGCCGGGucgac -5'
30656 5' -65.7 NC_006549.1 + 40536 0.7 0.268395
Target:  5'- gCCC-CCaggagauaugGGACCCCCUGGCCCcGUa- -3'
miRNA:   3'- -GGGaGGa---------CCUGGGGGGCCGGGuCGac -5'
30656 5' -65.7 NC_006549.1 + 40500 0.7 0.268395
Target:  5'- aCCCacgggUCCcagaGGACCCCCCGGaCCC-GCa- -3'
miRNA:   3'- -GGG-----AGGa---CCUGGGGGGCC-GGGuCGac -5'
30656 5' -65.7 NC_006549.1 + 40608 0.7 0.262464
Target:  5'- gCCUCCcGGAccgcaaggcCCCCCCGGgCCCgccGGCUu -3'
miRNA:   3'- gGGAGGaCCU---------GGGGGGCC-GGG---UCGAc -5'
30656 5' -65.7 NC_006549.1 + 101862 0.71 0.234396
Target:  5'- gCCCU-UUGGACCCUgaGGCCCGGgaGg -3'
miRNA:   3'- -GGGAgGACCUGGGGggCCGGGUCgaC- -5'
30656 5' -65.7 NC_006549.1 + 50931 0.71 0.229095
Target:  5'- uCCCUCUUGuccuuGACCCCCgucUGGCCCAgGCg- -3'
miRNA:   3'- -GGGAGGAC-----CUGGGGG---GCCGGGU-CGac -5'
30656 5' -65.7 NC_006549.1 + 41277 0.71 0.218795
Target:  5'- gCCCUCaaGGACUUCCCGGaCCC-GUUGg -3'
miRNA:   3'- -GGGAGgaCCUGGGGGGCC-GGGuCGAC- -5'
30656 5' -65.7 NC_006549.1 + 49818 0.73 0.181486
Target:  5'- aCCCU-UUGGuCCCgUgGGCCCAGCUGg -3'
miRNA:   3'- -GGGAgGACCuGGGgGgCCGGGUCGAC- -5'
30656 5' -65.7 NC_006549.1 + 102581 0.77 0.08727
Target:  5'- aCCUCUcGGGCCCCUgGGUCCAGCg- -3'
miRNA:   3'- gGGAGGaCCUGGGGGgCCGGGUCGac -5'
30656 5' -65.7 NC_006549.1 + 41690 0.81 0.04404
Target:  5'- gCCCcCCUGGGCCCgCgGGCCCAGCa- -3'
miRNA:   3'- -GGGaGGACCUGGGgGgCCGGGUCGac -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.