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
29611 3' -56.1 NC_006151.1 + 103719 0.66 0.909543
Target:  5'- cGGAgcugGGCUUCCuGGagccgcUGGCGcGGCAGUGc -3'
miRNA:   3'- -CCUa---CUGGAGG-CC------ACCGC-UCGUCAUc -5'
29611 3' -56.1 NC_006151.1 + 8477 0.66 0.909543
Target:  5'- cGGAUGGUCggUCGGacggGGCGGGCGGggAGg -3'
miRNA:   3'- -CCUACUGGa-GGCCa---CCGCUCGUCa-UC- -5'
29611 3' -56.1 NC_006151.1 + 55356 0.66 0.908331
Target:  5'- cGGG-GGCCUCCgcgagcaGGUGcgcgagcGCGAGCAGgAGg -3'
miRNA:   3'- -CCUaCUGGAGG-------CCAC-------CGCUCGUCaUC- -5'
29611 3' -56.1 NC_006151.1 + 33901 0.66 0.903388
Target:  5'- cGGggGccucgcGCCUCCGcGUccGGCGGGCGGa-- -3'
miRNA:   3'- -CCuaC------UGGAGGC-CA--CCGCUCGUCauc -5'
29611 3' -56.1 NC_006151.1 + 23869 0.66 0.903388
Target:  5'- cGGUGGCgUUggCGGgGGCGAGCGGg-- -3'
miRNA:   3'- cCUACUGgAG--GCCaCCGCUCGUCauc -5'
29611 3' -56.1 NC_006151.1 + 117180 0.66 0.897
Target:  5'- cGGuagaagGGCCgCCGGggGGCGucguAGUAGUAGa -3'
miRNA:   3'- -CCua----CUGGaGGCCa-CCGC----UCGUCAUC- -5'
29611 3' -56.1 NC_006151.1 + 121640 0.66 0.890382
Target:  5'- -cGUGGCCUCucucgcggCGGacgGGCGGGCGGaGGg -3'
miRNA:   3'- ccUACUGGAG--------GCCa--CCGCUCGUCaUC- -5'
29611 3' -56.1 NC_006151.1 + 30659 0.67 0.875033
Target:  5'- uGAUGGCCgcgcugguUCCGGgaagccucccccGGCGGGCGGgGGg -3'
miRNA:   3'- cCUACUGG--------AGGCCa-----------CCGCUCGUCaUC- -5'
29611 3' -56.1 NC_006151.1 + 93367 0.67 0.869189
Target:  5'- aGGAUGACggCCGGaGGCGcGCGcUAGu -3'
miRNA:   3'- -CCUACUGgaGGCCaCCGCuCGUcAUC- -5'
29611 3' -56.1 NC_006151.1 + 31231 0.67 0.853991
Target:  5'- cGGccGGCCggcCCGGcGaGCGAGCGGgcGg -3'
miRNA:   3'- -CCuaCUGGa--GGCCaC-CGCUCGUCauC- -5'
29611 3' -56.1 NC_006151.1 + 112036 0.67 0.837992
Target:  5'- gGGAgcuggGGCCggCGGgcgGGCGgcGGCGGUGGu -3'
miRNA:   3'- -CCUa----CUGGagGCCa--CCGC--UCGUCAUC- -5'
29611 3' -56.1 NC_006151.1 + 41173 0.68 0.821247
Target:  5'- uGGUGGuCCUgCGGUGGUcgaGGGgGGUGGg -3'
miRNA:   3'- cCUACU-GGAgGCCACCG---CUCgUCAUC- -5'
29611 3' -56.1 NC_006151.1 + 117585 0.68 0.812614
Target:  5'- aGGAUGGg--CCGcGUGGCGccgccGCAGUAGa -3'
miRNA:   3'- -CCUACUggaGGC-CACCGCu----CGUCAUC- -5'
29611 3' -56.1 NC_006151.1 + 71282 0.68 0.785768
Target:  5'- uGGAgacGGCCUCgGGggccGGCGAGCAc--- -3'
miRNA:   3'- -CCUa--CUGGAGgCCa---CCGCUCGUcauc -5'
29611 3' -56.1 NC_006151.1 + 30803 0.68 0.785768
Target:  5'- cGAUGGCC-CCGGgggcacGCGGGCGGgAGg -3'
miRNA:   3'- cCUACUGGaGGCCac----CGCUCGUCaUC- -5'
29611 3' -56.1 NC_006151.1 + 33065 0.69 0.757684
Target:  5'- cGGGUGGCaugagaCGGagggggcgagGGCGGGCGGUGGa -3'
miRNA:   3'- -CCUACUGgag---GCCa---------CCGCUCGUCAUC- -5'
29611 3' -56.1 NC_006151.1 + 68900 0.7 0.68871
Target:  5'- aGGAcGGCCUCgCGGUcGcGCGGGCGGa-- -3'
miRNA:   3'- -CCUaCUGGAG-GCCA-C-CGCUCGUCauc -5'
29611 3' -56.1 NC_006151.1 + 114939 0.71 0.668446
Target:  5'- ---cGGCCUCCGG-GGUGGGCGcgaugaugacGUAGg -3'
miRNA:   3'- ccuaCUGGAGGCCaCCGCUCGU----------CAUC- -5'
29611 3' -56.1 NC_006151.1 + 23448 0.71 0.668446
Target:  5'- aGGGUGGCC-CCGG-GGCGGGUg---- -3'
miRNA:   3'- -CCUACUGGaGGCCaCCGCUCGucauc -5'
29611 3' -56.1 NC_006151.1 + 3334 0.75 0.451654
Target:  5'- gGGAaGACCUCCugguccacgaGGgcgcgggccaccucgGGCGGGCAGUAGg -3'
miRNA:   3'- -CCUaCUGGAGG----------CCa--------------CCGCUCGUCAUC- -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.