miRNA display CGI


Results 1 - 20 of 67 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
11434 3' -59.6 NC_003085.1 + 14470 0.66 0.467278
Target:  5'- aGCcucgGCCAGCaGCGUGcGCacgagGUCAUCgGCu -3'
miRNA:   3'- gCG----UGGUCGcCGCAC-CG-----CAGUAGgUG- -5'
11434 3' -59.6 NC_003085.1 + 9078 0.67 0.392114
Target:  5'- uGCcgGCCAGCGccaGaGGCGUCAgcgCCGCg -3'
miRNA:   3'- gCG--UGGUCGCcg-CaCCGCAGUa--GGUG- -5'
11434 3' -59.6 NC_003085.1 + 38052 0.67 0.380661
Target:  5'- aGCAgCCAccGCGGCG-GuGCGUCAgccggcgguagcgcUCCACc -3'
miRNA:   3'- gCGU-GGU--CGCCGCaC-CGCAGU--------------AGGUG- -5'
11434 3' -59.6 NC_003085.1 + 36765 1.08 0.00037
Target:  5'- gCGCACCAGCGGCGUGGCGUCAUCCACc -3'
miRNA:   3'- -GCGUGGUCGCCGCACCGCAGUAGGUG- -5'
11434 3' -59.6 NC_003085.1 + 29120 0.66 0.438189
Target:  5'- cCGCGCUgaGGCGcCGUGGCccagaguUCAUCCAg -3'
miRNA:   3'- -GCGUGG--UCGCcGCACCGc------AGUAGGUg -5'
11434 3' -59.6 NC_003085.1 + 10312 0.66 0.438189
Target:  5'- aCGaCGCCguAGCccuuuGCcagGGCGUCAUCCACu -3'
miRNA:   3'- -GC-GUGG--UCGc----CGca-CCGCAGUAGGUG- -5'
11434 3' -59.6 NC_003085.1 + 24257 0.66 0.438189
Target:  5'- gGUACCAGCcguacugcucGGCGacguUGGCGcUCAUcgCCACc -3'
miRNA:   3'- gCGUGGUCG----------CCGC----ACCGC-AGUA--GGUG- -5'
11434 3' -59.6 NC_003085.1 + 24857 0.66 0.438189
Target:  5'- aGCACCuggAGCGaGU-UGGaguaCGUCGUCCACg -3'
miRNA:   3'- gCGUGG---UCGC-CGcACC----GCAGUAGGUG- -5'
11434 3' -59.6 NC_003085.1 + 20852 0.66 0.419383
Target:  5'- cCGCAgCAGCGaGCGccacaccaccGGCGU-GUCCACc -3'
miRNA:   3'- -GCGUgGUCGC-CGCa---------CCGCAgUAGGUG- -5'
11434 3' -59.6 NC_003085.1 + 873 0.67 0.392114
Target:  5'- uCGCGCCuuccCGGCgGUGGCGUCcgaggggcAUCC-Cg -3'
miRNA:   3'- -GCGUGGuc--GCCG-CACCGCAG--------UAGGuG- -5'
11434 3' -59.6 NC_003085.1 + 45408 0.67 0.409251
Target:  5'- aGCGCCGucagcgaaagcauGgGGCGcggUGGCGUCGUCacgGCa -3'
miRNA:   3'- gCGUGGU-------------CgCCGC---ACCGCAGUAGg--UG- -5'
11434 3' -59.6 NC_003085.1 + 17478 0.66 0.428726
Target:  5'- aGCGCCAGCcccaGGCGUaacgggGGCaGUCG-CCAg -3'
miRNA:   3'- gCGUGGUCG----CCGCA------CCG-CAGUaGGUg -5'
11434 3' -59.6 NC_003085.1 + 36630 0.66 0.457469
Target:  5'- gGCAUUGGCGGCcaacaGCG-CAUCCGCc -3'
miRNA:   3'- gCGUGGUCGCCGcac--CGCaGUAGGUG- -5'
11434 3' -59.6 NC_003085.1 + 33191 0.67 0.401075
Target:  5'- uCGCGCCAGUaGCG-GGCGUCcuggaggCgGCg -3'
miRNA:   3'- -GCGUGGUCGcCGCaCCGCAGua-----GgUG- -5'
11434 3' -59.6 NC_003085.1 + 8206 0.66 0.447772
Target:  5'- cCGCcaguCCAGCcugccgcGCGUGGCGUUGUagaggCCGCa -3'
miRNA:   3'- -GCGu---GGUCGc------CGCACCGCAGUA-----GGUG- -5'
11434 3' -59.6 NC_003085.1 + 31663 0.66 0.428726
Target:  5'- gGCACCggggcgGGCGGUGgauguggGGUGUCAUgaGCg -3'
miRNA:   3'- gCGUGG------UCGCCGCa------CCGCAGUAggUG- -5'
11434 3' -59.6 NC_003085.1 + 47991 0.67 0.401075
Target:  5'- gGUgACgGGCGGCGacuuggGGUGUCAUgCGCu -3'
miRNA:   3'- gCG-UGgUCGCCGCa-----CCGCAGUAgGUG- -5'
11434 3' -59.6 NC_003085.1 + 26122 0.67 0.389451
Target:  5'- gGCgGCCGGCGGCGcUuggccggccagagcGGCGUCAagcaucUCCAg -3'
miRNA:   3'- gCG-UGGUCGCCGC-A--------------CCGCAGU------AGGUg -5'
11434 3' -59.6 NC_003085.1 + 43883 0.66 0.447772
Target:  5'- cCGCACCAG-GGCGUagacguGGCG-CAccgUCGCg -3'
miRNA:   3'- -GCGUGGUCgCCGCA------CCGCaGUa--GGUG- -5'
11434 3' -59.6 NC_003085.1 + 29425 0.66 0.438189
Target:  5'- gGCGCgGGCGGCGgcaaUGcCGUCcUCCAg -3'
miRNA:   3'- gCGUGgUCGCCGC----ACcGCAGuAGGUg -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.