miRNA display CGI


Results 1 - 20 of 75 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
11404 3' -62.8 NC_003085.1 + 14372 0.66 0.348925
Target:  5'- aGCGGCuGGCuGCGCGGAUGaggggcagacCCGCUa- -3'
miRNA:   3'- aCGCCG-CCG-UGCGCCUGCa---------GGUGGca -5'
11404 3' -62.8 NC_003085.1 + 27346 0.66 0.348925
Target:  5'- cUGCuGCGGCGC-CGGGC-UCUGCUGg -3'
miRNA:   3'- -ACGcCGCCGUGcGCCUGcAGGUGGCa -5'
11404 3' -62.8 NC_003085.1 + 48743 0.66 0.348925
Target:  5'- cGUGaGCGGCGCGuCaGGCG-CCACgCGg -3'
miRNA:   3'- aCGC-CGCCGUGC-GcCUGCaGGUG-GCa -5'
11404 3' -62.8 NC_003085.1 + 34407 0.66 0.348925
Target:  5'- gGCGGaCGGCAUGgGGAU-UCCGgCCa- -3'
miRNA:   3'- aCGCC-GCCGUGCgCCUGcAGGU-GGca -5'
11404 3' -62.8 NC_003085.1 + 9139 0.66 0.348925
Target:  5'- cUGgGaGCGGCACcugGCGGAgcuCG-CCGCCGc -3'
miRNA:   3'- -ACgC-CGCCGUG---CGCCU---GCaGGUGGCa -5'
11404 3' -62.8 NC_003085.1 + 16041 0.66 0.341004
Target:  5'- uUGCGGgcgaGGUAUG-GGACGUgCGCCa- -3'
miRNA:   3'- -ACGCCg---CCGUGCgCCUGCAgGUGGca -5'
11404 3' -62.8 NC_003085.1 + 1587 0.66 0.333213
Target:  5'- aGCaGGCcGCACGCGcuGACGUCuCGCuCGa -3'
miRNA:   3'- aCG-CCGcCGUGCGC--CUGCAG-GUG-GCa -5'
11404 3' -62.8 NC_003085.1 + 9850 0.66 0.33167
Target:  5'- cGCGGagaaagccauuGC-CGUGGACGUCCACgGa -3'
miRNA:   3'- aCGCCgc---------CGuGCGCCUGCAGGUGgCa -5'
11404 3' -62.8 NC_003085.1 + 497 0.66 0.325554
Target:  5'- cGCGGagaugaaGGCGCGCGGGCcgg-ACCGg -3'
miRNA:   3'- aCGCCg------CCGUGCGCCUGcaggUGGCa -5'
11404 3' -62.8 NC_003085.1 + 28066 0.66 0.325554
Target:  5'- aGCaGGCGGC-CGaUGGugaGUCCGCUGg -3'
miRNA:   3'- aCG-CCGCCGuGC-GCCug-CAGGUGGCa -5'
11404 3' -62.8 NC_003085.1 + 12016 0.66 0.325554
Target:  5'- aUGCGGUGGCggGCGCGGgguugGCGcUCgcuaGCCGc -3'
miRNA:   3'- -ACGCCGCCG--UGCGCC-----UGC-AGg---UGGCa -5'
11404 3' -62.8 NC_003085.1 + 40773 0.66 0.325554
Target:  5'- gUGUGGCugacGUugGCGGACGgcaCC-CCGg -3'
miRNA:   3'- -ACGCCGc---CGugCGCCUGCa--GGuGGCa -5'
11404 3' -62.8 NC_003085.1 + 22064 0.66 0.318026
Target:  5'- cGCGGgcagguaccaCGcGCGCGCGGugucGCGuUCCACCa- -3'
miRNA:   3'- aCGCC----------GC-CGUGCGCC----UGC-AGGUGGca -5'
11404 3' -62.8 NC_003085.1 + 33216 0.66 0.318026
Target:  5'- gGCGGCGGCGCaGCacgaGGAUGacgacgCCAgCCGc -3'
miRNA:   3'- aCGCCGCCGUG-CG----CCUGCa-----GGU-GGCa -5'
11404 3' -62.8 NC_003085.1 + 28596 0.66 0.31728
Target:  5'- gGCGGUGGaCACGcCGGugGUguggcgcUCGCUGc -3'
miRNA:   3'- aCGCCGCC-GUGC-GCCugCA-------GGUGGCa -5'
11404 3' -62.8 NC_003085.1 + 40988 0.66 0.310629
Target:  5'- aGCGGCaagGGCugGCccagcGGCGUCgucauCGCCGUg -3'
miRNA:   3'- aCGCCG---CCGugCGc----CUGCAG-----GUGGCA- -5'
11404 3' -62.8 NC_003085.1 + 566 0.66 0.310629
Target:  5'- gGCGGCgcGGCugGCGGGCcaaugCU-CCGUg -3'
miRNA:   3'- aCGCCG--CCGugCGCCUGca---GGuGGCA- -5'
11404 3' -62.8 NC_003085.1 + 40483 0.67 0.303365
Target:  5'- cUGUcGCuGCugGCGGGCGUCgucgaGCCGg -3'
miRNA:   3'- -ACGcCGcCGugCGCCUGCAGg----UGGCa -5'
11404 3' -62.8 NC_003085.1 + 42381 0.67 0.296231
Target:  5'- -uCGGCGGCaugaGCGCGGGCcuuGUCCuCCu- -3'
miRNA:   3'- acGCCGCCG----UGCGCCUG---CAGGuGGca -5'
11404 3' -62.8 NC_003085.1 + 48186 0.67 0.296231
Target:  5'- -uCGGCGcGCACGaGGugGcCCACCu- -3'
miRNA:   3'- acGCCGC-CGUGCgCCugCaGGUGGca -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.