miRNA display CGI


Results 1 - 20 of 26 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
8222 3' -60.4 NC_001978.2 + 39900 1 0.001065
Target:  5'- cGCUGACGCUCCGGCAGCAA-GGGCGGa -3'
miRNA:   3'- -CGACUGCGAGGCCGUCGUUcCCCGCC- -5'
8222 3' -60.4 NC_001978.2 + 13301 0.75 0.096971
Target:  5'- aGCgUGAgCGUUCCGGCGGCAAGGucGGCc- -3'
miRNA:   3'- -CG-ACU-GCGAGGCCGUCGUUCC--CCGcc -5'
8222 3' -60.4 NC_001978.2 + 15634 0.73 0.124475
Target:  5'- gGCUcGACgGUUCCGGCGGCuucgcuGGGGCu- -3'
miRNA:   3'- -CGA-CUG-CGAGGCCGUCGuu----CCCCGcc -5'
8222 3' -60.4 NC_001978.2 + 17336 0.71 0.167401
Target:  5'- --cGGCGCUCaGGUguucuucGGCAacGGGGGCGGc -3'
miRNA:   3'- cgaCUGCGAGgCCG-------UCGU--UCCCCGCC- -5'
8222 3' -60.4 NC_001978.2 + 15556 0.71 0.172404
Target:  5'- --cGGCGUagUCgGGCGGC-AGGGGCGa -3'
miRNA:   3'- cgaCUGCG--AGgCCGUCGuUCCCCGCc -5'
8222 3' -60.4 NC_001978.2 + 4606 0.71 0.191738
Target:  5'- uGCUcGACGg-UgGGCAGCGAcGGGCGGa -3'
miRNA:   3'- -CGA-CUGCgaGgCCGUCGUUcCCCGCC- -5'
8222 3' -60.4 NC_001978.2 + 12534 0.7 0.212947
Target:  5'- cGCUGuACGaCUCCGGCAcCAAucagacauGGGuGCGGc -3'
miRNA:   3'- -CGAC-UGC-GAGGCCGUcGUU--------CCC-CGCC- -5'
8222 3' -60.4 NC_001978.2 + 39417 0.7 0.212947
Target:  5'- aGCUucaGGCGUggUUGGaCGGCAGGGGGCGcGg -3'
miRNA:   3'- -CGA---CUGCGa-GGCC-GUCGUUCCCCGC-C- -5'
8222 3' -60.4 NC_001978.2 + 12133 0.7 0.215176
Target:  5'- uGCgGuCgGCUCCGGCacgguccuuaucgggGGCAcggcuGGGGGCGGc -3'
miRNA:   3'- -CGaCuG-CGAGGCCG---------------UCGU-----UCCCCGCC- -5'
8222 3' -60.4 NC_001978.2 + 13178 0.69 0.261418
Target:  5'- -gUGGUGCUCCGcGaCGGCGAacccgacuGGGGCGGc -3'
miRNA:   3'- cgACUGCGAGGC-C-GUCGUU--------CCCCGCC- -5'
8222 3' -60.4 NC_001978.2 + 13257 0.68 0.274862
Target:  5'- cGCUGaACGCgUCCgGGUGGCAcAGcuauuacgccGGGCGGg -3'
miRNA:   3'- -CGAC-UGCG-AGG-CCGUCGU-UC----------CCCGCC- -5'
8222 3' -60.4 NC_001978.2 + 20669 0.68 0.281789
Target:  5'- uGCcGACGaCgacgUUGaGCGGCAGGGGGCGc -3'
miRNA:   3'- -CGaCUGC-Ga---GGC-CGUCGUUCCCCGCc -5'
8222 3' -60.4 NC_001978.2 + 7806 0.68 0.303398
Target:  5'- cGUUGAgGCUCCGGCgauucAGUucacGGGCGa -3'
miRNA:   3'- -CGACUgCGAGGCCG-----UCGuuc-CCCGCc -5'
8222 3' -60.4 NC_001978.2 + 41371 0.67 0.3185
Target:  5'- --aGACGgcaauggaCUUCGGCaAGCGuccguucugaGGGGGCGGg -3'
miRNA:   3'- cgaCUGC--------GAGGCCG-UCGU----------UCCCCGCC- -5'
8222 3' -60.4 NC_001978.2 + 34204 0.67 0.332568
Target:  5'- gGC--ACGCUCCGGCggacgcacacccgGGCAcgccggaAGGGGCa- -3'
miRNA:   3'- -CGacUGCGAGGCCG-------------UCGU-------UCCCCGcc -5'
8222 3' -60.4 NC_001978.2 + 13092 0.67 0.342198
Target:  5'- cGCUGaACGCUgCCGGUacGGCGAcGGuaGGa -3'
miRNA:   3'- -CGAC-UGCGA-GGCCG--UCGUUcCCcgCC- -5'
8222 3' -60.4 NC_001978.2 + 12264 0.67 0.342198
Target:  5'- gGCUGACGacgUCGGCAGCGGacGGCu- -3'
miRNA:   3'- -CGACUGCga-GGCCGUCGUUccCCGcc -5'
8222 3' -60.4 NC_001978.2 + 33006 0.67 0.347907
Target:  5'- cCUGAacggcuucucaaGCUCCGuGCcgcgaauGGCAGGGGGCa- -3'
miRNA:   3'- cGACUg-----------CGAGGC-CG-------UCGUUCCCCGcc -5'
8222 3' -60.4 NC_001978.2 + 1328 0.67 0.350375
Target:  5'- cGCUGACGCgaCGGUucccAGUGAGGGuuacCGGg -3'
miRNA:   3'- -CGACUGCGagGCCG----UCGUUCCCc---GCC- -5'
8222 3' -60.4 NC_001978.2 + 1757 0.67 0.350375
Target:  5'- cGCUGAacguCGCacaCGGCGGCAAGcuucGGGCu- -3'
miRNA:   3'- -CGACU----GCGag-GCCGUCGUUC----CCCGcc -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.