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
11493 3' -60.7 NC_003085.1 + 9324 0.66 0.411393
Target:  5'- gUUGAGCGaCUCaGAC--GCGCGGCGGc -3'
miRNA:   3'- -AACUCGCaGGG-CUGcuCGUGCCGCCa -5'
11493 3' -60.7 NC_003085.1 + 31645 0.66 0.402323
Target:  5'- cUGAGCccagCCCGACu-GCuCGGCGGc -3'
miRNA:   3'- aACUCGca--GGGCUGcuCGuGCCGCCa -5'
11493 3' -60.7 NC_003085.1 + 34835 0.66 0.401423
Target:  5'- gUGGGCGUcacacagCCC-AUGAGCuucgacGCGGCGGa -3'
miRNA:   3'- aACUCGCA-------GGGcUGCUCG------UGCCGCCa -5'
11493 3' -60.7 NC_003085.1 + 19678 0.66 0.393381
Target:  5'- --cGGCGaccUCCUGGCGGcccuggaggcGCGCGGCGGc -3'
miRNA:   3'- aacUCGC---AGGGCUGCU----------CGUGCCGCCa -5'
11493 3' -60.7 NC_003085.1 + 33203 0.66 0.384568
Target:  5'- -cGGGCGUCCUG--GAG-GCGGCGGc -3'
miRNA:   3'- aaCUCGCAGGGCugCUCgUGCCGCCa -5'
11493 3' -60.7 NC_003085.1 + 16613 0.66 0.375887
Target:  5'- -cGGGCgGUCCCG-CGGcGCGCGGCc-- -3'
miRNA:   3'- aaCUCG-CAGGGCuGCU-CGUGCCGcca -5'
11493 3' -60.7 NC_003085.1 + 6779 0.66 0.375887
Target:  5'- cUGAGacaCuuGACGAguaccgggcccGCACGGCGGUg -3'
miRNA:   3'- aACUCgcaGggCUGCU-----------CGUGCCGCCA- -5'
11493 3' -60.7 NC_003085.1 + 26220 0.66 0.36734
Target:  5'- -cGGGCGgCgCGguGCGaAGCGCGGCGGc -3'
miRNA:   3'- aaCUCGCaGgGC--UGC-UCGUGCCGCCa -5'
11493 3' -60.7 NC_003085.1 + 13045 0.66 0.36734
Target:  5'- aUGAGCuuUCCCagaagccugGAUGAGUACGGCGa- -3'
miRNA:   3'- aACUCGc-AGGG---------CUGCUCGUGCCGCca -5'
11493 3' -60.7 NC_003085.1 + 13644 0.67 0.358927
Target:  5'- --aGGCG-CUCGGCGAGCA-GGUGGa -3'
miRNA:   3'- aacUCGCaGGGCUGCUCGUgCCGCCa -5'
11493 3' -60.7 NC_003085.1 + 41112 0.67 0.358927
Target:  5'- cUGGGUGgaggCCCaGGcCGAGCGCGGCa-- -3'
miRNA:   3'- aACUCGCa---GGG-CU-GCUCGUGCCGcca -5'
11493 3' -60.7 NC_003085.1 + 36511 0.67 0.35065
Target:  5'- -gGGGCcuUCCgGACGcGGCGCGGaCGGUc -3'
miRNA:   3'- aaCUCGc-AGGgCUGC-UCGUGCC-GCCA- -5'
11493 3' -60.7 NC_003085.1 + 30748 0.68 0.296558
Target:  5'- -aGGcGCGUCCCGucuCGucaGGCGgGGCGGg -3'
miRNA:   3'- aaCU-CGCAGGGCu--GC---UCGUgCCGCCa -5'
11493 3' -60.7 NC_003085.1 + 37930 0.68 0.282343
Target:  5'- --cGGCG-CUCGACGAacGCGCGGcCGGUa -3'
miRNA:   3'- aacUCGCaGGGCUGCU--CGUGCC-GCCA- -5'
11493 3' -60.7 NC_003085.1 + 10970 0.69 0.262041
Target:  5'- cUUGGGCGgaugCCCGGCGAGacguuggggaCGCGGCa-- -3'
miRNA:   3'- -AACUCGCa---GGGCUGCUC----------GUGCCGcca -5'
11493 3' -60.7 NC_003085.1 + 9981 0.69 0.255542
Target:  5'- -cGAGCGcCUCGACGcGCACgucggcagggGGCGGa -3'
miRNA:   3'- aaCUCGCaGGGCUGCuCGUG----------CCGCCa -5'
11493 3' -60.7 NC_003085.1 + 41024 0.69 0.249176
Target:  5'- gUGGGCGUCgCUGGCGuccuccugggcGGCuuGGCGGg -3'
miRNA:   3'- aACUCGCAG-GGCUGC-----------UCGugCCGCCa -5'
11493 3' -60.7 NC_003085.1 + 7508 0.69 0.236838
Target:  5'- -cGAGCGguugcaggacaUCaCCGACGAGgACGcGCGGg -3'
miRNA:   3'- aaCUCGC-----------AG-GGCUGCUCgUGC-CGCCa -5'
11493 3' -60.7 NC_003085.1 + 40816 0.7 0.230863
Target:  5'- -cGcGCGUCCCGGCcGGCcuguaccugACGGCGGc -3'
miRNA:   3'- aaCuCGCAGGGCUGcUCG---------UGCCGCCa -5'
11493 3' -60.7 NC_003085.1 + 11757 0.7 0.208225
Target:  5'- aUGAcacGCGUCUaCGACG-GUACGGCGGc -3'
miRNA:   3'- aACU---CGCAGG-GCUGCuCGUGCCGCCa -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.