miRNA display CGI


Results 1 - 20 of 29 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
12210 5' -49.8 NC_003309.1 + 2470 0.66 0.955605
Target:  5'- --aCGAcUCGCGca---GCGCGAGCCg -3'
miRNA:   3'- caaGCUaGGCGCuuaugCGUGUUCGG- -5'
12210 5' -49.8 NC_003309.1 + 19953 0.66 0.951169
Target:  5'- --gCGAUCCGCuucGAcGCGCGCGAucGCUu -3'
miRNA:   3'- caaGCUAGGCGc--UUaUGCGUGUU--CGG- -5'
12210 5' -49.8 NC_003309.1 + 15402 0.66 0.949314
Target:  5'- cUUCGcgCCGaCGAGaucgccaagcgcaACGCACAGcGCCg -3'
miRNA:   3'- cAAGCuaGGC-GCUUa------------UGCGUGUU-CGG- -5'
12210 5' -49.8 NC_003309.1 + 47985 0.66 0.945957
Target:  5'- aGUUCGGUugauugcCCGUGcg-GCGCGCcAGCUc -3'
miRNA:   3'- -CAAGCUA-------GGCGCuuaUGCGUGuUCGG- -5'
12210 5' -49.8 NC_003309.1 + 38198 0.66 0.941431
Target:  5'- -cUCGAgcuUCCGgGcaGAUGCGCAauCAGGCa -3'
miRNA:   3'- caAGCU---AGGCgC--UUAUGCGU--GUUCGg -5'
12210 5' -49.8 NC_003309.1 + 32086 0.66 0.941431
Target:  5'- -gUCGGUCCG-GGAUGCGacCACuguuacGCCg -3'
miRNA:   3'- caAGCUAGGCgCUUAUGC--GUGuu----CGG- -5'
12210 5' -49.8 NC_003309.1 + 43181 0.66 0.936122
Target:  5'- -gUCcGUCgCGCGAAccGCGUcaGCGAGCCc -3'
miRNA:   3'- caAGcUAG-GCGCUUa-UGCG--UGUUCGG- -5'
12210 5' -49.8 NC_003309.1 + 43499 0.66 0.936122
Target:  5'- --gCGGcagucUCCGCGGugcgaACGguCAAGCCa -3'
miRNA:   3'- caaGCU-----AGGCGCUua---UGCguGUUCGG- -5'
12210 5' -49.8 NC_003309.1 + 17704 0.67 0.924614
Target:  5'- -gUCGucuugCCGuCGA--ACGCACcGGCCa -3'
miRNA:   3'- caAGCua---GGC-GCUuaUGCGUGuUCGG- -5'
12210 5' -49.8 NC_003309.1 + 49241 0.67 0.924614
Target:  5'- --aCG-UCCGCGAugucucggcACGCuauACGAGCCg -3'
miRNA:   3'- caaGCuAGGCGCUua-------UGCG---UGUUCGG- -5'
12210 5' -49.8 NC_003309.1 + 4695 0.67 0.918413
Target:  5'- uGUUCa--UCGCGGc--CGCGCGAGCCg -3'
miRNA:   3'- -CAAGcuaGGCGCUuauGCGUGUUCGG- -5'
12210 5' -49.8 NC_003309.1 + 22052 0.67 0.911915
Target:  5'- --cCGccgCCGCGAgcugauauGUGCGCccccuCAAGCCg -3'
miRNA:   3'- caaGCua-GGCGCU--------UAUGCGu----GUUCGG- -5'
12210 5' -49.8 NC_003309.1 + 35368 0.67 0.904427
Target:  5'- --gUGcgCCGCGAu--CGCACAcggcauacaacggAGCCg -3'
miRNA:   3'- caaGCuaGGCGCUuauGCGUGU-------------UCGG- -5'
12210 5' -49.8 NC_003309.1 + 16169 0.68 0.898038
Target:  5'- -aUCGAUCCGuCGGccugcACGC-CGAGCg -3'
miRNA:   3'- caAGCUAGGC-GCUua---UGCGuGUUCGg -5'
12210 5' -49.8 NC_003309.1 + 22153 0.68 0.898038
Target:  5'- -gUUGAUCgCGCGAc-ACGCGCcccGCCa -3'
miRNA:   3'- caAGCUAG-GCGCUuaUGCGUGuu-CGG- -5'
12210 5' -49.8 NC_003309.1 + 9742 0.68 0.898038
Target:  5'- --gCGAUCCGCuGAUACaGCuc-GGCCg -3'
miRNA:   3'- caaGCUAGGCGcUUAUG-CGuguUCGG- -5'
12210 5' -49.8 NC_003309.1 + 12638 0.68 0.888398
Target:  5'- -cUCGAgauagCCGCGcucGCGCGCGaccugcuccgccucGGCCg -3'
miRNA:   3'- caAGCUa----GGCGCuuaUGCGUGU--------------UCGG- -5'
12210 5' -49.8 NC_003309.1 + 35263 0.68 0.883009
Target:  5'- -cUCGucGUCCuGC-AAU-CGCGCAAGCCg -3'
miRNA:   3'- caAGC--UAGG-CGcUUAuGCGUGUUCGG- -5'
12210 5' -49.8 NC_003309.1 + 5337 0.68 0.875076
Target:  5'- cGUUCGAga-GCGGcagcGUGCGCGCGccgAGCUu -3'
miRNA:   3'- -CAAGCUaggCGCU----UAUGCGUGU---UCGG- -5'
12210 5' -49.8 NC_003309.1 + 17790 0.68 0.875076
Target:  5'- cGUUCGG--CGUGAuacgGCGCACAcggaucAGCCa -3'
miRNA:   3'- -CAAGCUagGCGCUua--UGCGUGU------UCGG- -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.