miRNA display CGI


Results 1 - 20 of 35 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
12817 3' -57.4 NC_003387.1 + 13767 0.73 0.192749
Target:  5'- --uUCGGGGCCGGUcGGUAuggacccggucgcgcUGCGCUCg -3'
miRNA:   3'- aauAGUCCCGGUCGcUCGU---------------ACGCGAG- -5'
12817 3' -57.4 NC_003387.1 + 45514 0.68 0.382205
Target:  5'- ----aAGGGCCgcAGCGAGCugacgGUGUGCUg -3'
miRNA:   3'- aauagUCCCGG--UCGCUCG-----UACGCGAg -5'
12817 3' -57.4 NC_003387.1 + 41959 0.67 0.459117
Target:  5'- ---gCAGGccGCCAGCGAGgAgcUGCGCg- -3'
miRNA:   3'- aauaGUCC--CGGUCGCUCgU--ACGCGag -5'
12817 3' -57.4 NC_003387.1 + 21299 0.66 0.511149
Target:  5'- -cGUCGaGGCCGuCGAGCAgugGCGCg- -3'
miRNA:   3'- aaUAGUcCCGGUcGCUCGUa--CGCGag -5'
12817 3' -57.4 NC_003387.1 + 16481 0.67 0.459117
Target:  5'- ---gCAGGG-CAGCGGGUcgGCGUa- -3'
miRNA:   3'- aauaGUCCCgGUCGCUCGuaCGCGag -5'
12817 3' -57.4 NC_003387.1 + 41163 0.68 0.382205
Target:  5'- gUGUCAGGGCgAGUGcGGCcgGuCGCa- -3'
miRNA:   3'- aAUAGUCCCGgUCGC-UCGuaC-GCGag -5'
12817 3' -57.4 NC_003387.1 + 44615 0.67 0.469304
Target:  5'- -cGUC-GGGCCGuggcGCGAGCGUGUGg-- -3'
miRNA:   3'- aaUAGuCCCGGU----CGCUCGUACGCgag -5'
12817 3' -57.4 NC_003387.1 + 42739 0.66 0.490018
Target:  5'- -cGUCAGGGCguGCucggaucGGC-UGCGCUg -3'
miRNA:   3'- aaUAGUCCCGguCGc------UCGuACGCGAg -5'
12817 3' -57.4 NC_003387.1 + 25261 0.66 0.500534
Target:  5'- cUAUCc-GGCCGaCGucgcGCGUGCGCUCg -3'
miRNA:   3'- aAUAGucCCGGUcGCu---CGUACGCGAG- -5'
12817 3' -57.4 NC_003387.1 + 16379 0.69 0.322325
Target:  5'- cUAUCAGGGCCAGgcCGAcgacacGCugaugGCGUUCa -3'
miRNA:   3'- aAUAGUCCCGGUC--GCU------CGua---CGCGAG- -5'
12817 3' -57.4 NC_003387.1 + 3606 0.66 0.512215
Target:  5'- --uUCAGGGCguccuggccgagcugAGCGGGCGUGCGgguaUCg -3'
miRNA:   3'- aauAGUCCCGg--------------UCGCUCGUACGCg---AG- -5'
12817 3' -57.4 NC_003387.1 + 30995 0.71 0.262127
Target:  5'- -aGUUGGGGCCgaggucaggaucgGGcCGAGCGUGCGC-Cg -3'
miRNA:   3'- aaUAGUCCCGG-------------UC-GCUCGUACGCGaG- -5'
12817 3' -57.4 NC_003387.1 + 12220 0.67 0.419595
Target:  5'- ---cCGGGccaccggcggucGCCAGCGcAGCG-GCGCUCg -3'
miRNA:   3'- aauaGUCC------------CGGUCGC-UCGUaCGCGAG- -5'
12817 3' -57.4 NC_003387.1 + 52177 0.67 0.429283
Target:  5'- -cGUCAGGGCagccagaucGCGGGCAgGUGuCUCg -3'
miRNA:   3'- aaUAGUCCCGgu-------CGCUCGUaCGC-GAG- -5'
12817 3' -57.4 NC_003387.1 + 16204 0.67 0.437128
Target:  5'- cUGUCGGGGCuCAGCcuGCGcugccauaugccGCGCUCg -3'
miRNA:   3'- aAUAGUCCCG-GUCGcuCGUa-----------CGCGAG- -5'
12817 3' -57.4 NC_003387.1 + 42463 0.67 0.449048
Target:  5'- --uUCGGGGCgAccuUGAGCccGCGCUCg -3'
miRNA:   3'- aauAGUCCCGgUc--GCUCGuaCGCGAG- -5'
12817 3' -57.4 NC_003387.1 + 26772 0.67 0.449048
Target:  5'- -----cGGGUUAGCGAGCA-GCGC-Ca -3'
miRNA:   3'- aauaguCCCGGUCGCUCGUaCGCGaG- -5'
12817 3' -57.4 NC_003387.1 + 120 0.66 0.490018
Target:  5'- -gGUCAGGGCguGUuugcuGAGCu--CGCUCg -3'
miRNA:   3'- aaUAGUCCCGguCG-----CUCGuacGCGAG- -5'
12817 3' -57.4 NC_003387.1 + 2983 0.66 0.500534
Target:  5'- --cUCGGGGCCucGCGAGgc-GCuGCUCg -3'
miRNA:   3'- aauAGUCCCGGu-CGCUCguaCG-CGAG- -5'
12817 3' -57.4 NC_003387.1 + 14641 0.66 0.531565
Target:  5'- -cGUCAGGccgccgcGCaCAGUGAcGCG-GCGCUCg -3'
miRNA:   3'- aaUAGUCC-------CG-GUCGCU-CGUaCGCGAG- -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.