miRNA display CGI


Results 1 - 20 of 30 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
31846 3' -56.8 NC_006938.1 + 3262 0.68 0.543785
Target:  5'- aGcCCAAGGGAGGGAgCgGGccaaguucaGCGUGGCg -3'
miRNA:   3'- aC-GGUUUCCUCUCU-GaCC---------UGCGCCGa -5'
31846 3' -56.8 NC_006938.1 + 3570 0.7 0.423129
Target:  5'- gUGCCAcucGGGAGGGACga---GCGGCUg -3'
miRNA:   3'- -ACGGUu--UCCUCUCUGaccugCGCCGA- -5'
31846 3' -56.8 NC_006938.1 + 5059 0.67 0.597474
Target:  5'- cUGCCAu-GGAGAG-CaGGAUGgGGUUg -3'
miRNA:   3'- -ACGGUuuCCUCUCuGaCCUGCgCCGA- -5'
31846 3' -56.8 NC_006938.1 + 8434 0.67 0.597474
Target:  5'- aGCCAacgucAAGGAGAugacgGugUGGGCGaCGGa- -3'
miRNA:   3'- aCGGU-----UUCCUCU-----CugACCUGC-GCCga -5'
31846 3' -56.8 NC_006938.1 + 9595 0.72 0.296599
Target:  5'- gGUgGGAGGggcugcucgccgcAGGGAUUGGugGCGGCg -3'
miRNA:   3'- aCGgUUUCC-------------UCUCUGACCugCGCCGa -5'
31846 3' -56.8 NC_006938.1 + 13315 0.66 0.662732
Target:  5'- gGCCAccGAGGAGcAGAUgcgccGCGUGGCa -3'
miRNA:   3'- aCGGU--UUCCUC-UCUGacc--UGCGCCGa -5'
31846 3' -56.8 NC_006938.1 + 13915 0.66 0.640986
Target:  5'- cGCCAGuGGGAGcAGAC-GGACGacuGGUg -3'
miRNA:   3'- aCGGUU-UCCUC-UCUGaCCUGCg--CCGa -5'
31846 3' -56.8 NC_006938.1 + 16116 0.7 0.405507
Target:  5'- cGCUGAGGGAGGGcggcugggucgaccGCUGccacacccuccucaaGACGCGGCg -3'
miRNA:   3'- aCGGUUUCCUCUC--------------UGAC---------------CUGCGCCGa -5'
31846 3' -56.8 NC_006938.1 + 16233 0.7 0.413797
Target:  5'- cGCCGcgucuuGAGGAGGGugUGG-CaGCGGUc -3'
miRNA:   3'- aCGGU------UUCCUCUCugACCuG-CGCCGa -5'
31846 3' -56.8 NC_006938.1 + 17484 0.71 0.351337
Target:  5'- cGCUcccuuccaGGAGGGGAGGgUGGACaugucugGCGGCUg -3'
miRNA:   3'- aCGG--------UUUCCUCUCUgACCUG-------CGCCGA- -5'
31846 3' -56.8 NC_006938.1 + 18386 0.67 0.597474
Target:  5'- cGCCAGcuugcGGAGGGugUcccacuugcGGAgGCGGCc -3'
miRNA:   3'- aCGGUUu----CCUCUCugA---------CCUgCGCCGa -5'
31846 3' -56.8 NC_006938.1 + 19322 0.73 0.262376
Target:  5'- gGCCGGAGGu--GGCacgguucuucaUGGACGCGGCg -3'
miRNA:   3'- aCGGUUUCCucuCUG-----------ACCUGCGCCGa -5'
31846 3' -56.8 NC_006938.1 + 20204 0.67 0.565109
Target:  5'- uUGUCGGAGGcccaGGAGACc--ACGCGGCg -3'
miRNA:   3'- -ACGGUUUCC----UCUCUGaccUGCGCCGa -5'
31846 3' -56.8 NC_006938.1 + 23141 0.68 0.50097
Target:  5'- -uCCAGAGGaAGAgggugcaGACUGGugGCGGa- -3'
miRNA:   3'- acGGUUUCC-UCU-------CUGACCugCGCCga -5'
31846 3' -56.8 NC_006938.1 + 29851 1.08 0.000866
Target:  5'- gUGCCAAAGGAGAGACUGGACGCGGCUg -3'
miRNA:   3'- -ACGGUUUCCUCUCUGACCUGCGCCGA- -5'
31846 3' -56.8 NC_006938.1 + 32112 0.66 0.630096
Target:  5'- cGCCAucGGAGgcaggaagguGGGCUGGGCuccccugccCGGCUc -3'
miRNA:   3'- aCGGUuuCCUC----------UCUGACCUGc--------GCCGA- -5'
31846 3' -56.8 NC_006938.1 + 34517 0.66 0.662732
Target:  5'- aGCCcAAGGAGGGgcgGCUGGuC-UGGCUc -3'
miRNA:   3'- aCGGuUUCCUCUC---UGACCuGcGCCGA- -5'
31846 3' -56.8 NC_006938.1 + 36444 0.67 0.597474
Target:  5'- cGUCcuuGGAaAGACcaGGGCGCGGCUg -3'
miRNA:   3'- aCGGuuuCCUcUCUGa-CCUGCGCCGA- -5'
31846 3' -56.8 NC_006938.1 + 41597 0.68 0.521686
Target:  5'- cGCCAcgucagcAGGGAGcGGCU--GCGCGGCg -3'
miRNA:   3'- aCGGU-------UUCCUCuCUGAccUGCGCCGa -5'
31846 3' -56.8 NC_006938.1 + 41860 0.66 0.673568
Target:  5'- gGCauuguAGGGAGGcuGCUGcGACGCGGUg -3'
miRNA:   3'- aCGgu---UUCCUCUc-UGAC-CUGCGCCGa -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.