miRNA display CGI


Results 1 - 20 of 37 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
30883 3' -56.4 NC_006552.1 + 20679 0.79 0.126315
Target:  5'- gCGCCUGCuCGAUGGGCGC--CGGCa -3'
miRNA:   3'- gGUGGACGuGCUACUCGCGauGCCGa -5'
30883 3' -56.4 NC_006552.1 + 37819 0.74 0.258119
Target:  5'- gCAUCUGCGCGAucUGGGCGC--CGGCc -3'
miRNA:   3'- gGUGGACGUGCU--ACUCGCGauGCCGa -5'
30883 3' -56.4 NC_006552.1 + 26070 0.73 0.292363
Target:  5'- aCCGgCUGCACGAagGuuauGCGCUGgGGCa -3'
miRNA:   3'- -GGUgGACGUGCUa-Cu---CGCGAUgCCGa -5'
30883 3' -56.4 NC_006552.1 + 60030 0.73 0.298892
Target:  5'- gCCACCUGCugGcGUGAcgugguuggggcuGCGCUcgaggccuGCGGCg -3'
miRNA:   3'- -GGUGGACGugC-UACU-------------CGCGA--------UGCCGa -5'
30883 3' -56.4 NC_006552.1 + 32481 0.72 0.362708
Target:  5'- gCCACCgaacUGguCGAUGcGCGCguggACGGCa -3'
miRNA:   3'- -GGUGG----ACguGCUACuCGCGa---UGCCGa -5'
30883 3' -56.4 NC_006552.1 + 63171 0.71 0.388628
Target:  5'- -aACCUGCcgACGAUguucgGAGCGCUGCaaGGCg -3'
miRNA:   3'- ggUGGACG--UGCUA-----CUCGCGAUG--CCGa -5'
30883 3' -56.4 NC_006552.1 + 52939 0.7 0.434437
Target:  5'- aCCGCCUGCGCc---GGCGCccgccgccggUGCGGCa -3'
miRNA:   3'- -GGUGGACGUGcuacUCGCG----------AUGCCGa -5'
30883 3' -56.4 NC_006552.1 + 44575 0.7 0.463378
Target:  5'- gCUGCCUgGCACGAgUGAgcagGCGCUcguagGCGGCa -3'
miRNA:   3'- -GGUGGA-CGUGCU-ACU----CGCGA-----UGCCGa -5'
30883 3' -56.4 NC_006552.1 + 20057 0.7 0.463378
Target:  5'- aCGCCUGCACGucu-GCGCgguaGGCg -3'
miRNA:   3'- gGUGGACGUGCuacuCGCGaug-CCGa -5'
30883 3' -56.4 NC_006552.1 + 51847 0.7 0.473248
Target:  5'- aCCGCCUgGCcuuCGAgcaagcgGAGCGCcaGCGGCa -3'
miRNA:   3'- -GGUGGA-CGu--GCUa------CUCGCGa-UGCCGa -5'
30883 3' -56.4 NC_006552.1 + 32199 0.7 0.483222
Target:  5'- gCACCgGCAUGGUcGGGCGCgacauauCGGCc -3'
miRNA:   3'- gGUGGaCGUGCUA-CUCGCGau-----GCCGa -5'
30883 3' -56.4 NC_006552.1 + 44631 0.69 0.492285
Target:  5'- cCCACCcgGUcaccACGccccuucAUGAGCGgUGCGGCUa -3'
miRNA:   3'- -GGUGGa-CG----UGC-------UACUCGCgAUGCCGA- -5'
30883 3' -56.4 NC_006552.1 + 35929 0.69 0.503467
Target:  5'- -uGCCUGCGCGGccuGgGCUugGGCc -3'
miRNA:   3'- ggUGGACGUGCUacuCgCGAugCCGa -5'
30883 3' -56.4 NC_006552.1 + 52476 0.69 0.513727
Target:  5'- aCGCCaGCGCG-UGGGCaacCUGCGGCc -3'
miRNA:   3'- gGUGGaCGUGCuACUCGc--GAUGCCGa -5'
30883 3' -56.4 NC_006552.1 + 59458 0.69 0.524071
Target:  5'- cCCACUUGgGCGGcUGAGCuGCUGgugaGGCg -3'
miRNA:   3'- -GGUGGACgUGCU-ACUCG-CGAUg---CCGa -5'
30883 3' -56.4 NC_006552.1 + 4804 0.69 0.533449
Target:  5'- cCCACCUGCggcggggGCGAUGcgcacGCGCacaggGCGGUc -3'
miRNA:   3'- -GGUGGACG-------UGCUACu----CGCGa----UGCCGa -5'
30883 3' -56.4 NC_006552.1 + 58391 0.68 0.54499
Target:  5'- -gACCgGCuACGGUGAGCGCgaagGGCa -3'
miRNA:   3'- ggUGGaCG-UGCUACUCGCGaug-CCGa -5'
30883 3' -56.4 NC_006552.1 + 15326 0.68 0.555551
Target:  5'- cCCACCUcuccgcgacGCACGGccUGcAGCGCcGCaGGCUg -3'
miRNA:   3'- -GGUGGA---------CGUGCU--AC-UCGCGaUG-CCGA- -5'
30883 3' -56.4 NC_006552.1 + 57958 0.68 0.566171
Target:  5'- uUCACCUGCugGAgggGAuGgGCUACcaGGUg -3'
miRNA:   3'- -GGUGGACGugCUa--CU-CgCGAUG--CCGa -5'
30883 3' -56.4 NC_006552.1 + 49257 0.68 0.576842
Target:  5'- aCGCCUGUAC--UGGcacGgGCUGCGGCg -3'
miRNA:   3'- gGUGGACGUGcuACU---CgCGAUGCCGa -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.