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
23849 3' -56.5 NC_005261.1 + 95809 0.78 0.262784
Target:  5'- gCgCCGGCGGGGGCUCgcggUCCU-CGCGg -3'
miRNA:   3'- aGgGGCUGCUCUCGAGa---AGGAaGCGC- -5'
23849 3' -56.5 NC_005261.1 + 106304 0.76 0.354
Target:  5'- aCCUCGGCGAGcAGgUCUUCCgUCGUGa -3'
miRNA:   3'- aGGGGCUGCUC-UCgAGAAGGaAGCGC- -5'
23849 3' -56.5 NC_005261.1 + 51600 0.71 0.622925
Target:  5'- cUCCUGACGcugucuGAGCUCgUCCUgUCGCGc -3'
miRNA:   3'- aGGGGCUGCu-----CUCGAGaAGGA-AGCGC- -5'
23849 3' -56.5 NC_005261.1 + 120085 0.71 0.63311
Target:  5'- aCCCCGugGAG-GCUCggCaCgcgCGCGa -3'
miRNA:   3'- aGGGGCugCUCuCGAGaaG-Gaa-GCGC- -5'
23849 3' -56.5 NC_005261.1 + 72442 0.71 0.643294
Target:  5'- cCCCCGGCGGGGGCg---CC--CGCGg -3'
miRNA:   3'- aGGGGCUGCUCUCGagaaGGaaGCGC- -5'
23849 3' -56.5 NC_005261.1 + 116631 0.7 0.663627
Target:  5'- cCCgCCGACGAGGGCgaggCCcgCGCGc -3'
miRNA:   3'- aGG-GGCUGCUCUCGagaaGGaaGCGC- -5'
23849 3' -56.5 NC_005261.1 + 96588 0.7 0.703923
Target:  5'- aCCCCGGCG-GcGCUCUgCCgcagcacgUCGCGc -3'
miRNA:   3'- aGGGGCUGCuCuCGAGAaGGa-------AGCGC- -5'
23849 3' -56.5 NC_005261.1 + 75956 0.69 0.712877
Target:  5'- gCCCCgagGugGAGgucacgcAGCUCUUCCcgggCGCGg -3'
miRNA:   3'- aGGGG---CugCUC-------UCGAGAAGGaa--GCGC- -5'
23849 3' -56.5 NC_005261.1 + 77796 0.69 0.762382
Target:  5'- aCCCCGGCGAGGGCgcgCccgCCga-GCu -3'
miRNA:   3'- aGGGGCUGCUCUCGa--Gaa-GGaagCGc -5'
23849 3' -56.5 NC_005261.1 + 42222 0.69 0.762382
Target:  5'- gCCCCGcCGcGAGCUCcgCCgcgCGCa -3'
miRNA:   3'- aGGGGCuGCuCUCGAGaaGGaa-GCGc -5'
23849 3' -56.5 NC_005261.1 + 660 0.69 0.762382
Target:  5'- gUCCCCGGCGccGAGUcCUggcCCUcCGCGg -3'
miRNA:   3'- -AGGGGCUGCu-CUCGaGAa--GGAaGCGC- -5'
23849 3' -56.5 NC_005261.1 + 93696 0.68 0.771778
Target:  5'- gCgCCGGCGGGuGcCUCUUCCUccUCGUc -3'
miRNA:   3'- aGgGGCUGCUCuC-GAGAAGGA--AGCGc -5'
23849 3' -56.5 NC_005261.1 + 119650 0.68 0.771778
Target:  5'- gCCaCCGGCGgcgcgcgccuGGAGCUCUgguUCCagCGCGu -3'
miRNA:   3'- aGG-GGCUGC----------UCUCGAGA---AGGaaGCGC- -5'
23849 3' -56.5 NC_005261.1 + 3162 0.68 0.78105
Target:  5'- gCCCCGGCGGcGGCggccUCUUCCU-CGUc -3'
miRNA:   3'- aGGGGCUGCUcUCG----AGAAGGAaGCGc -5'
23849 3' -56.5 NC_005261.1 + 41111 0.68 0.78105
Target:  5'- gUCCgCGGCGGgcccGAGCgCUUCCUgCGUGg -3'
miRNA:   3'- -AGGgGCUGCU----CUCGaGAAGGAaGCGC- -5'
23849 3' -56.5 NC_005261.1 + 76873 0.68 0.789283
Target:  5'- -gCCCGGCGAGGaggccgacggcacGCUCUUCgCccacgUCGCGc -3'
miRNA:   3'- agGGGCUGCUCU-------------CGAGAAG-Ga----AGCGC- -5'
23849 3' -56.5 NC_005261.1 + 69177 0.68 0.790191
Target:  5'- cCCuuGACGAGGGCa---CCgUCGCGg -3'
miRNA:   3'- aGGggCUGCUCUCGagaaGGaAGCGC- -5'
23849 3' -56.5 NC_005261.1 + 57508 0.68 0.808039
Target:  5'- gUCCCGGCGGcGGGCcuUCUUCCacaggcacggCGCGg -3'
miRNA:   3'- aGGGGCUGCU-CUCG--AGAAGGaa--------GCGC- -5'
23849 3' -56.5 NC_005261.1 + 70099 0.68 0.808039
Target:  5'- aCgCCGGCGAGaAGCUCggcgCCU-CGUGc -3'
miRNA:   3'- aGgGGCUGCUC-UCGAGaa--GGAaGCGC- -5'
23849 3' -56.5 NC_005261.1 + 75075 0.67 0.815006
Target:  5'- gCgCCGGCGGGGGCUCggcgggcaucgUCUUCGgGa -3'
miRNA:   3'- aGgGGCUGCUCUCGAGaa---------GGAAGCgC- -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.