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 + 98664 0.66 0.89201
Target:  5'- cCCCCaGGCGAGGGCgggCUccgCCggggccggaggCGCGg -3'
miRNA:   3'- aGGGG-CUGCUCUCGa--GAa--GGaa---------GCGC- -5'
23849 3' -56.5 NC_005261.1 + 21678 0.66 0.886614
Target:  5'- gCUCCGGCuGGGGCUCgagCgCgUCGCGg -3'
miRNA:   3'- aGGGGCUGcUCUCGAGaa-G-GaAGCGC- -5'
23849 3' -56.5 NC_005261.1 + 76548 0.66 0.878963
Target:  5'- gCCCucuacggcaugggCGACGAGGGCgagCUcgUCCUcacgCGCGa -3'
miRNA:   3'- aGGG-------------GCUGCUCUCGa--GA--AGGAa---GCGC- -5'
23849 3' -56.5 NC_005261.1 + 17292 0.66 0.878254
Target:  5'- -gCCCGACGAG-GCUauauacccggCCggggUCGCGg -3'
miRNA:   3'- agGGGCUGCUCuCGAgaa-------GGa---AGCGC- -5'
23849 3' -56.5 NC_005261.1 + 43603 0.66 0.872506
Target:  5'- gUCUCCGGCGAGgagGGCgagUgCUUCGUGc -3'
miRNA:   3'- -AGGGGCUGCUC---UCGagaAgGAAGCGC- -5'
23849 3' -56.5 NC_005261.1 + 61515 0.66 0.871778
Target:  5'- gCCCCGGCGAG-GCcCgggCCUUcuccggcaagcgcCGCGg -3'
miRNA:   3'- aGGGGCUGCUCuCGaGaa-GGAA-------------GCGC- -5'
23849 3' -56.5 NC_005261.1 + 6003 0.67 0.857546
Target:  5'- cUCCCgCGGCGAGGGCUCcggCga-GCGu -3'
miRNA:   3'- -AGGG-GCUGCUCUCGAGaagGaagCGC- -5'
23849 3' -56.5 NC_005261.1 + 19642 0.67 0.857546
Target:  5'- cUCCCUGugGaAGAGCaCggCCUUCaGCu -3'
miRNA:   3'- -AGGGGCugC-UCUCGaGaaGGAAG-CGc -5'
23849 3' -56.5 NC_005261.1 + 105095 0.67 0.857546
Target:  5'- gCCCCGgaccuuccGCGGGGGCUUg-CCcgCGCGg -3'
miRNA:   3'- aGGGGC--------UGCUCUCGAGaaGGaaGCGC- -5'
23849 3' -56.5 NC_005261.1 + 100218 0.67 0.84976
Target:  5'- gCCCCG-CGuAGAGCUCggCCacCGCc -3'
miRNA:   3'- aGGGGCuGC-UCUCGAGaaGGaaGCGc -5'
23849 3' -56.5 NC_005261.1 + 45201 0.67 0.84976
Target:  5'- aUgCCGGCcuuccGGGGCUUcgCCUUCGCGg -3'
miRNA:   3'- aGgGGCUGc----UCUCGAGaaGGAAGCGC- -5'
23849 3' -56.5 NC_005261.1 + 11230 0.67 0.84976
Target:  5'- cCCCCG-CGGGcGCgCUUCCUccucgaucUCGUGg -3'
miRNA:   3'- aGGGGCuGCUCuCGaGAAGGA--------AGCGC- -5'
23849 3' -56.5 NC_005261.1 + 129759 0.67 0.84976
Target:  5'- uUCagcaCCGGCGAccgccGGGCUCggcccggCCUUCGCc -3'
miRNA:   3'- -AGg---GGCUGCU-----CUCGAGaa-----GGAAGCGc -5'
23849 3' -56.5 NC_005261.1 + 35821 0.67 0.841778
Target:  5'- aCCCCGGCcccGAGAGCUCgg----CGCa -3'
miRNA:   3'- aGGGGCUG---CUCUCGAGaaggaaGCGc -5'
23849 3' -56.5 NC_005261.1 + 117183 0.67 0.832781
Target:  5'- aCCCCGGCGGGGcggugacGUUCU-CCUaccggCGCGc -3'
miRNA:   3'- aGGGGCUGCUCU-------CGAGAaGGAa----GCGC- -5'
23849 3' -56.5 NC_005261.1 + 88401 0.67 0.825256
Target:  5'- aCCUCGACGgcgaGGAGCacgacaUCUUggaCUUCGCGg -3'
miRNA:   3'- aGGGGCUGC----UCUCG------AGAAg--GAAGCGC- -5'
23849 3' -56.5 NC_005261.1 + 4595 0.67 0.816731
Target:  5'- cCCCCGGCGccAGGGCUCc-CCUcgGCGu -3'
miRNA:   3'- aGGGGCUGC--UCUCGAGaaGGAagCGC- -5'
23849 3' -56.5 NC_005261.1 + 75075 0.67 0.815006
Target:  5'- gCgCCGGCGGGGGCUCggcgggcaucgUCUUCGgGa -3'
miRNA:   3'- aGgGGCUGCUCUCGAGaa---------GGAAGCgC- -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' 
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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.