miRNA display CGI


Results 1 - 16 of 16 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
3045 3' -55.2 NC_001493.1 + 37543 0.66 0.938489
Target:  5'- aCCGAGUCUaccugaacaugauagGAGggauagaUGAGUCCGAGg-- -3'
miRNA:   3'- -GGCUCAGG---------------CUCag-----GCUCAGGCUCauc -5'
3045 3' -55.2 NC_001493.1 + 70651 0.66 0.926457
Target:  5'- aCUGAGUggGAGUauaaacaugCCGAGUCCGuGUAu -3'
miRNA:   3'- -GGCUCAggCUCA---------GGCUCAGGCuCAUc -5'
3045 3' -55.2 NC_001493.1 + 48177 0.66 0.926457
Target:  5'- gCCGGGUUgGGGgCCGGGUUCGAc--- -3'
miRNA:   3'- -GGCUCAGgCUCaGGCUCAGGCUcauc -5'
3045 3' -55.2 NC_001493.1 + 90309 0.67 0.921045
Target:  5'- cCUGAGguaacCCuuGUCCGcGUCCGuGUAGg -3'
miRNA:   3'- -GGCUCa----GGcuCAGGCuCAGGCuCAUC- -5'
3045 3' -55.2 NC_001493.1 + 30563 0.67 0.915397
Target:  5'- cCCGGGUCCaagGGGgacaUCGAGUCguuggUGAGUGGg -3'
miRNA:   3'- -GGCUCAGG---CUCa---GGCUCAG-----GCUCAUC- -5'
3045 3' -55.2 NC_001493.1 + 8579 0.67 0.909516
Target:  5'- cCCGGGUCCacagCCGcagccgaaGGUCCGGGUGu -3'
miRNA:   3'- -GGCUCAGGcucaGGC--------UCAGGCUCAUc -5'
3045 3' -55.2 NC_001493.1 + 124134 0.67 0.909516
Target:  5'- cCCGGGUCCacagCCGcagccgaaGGUCCGGGUGu -3'
miRNA:   3'- -GGCUCAGGcucaGGC--------UCAGGCUCAUc -5'
3045 3' -55.2 NC_001493.1 + 57949 0.67 0.903402
Target:  5'- aCCGAGggucaguuUCuCGGGUgaGAuauGUCCGAGUAGa -3'
miRNA:   3'- -GGCUC--------AG-GCUCAggCU---CAGGCUCAUC- -5'
3045 3' -55.2 NC_001493.1 + 40819 0.67 0.897059
Target:  5'- cCCGGGUCCGAG-CCGuGgaCGcGUAGc -3'
miRNA:   3'- -GGCUCAGGCUCaGGCuCagGCuCAUC- -5'
3045 3' -55.2 NC_001493.1 + 26802 0.68 0.854379
Target:  5'- aCGGGagCGGGUCCGAGga-GAGUGa -3'
miRNA:   3'- gGCUCagGCUCAGGCUCaggCUCAUc -5'
3045 3' -55.2 NC_001493.1 + 2972 0.69 0.821905
Target:  5'- cCCGAGUCCGAgGUCCGca-CCGAc--- -3'
miRNA:   3'- -GGCUCAGGCU-CAGGCucaGGCUcauc -5'
3045 3' -55.2 NC_001493.1 + 54782 0.69 0.80462
Target:  5'- aCGA--UCGAGUCCGAaauGUCCGAGaGGa -3'
miRNA:   3'- gGCUcaGGCUCAGGCU---CAGGCUCaUC- -5'
3045 3' -55.2 NC_001493.1 + 118526 0.7 0.795744
Target:  5'- cCCGAGUCCGAgGUCCGca-CCGAa--- -3'
miRNA:   3'- -GGCUCAGGCU-CAGGCucaGGCUcauc -5'
3045 3' -55.2 NC_001493.1 + 49883 0.7 0.768277
Target:  5'- -gGAGUCCGAGUCUggccuggaucugGGGUCCaGAG-AGa -3'
miRNA:   3'- ggCUCAGGCUCAGG------------CUCAGG-CUCaUC- -5'
3045 3' -55.2 NC_001493.1 + 26927 0.97 0.024345
Target:  5'- uCCGAGUCCGAGUCCGAGU-CGAGUAGu -3'
miRNA:   3'- -GGCUCAGGCUCAGGCUCAgGCUCAUC- -5'
3045 3' -55.2 NC_001493.1 + 26903 1.03 0.0096
Target:  5'- uCCGAGUCCGAGUCCGAGUCCGAGUc- -3'
miRNA:   3'- -GGCUCAGGCUCAGGCUCAGGCUCAuc -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.