miRNA display CGI


Results 1 - 20 of 42 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
32220 5' -58.9 NC_007016.1 + 118860 0.66 0.808546
Target:  5'- gCGGCgGGCgCGGGGG-GCGcgC-CGGu -3'
miRNA:   3'- gGCCGgCCG-GUUUCCaCGCuaGcGCC- -5'
32220 5' -58.9 NC_007016.1 + 105806 0.66 0.7999
Target:  5'- aCCGGCCGGUgGGGGG-GCGc---UGGg -3'
miRNA:   3'- -GGCCGGCCGgUUUCCaCGCuagcGCC- -5'
32220 5' -58.9 NC_007016.1 + 22432 0.66 0.79111
Target:  5'- gUCGGCaCGGCCAAucccgcguuGG-GCGuUCGCa- -3'
miRNA:   3'- -GGCCG-GCCGGUUu--------CCaCGCuAGCGcc -5'
32220 5' -58.9 NC_007016.1 + 70959 0.66 0.790223
Target:  5'- uCCGGCCauGGCCcAcaggggguuaaccAGGUGCcAUUGCGu -3'
miRNA:   3'- -GGCCGG--CCGGuU-------------UCCACGcUAGCGCc -5'
32220 5' -58.9 NC_007016.1 + 22877 0.66 0.782184
Target:  5'- aCCGGCgGcGCCGAuuGG-GCGca-GCGGa -3'
miRNA:   3'- -GGCCGgC-CGGUUu-CCaCGCuagCGCC- -5'
32220 5' -58.9 NC_007016.1 + 18036 0.66 0.782184
Target:  5'- aCGGCgGGuacgauguCCAGGGG-GUuGUCGCGGu -3'
miRNA:   3'- gGCCGgCC--------GGUUUCCaCGcUAGCGCC- -5'
32220 5' -58.9 NC_007016.1 + 35522 0.67 0.763959
Target:  5'- aCGGCCGGucCCGGAaGUcCGAccaUCGCGGc -3'
miRNA:   3'- gGCCGGCC--GGUUUcCAcGCU---AGCGCC- -5'
32220 5' -58.9 NC_007016.1 + 130168 0.67 0.754676
Target:  5'- cCCGGuCCGGCCGAGcccGGcgGCGc-CGCGc -3'
miRNA:   3'- -GGCC-GGCCGGUUU---CCa-CGCuaGCGCc -5'
32220 5' -58.9 NC_007016.1 + 18458 0.67 0.726245
Target:  5'- aCGG--GGCCGucGGUGCGAUUguuuccgggggGCGGg -3'
miRNA:   3'- gGCCggCCGGUuuCCACGCUAG-----------CGCC- -5'
32220 5' -58.9 NC_007016.1 + 17530 0.67 0.726245
Target:  5'- gCGGCggCGGCCAccAGGGUGUcucuuuuuauaGUCGUGGg -3'
miRNA:   3'- gGCCG--GCCGGU--UUCCACGc----------UAGCGCC- -5'
32220 5' -58.9 NC_007016.1 + 130998 0.67 0.726245
Target:  5'- gCaGCCGGCCAGcuGcGUGCGAggGCGu -3'
miRNA:   3'- gGcCGGCCGGUUu-C-CACGCUagCGCc -5'
32220 5' -58.9 NC_007016.1 + 614 0.67 0.726245
Target:  5'- gCaGCCGGCCAGcuGcGUGCGAggGCGu -3'
miRNA:   3'- gGcCGGCCGGUUu-C-CACGCUagCGCc -5'
32220 5' -58.9 NC_007016.1 + 13293 0.67 0.723361
Target:  5'- -gGGaCCGGCC--GGGUGCGcgaaucgauuggccgCGCGGc -3'
miRNA:   3'- ggCC-GGCCGGuuUCCACGCua-------------GCGCC- -5'
32220 5' -58.9 NC_007016.1 + 26775 0.68 0.706893
Target:  5'- gCCGuuGCCGGCaucGAGG-GUGG-CGCGGa -3'
miRNA:   3'- -GGC--CGGCCGgu-UUCCaCGCUaGCGCC- -5'
32220 5' -58.9 NC_007016.1 + 22963 0.68 0.697123
Target:  5'- aCCuGCCGGCCGcucgcGGUGC--UCGCGu -3'
miRNA:   3'- -GGcCGGCCGGUuu---CCACGcuAGCGCc -5'
32220 5' -58.9 NC_007016.1 + 28918 0.68 0.697123
Target:  5'- gCCGGUgGGgCGAucuGGGUGUGAUUG-GGc -3'
miRNA:   3'- -GGCCGgCCgGUU---UCCACGCUAGCgCC- -5'
32220 5' -58.9 NC_007016.1 + 75208 0.68 0.697123
Target:  5'- uCCGGCauuuacGCCAAGGG-GCGAUgCGUGc -3'
miRNA:   3'- -GGCCGgc----CGGUUUCCaCGCUA-GCGCc -5'
32220 5' -58.9 NC_007016.1 + 130369 0.68 0.687301
Target:  5'- -gGGCCGGCCccGGGGcGCGAcCGaGGg -3'
miRNA:   3'- ggCCGGCCGGu-UUCCaCGCUaGCgCC- -5'
32220 5' -58.9 NC_007016.1 + 116788 0.68 0.677436
Target:  5'- aCCGGCacCGGCguUAAccGGGUGCGuUgGCGGc -3'
miRNA:   3'- -GGCCG--GCCG--GUU--UCCACGCuAgCGCC- -5'
32220 5' -58.9 NC_007016.1 + 116434 0.69 0.647661
Target:  5'- aCCGGCCGcGCCGccaa-GCGG-CGCGGc -3'
miRNA:   3'- -GGCCGGC-CGGUuuccaCGCUaGCGCC- -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.