miRNA display CGI


Results 1 - 20 of 58 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
24905 3' -49.9 NC_005284.1 + 4779 1.09 0.004036
Target:  5'- uCGAAACCGGCUUCACGAACAACGCAGc -3'
miRNA:   3'- -GCUUUGGCCGAAGUGCUUGUUGCGUC- -5'
24905 3' -49.9 NC_005284.1 + 16024 0.76 0.485874
Target:  5'- uGAGGCCGGCgUCGCGcgcCGACGuCAGg -3'
miRNA:   3'- gCUUUGGCCGaAGUGCuu-GUUGC-GUC- -5'
24905 3' -49.9 NC_005284.1 + 9823 0.74 0.55109
Target:  5'- gGAAAUCGGCgcgcgcaUCACGGGCAcgcccuACGCGGc -3'
miRNA:   3'- gCUUUGGCCGa------AGUGCUUGU------UGCGUC- -5'
24905 3' -49.9 NC_005284.1 + 10396 0.74 0.562242
Target:  5'- aCGAAGCaagaGGCgUCGCGGGCGgccgaugacGCGCAGu -3'
miRNA:   3'- -GCUUUGg---CCGaAGUGCUUGU---------UGCGUC- -5'
24905 3' -49.9 NC_005284.1 + 13246 0.74 0.562242
Target:  5'- gGAAuUUGGCggCACGGACGACGCGa -3'
miRNA:   3'- gCUUuGGCCGaaGUGCUUGUUGCGUc -5'
24905 3' -49.9 NC_005284.1 + 11011 0.74 0.584718
Target:  5'- aCGAGGCCGGCcaUGCGGGCcuGCGCAu -3'
miRNA:   3'- -GCUUUGGCCGaaGUGCUUGu-UGCGUc -5'
24905 3' -49.9 NC_005284.1 + 34339 0.73 0.641476
Target:  5'- uGAAACUGGCUgCGCGcGCAGuuacgcCGCAGg -3'
miRNA:   3'- gCUUUGGCCGAaGUGCuUGUU------GCGUC- -5'
24905 3' -49.9 NC_005284.1 + 10259 0.73 0.642613
Target:  5'- cCGcGAACUGGCUgcuguuucgcgacaaCGCGAGCAGCGCGa -3'
miRNA:   3'- -GC-UUUGGCCGAa--------------GUGCUUGUUGCGUc -5'
24905 3' -49.9 NC_005284.1 + 10443 0.72 0.69799
Target:  5'- uCGGAAuUUGGCgaCGCGGGCGGCGCAa -3'
miRNA:   3'- -GCUUU-GGCCGaaGUGCUUGUUGCGUc -5'
24905 3' -49.9 NC_005284.1 + 17388 0.72 0.69799
Target:  5'- aGGAGCCGuGCUUCACcuGCAACuGCGu -3'
miRNA:   3'- gCUUUGGC-CGAAGUGcuUGUUG-CGUc -5'
24905 3' -49.9 NC_005284.1 + 53783 0.72 0.708025
Target:  5'- uGAuGCCGGCUgcugCgGCGAGCGcaucuugcgucauGCGCAGa -3'
miRNA:   3'- gCUuUGGCCGAa---G-UGCUUGU-------------UGCGUC- -5'
24905 3' -49.9 NC_005284.1 + 16295 0.72 0.709136
Target:  5'- gCGAGGCCGGCcugUUGCGGACugaGCAu -3'
miRNA:   3'- -GCUUUGGCCGa--AGUGCUUGuugCGUc -5'
24905 3' -49.9 NC_005284.1 + 29463 0.72 0.709136
Target:  5'- aCGAAACaaGGCUUguCGAGCGACugGCGGa -3'
miRNA:   3'- -GCUUUGg-CCGAAguGCUUGUUG--CGUC- -5'
24905 3' -49.9 NC_005284.1 + 7801 0.71 0.731175
Target:  5'- aCGccGCCGGCggcggCACGAGCuucGGCGCAc -3'
miRNA:   3'- -GCuuUGGCCGaa---GUGCUUG---UUGCGUc -5'
24905 3' -49.9 NC_005284.1 + 12343 0.71 0.752789
Target:  5'- gCGAu-CCGGCUUCGCGcgauuCGcCGCGGg -3'
miRNA:   3'- -GCUuuGGCCGAAGUGCuu---GUuGCGUC- -5'
24905 3' -49.9 NC_005284.1 + 30306 0.7 0.773879
Target:  5'- uGAGGCCGGCUaugCuCGAGCGAuucacguacCGCGGc -3'
miRNA:   3'- gCUUUGGCCGAa--GuGCUUGUU---------GCGUC- -5'
24905 3' -49.9 NC_005284.1 + 26912 0.7 0.773879
Target:  5'- aGAAggucgGCCGGCauacgCuCGAGCAACGCAu -3'
miRNA:   3'- gCUU-----UGGCCGaa---GuGCUUGUUGCGUc -5'
24905 3' -49.9 NC_005284.1 + 25752 0.7 0.794343
Target:  5'- aGAGGCuUGGCUcgCGCGAACGGCuGCGc -3'
miRNA:   3'- gCUUUG-GCCGAa-GUGCUUGUUG-CGUc -5'
24905 3' -49.9 NC_005284.1 + 16753 0.7 0.804309
Target:  5'- cCGAcGCCGGCcUCACGcucGACGGC-CGGa -3'
miRNA:   3'- -GCUuUGGCCGaAGUGC---UUGUUGcGUC- -5'
24905 3' -49.9 NC_005284.1 + 4847 0.7 0.814083
Target:  5'- uGAAGCCGGUUUCgACGGuguacuCGAUGCu- -3'
miRNA:   3'- gCUUUGGCCGAAG-UGCUu-----GUUGCGuc -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.