miRNA display CGI


Results 1 - 18 of 18 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
28432 5' -50.2 NC_005946.1 + 82198 0.66 0.989009
Target:  5'- gCUGCucACGuccuGuUugGAGGGAUGUGAGGu -3'
miRNA:   3'- aGACGu-UGU----C-GugUUUCCUGCACUCC- -5'
28432 5' -50.2 NC_005946.1 + 35203 0.66 0.98856
Target:  5'- aUCUGCcuGAC-GCACAuagagucagacaccAGGGACGgagacGGGGg -3'
miRNA:   3'- -AGACG--UUGuCGUGU--------------UUCCUGCa----CUCC- -5'
28432 5' -50.2 NC_005946.1 + 16159 0.66 0.987459
Target:  5'- --cGCAGagaAGCGCAAGGaGAgGaUGAGGc -3'
miRNA:   3'- agaCGUUg--UCGUGUUUC-CUgC-ACUCC- -5'
28432 5' -50.2 NC_005946.1 + 58460 0.66 0.987459
Target:  5'- --aGCuccaAGCugA-AGGugGUGAGGg -3'
miRNA:   3'- agaCGuug-UCGugUuUCCugCACUCC- -5'
28432 5' -50.2 NC_005946.1 + 63981 0.66 0.987459
Target:  5'- --cGCAcGCGGCcuucAUGAGGGACGcGGGGg -3'
miRNA:   3'- agaCGU-UGUCG----UGUUUCCUGCaCUCC- -5'
28432 5' -50.2 NC_005946.1 + 12766 0.66 0.983858
Target:  5'- --gGgGACGGCGCugugcucAGGGCG-GAGGg -3'
miRNA:   3'- agaCgUUGUCGUGuu-----UCCUGCaCUCC- -5'
28432 5' -50.2 NC_005946.1 + 11887 0.66 0.981787
Target:  5'- aCUGCGGucauCAGCACaAGAGGAgGggcaaguuugccUGAGGc -3'
miRNA:   3'- aGACGUU----GUCGUG-UUUCCUgC------------ACUCC- -5'
28432 5' -50.2 NC_005946.1 + 81551 0.66 0.981787
Target:  5'- gUCUGCGGCuGCACAGAGuGCGcauacUGcaAGGc -3'
miRNA:   3'- -AGACGUUGuCGUGUUUCcUGC-----AC--UCC- -5'
28432 5' -50.2 NC_005946.1 + 58260 0.67 0.979523
Target:  5'- cCUGguCAACaccuccAGCAUGGAGGugGUGGGa -3'
miRNA:   3'- aGAC--GUUG------UCGUGUUUCCugCACUCc -5'
28432 5' -50.2 NC_005946.1 + 12722 0.67 0.974378
Target:  5'- gUCUGCucccuACGGUuccuCGGAGGAgGgGAGGu -3'
miRNA:   3'- -AGACGu----UGUCGu---GUUUCCUgCaCUCC- -5'
28432 5' -50.2 NC_005946.1 + 2611 0.68 0.964989
Target:  5'- cCUGCGGCaAGgACu-GGGACcUGGGGg -3'
miRNA:   3'- aGACGUUG-UCgUGuuUCCUGcACUCC- -5'
28432 5' -50.2 NC_005946.1 + 40647 0.68 0.964639
Target:  5'- aCUGCAGaCAGgGCcacGAGGGCGgcggaagaguacuUGAGGa -3'
miRNA:   3'- aGACGUU-GUCgUGu--UUCCUGC-------------ACUCC- -5'
28432 5' -50.2 NC_005946.1 + 71851 0.68 0.964639
Target:  5'- --gGCGGCcaagaggcccgcgGGC-CAGAGGACGgGAGGa -3'
miRNA:   3'- agaCGUUG-------------UCGuGUUUCCUGCaCUCC- -5'
28432 5' -50.2 NC_005946.1 + 81590 0.68 0.949043
Target:  5'- uUUUGCAugGGCuuuAGGGugG-GAGGc -3'
miRNA:   3'- -AGACGUugUCGuguUUCCugCaCUCC- -5'
28432 5' -50.2 NC_005946.1 + 55656 0.7 0.904393
Target:  5'- --gGCAACGGgACGgugggguuGAGGAgccCGUGAGGg -3'
miRNA:   3'- agaCGUUGUCgUGU--------UUCCU---GCACUCC- -5'
28432 5' -50.2 NC_005946.1 + 5332 0.72 0.842962
Target:  5'- cUCUGau-CAGCuAgGAAGGAgGUGAGGc -3'
miRNA:   3'- -AGACguuGUCG-UgUUUCCUgCACUCC- -5'
28432 5' -50.2 NC_005946.1 + 54945 0.72 0.842962
Target:  5'- --aGCAGCaAGCGCAgccuGAGGAgGcUGAGGa -3'
miRNA:   3'- agaCGUUG-UCGUGU----UUCCUgC-ACUCC- -5'
28432 5' -50.2 NC_005946.1 + 83389 1.11 0.005172
Target:  5'- cUCUGCAACAGCACAAAGGACGUGAGGc -3'
miRNA:   3'- -AGACGUUGUCGUGUUUCCUGCACUCC- -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.