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
28503 3' -61.5 NC_005946.1 + 23043 0.66 0.617016
Target:  5'- aGGGUCCC-Cgu-GGGACCUguccacgGGUCGc -3'
miRNA:   3'- -CCCAGGGaGaugCCCUGGGa------CCGGCu -5'
28503 3' -61.5 NC_005946.1 + 92556 0.66 0.616017
Target:  5'- cGGGgccuacauaUCCCUgCUGCuGGGGUCCaggguggUGGCCGAg -3'
miRNA:   3'- -CCC---------AGGGA-GAUG-CCCUGGG-------ACCGGCU- -5'
28503 3' -61.5 NC_005946.1 + 58261 0.66 0.607027
Target:  5'- gGGGUCuaCCUCUcagguccagGCucaGGGAcucugccaCCCUGGCCGc -3'
miRNA:   3'- -CCCAG--GGAGA---------UG---CCCU--------GGGACCGGCu -5'
28503 3' -61.5 NC_005946.1 + 41109 0.66 0.597055
Target:  5'- uGGGUCCCacgCgcccgACuGGACC--GGCCGAu -3'
miRNA:   3'- -CCCAGGGa--Ga----UGcCCUGGgaCCGGCU- -5'
28503 3' -61.5 NC_005946.1 + 38517 0.66 0.597055
Target:  5'- --aUCCCUaaagucCUGCaGGGCCCUGGUCa- -3'
miRNA:   3'- cccAGGGA------GAUGcCCUGGGACCGGcu -5'
28503 3' -61.5 NC_005946.1 + 83713 0.66 0.567314
Target:  5'- cGGcuaCCCUCggGCuGGcuGCCCUGGCCGc -3'
miRNA:   3'- cCCa--GGGAGa-UGcCC--UGGGACCGGCu -5'
28503 3' -61.5 NC_005946.1 + 17651 0.67 0.547693
Target:  5'- aGGGUCCCgc--CGGaGACggCCUGGUCGu -3'
miRNA:   3'- -CCCAGGGagauGCC-CUG--GGACCGGCu -5'
28503 3' -61.5 NC_005946.1 + 56966 0.67 0.547693
Target:  5'- -cGUUCCUC-ACGGGucCCCUGGUCc- -3'
miRNA:   3'- ccCAGGGAGaUGCCCu-GGGACCGGcu -5'
28503 3' -61.5 NC_005946.1 + 29540 0.67 0.537962
Target:  5'- cGGUCCCa--GCGGGGCgCCUGGaucucagggcCCGGa -3'
miRNA:   3'- cCCAGGGagaUGCCCUG-GGACC----------GGCU- -5'
28503 3' -61.5 NC_005946.1 + 78448 0.67 0.528292
Target:  5'- aGGagCCUCcugaGGGGCCCgcccucGGCCGAg -3'
miRNA:   3'- cCCagGGAGaug-CCCUGGGa-----CCGGCU- -5'
28503 3' -61.5 NC_005946.1 + 31967 0.68 0.459953
Target:  5'- gGGGUCaCCUCUucCGGGAgagugccccuccgaCCCcGGCgGAu -3'
miRNA:   3'- -CCCAG-GGAGAu-GCCCU--------------GGGaCCGgCU- -5'
28503 3' -61.5 NC_005946.1 + 103604 0.69 0.44471
Target:  5'- aGGGUgUCCUCggACGcGGACCCcgccgggGGCUGGu -3'
miRNA:   3'- -CCCA-GGGAGa-UGC-CCUGGGa------CCGGCU- -5'
28503 3' -61.5 NC_005946.1 + 62229 0.73 0.251785
Target:  5'- aGGGUCCCguagaGGGACCCcaGGuCCGAg -3'
miRNA:   3'- -CCCAGGGagaugCCCUGGGa-CC-GGCU- -5'
28503 3' -61.5 NC_005946.1 + 63508 0.74 0.221548
Target:  5'- gGGGUCuuugggaCCUCUgucucccgggaccaACGGGACCCUuugGGCCGu -3'
miRNA:   3'- -CCCAG-------GGAGA--------------UGCCCUGGGA---CCGGCu -5'
28503 3' -61.5 NC_005946.1 + 82731 0.76 0.166974
Target:  5'- gGGuGUCCCa----GGGACCCUGGCCGc -3'
miRNA:   3'- -CC-CAGGGagaugCCCUGGGACCGGCu -5'
28503 3' -61.5 NC_005946.1 + 69975 0.77 0.143744
Target:  5'- aGGG-CCCUCgcaGCGGGACguuuggaaguCCUGGCCGu -3'
miRNA:   3'- -CCCaGGGAGa--UGCCCUG----------GGACCGGCu -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.