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
28454 3' -62.8 NC_005946.1 + 41178 0.66 0.541646
Target:  5'- aGCG-CGGGCCcgucAGcccaaccuGUCCGGCCGGUc -3'
miRNA:   3'- -CGCaGCCCGGa---UCac------CGGGUCGGCCG- -5'
28454 3' -62.8 NC_005946.1 + 69873 0.66 0.534863
Target:  5'- cGCGUCagugguuccucccuGGCCUcauacggAGUGGCCUccagGGCCucGGCg -3'
miRNA:   3'- -CGCAGc-------------CCGGA-------UCACCGGG----UCGG--CCG- -5'
28454 3' -62.8 NC_005946.1 + 102447 0.66 0.531964
Target:  5'- cCGgggCGGGUgUAGgGGUCUAcGCCGGUc -3'
miRNA:   3'- cGCa--GCCCGgAUCaCCGGGU-CGGCCG- -5'
28454 3' -62.8 NC_005946.1 + 97684 0.66 0.531964
Target:  5'- gGCGUUGGGUCUgcagcAGggaGGCa-GGaCCGGCa -3'
miRNA:   3'- -CGCAGCCCGGA-----UCa--CCGggUC-GGCCG- -5'
28454 3' -62.8 NC_005946.1 + 66064 0.66 0.512796
Target:  5'- cUGUCuaGGGCuCUGGcuaUGGCCgCGGCugCGGCg -3'
miRNA:   3'- cGCAG--CCCG-GAUC---ACCGG-GUCG--GCCG- -5'
28454 3' -62.8 NC_005946.1 + 71250 0.66 0.50049
Target:  5'- -gGUCGGGCCUggacauggauaucuGGagGGCCCucAGCCucuGGUu -3'
miRNA:   3'- cgCAGCCCGGA--------------UCa-CCGGG--UCGG---CCG- -5'
28454 3' -62.8 NC_005946.1 + 38361 0.66 0.493918
Target:  5'- ---cUGGGCCcugcacUGGUGGCaggcgaAGCCGGCc -3'
miRNA:   3'- cgcaGCCCGG------AUCACCGgg----UCGGCCG- -5'
28454 3' -62.8 NC_005946.1 + 29502 0.67 0.466219
Target:  5'- aUGagGGGCCUAGaGGCCC--CCGGa -3'
miRNA:   3'- cGCagCCCGGAUCaCCGGGucGGCCg -5'
28454 3' -62.8 NC_005946.1 + 8040 0.67 0.448206
Target:  5'- cCGUCcuGGCCU-GUGGCCgGGgCGGg -3'
miRNA:   3'- cGCAGc-CCGGAuCACCGGgUCgGCCg -5'
28454 3' -62.8 NC_005946.1 + 69430 0.68 0.421928
Target:  5'- cCGg-GGGuCCUGGUcccaaacggcagGGCCCaAGCCGGUc -3'
miRNA:   3'- cGCagCCC-GGAUCA------------CCGGG-UCGGCCG- -5'
28454 3' -62.8 NC_005946.1 + 29333 0.68 0.3966
Target:  5'- -gGUCGGGCCcgUGGgagcGGCUgGGCCucaggGGCa -3'
miRNA:   3'- cgCAGCCCGG--AUCa---CCGGgUCGG-----CCG- -5'
28454 3' -62.8 NC_005946.1 + 84584 0.69 0.364391
Target:  5'- uGUGUCcaGGGCU---UGGCCgaggaGGCCGGCa -3'
miRNA:   3'- -CGCAG--CCCGGaucACCGGg----UCGGCCG- -5'
28454 3' -62.8 NC_005946.1 + 46312 0.7 0.31957
Target:  5'- -aGagGGGuCCUA-UGGCCCuccuGCCGGCc -3'
miRNA:   3'- cgCagCCC-GGAUcACCGGGu---CGGCCG- -5'
28454 3' -62.8 NC_005946.1 + 26393 0.71 0.285478
Target:  5'- gGCGUUguagugccuggaGGGCCUGacGGCCgAGCUGGUg -3'
miRNA:   3'- -CGCAG------------CCCGGAUcaCCGGgUCGGCCG- -5'
28454 3' -62.8 NC_005946.1 + 79239 0.71 0.272667
Target:  5'- uCGUCGGGCUUGcUGGCCCcguacaccAGCCaGGg -3'
miRNA:   3'- cGCAGCCCGGAUcACCGGG--------UCGG-CCg -5'
28454 3' -62.8 NC_005946.1 + 59937 0.75 0.145411
Target:  5'- gGCGUCGGGCCgauugccGGUGagaGCaguaagCCAGCUGGCg -3'
miRNA:   3'- -CGCAGCCCGGa------UCAC---CG------GGUCGGCCG- -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.