miRNA display CGI


Results 1 - 12 of 12 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
12298 5' -53.8 NC_003313.1 + 14327 0.66 0.625502
Target:  5'- gGUCAcAGCCaCCC---UUAGCGGCAu -3'
miRNA:   3'- aCAGUuUCGGcGGGucgAAUUGCCGU- -5'
12298 5' -53.8 NC_003313.1 + 17586 0.66 0.625502
Target:  5'- aGUauuAGCCacCCCAGC--AGCGGCAg -3'
miRNA:   3'- aCAguuUCGGc-GGGUCGaaUUGCCGU- -5'
12298 5' -53.8 NC_003313.1 + 16906 0.66 0.625502
Target:  5'- cUGgCAGAGCauuGCCCaAGUgaUGGCGGCAc -3'
miRNA:   3'- -ACaGUUUCGg--CGGG-UCGa-AUUGCCGU- -5'
12298 5' -53.8 NC_003313.1 + 14604 0.67 0.544321
Target:  5'- --aCAAAGUCGCCuCGGC--GAUGGCu -3'
miRNA:   3'- acaGUUUCGGCGG-GUCGaaUUGCCGu -5'
12298 5' -53.8 NC_003313.1 + 12579 0.67 0.544321
Target:  5'- aGUgaUGAAGCgGCUCGGCaaaUUGGCGGCu -3'
miRNA:   3'- aCA--GUUUCGgCGGGUCG---AAUUGCCGu -5'
12298 5' -53.8 NC_003313.1 + 21350 0.68 0.48192
Target:  5'- cGUCAGguuugaucccgcgauAGCUGCCC-GCUcgacgGGCGGCu -3'
miRNA:   3'- aCAGUU---------------UCGGCGGGuCGAa----UUGCCGu -5'
12298 5' -53.8 NC_003313.1 + 17674 0.69 0.445762
Target:  5'- cUGUCGAGGCUuuCCgCAGC--AGCGGCAu -3'
miRNA:   3'- -ACAGUUUCGGc-GG-GUCGaaUUGCCGU- -5'
12298 5' -53.8 NC_003313.1 + 9206 0.69 0.440572
Target:  5'- gGUCGAuaaAGCCGCCUuuuuuguAGCUguugugguacuucGACGGCGu -3'
miRNA:   3'- aCAGUU---UCGGCGGG-------UCGAa------------UUGCCGU- -5'
12298 5' -53.8 NC_003313.1 + 955 0.69 0.425213
Target:  5'- gGUC-AAGCCaCCCAcGUUUuACGGCAu -3'
miRNA:   3'- aCAGuUUCGGcGGGU-CGAAuUGCCGU- -5'
12298 5' -53.8 NC_003313.1 + 21271 0.7 0.367117
Target:  5'- --aCAAAGCCGCCC-GUcgAGCgGGCAg -3'
miRNA:   3'- acaGUUUCGGCGGGuCGaaUUG-CCGU- -5'
12298 5' -53.8 NC_003313.1 + 22547 0.72 0.290717
Target:  5'- -aUUAAAGCCa-UCGGCUUAGCGGCAu -3'
miRNA:   3'- acAGUUUCGGcgGGUCGAAUUGCCGU- -5'
12298 5' -53.8 NC_003313.1 + 20151 1.09 0.000571
Target:  5'- uUGUCAAAGCCGCCCAGCUUAACGGCAa -3'
miRNA:   3'- -ACAGUUUCGGCGGGUCGAAUUGCCGU- -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.