miRNA display CGI


Results 1 - 20 of 35 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
27027 3' -53.5 NC_005832.1 + 52028 0.66 0.944431
Target:  5'- -gGGACGCgGGGGguauuucugaccUGUcuGCGAUGGCCc -3'
miRNA:   3'- cgUUUGCGgUUCC------------ACA--UGCUGCCGGc -5'
27027 3' -53.5 NC_005832.1 + 4317 0.66 0.939689
Target:  5'- aGCGGAUGCgAgaAGGUGcACGuCGGCa- -3'
miRNA:   3'- -CGUUUGCGgU--UCCACaUGCuGCCGgc -5'
27027 3' -53.5 NC_005832.1 + 64241 0.66 0.939689
Target:  5'- cCGAACGCgGGGuUGUGgcugugacugUGAUGGCCGg -3'
miRNA:   3'- cGUUUGCGgUUCcACAU----------GCUGCCGGC- -5'
27027 3' -53.5 NC_005832.1 + 58555 0.66 0.934694
Target:  5'- cGCAGAUGUaCGGGGUGUAgGuACccuugGGCCa -3'
miRNA:   3'- -CGUUUGCG-GUUCCACAUgC-UG-----CCGGc -5'
27027 3' -53.5 NC_005832.1 + 103992 0.66 0.934694
Target:  5'- cGCGGACGCCGugGGG-GUA-GACaacauGGCCu -3'
miRNA:   3'- -CGUUUGCGGU--UCCaCAUgCUG-----CCGGc -5'
27027 3' -53.5 NC_005832.1 + 27931 0.66 0.934694
Target:  5'- cGCGGugGUCAAGGggcaaaggGUcccgccggaGACGGCCu -3'
miRNA:   3'- -CGUUugCGGUUCCa-------CAug-------CUGCCGGc -5'
27027 3' -53.5 NC_005832.1 + 16495 0.66 0.929445
Target:  5'- ----cCGCUGAGGccaccGCGGCGGCCGc -3'
miRNA:   3'- cguuuGCGGUUCCaca--UGCUGCCGGC- -5'
27027 3' -53.5 NC_005832.1 + 52448 0.66 0.923941
Target:  5'- aGCAgGACcCCAGGGUGaggguucucACGuCGGCCGc -3'
miRNA:   3'- -CGU-UUGcGGUUCCACa--------UGCuGCCGGC- -5'
27027 3' -53.5 NC_005832.1 + 20852 0.67 0.918181
Target:  5'- gGCucuaGCCAccGUGUACGccaggGCGGCCu -3'
miRNA:   3'- -CGuuugCGGUucCACAUGC-----UGCCGGc -5'
27027 3' -53.5 NC_005832.1 + 50714 0.67 0.918181
Target:  5'- -gAGAgGCUGAGGcUGUACGAC-GCUGg -3'
miRNA:   3'- cgUUUgCGGUUCC-ACAUGCUGcCGGC- -5'
27027 3' -53.5 NC_005832.1 + 10774 0.67 0.918181
Target:  5'- uGCGGAgGCCAggaacccgagucAGGUuaggAgGAUGGCCGg -3'
miRNA:   3'- -CGUUUgCGGU------------UCCAca--UgCUGCCGGC- -5'
27027 3' -53.5 NC_005832.1 + 79877 0.67 0.912167
Target:  5'- aGCAG--GCCGAGGag-AgGGCGGCCa -3'
miRNA:   3'- -CGUUugCGGUUCCacaUgCUGCCGGc -5'
27027 3' -53.5 NC_005832.1 + 94761 0.67 0.899383
Target:  5'- uGCAGGC-CCAggAGGaucUGcGCGAgGGCCGa -3'
miRNA:   3'- -CGUUUGcGGU--UCC---ACaUGCUgCCGGC- -5'
27027 3' -53.5 NC_005832.1 + 56822 0.68 0.88561
Target:  5'- uUggGCGCUcuGaGUG-GCGACGGCCu -3'
miRNA:   3'- cGuuUGCGGuuC-CACaUGCUGCCGGc -5'
27027 3' -53.5 NC_005832.1 + 96781 0.68 0.88561
Target:  5'- -----gGCCAAGGUG---GACGGCCu -3'
miRNA:   3'- cguuugCGGUUCCACaugCUGCCGGc -5'
27027 3' -53.5 NC_005832.1 + 36525 0.68 0.86317
Target:  5'- gGCGuACGCCAGGGc---CGGgGGCCa -3'
miRNA:   3'- -CGUuUGCGGUUCCacauGCUgCCGGc -5'
27027 3' -53.5 NC_005832.1 + 95523 0.68 0.86317
Target:  5'- cCAAACaGCUucGAGGUGUcCGgaGCGGCCa -3'
miRNA:   3'- cGUUUG-CGG--UUCCACAuGC--UGCCGGc -5'
27027 3' -53.5 NC_005832.1 + 78329 0.68 0.854432
Target:  5'- ----cCGCCAcaggggcaugaugGGGUucGCGGCGGCCGu -3'
miRNA:   3'- cguuuGCGGU-------------UCCAcaUGCUGCCGGC- -5'
27027 3' -53.5 NC_005832.1 + 78398 0.68 0.847089
Target:  5'- uGUGGACGUCAccAGG-GUAaagGACGGCCu -3'
miRNA:   3'- -CGUUUGCGGU--UCCaCAUg--CUGCCGGc -5'
27027 3' -53.5 NC_005832.1 + 26615 0.69 0.838732
Target:  5'- -gAGACGCggccuuUAAGGUG-GCGAgGGCCGc -3'
miRNA:   3'- cgUUUGCG------GUUCCACaUGCUgCCGGC- -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.