miRNA display CGI


Results 1 - 20 of 72 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
7198 3' -55.6 NC_001900.1 + 13452 0.68 0.552396
Target:  5'- gUCACCGGCCuGAUCGGUGGcgaUGagUACg -3'
miRNA:   3'- -GGUGGCCGGuUUGGCCACU---AUggGUG- -5'
7198 3' -55.6 NC_001900.1 + 47794 0.67 0.606879
Target:  5'- gCUGCCGGUCGAACCaccGA-ACCCGCc -3'
miRNA:   3'- -GGUGGCCGGUUUGGccaCUaUGGGUG- -5'
7198 3' -55.6 NC_001900.1 + 23597 0.67 0.595904
Target:  5'- gCCACgcuggCGGCuCAGGCCGGUGcgACgaCCAa -3'
miRNA:   3'- -GGUG-----GCCG-GUUUGGCCACuaUG--GGUg -5'
7198 3' -55.6 NC_001900.1 + 47458 0.67 0.589333
Target:  5'- gCCACCGGCCGAgaaGCCgaccucgaacagcgaGGaGAUccgGCCCGa -3'
miRNA:   3'- -GGUGGCCGGUU---UGG---------------CCaCUA---UGGGUg -5'
7198 3' -55.6 NC_001900.1 + 45655 0.68 0.563198
Target:  5'- aCCugUGGCC---CCGGUGAUGuaCACc -3'
miRNA:   3'- -GGugGCCGGuuuGGCCACUAUggGUG- -5'
7198 3' -55.6 NC_001900.1 + 42562 0.68 0.563198
Target:  5'- gCCAgCgGGCCGAGCUGG-GggACCgCGCc -3'
miRNA:   3'- -GGU-GgCCGGUUUGGCCaCuaUGG-GUG- -5'
7198 3' -55.6 NC_001900.1 + 24590 0.68 0.552396
Target:  5'- aCGCUGGCCAcACCuGGUcGUugCCGa -3'
miRNA:   3'- gGUGGCCGGUuUGG-CCAcUAugGGUg -5'
7198 3' -55.6 NC_001900.1 + 19481 0.68 0.552396
Target:  5'- gCCGgCGGCU--GCCGGUGGa--CCGCu -3'
miRNA:   3'- -GGUgGCCGGuuUGGCCACUaugGGUG- -5'
7198 3' -55.6 NC_001900.1 + 14242 0.68 0.552396
Target:  5'- aCCGa-GGUCuccgagauccuGAGCCGGUG-UGCCCGCg -3'
miRNA:   3'- -GGUggCCGG-----------UUUGGCCACuAUGGGUG- -5'
7198 3' -55.6 NC_001900.1 + 42518 0.67 0.617876
Target:  5'- aCgGCUGGCUguAGGCCGGUugGAUGCCg-- -3'
miRNA:   3'- -GgUGGCCGG--UUUGGCCA--CUAUGGgug -5'
7198 3' -55.6 NC_001900.1 + 44005 0.67 0.617876
Target:  5'- uUCACCgGGCC--ACCGGgGAUGUCCAUc -3'
miRNA:   3'- -GGUGG-CCGGuuUGGCCaCUAUGGGUG- -5'
7198 3' -55.6 NC_001900.1 + 36808 0.67 0.636595
Target:  5'- gUCGCCGacCCAGugCGGgaucuucuggcccgUGGUACCCAUc -3'
miRNA:   3'- -GGUGGCc-GGUUugGCC--------------ACUAUGGGUG- -5'
7198 3' -55.6 NC_001900.1 + 18580 0.66 0.694646
Target:  5'- aCCGCUGGUgcccgacgUGAGCCGGccguUGGUGCCgUACg -3'
miRNA:   3'- -GGUGGCCG--------GUUUGGCC----ACUAUGG-GUG- -5'
7198 3' -55.6 NC_001900.1 + 45114 0.66 0.683773
Target:  5'- -gACCGGCCGcguucGCCGuGgaggcgGGUACCgGCg -3'
miRNA:   3'- ggUGGCCGGUu----UGGC-Ca-----CUAUGGgUG- -5'
7198 3' -55.6 NC_001900.1 + 39570 0.66 0.672852
Target:  5'- aCgACCGGCCGugGACguaagcguCGGUGuaGCCCAg -3'
miRNA:   3'- -GgUGGCCGGU--UUG--------GCCACuaUGGGUg -5'
7198 3' -55.6 NC_001900.1 + 8639 0.66 0.661891
Target:  5'- gCACCGGCgCcccGCUGGUGuu-CCUGCa -3'
miRNA:   3'- gGUGGCCG-Guu-UGGCCACuauGGGUG- -5'
7198 3' -55.6 NC_001900.1 + 41861 0.66 0.650903
Target:  5'- aCGCUGGCCAAGCuCGaUGAgcuggGCuaCCACg -3'
miRNA:   3'- gGUGGCCGGUUUG-GCcACUa----UG--GGUG- -5'
7198 3' -55.6 NC_001900.1 + 45565 0.66 0.650903
Target:  5'- gUCACCGGCCAGACCcugcgGGUuCUCGg -3'
miRNA:   3'- -GGUGGCCGGUUUGGcca--CUAuGGGUg -5'
7198 3' -55.6 NC_001900.1 + 25453 0.66 0.649803
Target:  5'- gCCACCGaCCucgacauAGACCccgucGGUGAUGCCgACc -3'
miRNA:   3'- -GGUGGCcGG-------UUUGG-----CCACUAUGGgUG- -5'
7198 3' -55.6 NC_001900.1 + 31043 0.67 0.639898
Target:  5'- aCCACCGGCaCGauGACCGGcaucagcuUGGUGaaCGCc -3'
miRNA:   3'- -GGUGGCCG-GU--UUGGCC--------ACUAUggGUG- -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.