miRNA display CGI


Results 1 - 19 of 19 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
11857 3' -56.1 NC_003266.2 + 13913 0.66 0.567745
Target:  5'- gCCGCCGcCGCCAUugccugcugcaucacGCUCucguacgagggagGAGGACCc-- -3'
miRNA:   3'- -GGUGGC-GUGGUA---------------CGAG-------------CUCCUGGauc -5'
11857 3' -56.1 NC_003266.2 + 10869 0.66 0.564424
Target:  5'- aCCGCCGCggccGCCGUGagCG-GGGCCg-- -3'
miRNA:   3'- -GGUGGCG----UGGUACgaGCuCCUGGauc -5'
11857 3' -56.1 NC_003266.2 + 27030 0.67 0.487797
Target:  5'- gCCGCCGCuuucgcuGCUucGCUCG-GGACCUc- -3'
miRNA:   3'- -GGUGGCG-------UGGuaCGAGCuCCUGGAuc -5'
11857 3' -56.1 NC_003266.2 + 16144 0.67 0.478418
Target:  5'- gCCGCCGCgggGCCGUagaucucagGCgCGAuGACCUGGa -3'
miRNA:   3'- -GGUGGCG---UGGUA---------CGaGCUcCUGGAUC- -5'
11857 3' -56.1 NC_003266.2 + 25183 0.67 0.468103
Target:  5'- aCUugCGCAaguUCGUGCcCGAGGACUa-- -3'
miRNA:   3'- -GGugGCGU---GGUACGaGCUCCUGGauc -5'
11857 3' -56.1 NC_003266.2 + 17894 0.67 0.468103
Target:  5'- cCCAUUGCGCCucuaGCUacCGGGGugCUGa -3'
miRNA:   3'- -GGUGGCGUGGua--CGA--GCUCCugGAUc -5'
11857 3' -56.1 NC_003266.2 + 4379 0.68 0.457904
Target:  5'- gCACCGgauaCACCGUGCUgGuGGuCCUGc -3'
miRNA:   3'- gGUGGC----GUGGUACGAgCuCCuGGAUc -5'
11857 3' -56.1 NC_003266.2 + 19811 0.68 0.428042
Target:  5'- gCUACCGCuCCAUGCUCcuGGGCaacGGg -3'
miRNA:   3'- -GGUGGCGuGGUACGAGcuCCUGga-UC- -5'
11857 3' -56.1 NC_003266.2 + 20053 0.68 0.418346
Target:  5'- aCACCGCcuCCAcGCUUGAGG-CCa-- -3'
miRNA:   3'- gGUGGCGu-GGUaCGAGCUCCuGGauc -5'
11857 3' -56.1 NC_003266.2 + 24347 0.68 0.418346
Target:  5'- gCGCCGCucuuCCAaGCUCuGGGGACUa-- -3'
miRNA:   3'- gGUGGCGu---GGUaCGAG-CUCCUGGauc -5'
11857 3' -56.1 NC_003266.2 + 3642 0.68 0.408786
Target:  5'- gCCGCCaGCGCCGUGCgCGGaauGGCCaUGGg -3'
miRNA:   3'- -GGUGG-CGUGGUACGaGCUc--CUGG-AUC- -5'
11857 3' -56.1 NC_003266.2 + 5674 0.68 0.408786
Target:  5'- -gACCGCGgCGUcccaCUCGAGGACCg-- -3'
miRNA:   3'- ggUGGCGUgGUAc---GAGCUCCUGGauc -5'
11857 3' -56.1 NC_003266.2 + 7462 0.69 0.380938
Target:  5'- gUCGCUGaGCCcgugcUGCUCGAGGGCCcAGu -3'
miRNA:   3'- -GGUGGCgUGGu----ACGAGCUCCUGGaUC- -5'
11857 3' -56.1 NC_003266.2 + 33723 0.69 0.371941
Target:  5'- cCCGCC-CGCCAUGCagCGcaGGGACCc-- -3'
miRNA:   3'- -GGUGGcGUGGUACGa-GC--UCCUGGauc -5'
11857 3' -56.1 NC_003266.2 + 18422 0.69 0.36309
Target:  5'- aCGCUGCGCUuuGUGCcCGuGGACCgggAGg -3'
miRNA:   3'- gGUGGCGUGG--UACGaGCuCCUGGa--UC- -5'
11857 3' -56.1 NC_003266.2 + 18534 0.7 0.345831
Target:  5'- aCAuCCGCGgCGUGCuggaUCGGGGcCCUAGc -3'
miRNA:   3'- gGU-GGCGUgGUACG----AGCUCCuGGAUC- -5'
11857 3' -56.1 NC_003266.2 + 33456 0.75 0.156103
Target:  5'- cCCGCCGUACCAggcgacugaUGCUC-AGGGCCa-- -3'
miRNA:   3'- -GGUGGCGUGGU---------ACGAGcUCCUGGauc -5'
11857 3' -56.1 NC_003266.2 + 24306 0.77 0.124469
Target:  5'- gCCACCGCGCCAgcUGCUCGucgcuGACCa-- -3'
miRNA:   3'- -GGUGGCGUGGU--ACGAGCuc---CUGGauc -5'
11857 3' -56.1 NC_003266.2 + 10194 1.1 0.000426
Target:  5'- aCCACCGCACCAUGCUCGAGGACCUAGc -3'
miRNA:   3'- -GGUGGCGUGGUACGAGCUCCUGGAUC- -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.