miRNA display CGI


Results 1 - 20 of 64 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
28171 3' -56.5 NC_005887.1 + 7430 0.66 0.558939
Target:  5'- aCGGCAAguuCCGC-UACAGCGCgACGu--- -3'
miRNA:   3'- -GCCGUU---GGCGcAUGUCGCG-UGCcuau -5'
28171 3' -56.5 NC_005887.1 + 13772 0.7 0.342392
Target:  5'- uCGuCGACCGCGUccgcGCAGCGgGCGGcgAc -3'
miRNA:   3'- -GCcGUUGGCGCA----UGUCGCgUGCCuaU- -5'
28171 3' -56.5 NC_005887.1 + 7020 0.71 0.287336
Target:  5'- uGGcCGGCCGCc-GCGGCGCGCGGc-- -3'
miRNA:   3'- gCC-GUUGGCGcaUGUCGCGUGCCuau -5'
28171 3' -56.5 NC_005887.1 + 24216 0.73 0.217581
Target:  5'- uCGGCGGCCcgcgcuucgccgguuGCGUACAGCGCGucCGGu-- -3'
miRNA:   3'- -GCCGUUGG---------------CGCAUGUCGCGU--GCCuau -5'
28171 3' -56.5 NC_005887.1 + 8835 0.66 0.537101
Target:  5'- aCGGUGAUCGCcgACAagauCGCGCGGAUGc -3'
miRNA:   3'- -GCCGUUGGCGcaUGUc---GCGUGCCUAU- -5'
28171 3' -56.5 NC_005887.1 + 34250 0.66 0.526293
Target:  5'- uCGGCGAgCGCGgcgaGCuGCGCGCGc--- -3'
miRNA:   3'- -GCCGUUgGCGCa---UGuCGCGUGCcuau -5'
28171 3' -56.5 NC_005887.1 + 38957 0.67 0.515567
Target:  5'- gCGGUAGCgCGCGgcgaACAGCGUGCGc--- -3'
miRNA:   3'- -GCCGUUG-GCGCa---UGUCGCGUGCcuau -5'
28171 3' -56.5 NC_005887.1 + 27356 0.67 0.494389
Target:  5'- gGGCGGCaCGCcUGCGGCcuGCGCGGc-- -3'
miRNA:   3'- gCCGUUG-GCGcAUGUCG--CGUGCCuau -5'
28171 3' -56.5 NC_005887.1 + 17807 0.68 0.443311
Target:  5'- gGGCGcccgGCCGaagGUGCGGcCGCGCGuGAUGc -3'
miRNA:   3'- gCCGU----UGGCg--CAUGUC-GCGUGC-CUAU- -5'
28171 3' -56.5 NC_005887.1 + 25155 0.69 0.367331
Target:  5'- gCGGCGcaacauuGCCGCGUGCGGC-CGCGu--- -3'
miRNA:   3'- -GCCGU-------UGGCGCAUGUCGcGUGCcuau -5'
28171 3' -56.5 NC_005887.1 + 24330 0.68 0.423724
Target:  5'- cCGGCG--CGCGUA-AGCGCGCGGcgGu -3'
miRNA:   3'- -GCCGUugGCGCAUgUCGCGUGCCuaU- -5'
28171 3' -56.5 NC_005887.1 + 27387 0.68 0.457321
Target:  5'- gCGGCGuaggcgucgaguugcGgCGCGUcguacgGCAGCGCGCGGcGUGc -3'
miRNA:   3'- -GCCGU---------------UgGCGCA------UGUCGCGUGCC-UAU- -5'
28171 3' -56.5 NC_005887.1 + 17451 0.66 0.547986
Target:  5'- cCGGCuGCUGCGaagaagACcgAGCGCGCGGc-- -3'
miRNA:   3'- -GCCGuUGGCGCa-----UG--UCGCGUGCCuau -5'
28171 3' -56.5 NC_005887.1 + 33471 0.69 0.386155
Target:  5'- -cGCGAgCGCGUACGGCGUcgcgaucucgACGGGc- -3'
miRNA:   3'- gcCGUUgGCGCAUGUCGCG----------UGCCUau -5'
28171 3' -56.5 NC_005887.1 + 20537 0.66 0.547986
Target:  5'- uCGGCGcGCC-CG-GCAGCGCcGCGGAc- -3'
miRNA:   3'- -GCCGU-UGGcGCaUGUCGCG-UGCCUau -5'
28171 3' -56.5 NC_005887.1 + 29595 0.67 0.473618
Target:  5'- aCGGCGGuguucUCGCGuUGCAGCGCgGCGcGAUc -3'
miRNA:   3'- -GCCGUU-----GGCGC-AUGUCGCG-UGC-CUAu -5'
28171 3' -56.5 NC_005887.1 + 34140 0.69 0.377112
Target:  5'- --aCAGCCcgcGCGUGuCGGUGCGCGGGUAg -3'
miRNA:   3'- gccGUUGG---CGCAU-GUCGCGUGCCUAU- -5'
28171 3' -56.5 NC_005887.1 + 32472 0.7 0.31711
Target:  5'- cCGGCuggauccuuuucgAACCGUacgauGUGCGGCGCGCGGc-- -3'
miRNA:   3'- -GCCG-------------UUGGCG-----CAUGUCGCGUGCCuau -5'
28171 3' -56.5 NC_005887.1 + 26228 0.66 0.546894
Target:  5'- gGGUggUUGCGcGCGGCGCAgcgccacCGGAa- -3'
miRNA:   3'- gCCGuuGGCGCaUGUCGCGU-------GCCUau -5'
28171 3' -56.5 NC_005887.1 + 9131 0.67 0.515567
Target:  5'- aCGGCGcgACCGagugccaGUGCGGCGCguucaucuggACGGGc- -3'
miRNA:   3'- -GCCGU--UGGCg------CAUGUCGCG----------UGCCUau -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.