miRNA display CGI


Results 1 - 20 of 47 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
25250 3' -56 NC_005336.1 + 134427 0.66 0.910927
Target:  5'- cGCC---GCCGUGGACGCugcugCUGGCGg -3'
miRNA:   3'- cUGGgucUGGCACUUGUGca---GACCGC- -5'
25250 3' -56 NC_005336.1 + 79952 0.66 0.910927
Target:  5'- cGCgCGGugguCCGUGGcgaACACG-CUGGCGc -3'
miRNA:   3'- cUGgGUCu---GGCACU---UGUGCaGACCGC- -5'
25250 3' -56 NC_005336.1 + 16198 0.66 0.904812
Target:  5'- cGCCCacGGACUucacGAGCACGUCcgcgGGCGu -3'
miRNA:   3'- cUGGG--UCUGGca--CUUGUGCAGa---CCGC- -5'
25250 3' -56 NC_005336.1 + 125608 0.66 0.89188
Target:  5'- cGGCaCCAGAaCGUGAGCaagguGCGgcUCUGGCc -3'
miRNA:   3'- -CUG-GGUCUgGCACUUG-----UGC--AGACCGc -5'
25250 3' -56 NC_005336.1 + 80553 0.66 0.89188
Target:  5'- uGACCCGca-UGUGAugACGUUguUGGCGc -3'
miRNA:   3'- -CUGGGUcugGCACUugUGCAG--ACCGC- -5'
25250 3' -56 NC_005336.1 + 103398 0.66 0.89188
Target:  5'- -cCCCGcGAUCGUGGACGCGUUcGuGCu -3'
miRNA:   3'- cuGGGU-CUGGCACUUGUGCAGaC-CGc -5'
25250 3' -56 NC_005336.1 + 103349 0.66 0.885071
Target:  5'- aGCCCGucaacuCCGUGGACACGgugCUgaaGGCGc -3'
miRNA:   3'- cUGGGUcu----GGCACUUGUGCa--GA---CCGC- -5'
25250 3' -56 NC_005336.1 + 44521 0.66 0.885071
Target:  5'- aGACCCGGACCccggcGUGcgcgacAACGCGUCc-GCGa -3'
miRNA:   3'- -CUGGGUCUGG-----CAC------UUGUGCAGacCGC- -5'
25250 3' -56 NC_005336.1 + 41760 0.66 0.885071
Target:  5'- cGGCCgCGGccACCGcGAGCGCGUCcagguugGGCa -3'
miRNA:   3'- -CUGG-GUC--UGGCaCUUGUGCAGa------CCGc -5'
25250 3' -56 NC_005336.1 + 34225 0.66 0.885071
Target:  5'- cGGCCCGGcGCCGaggUGAcgcgGCACGcgCUGGaCGg -3'
miRNA:   3'- -CUGGGUC-UGGC---ACU----UGUGCa-GACC-GC- -5'
25250 3' -56 NC_005336.1 + 22994 0.66 0.885071
Target:  5'- -uCCCgAGACCGcgcucugGAGCAgcCGUCUgGGCGa -3'
miRNA:   3'- cuGGG-UCUGGCa------CUUGU--GCAGA-CCGC- -5'
25250 3' -56 NC_005336.1 + 41801 0.66 0.884377
Target:  5'- aGGCCCgugcccgagaagaAGACCGUGGACACGagcaCgaaGCGg -3'
miRNA:   3'- -CUGGG-------------UCUGGCACUUGUGCa---Gac-CGC- -5'
25250 3' -56 NC_005336.1 + 68492 0.66 0.884377
Target:  5'- aACCCGGccauGCUgcgcgcguucgcgGUGGGCugGUUUGGCGc -3'
miRNA:   3'- cUGGGUC----UGG-------------CACUUGugCAGACCGC- -5'
25250 3' -56 NC_005336.1 + 65992 0.67 0.870783
Target:  5'- uGGCCgGcGCCGUGGAgGCG-CUGcGCGg -3'
miRNA:   3'- -CUGGgUcUGGCACUUgUGCaGAC-CGC- -5'
25250 3' -56 NC_005336.1 + 84652 0.67 0.870783
Target:  5'- gGGCCCGauGACCGaGcGCGCGgUCUGGUc -3'
miRNA:   3'- -CUGGGU--CUGGCaCuUGUGC-AGACCGc -5'
25250 3' -56 NC_005336.1 + 34385 0.67 0.870783
Target:  5'- cGCCCAGGCCGc--GCACGUCcugcuccucGGUGa -3'
miRNA:   3'- cUGGGUCUGGCacuUGUGCAGa--------CCGC- -5'
25250 3' -56 NC_005336.1 + 100798 0.67 0.863315
Target:  5'- cGCCgGGGCuCGcGGACGCG-CUGGCc -3'
miRNA:   3'- cUGGgUCUG-GCaCUUGUGCaGACCGc -5'
25250 3' -56 NC_005336.1 + 75597 0.67 0.863315
Target:  5'- cGCUCAG-CCGgucGAACAgcagccUGUCUGGCGc -3'
miRNA:   3'- cUGGGUCuGGCa--CUUGU------GCAGACCGC- -5'
25250 3' -56 NC_005336.1 + 68686 0.67 0.855638
Target:  5'- cACCCGGACUGgGAGCcggucaucgagACG-CUGGUGg -3'
miRNA:   3'- cUGGGUCUGGCaCUUG-----------UGCaGACCGC- -5'
25250 3' -56 NC_005336.1 + 134290 0.67 0.855638
Target:  5'- aGACCCcagAGGCCGccGAcuGCGCGUggcgCUGGUGa -3'
miRNA:   3'- -CUGGG---UCUGGCa-CU--UGUGCA----GACCGC- -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.