miRNA display CGI


Results 1 - 20 of 56 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
20732 3' -57.9 NC_004688.1 + 6373 0.67 0.701087
Target:  5'- gGACC-CGGCGACuucaugucaCCCGCGgACGUCCGc -3'
miRNA:   3'- -CUGGuGCUGUUG---------GGGCGU-UGCGGGUc -5'
20732 3' -57.9 NC_004688.1 + 6421 0.66 0.779375
Target:  5'- uGCgACGAguacCGAUUCCGUGACGCCCu- -3'
miRNA:   3'- cUGgUGCU----GUUGGGGCGUUGCGGGuc -5'
20732 3' -57.9 NC_004688.1 + 6894 0.67 0.711178
Target:  5'- -gUCGCGAC-ACUgCGCAACGUCaCAGa -3'
miRNA:   3'- cuGGUGCUGuUGGgGCGUUGCGG-GUC- -5'
20732 3' -57.9 NC_004688.1 + 14157 0.7 0.526507
Target:  5'- cGGCCGCGAUAggcACCCCcggcaggGCGAUGCaCCAc -3'
miRNA:   3'- -CUGGUGCUGU---UGGGG-------CGUUGCG-GGUc -5'
20732 3' -57.9 NC_004688.1 + 16033 0.66 0.76042
Target:  5'- cACCGCGuACcucuuACCCgCGUAucgcuCGCCCGGa -3'
miRNA:   3'- cUGGUGC-UGu----UGGG-GCGUu----GCGGGUC- -5'
20732 3' -57.9 NC_004688.1 + 17913 0.66 0.76996
Target:  5'- cGGCCGCGGCGAUUCUGCuucggagucgggGGCGuuaccCCCAGc -3'
miRNA:   3'- -CUGGUGCUGUUGGGGCG------------UUGC-----GGGUC- -5'
20732 3' -57.9 NC_004688.1 + 18951 0.66 0.76042
Target:  5'- uGACCAgGAC--CCCCggGCAACGCgaUCAGg -3'
miRNA:   3'- -CUGGUgCUGuuGGGG--CGUUGCG--GGUC- -5'
20732 3' -57.9 NC_004688.1 + 31999 0.66 0.750765
Target:  5'- -cCCAgGACGGagUCCUGCAGC-CCCAGc -3'
miRNA:   3'- cuGGUgCUGUU--GGGGCGUUGcGGGUC- -5'
20732 3' -57.9 NC_004688.1 + 34804 0.67 0.701087
Target:  5'- uACCACGuCGAagCCCGCGGCccuCCCGGu -3'
miRNA:   3'- cUGGUGCuGUUg-GGGCGUUGc--GGGUC- -5'
20732 3' -57.9 NC_004688.1 + 35045 0.67 0.731146
Target:  5'- cGGCCGCGGCcucgucGCCCCGCugaauGGCGUCa-- -3'
miRNA:   3'- -CUGGUGCUGu-----UGGGGCG-----UUGCGGguc -5'
20732 3' -57.9 NC_004688.1 + 36202 0.67 0.690937
Target:  5'- cGGCCAgGACAugCCCGaUGAUGCaCuCGGg -3'
miRNA:   3'- -CUGGUgCUGUugGGGC-GUUGCG-G-GUC- -5'
20732 3' -57.9 NC_004688.1 + 38050 0.69 0.567731
Target:  5'- gGACCAgcaGAUcuucuuGGCCuCCGCGGCGCCCu- -3'
miRNA:   3'- -CUGGUg--CUG------UUGG-GGCGUUGCGGGuc -5'
20732 3' -57.9 NC_004688.1 + 46847 0.66 0.749793
Target:  5'- cGGCCGagcgagcUGGCcucauACCCCGgAAgGCCCGGa -3'
miRNA:   3'- -CUGGU-------GCUGu----UGGGGCgUUgCGGGUC- -5'
20732 3' -57.9 NC_004688.1 + 47653 0.68 0.6489
Target:  5'- uGCUGCGGCAgucugucGCCaCCGCGACugGUCCGGg -3'
miRNA:   3'- cUGGUGCUGU-------UGG-GGCGUUG--CGGGUC- -5'
20732 3' -57.9 NC_004688.1 + 49166 0.66 0.76996
Target:  5'- -cCCGuCGAUaaGACCaCCGCucaGCCCAGg -3'
miRNA:   3'- cuGGU-GCUG--UUGG-GGCGuugCGGGUC- -5'
20732 3' -57.9 NC_004688.1 + 49851 0.74 0.332729
Target:  5'- aGGCCAUGugAccuccggccgagGCCCCGcCGACGgCCAGg -3'
miRNA:   3'- -CUGGUGCugU------------UGGGGC-GUUGCgGGUC- -5'
20732 3' -57.9 NC_004688.1 + 50888 0.67 0.680738
Target:  5'- cGGCC-CGAgGguGCCaCCGCGccggcgaccaaGCGCCCGGu -3'
miRNA:   3'- -CUGGuGCUgU--UGG-GGCGU-----------UGCGGGUC- -5'
20732 3' -57.9 NC_004688.1 + 56557 0.7 0.50778
Target:  5'- cGCCGuuggUGAUGugCCCGCGGCGgCCGGg -3'
miRNA:   3'- cUGGU----GCUGUugGGGCGUUGCgGGUC- -5'
20732 3' -57.9 NC_004688.1 + 56694 0.75 0.28284
Target:  5'- -cUCACGAUGGCCCCGUAaagcucccagauGCGCCCAc -3'
miRNA:   3'- cuGGUGCUGUUGGGGCGU------------UGCGGGUc -5'
20732 3' -57.9 NC_004688.1 + 56755 0.66 0.779375
Target:  5'- aGGCUucgcuCGuCcgGGCCCCGCAguaGCCCAGg -3'
miRNA:   3'- -CUGGu----GCuG--UUGGGGCGUug-CGGGUC- -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.