miRNA display CGI


Results 1 - 20 of 24 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 5' -63.4 NC_005887.1 + 12383 0.66 0.27241
Target:  5'- -gCAUCCGC-GCGGcGGUGuuCGCGGCGc -3'
miRNA:   3'- aaGUGGGUGcCGCC-CCAUc-GCGCCGC- -5'
28171 5' -63.4 NC_005887.1 + 27363 0.66 0.252819
Target:  5'- -aCGCCUGCGGCcugcGcGGccuGCGCGGCGu -3'
miRNA:   3'- aaGUGGGUGCCGc---C-CCau-CGCGCCGC- -5'
28171 5' -63.4 NC_005887.1 + 2199 0.66 0.252819
Target:  5'- cUCACaCGCGGCG----AGCGCGGCGc -3'
miRNA:   3'- aAGUGgGUGCCGCcccaUCGCGCCGC- -5'
28171 5' -63.4 NC_005887.1 + 37425 0.66 0.246551
Target:  5'- -gCACgCCAgGuGCGGaGUggAGCGCGGCGc -3'
miRNA:   3'- aaGUG-GGUgC-CGCCcCA--UCGCGCCGC- -5'
28171 5' -63.4 NC_005887.1 + 29575 0.66 0.244696
Target:  5'- -gCGCCUgauugugcaagucgACGGCGGuGUucucgcguugcAGCGCGGCGc -3'
miRNA:   3'- aaGUGGG--------------UGCCGCCcCA-----------UCGCGCCGC- -5'
28171 5' -63.4 NC_005887.1 + 34232 0.67 0.211613
Target:  5'- --aACCCgaacaGCGGCGccucGGcgAGCGCGGCGa -3'
miRNA:   3'- aagUGGG-----UGCCGCc---CCa-UCGCGCCGC- -5'
28171 5' -63.4 NC_005887.1 + 32421 0.67 0.200949
Target:  5'- gUgGCCgGCGGCGauGUGGCcgGCGGCGa -3'
miRNA:   3'- aAgUGGgUGCCGCccCAUCG--CGCCGC- -5'
28171 5' -63.4 NC_005887.1 + 25490 0.68 0.195795
Target:  5'- -aCGCa-GCGGCGGcucGGacgaUGGCGCGGCGg -3'
miRNA:   3'- aaGUGggUGCCGCC---CC----AUCGCGCCGC- -5'
28171 5' -63.4 NC_005887.1 + 21327 0.68 0.192758
Target:  5'- aUCGCCUGaccggacguugagcCGGCGGGGUucaacagcugaauaGGUGCGaGCGu -3'
miRNA:   3'- aAGUGGGU--------------GCCGCCCCA--------------UCGCGC-CGC- -5'
28171 5' -63.4 NC_005887.1 + 12316 0.68 0.190756
Target:  5'- cUCGCCUAUGa--GGGUGGCGuCGGCGc -3'
miRNA:   3'- aAGUGGGUGCcgcCCCAUCGC-GCCGC- -5'
28171 5' -63.4 NC_005887.1 + 39394 0.68 0.185832
Target:  5'- gUCGCCgGCGaggauggucGCGGcGGUGcCGCGGCGc -3'
miRNA:   3'- aAGUGGgUGC---------CGCC-CCAUcGCGCCGC- -5'
28171 5' -63.4 NC_005887.1 + 41603 0.68 0.171726
Target:  5'- --gGCCCAgGuGCGGcGGccGGCGCGGCc -3'
miRNA:   3'- aagUGGGUgC-CGCC-CCa-UCGCGCCGc -5'
28171 5' -63.4 NC_005887.1 + 1480 0.69 0.167241
Target:  5'- -aCGCCgACGGCGuGcGGcgcucGCGCGGCGc -3'
miRNA:   3'- aaGUGGgUGCCGC-C-CCau---CGCGCCGC- -5'
28171 5' -63.4 NC_005887.1 + 28328 0.69 0.166799
Target:  5'- -gCGCCgGCGGCGcgccggcgguugcGGaGgcGCGCGGCGc -3'
miRNA:   3'- aaGUGGgUGCCGC-------------CC-CauCGCGCCGC- -5'
28171 5' -63.4 NC_005887.1 + 29656 0.69 0.158585
Target:  5'- cUCACgCGCGGCGcGaGGUAGCacaGCuGGCGc -3'
miRNA:   3'- aAGUGgGUGCCGC-C-CCAUCG---CG-CCGC- -5'
28171 5' -63.4 NC_005887.1 + 26347 0.7 0.134998
Target:  5'- gUCACCggcuCGCGGCGGGucuGCGCGcGCa -3'
miRNA:   3'- aAGUGG----GUGCCGCCCcauCGCGC-CGc -5'
28171 5' -63.4 NC_005887.1 + 41781 0.72 0.088014
Target:  5'- aUCGCCCAucUGGcCGGcGGUcuucgcgcuguauccGGCGCGGCGc -3'
miRNA:   3'- aAGUGGGU--GCC-GCC-CCA---------------UCGCGCCGC- -5'
28171 5' -63.4 NC_005887.1 + 1219 0.72 0.087042
Target:  5'- aUCACCUuaucUGGCGGGcgcuGCGCGGCGc -3'
miRNA:   3'- aAGUGGGu---GCCGCCCcau-CGCGCCGC- -5'
28171 5' -63.4 NC_005887.1 + 14697 0.73 0.084656
Target:  5'- --gGCUCgucGCGGCGGGcGggccgGGCGCGGCGa -3'
miRNA:   3'- aagUGGG---UGCCGCCC-Ca----UCGCGCCGC- -5'
28171 5' -63.4 NC_005887.1 + 26212 0.73 0.077866
Target:  5'- -gCGCCgGugguUGGCGGGGUGguugcGCGCGGCGc -3'
miRNA:   3'- aaGUGGgU----GCCGCCCCAU-----CGCGCCGC- -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.