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
18966 3' -57.9 NC_004683.1 + 18216 0.66 0.610789
Target:  5'- cCGGCcgcCACGGcGUGcgguaGGUGCCgGCGGc -3'
miRNA:   3'- uGCCGua-GUGCC-CAC-----UCAUGGgCGCU- -5'
18966 3' -57.9 NC_004683.1 + 24412 0.66 0.608642
Target:  5'- uCGGCGuugcaucUCGCGGGUGAacucggcgucgcuGUugCCGUa- -3'
miRNA:   3'- uGCCGU-------AGUGCCCACU-------------CAugGGCGcu -5'
18966 3' -57.9 NC_004683.1 + 6084 0.66 0.600064
Target:  5'- uCGGCAUgACGGucGAGUucauCCCGCa- -3'
miRNA:   3'- uGCCGUAgUGCCcaCUCAu---GGGCGcu -5'
18966 3' -57.9 NC_004683.1 + 2276 0.66 0.598993
Target:  5'- cGCGGCAcaggcggUCGCGGccaGU-AGUgcACCCGCGGc -3'
miRNA:   3'- -UGCCGU-------AGUGCC---CAcUCA--UGGGCGCU- -5'
18966 3' -57.9 NC_004683.1 + 33341 0.66 0.582962
Target:  5'- gGCGagcGCGUCGCGGGccucuuucucggugGGGUACCgucUGCGAa -3'
miRNA:   3'- -UGC---CGUAGUGCCCa-------------CUCAUGG---GCGCU- -5'
18966 3' -57.9 NC_004683.1 + 19142 0.66 0.578701
Target:  5'- gUGGCGUCGUGGGUGAGccgucACCCucaaCGAu -3'
miRNA:   3'- uGCCGUAGUGCCCACUCa----UGGGc---GCU- -5'
18966 3' -57.9 NC_004683.1 + 28342 0.66 0.568079
Target:  5'- gACGGCcgCGaGGGUGAGgaugcagACCagcaCGCGGa -3'
miRNA:   3'- -UGCCGuaGUgCCCACUCa------UGG----GCGCU- -5'
18966 3' -57.9 NC_004683.1 + 46988 0.66 0.567019
Target:  5'- uCGGCAgcgccUCGCGGGUGGgcaccacucccccGUugCCGUa- -3'
miRNA:   3'- uGCCGU-----AGUGCCCACU-------------CAugGGCGcu -5'
18966 3' -57.9 NC_004683.1 + 49273 0.67 0.557506
Target:  5'- cGCGGguUagccagCACGaGGUG-GUACCCGCc- -3'
miRNA:   3'- -UGCCguA------GUGC-CCACuCAUGGGCGcu -5'
18966 3' -57.9 NC_004683.1 + 5827 0.67 0.54699
Target:  5'- gGCGGCGgugcccgcgaGCGcGGUGAcGaUGCCCGUGGg -3'
miRNA:   3'- -UGCCGUag--------UGC-CCACU-C-AUGGGCGCU- -5'
18966 3' -57.9 NC_004683.1 + 19420 0.67 0.515852
Target:  5'- -aGGCGUUgaGCGGGccccacgGuuccGUGCCCGCGGg -3'
miRNA:   3'- ugCCGUAG--UGCCCa------Cu---CAUGGGCGCU- -5'
18966 3' -57.9 NC_004683.1 + 40524 0.67 0.505629
Target:  5'- uGCGGUgcaugcCACGGGcGGGUGCCCacacuGCGGc -3'
miRNA:   3'- -UGCCGua----GUGCCCaCUCAUGGG-----CGCU- -5'
18966 3' -57.9 NC_004683.1 + 54505 0.67 0.503595
Target:  5'- uCGGCGUUACcGGUGAGcacgucgaccagGCCCGCc- -3'
miRNA:   3'- uGCCGUAGUGcCCACUCa-----------UGGGCGcu -5'
18966 3' -57.9 NC_004683.1 + 56443 0.68 0.485453
Target:  5'- gAUGGCcuuggugcuGUCGUGGGUGAGcaGCCCGuCGAg -3'
miRNA:   3'- -UGCCG---------UAGUGCCCACUCa-UGGGC-GCU- -5'
18966 3' -57.9 NC_004683.1 + 49070 0.68 0.446309
Target:  5'- gGCGGgAUCGCGGcGg----GCCCGCGGu -3'
miRNA:   3'- -UGCCgUAGUGCC-CacucaUGGGCGCU- -5'
18966 3' -57.9 NC_004683.1 + 40855 0.69 0.427408
Target:  5'- gUGuGCAUCGCGGGcGAGUACgggcaGCGAc -3'
miRNA:   3'- uGC-CGUAGUGCCCaCUCAUGgg---CGCU- -5'
18966 3' -57.9 NC_004683.1 + 53868 0.69 0.418137
Target:  5'- uUGGuCAUCGCGGGUacucACCCGUGAu -3'
miRNA:   3'- uGCC-GUAGUGCCCAcucaUGGGCGCU- -5'
18966 3' -57.9 NC_004683.1 + 45593 0.69 0.399967
Target:  5'- gACGGCcugGUCGacgccgGGGUG-GUGCCCGaCGAc -3'
miRNA:   3'- -UGCCG---UAGUg-----CCCACuCAUGGGC-GCU- -5'
18966 3' -57.9 NC_004683.1 + 13377 0.7 0.365179
Target:  5'- gGCGGCAcgcugccauUCAUGGGccaGGGUgGCCCGCa- -3'
miRNA:   3'- -UGCCGU---------AGUGCCCa--CUCA-UGGGCGcu -5'
18966 3' -57.9 NC_004683.1 + 2349 0.71 0.332537
Target:  5'- aACGGCAUCggcuACGGGUucgguGGUGgcguCCCGCGGa -3'
miRNA:   3'- -UGCCGUAG----UGCCCAc----UCAU----GGGCGCU- -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.