miRNA display CGI


Results 1 - 20 of 21 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
30432 3' -54.5 NC_006548.1 + 29688 0.66 0.648658
Target:  5'- -aCCAGCaccugcgagcccaUUCGCGGCCGcaaGACUGgcugCGGc -3'
miRNA:   3'- aaGGUCG-------------AAGUGCCGGU---UUGGCa---GCU- -5'
30432 3' -54.5 NC_006548.1 + 25626 0.66 0.646364
Target:  5'- gUUCGGCUUCAUGgagcaguaggaucuGCCGuuCCGUCa- -3'
miRNA:   3'- aAGGUCGAAGUGC--------------CGGUuuGGCAGcu -5'
30432 3' -54.5 NC_006548.1 + 34134 0.66 0.603934
Target:  5'- -cCCGGCUgUCGgcCGGCCAGuucaccUCGUCGAu -3'
miRNA:   3'- aaGGUCGA-AGU--GCCGGUUu-----GGCAGCU- -5'
30432 3' -54.5 NC_006548.1 + 19385 0.66 0.597073
Target:  5'- gUCCAGCUgguagCGCaGCagguugcgcagguGGCCGUCGAg -3'
miRNA:   3'- aAGGUCGAa----GUGcCGgu-----------UUGGCAGCU- -5'
30432 3' -54.5 NC_006548.1 + 29492 0.67 0.581113
Target:  5'- -gCCAGCUgcugCGCGGCaa---CGUCGGc -3'
miRNA:   3'- aaGGUCGAa---GUGCCGguuugGCAGCU- -5'
30432 3' -54.5 NC_006548.1 + 37344 0.67 0.569767
Target:  5'- -gCCAcGCUgccgacuaGCGGCCAGGCCGagGGu -3'
miRNA:   3'- aaGGU-CGAag------UGCCGGUUUGGCagCU- -5'
30432 3' -54.5 NC_006548.1 + 1967 0.67 0.54725
Target:  5'- -cCCcGCUUCACuGGCCAcuUCGUCa- -3'
miRNA:   3'- aaGGuCGAAGUG-CCGGUuuGGCAGcu -5'
30432 3' -54.5 NC_006548.1 + 29726 0.67 0.546131
Target:  5'- gUUCGGCUUCGCcgaggguGGCCAGGuCCGUgGu -3'
miRNA:   3'- aAGGUCGAAGUG-------CCGGUUU-GGCAgCu -5'
30432 3' -54.5 NC_006548.1 + 22640 0.67 0.536096
Target:  5'- gUCCuggAGUUgaaCGCcGGCCAGuugGCCGUCGAu -3'
miRNA:   3'- aAGG---UCGAa--GUG-CCGGUU---UGGCAGCU- -5'
30432 3' -54.5 NC_006548.1 + 36257 0.68 0.514036
Target:  5'- gUCCAGUUcgGCGGCUGGACUG-CGGa -3'
miRNA:   3'- aAGGUCGAagUGCCGGUUUGGCaGCU- -5'
30432 3' -54.5 NC_006548.1 + 27744 0.69 0.450332
Target:  5'- --gCAGCUcCA-GGCCAAGCCGuUCGGa -3'
miRNA:   3'- aagGUCGAaGUgCCGGUUUGGC-AGCU- -5'
30432 3' -54.5 NC_006548.1 + 14090 0.69 0.449306
Target:  5'- gUCCAGC-UCGCGGCgGAucuccagcgguguGgCGUCGGg -3'
miRNA:   3'- aAGGUCGaAGUGCCGgUU-------------UgGCAGCU- -5'
30432 3' -54.5 NC_006548.1 + 24951 0.7 0.400712
Target:  5'- cUUCCAGC-UCACGGgCAGuguGCUGUaCGAc -3'
miRNA:   3'- -AAGGUCGaAGUGCCgGUU---UGGCA-GCU- -5'
30432 3' -54.5 NC_006548.1 + 9336 0.71 0.363613
Target:  5'- cUCCAGa-UCGuCGGCUAGGCCGUCc- -3'
miRNA:   3'- aAGGUCgaAGU-GCCGGUUUGGCAGcu -5'
30432 3' -54.5 NC_006548.1 + 24665 0.71 0.354718
Target:  5'- gUCCAGCUUCACGaagucGCCGGcuuucagaucGCCcUCGAg -3'
miRNA:   3'- aAGGUCGAAGUGC-----CGGUU----------UGGcAGCU- -5'
30432 3' -54.5 NC_006548.1 + 32798 0.71 0.337392
Target:  5'- aUCCAGCUgcuggcaagcgucacCGCGGCCGgcgcacaAACgGUCGAg -3'
miRNA:   3'- aAGGUCGAa--------------GUGCCGGU-------UUGgCAGCU- -5'
30432 3' -54.5 NC_006548.1 + 17742 0.71 0.337392
Target:  5'- aUCC-GCUUCuuccaGGCCAAGcauCCGUCGAu -3'
miRNA:   3'- aAGGuCGAAGug---CCGGUUU---GGCAGCU- -5'
30432 3' -54.5 NC_006548.1 + 21256 0.74 0.221082
Target:  5'- -aCCGGCagCcuggGCGGCCAGGCCGUcCGAg -3'
miRNA:   3'- aaGGUCGaaG----UGCCGGUUUGGCA-GCU- -5'
30432 3' -54.5 NC_006548.1 + 31715 0.76 0.162452
Target:  5'- -cCCGGCgggUCAUcgGGCCAGGCCGUgGAa -3'
miRNA:   3'- aaGGUCGa--AGUG--CCGGUUUGGCAgCU- -5'
30432 3' -54.5 NC_006548.1 + 28885 0.78 0.125306
Target:  5'- cUUCgGGCcaC-CGGCCAAACCGUCGAg -3'
miRNA:   3'- -AAGgUCGaaGuGCCGGUUUGGCAGCU- -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.