miRNA display CGI


Results 1 - 18 of 18 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
23239 3' -55.7 NC_005259.1 + 57885 0.66 0.768833
Target:  5'- uGGCGGUGCgCGAcaGAcccCGCUuGAGACGg -3'
miRNA:   3'- cCCGCCACG-GCUacCU---GCGA-CUUUGU- -5'
23239 3' -55.7 NC_005259.1 + 46421 0.66 0.76585
Target:  5'- cGGGCuGUGCacccgugaCGAUGGugGCaagcugcugcucggUGAGGCu -3'
miRNA:   3'- -CCCGcCACG--------GCUACCugCG--------------ACUUUGu -5'
23239 3' -55.7 NC_005259.1 + 29097 0.66 0.748728
Target:  5'- cGGGUGGUgaGCUGAUgcGGACccuGCUGGugAGCGc -3'
miRNA:   3'- -CCCGCCA--CGGCUA--CCUG---CGACU--UUGU- -5'
23239 3' -55.7 NC_005259.1 + 59151 0.66 0.748728
Target:  5'- -aGCGGUGCCGGggagcugcucaGGGCGCUuauACAu -3'
miRNA:   3'- ccCGCCACGGCUa----------CCUGCGAcuuUGU- -5'
23239 3' -55.7 NC_005259.1 + 50668 0.66 0.728168
Target:  5'- aGGGCaccagcgcgucGGUGCCGAcGaGGCGCUGcu-CGu -3'
miRNA:   3'- -CCCG-----------CCACGGCUaC-CUGCGACuuuGU- -5'
23239 3' -55.7 NC_005259.1 + 26828 0.67 0.717745
Target:  5'- cGGUGGUGCCGGggcGGucUGCUcGGGCAg -3'
miRNA:   3'- cCCGCCACGGCUa--CCu-GCGAcUUUGU- -5'
23239 3' -55.7 NC_005259.1 + 38631 0.67 0.717745
Target:  5'- aGGGCGGUgacGCCGAguUGGcgaacuCGCcGAAAUc -3'
miRNA:   3'- -CCCGCCA---CGGCU--ACCu-----GCGaCUUUGu -5'
23239 3' -55.7 NC_005259.1 + 53630 0.67 0.696665
Target:  5'- -aGCGGUGCCGuUGGcCGCUuccuGCAc -3'
miRNA:   3'- ccCGCCACGGCuACCuGCGAcuu-UGU- -5'
23239 3' -55.7 NC_005259.1 + 10822 0.67 0.696665
Target:  5'- --aCGGUGCCGAUGGAcacgcccacCGCcuGAGCAa -3'
miRNA:   3'- cccGCCACGGCUACCU---------GCGacUUUGU- -5'
23239 3' -55.7 NC_005259.1 + 57320 0.67 0.695604
Target:  5'- cGGCGGUGUCGGUGuGgucauguGCGCUGuccucuCAa -3'
miRNA:   3'- cCCGCCACGGCUAC-C-------UGCGACuuu---GU- -5'
23239 3' -55.7 NC_005259.1 + 57445 0.67 0.686029
Target:  5'- cGGCGaG-GuuGGUGcGACGCUGcgGCAg -3'
miRNA:   3'- cCCGC-CaCggCUAC-CUGCGACuuUGU- -5'
23239 3' -55.7 NC_005259.1 + 38883 0.68 0.632312
Target:  5'- uGGCGGUGuuGAc-GACGCUGGc--- -3'
miRNA:   3'- cCCGCCACggCUacCUGCGACUuugu -5'
23239 3' -55.7 NC_005259.1 + 61595 0.68 0.610757
Target:  5'- cGGUGG-GCCGGUGGGgucgGCggGGAACAg -3'
miRNA:   3'- cCCGCCaCGGCUACCUg---CGa-CUUUGU- -5'
23239 3' -55.7 NC_005259.1 + 2646 0.71 0.47511
Target:  5'- aGGGCGGUGUCGcgGGcACGUUcaaGAucauuGACAa -3'
miRNA:   3'- -CCCGCCACGGCuaCC-UGCGA---CU-----UUGU- -5'
23239 3' -55.7 NC_005259.1 + 47952 0.76 0.240788
Target:  5'- cGGCGGUGCCGAUGGcCGCc---GCGc -3'
miRNA:   3'- cCCGCCACGGCUACCuGCGacuuUGU- -5'
23239 3' -55.7 NC_005259.1 + 41638 0.78 0.185746
Target:  5'- uGGCGGUGCCGGUcugcGGGCGCUcgguGAGCGg -3'
miRNA:   3'- cCCGCCACGGCUA----CCUGCGAc---UUUGU- -5'
23239 3' -55.7 NC_005259.1 + 26447 0.78 0.176163
Target:  5'- cGGGCGG-GCCGGUGGGcCGaugUGGAACGa -3'
miRNA:   3'- -CCCGCCaCGGCUACCU-GCg--ACUUUGU- -5'
23239 3' -55.7 NC_005259.1 + 43983 1.1 0.00099
Target:  5'- aGGGCGGUGCCGAUGGACGCUGAAACAc -3'
miRNA:   3'- -CCCGCCACGGCUACCUGCGACUUUGU- -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.