miRNA display CGI


Results 1 - 20 of 30 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
18462 3' -57.4 NC_004681.1 + 13384 0.66 0.69009
Target:  5'- cGACagGGCGCccucgGACUcgaUGGCCUggACGCGg -3'
miRNA:   3'- aUUGg-CCGCGa----CUGG---ACUGGA--UGCGC- -5'
18462 3' -57.4 NC_004681.1 + 14801 0.66 0.679531
Target:  5'- aGGCUGGCGCccagcUGGCCcGuACCgaggGCGUGg -3'
miRNA:   3'- aUUGGCCGCG-----ACUGGaC-UGGa---UGCGC- -5'
18462 3' -57.4 NC_004681.1 + 42052 0.66 0.668929
Target:  5'- aGugCaGCGCUccagucagccaACCUGGCCUACGCc -3'
miRNA:   3'- aUugGcCGCGAc----------UGGACUGGAUGCGc -5'
18462 3' -57.4 NC_004681.1 + 55803 0.66 0.668929
Target:  5'- aGAgCGGCuGCUGACggucgaUGACCUcaagGCGCu -3'
miRNA:   3'- aUUgGCCG-CGACUGg-----ACUGGA----UGCGc -5'
18462 3' -57.4 NC_004681.1 + 14411 0.66 0.667867
Target:  5'- uUGGCCcGCGCcucggcGACCUGAagcucacCCUGCGCc -3'
miRNA:   3'- -AUUGGcCGCGa-----CUGGACU-------GGAUGCGc -5'
18462 3' -57.4 NC_004681.1 + 28035 0.66 0.647639
Target:  5'- aGACCgacGGCGCUGGCgCUGGCggucgAgGCGg -3'
miRNA:   3'- aUUGG---CCGCGACUG-GACUGga---UgCGC- -5'
18462 3' -57.4 NC_004681.1 + 40071 0.67 0.626294
Target:  5'- gAGCCGGUgaGUUGACCcgGcGCCgACGCGc -3'
miRNA:   3'- aUUGGCCG--CGACUGGa-C-UGGaUGCGC- -5'
18462 3' -57.4 NC_004681.1 + 29587 0.67 0.626294
Target:  5'- gUGGgCGGCaacGugCUGGCCUACGCu -3'
miRNA:   3'- -AUUgGCCGcgaCugGACUGGAUGCGc -5'
18462 3' -57.4 NC_004681.1 + 26316 0.67 0.623092
Target:  5'- -cGCCGGgucgauugugucgaCGCUGACC-GACCUGCa-- -3'
miRNA:   3'- auUGGCC--------------GCGACUGGaCUGGAUGcgc -5'
18462 3' -57.4 NC_004681.1 + 60053 0.67 0.604969
Target:  5'- -cACCuGGCaccgGCUGACCgUGGCCaucgaggACGCGg -3'
miRNA:   3'- auUGG-CCG----CGACUGG-ACUGGa------UGCGC- -5'
18462 3' -57.4 NC_004681.1 + 50252 0.67 0.604969
Target:  5'- gGAUCaaGGCGCUGuCCUGGuCCcGCGCc -3'
miRNA:   3'- aUUGG--CCGCGACuGGACU-GGaUGCGc -5'
18462 3' -57.4 NC_004681.1 + 12921 0.67 0.604969
Target:  5'- -uACCGGCGCcaaUGGCCguacGugCUGCaGCu -3'
miRNA:   3'- auUGGCCGCG---ACUGGa---CugGAUG-CGc -5'
18462 3' -57.4 NC_004681.1 + 24103 0.67 0.594335
Target:  5'- --uCCGGCGCcaGCCUGGCggACGCc -3'
miRNA:   3'- auuGGCCGCGacUGGACUGgaUGCGc -5'
18462 3' -57.4 NC_004681.1 + 16852 0.68 0.573165
Target:  5'- cGACCGGCacaaGCUGGCCgagaagcGugCU-CGCGu -3'
miRNA:   3'- aUUGGCCG----CGACUGGa------CugGAuGCGC- -5'
18462 3' -57.4 NC_004681.1 + 40168 0.68 0.573165
Target:  5'- cAGCCugucgaucugGGUGCUGGCgUcGGCCUGCGgGa -3'
miRNA:   3'- aUUGG----------CCGCGACUGgA-CUGGAUGCgC- -5'
18462 3' -57.4 NC_004681.1 + 33381 0.68 0.545924
Target:  5'- cGACCGGCGUcgaUGACacccggcagcggaaCUGcgaggacccgcaucACCUGCGCGa -3'
miRNA:   3'- aUUGGCCGCG---ACUG--------------GAC--------------UGGAUGCGC- -5'
18462 3' -57.4 NC_004681.1 + 49352 0.69 0.500857
Target:  5'- -cGCgGGCGCUGACCacugGGCgcacaccuuCUGCGUGa -3'
miRNA:   3'- auUGgCCGCGACUGGa---CUG---------GAUGCGC- -5'
18462 3' -57.4 NC_004681.1 + 3046 0.69 0.489842
Target:  5'- ---gCGGCGCcaagGGCCUGGuggcaguCCUGCGCa -3'
miRNA:   3'- auugGCCGCGa---CUGGACU-------GGAUGCGc -5'
18462 3' -57.4 NC_004681.1 + 735 0.69 0.480914
Target:  5'- gGAUCGGCGUcGAUCaccgGGCCgaagGCGCGg -3'
miRNA:   3'- aUUGGCCGCGaCUGGa---CUGGa---UGCGC- -5'
18462 3' -57.4 NC_004681.1 + 28727 0.69 0.471088
Target:  5'- gUGACCGGCGUaacUGGCaucACCUACGaCGg -3'
miRNA:   3'- -AUUGGCCGCG---ACUGgacUGGAUGC-GC- -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.