miRNA display CGI


Results 1 - 20 of 59 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
19380 3' -55.8 NC_004685.1 + 35628 0.66 0.78643
Target:  5'- -----cACGCCGAaGGGCUGGcAGCa -3'
miRNA:   3'- cgcucaUGCGGCUgCUCGACCuUCGc -5'
19380 3' -55.8 NC_004685.1 + 67879 0.66 0.78643
Target:  5'- cGCG-GcGCGCCGGCGucgcGCUGGccGuCGa -3'
miRNA:   3'- -CGCuCaUGCGGCUGCu---CGACCuuC-GC- -5'
19380 3' -55.8 NC_004685.1 + 65285 0.66 0.785469
Target:  5'- cGCGcg-GCGaCCGGCGAcuacaagGCUGGcGGCGc -3'
miRNA:   3'- -CGCucaUGC-GGCUGCU-------CGACCuUCGC- -5'
19380 3' -55.8 NC_004685.1 + 20111 0.66 0.785469
Target:  5'- cGCGGGUGCuggcgauGCgCGGCGAggaucgguuGCUGGAAcCGg -3'
miRNA:   3'- -CGCUCAUG-------CG-GCUGCU---------CGACCUUcGC- -5'
19380 3' -55.8 NC_004685.1 + 63368 0.66 0.776759
Target:  5'- -----aGCGCCGAgGGGCgcGGAAGCc -3'
miRNA:   3'- cgcucaUGCGGCUgCUCGa-CCUUCGc -5'
19380 3' -55.8 NC_004685.1 + 23724 0.66 0.776759
Target:  5'- gGCGA--GCGCC-ACugGGGCUGGAAGaCGc -3'
miRNA:   3'- -CGCUcaUGCGGcUG--CUCGACCUUC-GC- -5'
19380 3' -55.8 NC_004685.1 + 14063 0.66 0.766947
Target:  5'- cCGGuGUAUGugaucCCGGCuGAGCUGGAcacGGCGa -3'
miRNA:   3'- cGCU-CAUGC-----GGCUG-CUCGACCU---UCGC- -5'
19380 3' -55.8 NC_004685.1 + 20268 0.66 0.766947
Target:  5'- cUGGGU-CGCCGAaacccucgaCGGGgaGGAAGUGc -3'
miRNA:   3'- cGCUCAuGCGGCU---------GCUCgaCCUUCGC- -5'
19380 3' -55.8 NC_004685.1 + 45200 0.66 0.766947
Target:  5'- gGCGAccuGUACGCCGcggcCGAGCcGGGugauucgcAGCa -3'
miRNA:   3'- -CGCU---CAUGCGGCu---GCUCGaCCU--------UCGc -5'
19380 3' -55.8 NC_004685.1 + 52527 0.66 0.757004
Target:  5'- gGCGA--ACGCCGACGccaucagguucAGCcGGAacuccAGCGg -3'
miRNA:   3'- -CGCUcaUGCGGCUGC-----------UCGaCCU-----UCGC- -5'
19380 3' -55.8 NC_004685.1 + 21358 0.66 0.757004
Target:  5'- aCGug-GCGUCGGCGAuCUGGcAGGCGg -3'
miRNA:   3'- cGCucaUGCGGCUGCUcGACC-UUCGC- -5'
19380 3' -55.8 NC_004685.1 + 13854 0.66 0.757004
Target:  5'- gGCGAGcugaugcACGUCGACcccaaugagcugGuGCUGGAGGCc -3'
miRNA:   3'- -CGCUCa------UGCGGCUG------------CuCGACCUUCGc -5'
19380 3' -55.8 NC_004685.1 + 43162 0.66 0.74694
Target:  5'- cCGAGUGCGgCGGCGAGac--GAGCa -3'
miRNA:   3'- cGCUCAUGCgGCUGCUCgaccUUCGc -5'
19380 3' -55.8 NC_004685.1 + 14084 0.66 0.74694
Target:  5'- cCGAGgcaucccagGCGUCGACGuGCUGauguccgacGAGGCGc -3'
miRNA:   3'- cGCUCa--------UGCGGCUGCuCGAC---------CUUCGC- -5'
19380 3' -55.8 NC_004685.1 + 9990 0.67 0.736766
Target:  5'- gGCGAGaugcucacccUGuCGCCGAugcucacgcCGAGCUGGguGCu -3'
miRNA:   3'- -CGCUC----------AU-GCGGCU---------GCUCGACCuuCGc -5'
19380 3' -55.8 NC_004685.1 + 17244 0.67 0.736766
Target:  5'- cGgGAGUuCGCCGaACGcaccggcaucAGCUGGAGGg- -3'
miRNA:   3'- -CgCUCAuGCGGC-UGC----------UCGACCUUCgc -5'
19380 3' -55.8 NC_004685.1 + 195 0.67 0.726492
Target:  5'- cGCGGGUuucgGCG-CGACGAgugcgcGCUGGuguGCGg -3'
miRNA:   3'- -CGCUCA----UGCgGCUGCU------CGACCuu-CGC- -5'
19380 3' -55.8 NC_004685.1 + 53216 0.67 0.726492
Target:  5'- uCGAGUAgGUCaGCGAGCcGGucGCGc -3'
miRNA:   3'- cGCUCAUgCGGcUGCUCGaCCuuCGC- -5'
19380 3' -55.8 NC_004685.1 + 16299 0.67 0.726492
Target:  5'- cGCGcuccaAGUACGCCGGgcauccCGcGCUGGugacGGGCGg -3'
miRNA:   3'- -CGC-----UCAUGCGGCU------GCuCGACC----UUCGC- -5'
19380 3' -55.8 NC_004685.1 + 34673 0.67 0.716129
Target:  5'- gGCGAGUuCGgCGAgGAcgugauuucGCUGGAGGgGu -3'
miRNA:   3'- -CGCUCAuGCgGCUgCU---------CGACCUUCgC- -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.