miRNA display CGI


Results 1 - 14 of 14 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
23166 3' -52.7 NC_005178.1 + 2992 0.66 0.694702
Target:  5'- -uGGCuGCCGagcgugcgcaGCCUGGAGCGCUu--- -3'
miRNA:   3'- uuCUGuUGGC----------CGGACUUCGCGAuauu -5'
23166 3' -52.7 NC_005178.1 + 20069 0.66 0.694702
Target:  5'- gAAGGCu-CCGGCCUGugggGGCGUg---- -3'
miRNA:   3'- -UUCUGuuGGCCGGACu---UCGCGauauu -5'
23166 3' -52.7 NC_005178.1 + 9313 0.66 0.671184
Target:  5'- cGAGGCGGCagCGGCCUGGauagcggcGGCGCc---- -3'
miRNA:   3'- -UUCUGUUG--GCCGGACU--------UCGCGauauu -5'
23166 3' -52.7 NC_005178.1 + 7469 0.67 0.600014
Target:  5'- cAGGGCAucaccCUGGCCUGGAGCGa----- -3'
miRNA:   3'- -UUCUGUu----GGCCGGACUUCGCgauauu -5'
23166 3' -52.7 NC_005178.1 + 11883 0.68 0.564697
Target:  5'- cAGAUcGCCcaGGCCgugcggGAGGUGCUGUGAu -3'
miRNA:   3'- uUCUGuUGG--CCGGa-----CUUCGCGAUAUU- -5'
23166 3' -52.7 NC_005178.1 + 20857 0.68 0.541452
Target:  5'- cAAGACccuGAaaGGCCaguaagGAGGCGCUAUGAc -3'
miRNA:   3'- -UUCUG---UUggCCGGa-----CUUCGCGAUAUU- -5'
23166 3' -52.7 NC_005178.1 + 20599 0.68 0.518535
Target:  5'- -cGGCGGCgagcuggaCGGCCUGAucaacAGCGCUAUc- -3'
miRNA:   3'- uuCUGUUG--------GCCGGACU-----UCGCGAUAuu -5'
23166 3' -52.7 NC_005178.1 + 1436 0.69 0.463093
Target:  5'- --cGCAGCCGGCCc---GCGCUAUAc -3'
miRNA:   3'- uucUGUUGGCCGGacuuCGCGAUAUu -5'
23166 3' -52.7 NC_005178.1 + 27511 0.7 0.452376
Target:  5'- uGGGC-GCUGGCCaGGAGCGCgGUGAu -3'
miRNA:   3'- uUCUGuUGGCCGGaCUUCGCGaUAUU- -5'
23166 3' -52.7 NC_005178.1 + 20690 0.71 0.381418
Target:  5'- aAGGACuugGCCGGCUUGAAGaGCUAc-- -3'
miRNA:   3'- -UUCUGu--UGGCCGGACUUCgCGAUauu -5'
23166 3' -52.7 NC_005178.1 + 26909 0.72 0.344343
Target:  5'- gGAGAC-GCCGGCC-GggGCGUUGc-- -3'
miRNA:   3'- -UUCUGuUGGCCGGaCuuCGCGAUauu -5'
23166 3' -52.7 NC_005178.1 + 2189 0.72 0.335488
Target:  5'- --aGCAGCCgGGCCUGGAGCgucacgcccugGCUGUAGa -3'
miRNA:   3'- uucUGUUGG-CCGGACUUCG-----------CGAUAUU- -5'
23166 3' -52.7 NC_005178.1 + 12589 0.75 0.210244
Target:  5'- -cGACGGCC-GCCUGGAGCGCUu--- -3'
miRNA:   3'- uuCUGUUGGcCGGACUUCGCGAuauu -5'
23166 3' -52.7 NC_005178.1 + 34626 1.04 0.001632
Target:  5'- gAAGACAACCGGCCUGAAGCGCUAUAAg -3'
miRNA:   3'- -UUCUGUUGGCCGGACUUCGCGAUAUU- -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.