miRNA display CGI


Results 1 - 20 of 26 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
18620 3' -57.5 NC_004682.1 + 12624 1.06 0.000723
Target:  5'- cAUGAACGACCCAGAGCAGCUCGCGCUg -3'
miRNA:   3'- -UACUUGCUGGGUCUCGUCGAGCGCGA- -5'
18620 3' -57.5 NC_004682.1 + 38554 0.76 0.132124
Target:  5'- -gGGACGACCCAGGauGCGGCccucacggaUCGCGCc -3'
miRNA:   3'- uaCUUGCUGGGUCU--CGUCG---------AGCGCGa -5'
18620 3' -57.5 NC_004682.1 + 26910 0.74 0.16964
Target:  5'- --cAGCGACCCGGAGCGGUccuugUCGCGgUa -3'
miRNA:   3'- uacUUGCUGGGUCUCGUCG-----AGCGCgA- -5'
18620 3' -57.5 NC_004682.1 + 26652 0.72 0.234295
Target:  5'- gAUGAACGACCagccgucGAGCAGCUuCGcCGCc -3'
miRNA:   3'- -UACUUGCUGGgu-----CUCGUCGA-GC-GCGa -5'
18620 3' -57.5 NC_004682.1 + 16690 0.7 0.302972
Target:  5'- gGUGAugGGCCUGGAG-GGCUCGgGUc -3'
miRNA:   3'- -UACUugCUGGGUCUCgUCGAGCgCGa -5'
18620 3' -57.5 NC_004682.1 + 17390 0.7 0.310633
Target:  5'- gGUGGugGcACCCAGAgGCAGUcgaaCGCGCc -3'
miRNA:   3'- -UACUugC-UGGGUCU-CGUCGa---GCGCGa -5'
18620 3' -57.5 NC_004682.1 + 20378 0.69 0.334493
Target:  5'- uGUGAGCGGagcgguUCCGGGGCAGauggUCGUGCUc -3'
miRNA:   3'- -UACUUGCU------GGGUCUCGUCg---AGCGCGA- -5'
18620 3' -57.5 NC_004682.1 + 40895 0.69 0.334493
Target:  5'- -cGGGCGACCCAGucGCGGCUgcCGUGa- -3'
miRNA:   3'- uaCUUGCUGGGUCu-CGUCGA--GCGCga -5'
18620 3' -57.5 NC_004682.1 + 39002 0.69 0.359667
Target:  5'- -cGAACGaACCCuugguGAuCGGCUUGCGCUc -3'
miRNA:   3'- uaCUUGC-UGGGu----CUcGUCGAGCGCGA- -5'
18620 3' -57.5 NC_004682.1 + 8502 0.69 0.377171
Target:  5'- cUGGACGACCCcgaagugcGGAGCuGGCUCuacCGCa -3'
miRNA:   3'- uACUUGCUGGG--------UCUCG-UCGAGc--GCGa -5'
18620 3' -57.5 NC_004682.1 + 22825 0.68 0.386134
Target:  5'- gGUGGaaGCGGCCCGGAagaaggucccGgAGCcCGCGCUg -3'
miRNA:   3'- -UACU--UGCUGGGUCU----------CgUCGaGCGCGA- -5'
18620 3' -57.5 NC_004682.1 + 8950 0.68 0.395239
Target:  5'- -aGGGC-ACCCGGuuccugcgcGGcCAGCUCGCGCg -3'
miRNA:   3'- uaCUUGcUGGGUC---------UC-GUCGAGCGCGa -5'
18620 3' -57.5 NC_004682.1 + 23806 0.68 0.423365
Target:  5'- cUGGugGACCCAGAugaccaGCGGCcUGgGCa -3'
miRNA:   3'- uACUugCUGGGUCU------CGUCGaGCgCGa -5'
18620 3' -57.5 NC_004682.1 + 24199 0.67 0.442769
Target:  5'- cUGAcCGACuaCCAGAGCAuCUCGgGCa -3'
miRNA:   3'- uACUuGCUG--GGUCUCGUcGAGCgCGa -5'
18620 3' -57.5 NC_004682.1 + 4932 0.67 0.451663
Target:  5'- -cGGACGacggcgaGCCCgAGuGCGGCuacUCGCGCUg -3'
miRNA:   3'- uaCUUGC-------UGGG-UCuCGUCG---AGCGCGA- -5'
18620 3' -57.5 NC_004682.1 + 12247 0.67 0.462665
Target:  5'- cGUGGAguCGACCUAcaccGAGCAGgUCgGCGCg -3'
miRNA:   3'- -UACUU--GCUGGGU----CUCGUCgAG-CGCGa -5'
18620 3' -57.5 NC_004682.1 + 23993 0.67 0.472787
Target:  5'- -cGAGucaGACCgCAGAGCAGCacUCGgGCc -3'
miRNA:   3'- uaCUUg--CUGG-GUCUCGUCG--AGCgCGa -5'
18620 3' -57.5 NC_004682.1 + 34447 0.66 0.493359
Target:  5'- -cGAGCGucAUCUGGuuCAGCUCGCGCc -3'
miRNA:   3'- uaCUUGC--UGGGUCucGUCGAGCGCGa -5'
18620 3' -57.5 NC_004682.1 + 25297 0.66 0.494398
Target:  5'- cGUGAGCGGCCCAGAcggugaGCAGUacaacgaucugcagcCGaCGCUg -3'
miRNA:   3'- -UACUUGCUGGGUCU------CGUCGa--------------GC-GCGA- -5'
18620 3' -57.5 NC_004682.1 + 46418 0.66 0.503797
Target:  5'- -cGAGCGugCCGGGGauguagucgguCAGCUugucggcacCGCGCUc -3'
miRNA:   3'- uaCUUGCugGGUCUC-----------GUCGA---------GCGCGA- -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.