miRNA display CGI


Results 1 - 20 of 22 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
21928 5' -52.3 NC_004913.1 + 47991 0.66 0.873815
Target:  5'- -gAUGUuucGCGUCAGGUgcuAUGGCAugGUCa -3'
miRNA:   3'- caUGCG---UGCGGUUCG---UACUGUugCGG- -5'
21928 5' -52.3 NC_004913.1 + 45575 0.66 0.873815
Target:  5'- -aACGCuACGCCAucaaccGCAUGACugaaGCg -3'
miRNA:   3'- caUGCG-UGCGGUu-----CGUACUGuug-CGg -5'
21928 5' -52.3 NC_004913.1 + 6356 0.66 0.873016
Target:  5'- aGU-CGCACGCUguucccacgucuuGAGCcggugcauguUGACAGCGCg -3'
miRNA:   3'- -CAuGCGUGCGG-------------UUCGu---------ACUGUUGCGg -5'
21928 5' -52.3 NC_004913.1 + 25115 0.66 0.865716
Target:  5'- uUACGUacACGCU--GCAUGAUuucCGCCg -3'
miRNA:   3'- cAUGCG--UGCGGuuCGUACUGuu-GCGG- -5'
21928 5' -52.3 NC_004913.1 + 2612 0.66 0.857364
Target:  5'- gGUGCG-ACGUCAGGCGUGGCuaucaGUa -3'
miRNA:   3'- -CAUGCgUGCGGUUCGUACUGuug--CGg -5'
21928 5' -52.3 NC_004913.1 + 42219 0.66 0.857364
Target:  5'- --cUGCACGCUAAcGUuUGACuuUGCCa -3'
miRNA:   3'- cauGCGUGCGGUU-CGuACUGuuGCGG- -5'
21928 5' -52.3 NC_004913.1 + 54275 0.66 0.857364
Target:  5'- -cGCGUuuaGCGCCAcucuucccGCAUGGCGcaaaauCGCCg -3'
miRNA:   3'- caUGCG---UGCGGUu-------CGUACUGUu-----GCGG- -5'
21928 5' -52.3 NC_004913.1 + 21131 0.67 0.830873
Target:  5'- gGUACagGCcCGCCuuGCccGUGGCAACGCg -3'
miRNA:   3'- -CAUG--CGuGCGGuuCG--UACUGUUGCGg -5'
21928 5' -52.3 NC_004913.1 + 30358 0.67 0.830873
Target:  5'- -aACGC-CG-UAAGCAggaGCAACGCCa -3'
miRNA:   3'- caUGCGuGCgGUUCGUac-UGUUGCGG- -5'
21928 5' -52.3 NC_004913.1 + 35926 0.67 0.821595
Target:  5'- -aGCGC-CGCCAuacGGUAUuGCAGCGgCa -3'
miRNA:   3'- caUGCGuGCGGU---UCGUAcUGUUGCgG- -5'
21928 5' -52.3 NC_004913.1 + 19989 0.67 0.821595
Target:  5'- gGUGCGCGCGC--AGC-UGGCAACcgauCCu -3'
miRNA:   3'- -CAUGCGUGCGguUCGuACUGUUGc---GG- -5'
21928 5' -52.3 NC_004913.1 + 20290 0.67 0.821595
Target:  5'- gGUGCGguUGCCGGauauCGUGGCAgACGUCa -3'
miRNA:   3'- -CAUGCguGCGGUUc---GUACUGU-UGCGG- -5'
21928 5' -52.3 NC_004913.1 + 26155 0.67 0.81211
Target:  5'- --uUGuCACGCC-AGCA-GGCGGCGUCu -3'
miRNA:   3'- cauGC-GUGCGGuUCGUaCUGUUGCGG- -5'
21928 5' -52.3 NC_004913.1 + 32094 0.67 0.81211
Target:  5'- ---aGCACGCauagguauGGCGUGACugauACGCUu -3'
miRNA:   3'- caugCGUGCGgu------UCGUACUGu---UGCGG- -5'
21928 5' -52.3 NC_004913.1 + 36254 0.67 0.80145
Target:  5'- -cAUGCAggcUGCCAuuaucgaauggcaGGCAacUGGCGACGCUa -3'
miRNA:   3'- caUGCGU---GCGGU-------------UCGU--ACUGUUGCGG- -5'
21928 5' -52.3 NC_004913.1 + 8120 0.68 0.790568
Target:  5'- -gACGCAcuggugcCGCUGAGCGcauccggugaaacUGuCAGCGCCg -3'
miRNA:   3'- caUGCGU-------GCGGUUCGU-------------ACuGUUGCGG- -5'
21928 5' -52.3 NC_004913.1 + 7315 0.68 0.782521
Target:  5'- aGUACGgGCuugucGCCAGuGUAUGACGauAUGCCc -3'
miRNA:   3'- -CAUGCgUG-----CGGUU-CGUACUGU--UGCGG- -5'
21928 5' -52.3 NC_004913.1 + 56065 0.7 0.641595
Target:  5'- aUGCGaccggguuaACGCCAuugAGCGUGAUAagGCGCUg -3'
miRNA:   3'- cAUGCg--------UGCGGU---UCGUACUGU--UGCGG- -5'
21928 5' -52.3 NC_004913.1 + 26236 0.71 0.607938
Target:  5'- -gACGC-CGCCugcuGGCGUGACAAa-CCg -3'
miRNA:   3'- caUGCGuGCGGu---UCGUACUGUUgcGG- -5'
21928 5' -52.3 NC_004913.1 + 21304 0.71 0.574475
Target:  5'- -cGCGUACGCCGgaugaaaaucaGGCcgGACGugGUg -3'
miRNA:   3'- caUGCGUGCGGU-----------UCGuaCUGUugCGg -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.