miRNA display CGI


Results 1 - 17 of 17 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
28400 5' -57.9 NC_005946.1 + 35475 0.66 0.790829
Target:  5'- --cGGACAGgauCACGGccgcugUGGACucuGGGUCa -3'
miRNA:   3'- ccuCCUGUC---GUGCC------ACCUGu--CCCAGc -5'
28400 5' -57.9 NC_005946.1 + 46842 0.66 0.781643
Target:  5'- aGGAGaGCuGC-CGG-GaGACAGGGUCc -3'
miRNA:   3'- -CCUCcUGuCGuGCCaC-CUGUCCCAGc -5'
28400 5' -57.9 NC_005946.1 + 73647 0.66 0.781643
Target:  5'- gGGAGGcCguGGcCAUGuGUGGGCuGGGGUCu -3'
miRNA:   3'- -CCUCCuG--UC-GUGC-CACCUG-UCCCAGc -5'
28400 5' -57.9 NC_005946.1 + 103827 0.66 0.772322
Target:  5'- cGAGGGCGGCAgagucugGGUGGA--GGGUgGa -3'
miRNA:   3'- cCUCCUGUCGUg------CCACCUguCCCAgC- -5'
28400 5' -57.9 NC_005946.1 + 17702 0.66 0.762876
Target:  5'- uGGAGGAUgAGC-CGGUgaccgccccccuGGACAGGcUCa -3'
miRNA:   3'- -CCUCCUG-UCGuGCCA------------CCUGUCCcAGc -5'
28400 5' -57.9 NC_005946.1 + 61301 0.66 0.753314
Target:  5'- uGGuguguGGugGGCaccuacuccaagGCGG-GGACGGGGuUCGa -3'
miRNA:   3'- -CCu----CCugUCG------------UGCCaCCUGUCCC-AGC- -5'
28400 5' -57.9 NC_005946.1 + 85247 0.66 0.753314
Target:  5'- uGGAGGG-AGCugGG-GGcCAGGGg-- -3'
miRNA:   3'- -CCUCCUgUCGugCCaCCuGUCCCagc -5'
28400 5' -57.9 NC_005946.1 + 32859 0.67 0.743644
Target:  5'- aGAGGGCAGCuuGGacagcuuCAGGGUCu -3'
miRNA:   3'- cCUCCUGUCGugCCaccu---GUCCCAGc -5'
28400 5' -57.9 NC_005946.1 + 59712 0.67 0.724022
Target:  5'- cGGuGG-CGGC-CGGcUGGGCAaggguaaaguccGGGUCGg -3'
miRNA:   3'- -CCuCCuGUCGuGCC-ACCUGU------------CCCAGC- -5'
28400 5' -57.9 NC_005946.1 + 71531 0.67 0.694016
Target:  5'- aGGAGGACAuGCccuuCGacaaGGACGGGGUgGu -3'
miRNA:   3'- -CCUCCUGU-CGu---GCca--CCUGUCCCAgC- -5'
28400 5' -57.9 NC_005946.1 + 49398 0.68 0.683898
Target:  5'- gGGAGGACcGC-CGucGGACcaagaGGGGUCGg -3'
miRNA:   3'- -CCUCCUGuCGuGCcaCCUG-----UCCCAGC- -5'
28400 5' -57.9 NC_005946.1 + 61348 0.68 0.674756
Target:  5'- aGGuGGACGuguuGCACGGcuccaaggaugagugGGACAGGGaCGc -3'
miRNA:   3'- -CCuCCUGU----CGUGCCa--------------CCUGUCCCaGC- -5'
28400 5' -57.9 NC_005946.1 + 97879 0.68 0.640013
Target:  5'- gGGAGGACccuggcuccguccuGGCcugUGGccgGGGCGGGGUUGa -3'
miRNA:   3'- -CCUCCUG--------------UCGu--GCCa--CCUGUCCCAGC- -5'
28400 5' -57.9 NC_005946.1 + 24731 0.69 0.612356
Target:  5'- gGGAGGAUcgGGUuuUGGUGGAUccgguuugggGGGGUUGg -3'
miRNA:   3'- -CCUCCUG--UCGu-GCCACCUG----------UCCCAGC- -5'
28400 5' -57.9 NC_005946.1 + 12189 0.69 0.602132
Target:  5'- uGAGGA-AGCugACGGUGGGCAGGaGgugCGu -3'
miRNA:   3'- cCUCCUgUCG--UGCCACCUGUCC-Ca--GC- -5'
28400 5' -57.9 NC_005946.1 + 12768 0.73 0.360276
Target:  5'- gGGGGGACGGCGCuGUGcuCAGGG-CGg -3'
miRNA:   3'- -CCUCCUGUCGUGcCACcuGUCCCaGC- -5'
28400 5' -57.9 NC_005946.1 + 61618 1.11 0.001088
Target:  5'- gGGAGGACAGCACGGUGGACAGGGUCGa -3'
miRNA:   3'- -CCUCCUGUCGUGCCACCUGUCCCAGC- -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.