miRNA display CGI


Results 1 - 20 of 72 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
28162 3' -57.3 NC_005887.1 + 248 0.77 0.09705
Target:  5'- gACCUGCGGCGCCUCGaccugAUGCCGAa-- -3'
miRNA:   3'- -UGGACGUUGUGGAGCg----UGCGGCUgac -5'
28162 3' -57.3 NC_005887.1 + 2347 0.68 0.371136
Target:  5'- uCCggcggGCGACcaGCgCUCGCAgGCCGACg- -3'
miRNA:   3'- uGGa----CGUUG--UG-GAGCGUgCGGCUGac -5'
28162 3' -57.3 NC_005887.1 + 2416 0.7 0.31289
Target:  5'- gGCCUGCgAGCGCUggUCGCcCGCCGGa-- -3'
miRNA:   3'- -UGGACG-UUGUGG--AGCGuGCGGCUgac -5'
28162 3' -57.3 NC_005887.1 + 2427 0.66 0.528998
Target:  5'- aGCCcGCGccgacgaaugACACCUCGCugcgcuacgGCGCCGucgacgaggcGCUGa -3'
miRNA:   3'- -UGGaCGU----------UGUGGAGCG---------UGCGGC----------UGAC- -5'
28162 3' -57.3 NC_005887.1 + 2507 0.68 0.380038
Target:  5'- gGCCUGCucguGCACCcggacugcCGCACGCUGcgcaaggcGCUGu -3'
miRNA:   3'- -UGGACGu---UGUGGa-------GCGUGCGGC--------UGAC- -5'
28162 3' -57.3 NC_005887.1 + 2946 0.67 0.476456
Target:  5'- cGCC-GCGGCACCgcCGCGaccauccuCGCCGGCg- -3'
miRNA:   3'- -UGGaCGUUGUGGa-GCGU--------GCGGCUGac -5'
28162 3' -57.3 NC_005887.1 + 3533 0.68 0.407587
Target:  5'- uGCCgaUGCAGCGCCUCugGUuCGCCGAg-- -3'
miRNA:   3'- -UGG--ACGUUGUGGAG--CGuGCGGCUgac -5'
28162 3' -57.3 NC_005887.1 + 3949 0.7 0.31289
Target:  5'- uCCgGCAugGCgUCGUAUGCCgGGCUGc -3'
miRNA:   3'- uGGaCGUugUGgAGCGUGCGG-CUGAC- -5'
28162 3' -57.3 NC_005887.1 + 4260 0.68 0.398266
Target:  5'- cGCgCUGCAGCACUUCGguCGCgGucaugucgccGCUGu -3'
miRNA:   3'- -UG-GACGUUGUGGAGCguGCGgC----------UGAC- -5'
28162 3' -57.3 NC_005887.1 + 4387 0.7 0.31289
Target:  5'- uCCUGCGGCAUgUCcggcaGCugGCCGGCc- -3'
miRNA:   3'- uGGACGUUGUGgAG-----CGugCGGCUGac -5'
28162 3' -57.3 NC_005887.1 + 4622 0.67 0.466255
Target:  5'- cGCC-GCGGCGCCggugGC-CGCCGGCg- -3'
miRNA:   3'- -UGGaCGUUGUGGag--CGuGCGGCUGac -5'
28162 3' -57.3 NC_005887.1 + 5472 0.67 0.475431
Target:  5'- -gCUGCGGCGCCgccCGCcgguucaccggucGCGCUGGCUu -3'
miRNA:   3'- ugGACGUUGUGGa--GCG-------------UGCGGCUGAc -5'
28162 3' -57.3 NC_005887.1 + 6841 0.69 0.327988
Target:  5'- gUCUGCAACaucgacgugucggACCUCGCgACGUCGGCc- -3'
miRNA:   3'- uGGACGUUG-------------UGGAGCG-UGCGGCUGac -5'
28162 3' -57.3 NC_005887.1 + 6943 0.69 0.320769
Target:  5'- uACUUGauCAGCGCCUgcgCGUugGCCGACg- -3'
miRNA:   3'- -UGGAC--GUUGUGGA---GCGugCGGCUGac -5'
28162 3' -57.3 NC_005887.1 + 6970 0.69 0.320769
Target:  5'- aACCUGCGugaaaagcuCGCCUCgGCAuCGUCGACa- -3'
miRNA:   3'- -UGGACGUu--------GUGGAG-CGU-GCGGCUGac -5'
28162 3' -57.3 NC_005887.1 + 7422 0.66 0.528998
Target:  5'- cACCcGCcgcCGCCUCGUuugGCGCUGGCg- -3'
miRNA:   3'- -UGGaCGuu-GUGGAGCG---UGCGGCUGac -5'
28162 3' -57.3 NC_005887.1 + 8567 0.66 0.486767
Target:  5'- uGCCgaagGCAGCACCgcagcagguuUCGUucgACGCUGGCg- -3'
miRNA:   3'- -UGGa---CGUUGUGG----------AGCG---UGCGGCUGac -5'
28162 3' -57.3 NC_005887.1 + 11466 0.68 0.380038
Target:  5'- uGCCUugGCGGCGCCggccgccaGCGCuCCGGCUGc -3'
miRNA:   3'- -UGGA--CGUUGUGGag------CGUGcGGCUGAC- -5'
28162 3' -57.3 NC_005887.1 + 12131 0.71 0.275698
Target:  5'- gACgaGCAGgcCGCCgUCGCGCGCCaGAUUGg -3'
miRNA:   3'- -UGgaCGUU--GUGG-AGCGUGCGG-CUGAC- -5'
28162 3' -57.3 NC_005887.1 + 12645 0.72 0.235835
Target:  5'- gGCCgggucgGCgGACACCaugCGCAUGCCGGCg- -3'
miRNA:   3'- -UGGa-----CG-UUGUGGa--GCGUGCGGCUGac -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.