miRNA display CGI


Results 1 - 20 of 48 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
11893 3' -53.7 NC_003266.2 + 19660 1.08 0.00086
Target:  5'- cUGCCCACCAACACCAACACCUACGAGu -3'
miRNA:   3'- -ACGGGUGGUUGUGGUUGUGGAUGCUC- -5'
11893 3' -53.7 NC_003266.2 + 23738 0.82 0.073266
Target:  5'- gUGCCCcCCaAGCGCCAgcccaacgGCACCUGCGAGc -3'
miRNA:   3'- -ACGGGuGG-UUGUGGU--------UGUGGAUGCUC- -5'
11893 3' -53.7 NC_003266.2 + 5480 0.79 0.114641
Target:  5'- cGCCCACUgcGGCGCgGACGCCUACGc- -3'
miRNA:   3'- aCGGGUGG--UUGUGgUUGUGGAUGCuc -5'
11893 3' -53.7 NC_003266.2 + 22173 0.76 0.192703
Target:  5'- gUGCCCACCAugGgCCGGCagACCUGCaAGa -3'
miRNA:   3'- -ACGGGUGGUugU-GGUUG--UGGAUGcUC- -5'
11893 3' -53.7 NC_003266.2 + 12627 0.73 0.275114
Target:  5'- aGCCUGCUGACGCCGaacucGCGCCUGCu-- -3'
miRNA:   3'- aCGGGUGGUUGUGGU-----UGUGGAUGcuc -5'
11893 3' -53.7 NC_003266.2 + 7507 0.73 0.290047
Target:  5'- gGCUCAgCGACcCCGACgagcucACCUACGAGg -3'
miRNA:   3'- aCGGGUgGUUGuGGUUG------UGGAUGCUC- -5'
11893 3' -53.7 NC_003266.2 + 23678 0.72 0.346404
Target:  5'- gUGCCCcUCAGCguggaggagcucaGCC-GCGCCUACGAGc -3'
miRNA:   3'- -ACGGGuGGUUG-------------UGGuUGUGGAUGCUC- -5'
11893 3' -53.7 NC_003266.2 + 12708 0.72 0.347276
Target:  5'- gGCgCCACCAGCAgCAGCAgCaggcGCGAGu -3'
miRNA:   3'- aCG-GGUGGUUGUgGUUGUgGa---UGCUC- -5'
11893 3' -53.7 NC_003266.2 + 26660 0.71 0.356082
Target:  5'- cGCCCGCCAGC-UgGACACCU--GAGu -3'
miRNA:   3'- aCGGGUGGUUGuGgUUGUGGAugCUC- -5'
11893 3' -53.7 NC_003266.2 + 12400 0.71 0.356082
Target:  5'- aGCCCGCCAACGugccCCGGgGCC-AgGAGg -3'
miRNA:   3'- aCGGGUGGUUGU----GGUUgUGGaUgCUC- -5'
11893 3' -53.7 NC_003266.2 + 16742 0.71 0.380634
Target:  5'- aGCCCaucACCAGCACCAugGaggugcagacggauCCUugGAu -3'
miRNA:   3'- aCGGG---UGGUUGUGGUugU--------------GGAugCUc -5'
11893 3' -53.7 NC_003266.2 + 9363 0.71 0.383431
Target:  5'- cGCCguCACCGAgACCAugcgACGCCggcgcgGCGAGa -3'
miRNA:   3'- aCGG--GUGGUUgUGGU----UGUGGa-----UGCUC- -5'
11893 3' -53.7 NC_003266.2 + 15725 0.7 0.402422
Target:  5'- cGCCCGgCGGCACCGuaGCACCaccgccaugcgUGCGGc -3'
miRNA:   3'- aCGGGUgGUUGUGGU--UGUGG-----------AUGCUc -5'
11893 3' -53.7 NC_003266.2 + 18318 0.7 0.412139
Target:  5'- aGUUCGCCcGCGCCAcagACACCUACu-- -3'
miRNA:   3'- aCGGGUGGuUGUGGU---UGUGGAUGcuc -5'
11893 3' -53.7 NC_003266.2 + 3761 0.7 0.432001
Target:  5'- gGCCCagcucgagGCCuuGAC-CCAGCGCCUggGCGAGc -3'
miRNA:   3'- aCGGG--------UGG--UUGuGGUUGUGGA--UGCUC- -5'
11893 3' -53.7 NC_003266.2 + 19897 0.7 0.442139
Target:  5'- cUGCuCCugcCCGGguCCuACACCUACGAGu -3'
miRNA:   3'- -ACG-GGu--GGUUguGGuUGUGGAUGCUC- -5'
11893 3' -53.7 NC_003266.2 + 16276 0.7 0.45241
Target:  5'- cGCCCGCgCcACugCAcGCGCCUcCGGGg -3'
miRNA:   3'- aCGGGUG-GuUGugGU-UGUGGAuGCUC- -5'
11893 3' -53.7 NC_003266.2 + 20371 0.69 0.46281
Target:  5'- gGCCCGgCAACgACCGGCuCCUgacgcccaACGAGu -3'
miRNA:   3'- aCGGGUgGUUG-UGGUUGuGGA--------UGCUC- -5'
11893 3' -53.7 NC_003266.2 + 20677 0.69 0.483978
Target:  5'- cGCCCACUAuGCGCCAGgGCCaGCc-- -3'
miRNA:   3'- aCGGGUGGU-UGUGGUUgUGGaUGcuc -5'
11893 3' -53.7 NC_003266.2 + 8526 0.69 0.494735
Target:  5'- cUGCCCGCgcgCGGCGCCGACGugccCCUGCc-- -3'
miRNA:   3'- -ACGGGUG---GUUGUGGUUGU----GGAUGcuc -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.