miRNA display CGI


Results 1 - 20 of 30 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
12963 3' -51.8 NC_003387.1 + 33434 0.66 0.847177
Target:  5'- gUGCCUGCUGCUGCGcgccaccaccucgcGCaaGGCGgcCGAa -3'
miRNA:   3'- aAUGGGCGAUGAUGU--------------UG--CCGCaaGUU- -5'
12963 3' -51.8 NC_003387.1 + 6946 0.66 0.821906
Target:  5'- -gGCCUGC----GCAGCGGCGggCAGg -3'
miRNA:   3'- aaUGGGCGaugaUGUUGCCGCaaGUU- -5'
12963 3' -51.8 NC_003387.1 + 47306 0.66 0.821906
Target:  5'- -aACgCCGCagGCUGCAacgcuuGCGGCGUUUu- -3'
miRNA:   3'- aaUG-GGCGa-UGAUGU------UGCCGCAAGuu -5'
12963 3' -51.8 NC_003387.1 + 36197 0.66 0.812126
Target:  5'- gUACgCGCUGCUgugGCGccuCGGCGUaaUCGAg -3'
miRNA:   3'- aAUGgGCGAUGA---UGUu--GCCGCA--AGUU- -5'
12963 3' -51.8 NC_003387.1 + 33221 0.66 0.812126
Target:  5'- -gGCCCGCUcg-GCGAUGGCcgUCAAg -3'
miRNA:   3'- aaUGGGCGAugaUGUUGCCGcaAGUU- -5'
12963 3' -51.8 NC_003387.1 + 22630 0.66 0.802137
Target:  5'- gUACCCGCcguugaggUACUGCAugcucgcccCGGCGgccgUCAGg -3'
miRNA:   3'- aAUGGGCG--------AUGAUGUu--------GCCGCa---AGUU- -5'
12963 3' -51.8 NC_003387.1 + 43710 0.66 0.802137
Target:  5'- -cGCCCGCcaggUGCU-CGACGGCGgcaugCGGg -3'
miRNA:   3'- aaUGGGCG----AUGAuGUUGCCGCaa---GUU- -5'
12963 3' -51.8 NC_003387.1 + 544 0.66 0.802137
Target:  5'- cUGCCCGCgaucugGCUgcccugacGCGGCGGCuGUUgGAg -3'
miRNA:   3'- aAUGGGCGa-----UGA--------UGUUGCCG-CAAgUU- -5'
12963 3' -51.8 NC_003387.1 + 18020 0.67 0.791951
Target:  5'- -cACCCGCgGCUguACAgcgugcccgagGCGGCGUuUCAGa -3'
miRNA:   3'- aaUGGGCGaUGA--UGU-----------UGCCGCA-AGUU- -5'
12963 3' -51.8 NC_003387.1 + 5825 0.67 0.791951
Target:  5'- --cCCCGCgcaagGCGGCGGCGgccUCAAg -3'
miRNA:   3'- aauGGGCGauga-UGUUGCCGCa--AGUU- -5'
12963 3' -51.8 NC_003387.1 + 34505 0.67 0.791951
Target:  5'- -cGCCCGCcGCUGCGGCGccGCGaUCc- -3'
miRNA:   3'- aaUGGGCGaUGAUGUUGC--CGCaAGuu -5'
12963 3' -51.8 NC_003387.1 + 19092 0.67 0.78158
Target:  5'- -aGCCUGCUGCc-UAACGGCauGUUCGGa -3'
miRNA:   3'- aaUGGGCGAUGauGUUGCCG--CAAGUU- -5'
12963 3' -51.8 NC_003387.1 + 33996 0.67 0.78158
Target:  5'- cUGCCCGCUGCU-CGACGaGUGccgCGc -3'
miRNA:   3'- aAUGGGCGAUGAuGUUGC-CGCaa-GUu -5'
12963 3' -51.8 NC_003387.1 + 6847 0.67 0.78158
Target:  5'- -cGCCCGCUcg-GCcGCGGCGcgCAGc -3'
miRNA:   3'- aaUGGGCGAugaUGuUGCCGCaaGUU- -5'
12963 3' -51.8 NC_003387.1 + 12391 0.67 0.771038
Target:  5'- ---gCCGCUGCUGCA--GGCGaUCAAc -3'
miRNA:   3'- aaugGGCGAUGAUGUugCCGCaAGUU- -5'
12963 3' -51.8 NC_003387.1 + 51349 0.67 0.760338
Target:  5'- -gACCCGCUgaGCgcCGACGGCGa---- -3'
miRNA:   3'- aaUGGGCGA--UGauGUUGCCGCaaguu -5'
12963 3' -51.8 NC_003387.1 + 14901 0.67 0.7484
Target:  5'- -gACCUGCUGCUGCAcgacgugACGGCuGcgCGg -3'
miRNA:   3'- aaUGGGCGAUGAUGU-------UGCCG-CaaGUu -5'
12963 3' -51.8 NC_003387.1 + 5246 0.68 0.738514
Target:  5'- -gACCCGCUGgc-CGACGGCGaacUCAAc -3'
miRNA:   3'- aaUGGGCGAUgauGUUGCCGCa--AGUU- -5'
12963 3' -51.8 NC_003387.1 + 1270 0.68 0.704923
Target:  5'- gUugCgGUgcgGCUGC-GCGGCGUUCGAc -3'
miRNA:   3'- aAugGgCGa--UGAUGuUGCCGCAAGUU- -5'
12963 3' -51.8 NC_003387.1 + 3463 0.69 0.670623
Target:  5'- -gACUCGCUGC-GCGGCGGCGa---- -3'
miRNA:   3'- aaUGGGCGAUGaUGUUGCCGCaaguu -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.