miRNA display CGI


Results 1 - 18 of 18 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
19687 3' -53.5 NC_004686.1 + 54244 0.66 0.79684
Target:  5'- aCAGC-CCcaACGCcuaCCGGCAGUGGCu -3'
miRNA:   3'- -GUUGaGGaaUGCGa--GGCCGUCGUUGc -5'
19687 3' -53.5 NC_004686.1 + 16578 0.66 0.786917
Target:  5'- cCGACUUCUUugGCgaugucgCCGGUGGUccAACc -3'
miRNA:   3'- -GUUGAGGAAugCGa------GGCCGUCG--UUGc -5'
19687 3' -53.5 NC_004686.1 + 40466 0.67 0.766584
Target:  5'- -uGCUCUgauuCGUgCCGGCAgGCGGCGa -3'
miRNA:   3'- guUGAGGaau-GCGaGGCCGU-CGUUGC- -5'
19687 3' -53.5 NC_004686.1 + 22500 0.67 0.756198
Target:  5'- cCAGUUCCgucgUACGCccacgCCGGCGGgAGCa -3'
miRNA:   3'- -GUUGAGGa---AUGCGa----GGCCGUCgUUGc -5'
19687 3' -53.5 NC_004686.1 + 45345 0.67 0.74568
Target:  5'- aCAAC-CCUUGCaGCUUCuGCuuAGCGGCGg -3'
miRNA:   3'- -GUUGaGGAAUG-CGAGGcCG--UCGUUGC- -5'
19687 3' -53.5 NC_004686.1 + 24439 0.67 0.735045
Target:  5'- -cGCUgCgugaaGCGCUgCGGCGGCGGCc -3'
miRNA:   3'- guUGAgGaa---UGCGAgGCCGUCGUUGc -5'
19687 3' -53.5 NC_004686.1 + 22478 0.67 0.735045
Target:  5'- uCAGC-CC---CGCcCCGGCGGCGAUGa -3'
miRNA:   3'- -GUUGaGGaauGCGaGGCCGUCGUUGC- -5'
19687 3' -53.5 NC_004686.1 + 23055 0.68 0.713466
Target:  5'- aCAAuUUCCguaaGCUCCaGCGGCAGCa -3'
miRNA:   3'- -GUU-GAGGaaugCGAGGcCGUCGUUGc -5'
19687 3' -53.5 NC_004686.1 + 29552 0.68 0.713466
Target:  5'- aCGuCUCCUU-CGCauagUCCGGaGGCAGCGu -3'
miRNA:   3'- -GUuGAGGAAuGCG----AGGCCgUCGUUGC- -5'
19687 3' -53.5 NC_004686.1 + 24325 0.68 0.691556
Target:  5'- aAGCaCgCaUGCGCcaCCGGCAGCGGCGg -3'
miRNA:   3'- gUUGaG-GaAUGCGa-GGCCGUCGUUGC- -5'
19687 3' -53.5 NC_004686.1 + 16164 0.68 0.66941
Target:  5'- aCAACUCaaacAUGCU-CGGCAGCAAgGa -3'
miRNA:   3'- -GUUGAGgaa-UGCGAgGCCGUCGUUgC- -5'
19687 3' -53.5 NC_004686.1 + 4246 0.69 0.640418
Target:  5'- aGACUUCccgucacauggcgggUUACGCccacgUCCGGCGGuCAACGg -3'
miRNA:   3'- gUUGAGG---------------AAUGCG-----AGGCCGUC-GUUGC- -5'
19687 3' -53.5 NC_004686.1 + 22161 0.69 0.635948
Target:  5'- cCGGC-CUcgAUGCcacugguuuuUCCGGCGGCAACGg -3'
miRNA:   3'- -GUUGaGGaaUGCG----------AGGCCGUCGUUGC- -5'
19687 3' -53.5 NC_004686.1 + 32339 0.71 0.5364
Target:  5'- aCGGCgUCCUUcaACGC-CCGGUucAGCAGCa -3'
miRNA:   3'- -GUUG-AGGAA--UGCGaGGCCG--UCGUUGc -5'
19687 3' -53.5 NC_004686.1 + 41701 0.71 0.514908
Target:  5'- aCGGCUCCggauCGC-CUGGCAgGUAGCGg -3'
miRNA:   3'- -GUUGAGGaau-GCGaGGCCGU-CGUUGC- -5'
19687 3' -53.5 NC_004686.1 + 49151 0.75 0.309811
Target:  5'- uCAACUgCUugUugGCUCUGGCAGCcACa -3'
miRNA:   3'- -GUUGAgGA--AugCGAGGCCGUCGuUGc -5'
19687 3' -53.5 NC_004686.1 + 21875 0.78 0.215206
Target:  5'- gAACUCCgggUAuCGCUaCGGCGGCGGCGg -3'
miRNA:   3'- gUUGAGGa--AU-GCGAgGCCGUCGUUGC- -5'
19687 3' -53.5 NC_004686.1 + 31534 1.08 0.001661
Target:  5'- gCAACUCCUUACGCUCCGGCAGCAACGu -3'
miRNA:   3'- -GUUGAGGAAUGCGAGGCCGUCGUUGC- -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.