miRNA display CGI


Results 1 - 20 of 33 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
23104 5' -55.6 NC_005178.1 + 28141 0.66 0.600962
Target:  5'- aUGGCGGCGCccagGGgcuGACGGUCg- -3'
miRNA:   3'- aGCCGCCGUGuugaCUu--CUGCCAGgu -5'
23104 5' -55.6 NC_005178.1 + 9911 0.66 0.589727
Target:  5'- gCGGCGGCACGuugaccCUGGAG--GG-CCAg -3'
miRNA:   3'- aGCCGCCGUGUu-----GACUUCugCCaGGU- -5'
23104 5' -55.6 NC_005178.1 + 29675 0.66 0.578529
Target:  5'- aUCGGCGccgcGCACAgucACggacgGggGACGGaugcgCCAc -3'
miRNA:   3'- -AGCCGC----CGUGU---UGa----CuuCUGCCa----GGU- -5'
23104 5' -55.6 NC_005178.1 + 28710 0.66 0.612225
Target:  5'- aUGGCGGCcgACAugUGGgccggcaaGGGCGGcgaCCAu -3'
miRNA:   3'- aGCCGCCG--UGUugACU--------UCUGCCa--GGU- -5'
23104 5' -55.6 NC_005178.1 + 23856 0.66 0.589727
Target:  5'- aCGGCGGCAUc----AAGGCGG-CCAc -3'
miRNA:   3'- aGCCGCCGUGuugacUUCUGCCaGGU- -5'
23104 5' -55.6 NC_005178.1 + 20008 0.66 0.600962
Target:  5'- uUCGGCGGCAUgauguGCUGccAGAUcgGGUCg- -3'
miRNA:   3'- -AGCCGCCGUGu----UGACu-UCUG--CCAGgu -5'
23104 5' -55.6 NC_005178.1 + 26266 0.66 0.612225
Target:  5'- -gGGCGGacucgaACAGCUcGGGGCGGUUgGa -3'
miRNA:   3'- agCCGCCg-----UGUUGAcUUCUGCCAGgU- -5'
23104 5' -55.6 NC_005178.1 + 21347 0.66 0.600962
Target:  5'- gCuGCGGCAUGGCcGAGGcCGGUCa- -3'
miRNA:   3'- aGcCGCCGUGUUGaCUUCuGCCAGgu -5'
23104 5' -55.6 NC_005178.1 + 15017 0.66 0.600962
Target:  5'- -gGGCGGUcccuCuGCUGggGugGGUUa- -3'
miRNA:   3'- agCCGCCGu---GuUGACuuCugCCAGgu -5'
23104 5' -55.6 NC_005178.1 + 5314 0.66 0.578529
Target:  5'- aUCGGuCGGCuCGACc--AGGCGGcCCAg -3'
miRNA:   3'- -AGCC-GCCGuGUUGacuUCUGCCaGGU- -5'
23104 5' -55.6 NC_005178.1 + 4059 0.66 0.567378
Target:  5'- cCGGUGGCAguAgccCUGucGAgUGGUCCAg -3'
miRNA:   3'- aGCCGCCGUguU---GACuuCU-GCCAGGU- -5'
23104 5' -55.6 NC_005178.1 + 31231 0.66 0.600962
Target:  5'- -aGGCGGUcccACGACUGAcaaggAGGCacccaGUCCAu -3'
miRNA:   3'- agCCGCCG---UGUUGACU-----UCUGc----CAGGU- -5'
23104 5' -55.6 NC_005178.1 + 10278 0.67 0.50191
Target:  5'- cUCGGCguuccugaaaucGGUuuGCAACUGGuccAGGCGGUUCu -3'
miRNA:   3'- -AGCCG------------CCG--UGUUGACU---UCUGCCAGGu -5'
23104 5' -55.6 NC_005178.1 + 22308 0.67 0.491307
Target:  5'- gCGGCcgggaaguGGCGCAGCUGuugcuccAGAaCGGUCUg -3'
miRNA:   3'- aGCCG--------CCGUGUUGACu------UCU-GCCAGGu -5'
23104 5' -55.6 NC_005178.1 + 20498 0.67 0.50191
Target:  5'- cCGGCcGCAUGGC-GAAGAUGGcCCGc -3'
miRNA:   3'- aGCCGcCGUGUUGaCUUCUGCCaGGU- -5'
23104 5' -55.6 NC_005178.1 + 35163 0.67 0.512613
Target:  5'- cUCGGUGGCAUGGC-GGAGAUcGUCgAg -3'
miRNA:   3'- -AGCCGCCGUGUUGaCUUCUGcCAGgU- -5'
23104 5' -55.6 NC_005178.1 + 12655 0.67 0.53429
Target:  5'- cUCGGCGGC-CGGCgcgcuGGCGGguggCCu -3'
miRNA:   3'- -AGCCGCCGuGUUGacuu-CUGCCa---GGu -5'
23104 5' -55.6 NC_005178.1 + 28210 0.67 0.53429
Target:  5'- cUGGCGGCACGcucCUGA--GCGGcgCCGc -3'
miRNA:   3'- aGCCGCCGUGUu--GACUucUGCCa-GGU- -5'
23104 5' -55.6 NC_005178.1 + 10298 0.67 0.512613
Target:  5'- cUCGGCGGCACGuccu--GGCGGauagCCGa -3'
miRNA:   3'- -AGCCGCCGUGUugacuuCUGCCa---GGU- -5'
23104 5' -55.6 NC_005178.1 + 10326 0.67 0.54525
Target:  5'- cUCGGUGacGCugGACUGGucgaggggcguAGACGGcCCu -3'
miRNA:   3'- -AGCCGC--CGugUUGACU-----------UCUGCCaGGu -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.